VariantID	mutpos	AnalysisProc	Sample	Normal	Chrom	Pos	Ref	Alt	Qual	Filter	Gene	Type	Effect	LEN	REP	knockout	clonelevel	mutpos_knockout	size	sizegroup	MHcount	Microhomology	Repcount	Repeat	indeltype
000fb58c-3320-11e6-be72-aff7191589db	14_47821961_CTC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	14	47821961	CT	C	960	PASS	MDGA2	Del	intronic	1	8	CHK2	parent	14_47821961_CTC_CHK2	1	1	1	T	7	T	Repeat-mediated
0018495c-3287-11e6-b32c-fd87a2c71c31	5_80229066_TCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	80229066	TC	T	480	PASS	-	Del	-	1	7	MSH6	child	5_80229066_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
0019d85a-3271-11e6-b799-add079852e0e	11_18531703_CACACCTGTAATCCCAGCACTTTGGGAGGCCAAGGTGGGTGGACTGCTTGAAGCCAGGAGTTTGAGACCAGCTGGGCCAACATGGCAAAATCCCATCTCTACTAAAAACACAAAAATTAGCCGGGTGTGGTGATGTGCGTCTATGGTCCCAGTTACTCAGGAGGCTGAGGCAAGAGAATTGCTTAAACCCCAGAGGCAGAGGTTGCAGTGAGCTGAGATCACACCACTGCACTCCATCCTAGGCGACAGAGCAAGACTCTGTCTCAAAACAAACAAACAAAAAAATTATACGTAGATTCTAGCTTAGAAATTGCTAGATTGTAGTACAAAGGGGTGAATTGTTAAAGGATCTTTCCTTCCAACAATGACAAAGAGATTCCTATTTTTTCATAAGTTACTAAGATTTTCTCTCAAATACCTATTGAGCACTGGCCAGGGGTGGTGGCTTC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	11	18531703	CACACCTGTAATCCCAGCACTTTGGGAGGCCAAGGTGGGTGGACTGCTTGAAGCCAGGAGTTTGAGACCAGCTGGGCCAACATGGCAAAATCCCATCTCTACTAAAAACACAAAAATTAGCCGGGTGTGGTGATGTGCGTCTATGGTCCCAGTTACTCAGGAGGCTGAGGCAAGAGAATTGCTTAAACCCCAGAGGCAGAGGTTGCAGTGAGCTGAGATCACACCACTGCACTCCATCCTAGGCGACAGAGCAAGACTCTGTCTCAAAACAAACAAACAAAAAAATTATACGTAGATTCTAGCTTAGAAATTGCTAGATTGTAGTACAAAGGGGTGAATTGTTAAAGGATCTTTCCTTCCAACAATGACAAAGAGATTCCTATTTTTTCATAAGTTACTAAGATTTTCTCTCAAATACCTATTGAGCACTGGCCAGGGGTGGTGGCTT	C	300	PASS	TSG101	Del	intronic	447	1	FANCC	child	11_18531703_CACACCTGTAATCCCAGCACTTTGGGAGGCCAAGGTGGGTGGACTGCTTGAAGCCAGGAGTTTGAGACCAGCTGGGCCAACATGGCAAAATCCCATCTCTACTAAAAACACAAAAATTAGCCGGGTGTGGTGATGTGCGTCTATGGTCCCAGTTACTCAGGAGGCTGAGGCAAGAGAATTGCTTAAACCCCAGAGGCAGAGGTTGCAGTGAGCTGAGATCACACCACTGCACTCCATCCTAGGCGACAGAGCAAGACTCTGTCTCAAAACAAACAAACAAAAAAATTATACGTAGATTCTAGCTTAGAAATTGCTAGATTGTAGTACAAAGGGGTGAATTGTTAAAGGATCTTTCCTTCCAACAATGACAAAGAGATTCCTATTTTTTCATAAGTTACTAAGATTTTCTCTCAAATACCTATTGAGCACTGGCCAGGGGTGGTGGCTTC_FANCC	447	>=10	34	ACACCTGTAATCCCAGCACTTTGGGAGGCCAAGG	0	-	Microhomology-mediated
001f3300-3275-11e6-82d8-a30207e9a829	5_119582042_GAG	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	5	119582042	GA	G	420	PASS	CTC-552D5.1	Del	intronic	1	9	POLB	child	5_119582042_GAG_POLB	1	1	1	A	8	A	Repeat-mediated
0024b3e6-3277-11e6-8c34-46e27872c165	5_115157821_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	115157821	GA	G	540	PASS	-	Del	-	1	8	MSH6	child	5_115157821_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
00330378-3291-11e6-b81f-4ee66f39e758	8_87624415_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	87624415	GA	G	600	PASS	CNGB3	Del	intronic	1	9	MSH6	child	8_87624415_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
00416304-3292-11e6-919e-92c36f39e758	2_197023749_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	197023749	C	CA	300	PASS	STK17B	Ins	intronic	1	6	MSH6	child	2_197023749_CCA_MSH6	1	1	-	-	-	-	Ins
00545b9a-3273-11e6-bfb2-2749c225ee11	12_47586144_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	47586144	GA	G	360	PASS	PCED1B	Del	intronic	1	8	MSH6	child	12_47586144_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
005ce68a-3295-11e6-8c3d-0ab4e7d0bdd7	3_170127066_CCT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	3	170127066	C	CT	540	PASS	RP11-469J4.3	Ins	upstream	1	8	FANCC	child	3_170127066_CCT_FANCC	1	1	-	-	-	-	Ins
005ec460-3271-11e6-b923-6726694da5d2	5_111944387_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	111944387	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	5_111944387_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
007a30cc-326e-11e6-b306-b5204b47a305	2_122602359_ATCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	122602359	ATC	A	300	PASS	-	Del	-	2	7	MSH6	child	2_122602359_ATCA_MSH6	2	2	2	TC	6	TC	Repeat-mediated
008643c6-3287-11e6-a031-e026038949d4	20_15705747_CAC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	20	15705747	CA	C	300	PASS	MACROD2	Del	intronic	1	9	POLM	child	20_15705747_CAC_POLM	1	1	1	A	8	A	Repeat-mediated
009191f0-3259-11e6-a39a-dc8512ae24cf	8_85159086_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	85159086	CA	C	780	PASS	RALYL	Del	intronic	1	9	MSH6	child	8_85159086_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
0092a9f6-328a-11e6-a100-84090e01a414	18_50706029_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	50706029	GT	G	360	PASS	DCC	Del	intronic	1	9	MSH6	child	18_50706029_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
00935dac-328e-11e6-bb1e-70e16f39e758	X_13719296_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	13719296	CA	C	660	PASS	RAB9A	Del	intronic	1	7	MSH6	child	X_13719296_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
00950d46-327a-11e6-ab1d-16d9ecf1e924	20_9210591_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	9210591	CT	C	540	PASS	PLCB4	Del	intronic	1	9	MSH6	child	20_9210591_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
009612e6-3288-11e6-9546-b5936f39e758	15_82050268_AAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	15	82050268	A	AT	300	PASS	RP11-499F3.2	Ins	intronic	1	6	EXO1	child	15_82050268_AAT_EXO1	1	1	-	-	-	-	Ins
00a1bf80-3290-11e6-9401-04ed6f39e758	3_1894284_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	1894284	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	3_1894284_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
00a49c9e-3292-11e6-88f7-6a5e38e8a824	X_121652623_GAG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	X	121652623	GA	G	360	PASS	-	Del	-	1	1	FANCC	child	X_121652623_GAG_FANCC	1	1	0	-	0	A	None
00a85288-3276-11e6-bfb2-2749c225ee11	12_111249139_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	111249139	C	CA	360	PASS	-	Ins	-	1	7	MSH6	child	12_111249139_CCA_MSH6	1	1	-	-	-	-	Ins
00c0db18-3321-11e6-8250-3bb0cde16804	15_64893242_CTGC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	15	64893242	CTG	C	420	PASS	ZNF609	Del	intronic	2	2	CHK2	child	15_64893242_CTGC_CHK2	2	2	2	TG	1	TG	Repeat-mediated
00c538f8-329e-11e6-a5cf-e5abcc638e3d	9_130157376_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	130157376	GA	G	780	PASS	GARNL3	Del	downstream	1	7	MSH6	child	9_130157376_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
00cab29a-3287-11e6-a284-4b89a2c71c31	4_41283811_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	41283811	AT	A	420	PASS	-	Del	-	1	6	MSH6	child	4_41283811_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
00ce7f6c-328f-11e6-b10a-17a5e7d0bdd7	1_109715562_CAC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	1	109715562	CA	C	420	PASS	KIAA1324	Del	intronic	1	7	FANCC	child	1_109715562_CAC_FANCC	1	1	1	A	6	A	Repeat-mediated
00d4a8d6-3282-11e6-9436-c28569062303	11_71987248_GAG	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	11	71987248	GA	G	1020	PASS	-	Del	-	1	6	POLE	parent	11_71987248_GAG_POLE	1	1	1	A	5	A	Repeat-mediated
00d6b738-3288-11e6-8404-8e1fbce6aa09	8_77472685_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	77472685	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	8_77472685_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
00d75f52-3257-11e6-a304-347a7872c165	1_240036645_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	240036645	CT	C	360	PASS	CHRM3	Del	intronic	1	9	MSH6	child	1_240036645_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
00da306c-3273-11e6-aa3b-ca60a178171f	13_57884086_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	57884086	GT	G	360	PASS	-	Del	-	1	4	MSH6	child	13_57884086_GTG_MSH6	1	1	1	T	3	T	Repeat-mediated
00e1ef6e-3291-11e6-b81f-4ee66f39e758	8_87812236_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	87812236	GA	G	420	PASS	RP11-386D6.2	Del	intronic	1	7	MSH6	child	8_87812236_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
00e768a2-328e-11e6-919e-92c36f39e758	2_170757823_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	170757823	AT	A	660	PASS	UBR3	Del	intronic	1	9	MSH6	child	2_170757823_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
00f03f08-328a-11e6-a70a-47793adbad45	3_27582982_CACTTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	3	27582982	CACTT	C	1320	PASS	-	Del	-	4	1	NUDT1	parent	3_27582982_CACTTC_NUDT1	4	4	0	-	0	-	None
00f32d44-3276-11e6-82ea-418d12ae24cf	7_5438906_CCTGCGGTATGGGGGTC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	7	5438906	CCTGCGGTATGGGGGT	C	420	PASS	TNRC18	Del	intronic	15	1	EXO1	child	7_5438906_CCTGCGGTATGGGGGTC_EXO1	15	>=10	2	CT	0	-	Microhomology-mediated
00f46740-3271-11e6-9d68-ac9acab49462	15_84187253_AAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	84187253	A	AT	300	PASS	SH3GL3	Ins	intronic	1	7	MSH6	child	15_84187253_AAT_MSH6	1	1	-	-	-	-	Ins
00f50780-3286-11e6-afcf-0311bce6aa09	9_17392054_AGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	17392054	AG	A	660	PASS	CNTLN	Del	intronic	1	1	MSH6	child	9_17392054_AGA_MSH6	1	1	0	-	0	G	None
010015c4-32a1-11e6-a04f-c66a25c9da85	6_110502083_TGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	110502083	TG	T	660	PASS	CDC40	Del	intronic	1	1	MSH6	child	6_110502083_TGT_MSH6	1	1	0	-	0	G	None
01045f2e-3258-11e6-9d15-298312ae24cf	X_89772296_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	89772296	TA	T	479	PASS	-	Del	-	1	7	MSH6	child	X_89772296_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
01065d52-3257-11e6-a304-347a7872c165	1_240083143_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	240083143	CA	C	480	PASS	CHRM3	Del	downstream	1	9	MSH6	child	1_240083143_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
010901b8-3272-11e6-acc7-e55219a91649	1_241222681_GGTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	241222681	G	GTA	780	PASS	RGS7	Ins	intronic	2	3	MSH6	child	1_241222681_GGTA_MSH6	2	2	-	-	-	-	Ins
010fd9e8-328b-11e6-a42b-8cc430158702	18_61557444_TAT	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	18	61557444	TA	T	360	PASS	SERPINB2	Del	intronic	1	9	POLM	child	18_61557444_TAT_POLM	1	1	1	A	8	A	Repeat-mediated
0121ca8c-328a-11e6-821d-8c090e01a414	13_61574009_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	61574009	CT	C	600	PASS	-	Del	-	1	6	MSH6	child	13_61574009_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
0123c532-329c-11e6-bda6-065325c9da85	13_53733262_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	53733262	A	AT	540	PASS	-	Ins	-	1	1	MSH6	child	13_53733262_AAT_MSH6	1	1	-	-	-	-	Ins
01248492-3286-11e6-afcf-0311bce6aa09	9_17495043_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	17495043	AT	A	540	PASS	CNTLN	Del	intronic	1	8	MSH6	child	9_17495043_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
0127d33a-3291-11e6-bb1e-70e16f39e758	X_68375274_CCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	68375274	C	CT	900	PASS	-	Ins	-	1	1	MSH6	child	X_68375274_CCT_MSH6	1	1	-	-	-	-	Ins
01291616-329e-11e6-bc2c-2a5e25c9da85	4_70567116_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	70567116	TA	T	600	PASS	-	Del	-	1	7	MSH6	child	4_70567116_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
012f5330-326e-11e6-b2ac-b6204b47a305	17_658121_GGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	658121	G	GT	300	PASS	GEMIN4	Ins	upstream	1	3	MSH6	child	17_658121_GGT_MSH6	1	1	-	-	-	-	Ins
01336d74-3257-11e6-91d3-a68412ae24cf	7_35722671_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	35722671	GA	G	360	PASS	HERPUD2	Del	intronic	1	9	MSH6	child	7_35722671_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
013642f2-3288-11e6-a8ac-a28ea2c71c31	3_37717144_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	37717144	CT	C	780	PASS	ITGA9	Del	intronic	1	9	MSH6	child	3_37717144_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
013b881e-3271-11e6-b923-6726694da5d2	5_112126003_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	112126003	GT	G	300	PASS	APC	Del	intronic	1	8	MSH6	child	5_112126003_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
01454e0e-3289-11e6-bae2-7096cdacbbbf	18_6769579_ATTCACGAGGAAAGCGAGACTTGGAAAGATTAAGAAATTTGCTCAAGATCATGCACCTATGTTGTGCCAAAGA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	18	6769579	ATTCACGAGGAAAGCGAGACTTGGAAAGATTAAGAAATTTGCTCAAGATCATGCACCTATGTTGTGCCAAAG	A	420	PASS	ARHGAP28	Del	intronic	71	1	FANCC	child	18_6769579_ATTCACGAGGAAAGCGAGACTTGGAAAGATTAAGAAATTTGCTCAAGATCATGCACCTATGTTGTGCCAAAGA_FANCC	71	>=10	0	-	0	-	None
014c1362-3291-11e6-8621-65d8191589db	4_184390099_TTTTTA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	4	184390099	T	TTTTA	300	PASS	-	Ins	-	4	0	FANCC	child	4_184390099_TTTTTA_FANCC	4	4	-	-	-	-	Ins
014ea10a-3277-11e6-9608-84e46de4ab00	7_91204291_TATCT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	7	91204291	TATC	T	900	PASS	-	Del	-	3	1	EXO1	child	7_91204291_TATCT_EXO1	3	3	2	AT	0	-	Microhomology-mediated
014f2e12-328c-11e6-88c1-95c36f39e758	14_49991216_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	49991216	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	14_49991216_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
01594d10-328d-11e6-bd1b-5fcc977b3f23	11_106504596_GAG	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	11	106504596	GA	G	420	PASS	-	Del	-	1	9	NEIL1	child	11_106504596_GAG_NEIL1	1	1	1	A	8	A	Repeat-mediated
017152e2-328e-11e6-b6a6-1f1e0e01a414	4_95111906_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	95111906	TA	T	300	PASS	RP11-363G15.2	Del	intronic	1	6	MSH6	child	4_95111906_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
01762346-3291-11e6-b81f-4ee66f39e758	8_88027141_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	88027141	AT	A	480	PASS	CNBD1	Del	intronic	1	5	MSH6	child	8_88027141_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
017675e0-326d-11e6-adc2-b7204b47a305	18_34058479_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	34058479	AT	A	660	PASS	FHOD3	Del	intronic	1	8	MSH6	child	18_34058479_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
0189b592-328b-11e6-9c89-8d090e01a414	1_97063426_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	97063426	GT	G	480	PASS	-	Del	-	1	8	MSH6	child	1_97063426_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
0189ba94-3284-11e6-9f05-70ef1da8ec0e	10_22319469_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	10	22319469	TA	T	660	PASS	-	Del	-	1	5	EXO1	child	10_22319469_TAT_EXO1	1	1	1	A	4	A	Repeat-mediated
018a6342-327d-11e6-89b2-838790e2c2e6	22_35029674_GCG	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	22	35029674	GC	G	882	PASS	-	Del	-	1	3	FANCC	parent	22_35029674_GCG_FANCC	1	1	1	C	2	C	Repeat-mediated
019d9178-3274-11e6-8bd4-92b28a20d9eb	9_76030696_TAT	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	9	76030696	TA	T	900	PASS	-	Del	-	1	9	NEIL1	child	9_76030696_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
01ac3668-328a-11e6-8459-82090e01a414	12_45672332_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	45672332	CT	C	360	PASS	ANO6	Del	intronic	1	8	MSH6	child	12_45672332_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
01ad8ba8-3271-11e6-b5b8-e0c24a47a305	X_105777712_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	105777712	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	X_105777712_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
01ae336a-3257-11e6-acc5-308412ae24cf	5_44897407_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	44897407	GA	G	480	PASS	-	Del	-	1	8	MSH6	child	5_44897407_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
01ae554a-3273-11e6-b8ae-92c57872c165	14_59393731_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	59393731	CA	C	300	PASS	RP11-112J1.2	Del	intronic	1	8	MSH6	child	14_59393731_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
01c1fb3a-3274-11e6-aa3b-ca60a178171f	13_25969455_CCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	25969455	C	CT	600	PASS	ATP8A2	Ins	intronic	1	5	MSH6	child	13_25969455_CCT_MSH6	1	1	-	-	-	-	Ins
01c8bd7c-3273-11e6-b332-88ba7d6a9fc7	15_50958999_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	50958999	CA	C	720	PASS	TRPM7	Del	intronic	1	9	MSH6	child	15_50958999_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
01cb0316-3291-11e6-9d97-efe56f39e758	4_161350992_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	161350992	GT	G	300	PASS	-	Del	-	1	9	MSH6	child	4_161350992_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
01deffe4-328f-11e6-b81f-4ee66f39e758	8_17847974_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	17847974	GT	G	300	PASS	PCM1	Del	intronic	1	9	MSH6	child	8_17847974_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
01e064c0-3293-11e6-984b-997830158702	1_177020095_GAG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	1	177020095	GA	G	720	PASS	ASTN1	Del	intronic	1	8	NUDT1	child	1_177020095_GAG_NUDT1	1	1	1	A	7	A	Repeat-mediated
01e2d038-328a-11e6-a7cf-80090e01a414	15_55447574_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	55447574	CT	C	360	PASS	-	Del	-	1	6	MSH6	child	15_55447574_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
01ea2514-3257-11e6-acc5-308412ae24cf	5_45171352_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	45171352	CA	C	360	PASS	-	Del	-	1	9	MSH6	child	5_45171352_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
01ea41cc-326e-11e6-b306-b5204b47a305	2_123160115_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	123160115	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	2_123160115_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
01ed6286-3321-11e6-a903-ae0342c4520d	13_45403023_TGAGT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	13	45403023	TGAG	T	300	PASS	-	Del	-	3	2	EXO1	child	13_45403023_TGAGT_EXO1	3	3	3	GAG	1	GAG	Repeat-mediated
01f1b140-3274-11e6-ace0-120b4ec77248	17_40457056_CAC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	17	40457056	CA	C	360	PASS	STAT5A	Del	intronic	1	8	EXO1	child	17_40457056_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
01f8bc6c-3321-11e6-98d8-e3f9cf737e61	17_19255535_TAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	17	19255535	TA	T	360	PASS	B9D1	Del	intronic	1	5	EXO1	child	17_19255535_TAT_EXO1	1	1	1	A	4	A	Repeat-mediated
020284d4-3323-11e6-917a-b666694da5d2	11_98780357_CAC	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	11	98780357	CA	C	540	PASS	-	Del	-	1	9	EXO1	child	11_98780357_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
02051c9a-326e-11e6-9003-ae204b47a305	19_1709710_CCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	1709710	C	CT	480	PASS	-	Ins	-	1	5	MSH6	child	19_1709710_CCT_MSH6	1	1	-	-	-	-	Ins
020a2604-3287-11e6-a284-4b89a2c71c31	4_41629492_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	41629492	GA	G	840	PASS	LIMCH1	Del	intronic	1	9	MSH6	child	4_41629492_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
020f9338-3290-11e6-bb1e-70e16f39e758	X_136783780_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	136783780	GT	G	300	PASS	-	Del	-	1	7	MSH6	child	X_136783780_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
02158fc6-329b-11e6-8848-de28c7271a47	8_124243573_TGAGTCTCTATCT	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	8	124243573	TGAGTCTCTATC	T	480	PASS	C8orf76	Del	frameshift	11	1	CHK2	child	8_124243573_TGAGTCTCTATCT_CHK2	11	>=10	0	-	0	-	None
0216d9a4-3286-11e6-9e1f-6479a178171f	16_19211958_TTCTAGGTGATAGAGAAT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	16	19211958	TTCTAGGTGATAGAGAA	T	360	PASS	SYT17	Del	intronic	16	1	FANCC	child	16_19211958_TTCTAGGTGATAGAGAAT_FANCC	16	>=10	2	TC	0	-	Microhomology-mediated
0219b9ae-3285-11e6-90da-f3a469062303	6_45217264_GAG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	6	45217264	GA	G	360	PASS	SUPT3H	Del	intronic	1	3	FANCC	child	6_45217264_GAG_FANCC	1	1	1	A	2	A	Repeat-mediated
021a3414-3281-11e6-9ec5-888f1ac527ab	13_79614341_AGATGACACTGAGA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	13	79614341	AGATGACACTGAG	A	360	PASS	-	Del	-	12	1	FANCC	child	13_79614341_AGATGACACTGAGA_FANCC	12	>=10	4	GATG	0	-	Microhomology-mediated
021d41d0-3273-11e6-9850-b83e75253f64	12_118011036_TGGGTGGAGGGTTTTA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	12	118011036	TGGGTGGAGGGT	TTTA	540	PASS	KSR2	Complex	intronic	11	0	FANCC	child	12_118011036_TGGGTGGAGGGTTTTA_FANCC	8	8	-	-	-	-	Complex
0223672e-328f-11e6-bd90-978e3adbad45	12_57629573_GGTTG	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	12	57629573	GGTT	G	540	PASS	NDUFA4L2	Del	inframe	3	2	NEIL1	child	12_57629573_GGTTG_NEIL1	3	3	3	GTT	1	GTT	Repeat-mediated
0224c0ca-328e-11e6-a83a-f948aa5f95ce	1_154489422_CAC	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	1	154489422	CA	C	660	PASS	TDRD10	Del	intronic	1	9	POLM	child	1_154489422_CAC_POLM	1	1	1	A	8	A	Repeat-mediated
02285832-3272-11e6-a539-0e5542c4520d	7_67632306_TTTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	67632306	T	TTA	300	PASS	RP5-945F2.3	Ins	intronic	2	5	MSH6	child	7_67632306_TTTA_MSH6	2	2	-	-	-	-	Ins
022a1948-328a-11e6-9c89-8d090e01a414	1_36621695_ACA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	36621695	AC	A	540	PASS	MAP7D1	Del	5prime_UTR_variant	1	7	MSH6	child	1_36621695_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
022e9d7c-3273-11e6-9e18-3a69671699ea	10_43493520_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	43493520	AG	A	540	PASS	MIR5100	Del	downstream	1	6	MSH6	child	10_43493520_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
02345f5e-3288-11e6-bea5-2b9c20e7b7a8	17_31313733_ATA	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	17	31313733	AT	A	660	PASS	-	Del	-	1	8	POLE	child	17_31313733_ATA_POLE	1	1	1	T	7	T	Repeat-mediated
023871a4-329a-11e6-9048-b49fcc638e3d	17_6982901_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	6982901	CA	C	540	PASS	CLEC10A	Del	intronic	1	9	MSH6	child	17_6982901_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
023bf416-3293-11e6-b25c-c77219a91649	8_129055976_ATA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	8	129055976	AT	A	300	PASS	PVT1	Del	intronic	1	6	NEIL1	child	8_129055976_ATA_NEIL1	1	1	1	T	5	T	Repeat-mediated
0240dbac-3324-11e6-922f-5f0e75253f64	4_77936800_ACTA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	4	77936800	ACT	A	420	PASS	SEPT11	Del	intronic	2	2	POLE	child	4_77936800_ACTA_POLE	2	2	2	CT	1	CT	Repeat-mediated
0242c594-3288-11e6-a284-4b89a2c71c31	4_135095446_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	135095446	TA	T	780	PASS	-	Del	-	1	9	MSH6	child	4_135095446_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
02508294-3290-11e6-99d8-a1aee7d0bdd7	8_22960569_CCCCGGCCGCCTGATGGCCGAGGCAGGGTGCGACCCAGGACCCAGGACGGCGTCGGGAACCATACCATGGCCCGGATCCCCAAGACCCTAAAGTTCGTCGTCGTCATCGTCGCGGTCCTGCTGCCAGTGAGTCCCGGCCGCGGTCCCTGGCTGGGGAAGAGCGCACCTGGCGCCGGGAGGGGGCAGGGAGACGGGGACACGGCAGGGATGCCTGGCCCTGGTCACCTGCGGCCGGGCATGTCCGGGCAGGACGAACTCGCCGTCGGAGTCAGGGGAAGAACTGGGTCCCCGGGCTGGGCAGGAGGGAC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	8	22960569	CCCCGGCCGCCTGATGGCCGAGGCAGGGTGCGACCCAGGACCCAGGACGGCGTCGGGAACCATACCATGGCCCGGATCCCCAAGACCCTAAAGTTCGTCGTCGTCATCGTCGCGGTCCTGCTGCCAGTGAGTCCCGGCCGCGGTCCCTGGCTGGGGAAGAGCGCACCTGGCGCCGGGAGGGGGCAGGGAGACGGGGACACGGCAGGGATGCCTGGCCCTGGTCACCTGCGGCCGGGCATGTCCGGGCAGGACGAACTCGCCGTCGGAGTCAGGGGAAGAACTGGGTCCCCGGGCTGGGCAGGAGGGA	C	300	PASS	TNFRSF10C	Del	cds_disrupted	306	1	FANCC	child	8_22960569_CCCCGGCCGCCTGATGGCCGAGGCAGGGTGCGACCCAGGACCCAGGACGGCGTCGGGAACCATACCATGGCCCGGATCCCCAAGACCCTAAAGTTCGTCGTCGTCATCGTCGCGGTCCTGCTGCCAGTGAGTCCCGGCCGCGGTCCCTGGCTGGGGAAGAGCGCACCTGGCGCCGGGAGGGGGCAGGGAGACGGGGACACGGCAGGGATGCCTGGCCCTGGTCACCTGCGGCCGGGCATGTCCGGGCAGGACGAACTCGCCGTCGGAGTCAGGGGAAGAACTGGGTCCCCGGGCTGGGCAGGAGGGAC_FANCC	306	>=10	9	CCCGGCCGC	0	-	Microhomology-mediated
025a796a-328c-11e6-a941-7397a178171f	6_152024783_GAG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	6	152024783	GA	G	480	PASS	ESR1	Del	intronic	1	6	FANCC	child	6_152024783_GAG_FANCC	1	1	1	A	5	A	Repeat-mediated
026cb106-3283-11e6-9607-56b01ac527ab	4_43690163_CTTC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	4	43690163	CTT	C	600	PASS	-	Del	-	2	3	FANCC	child	4_43690163_CTTC_FANCC	2	2	1	T	0	-	Microhomology-mediated
027a3b68-327f-11e6-ac7d-5dfe684da5d2	17_64933331_GAG	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	17	64933331	GA	G	300	PASS	-	Del	-	1	4	NEIL1	child	17_64933331_GAG_NEIL1	1	1	1	A	3	A	Repeat-mediated
027a525c-329c-11e6-aca6-b39fcc638e3d	2_146820540_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	146820540	GT	G	840	PASS	-	Del	-	1	9	MSH6	child	2_146820540_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
0283a7f4-326e-11e6-9d68-ac9acab49462	15_73049908_TGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	73049908	TG	T	300	PASS	ADPGK	Del	intronic	1	1	MSH6	child	15_73049908_TGT_MSH6	1	1	0	-	0	G	None
02852b8e-326d-11e6-9793-9a8fb0dab373	13_46480031_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	46480031	GT	G	360	PASS	-	Del	-	1	8	MSH6	child	13_46480031_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
028e2a4a-3254-11e6-89d3-d29498816cf3	2_52694835_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	52694835	GA	G	360	PASS	-	Del	-	1	7	MSH6	child	2_52694835_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
02909194-3255-11e6-9f9d-2c7a7872c165	12_98702005_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	98702005	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	12_98702005_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
02910c06-3254-11e6-a4a7-35f212ae24cf	14_50759829_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	50759829	TA	T	300	PASS	L2HGDH	Del	intronic	1	9	MSH6	child	14_50759829_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
02946006-3275-11e6-a862-bc9becf1e924	1_176812372_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	176812372	CT	C	480	PASS	PAPPA2	Del	3prime_UTR_variant	1	9	MSH6	child	1_176812372_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
0296a7f0-3287-11e6-b5e8-4ea538e8a824	18_6330848_TCT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	18	6330848	TC	T	480	PASS	L3MBTL4	Del	intronic	1	1	NUDT1	parent	18_6330848_TCT_NUDT1	1	1	0	-	0	C	None
029c2c3e-3287-11e6-86e9-d4770d016689	X_118695206_CAC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	X	118695206	CA	C	600	PASS	CXorf56	Del	intronic	1	9	EXO1	child	X_118695206_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
029d4514-3292-11e6-8d18-13cc0d01a414	20_20855341_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	20	20855341	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	20_20855341_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
02b2cc78-3273-11e6-bfb2-2749c225ee11	12_48373768_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	48373768	TG	T	540	PASS	COL2A1	Del	intronic	1	4	MSH6	child	12_48373768_TGT_MSH6	1	1	1	G	3	G	Repeat-mediated
02b4b9f0-328e-11e6-bc12-79ae12ae24cf	8_69743649_AGA	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	8	69743649	AG	A	540	PASS	-	Del	-	1	1	CHK2	child	8_69743649_AGA_CHK2	1	1	0	-	0	G	None
02c164e2-328a-11e6-8eee-76090e01a414	10_52046223_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	52046223	CA	C	360	PASS	-	Del	-	1	7	MSH6	child	10_52046223_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
02c32a2a-328a-11e6-9c9a-e78fa178171f	21_25559481_TAGGTAT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	21	25559481	TAGGTA	T	300	PASS	AP000470.2	Del	intronic	5	1	FANCC	child	21_25559481_TAGGTAT_FANCC	5	5	1	A	0	-	Microhomology-mediated
02d0bf0c-3297-11e6-9718-edf997ba1142	15_61715584_ATA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	15	61715584	AT	A	420	PASS	RP11-507B12.2	Del	intronic	1	7	CHK2	child	15_61715584_ATA_CHK2	1	1	1	T	6	T	Repeat-mediated
02d51984-328e-11e6-b5d1-34059c6d3b88	13_80831482_CTC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	13	80831482	CT	C	540	PASS	-	Del	-	1	9	POLB	child	13_80831482_CTC_POLB	1	1	1	T	8	T	Repeat-mediated
02d6997c-3279-11e6-82ea-418d12ae24cf	7_32213140_TTA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	7	32213140	T	TA	300	PASS	PDE1C	Ins	intronic	1	9	EXO1	child	7_32213140_TTA_EXO1	1	1	-	-	-	-	Ins
02daeabe-3278-11e6-a862-bc9becf1e924	1_114280256_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	114280256	C	CA	600	PASS	PHTF1	Ins	intronic	1	6	MSH6	child	1_114280256_CCA_MSH6	1	1	-	-	-	-	Ins
02dd9bfc-3290-11e6-bbb7-3068694da5d2	7_42333300_GAG	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	7	42333300	GA	G	720	PASS	-	Del	-	1	8	POLM	child	7_42333300_GAG_POLM	1	1	1	A	7	A	Repeat-mediated
02f1c448-329e-11e6-a5cf-205325c9da85	11_125792974_TTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	125792974	T	TA	780	PASS	DDX25	Ins	3prime_UTR_variant	1	7	MSH6	child	11_125792974_TTA_MSH6	1	1	-	-	-	-	Ins
02f61be0-3255-11e6-9f9d-2c7a7872c165	12_98781318_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	98781318	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	12_98781318_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
02f672b0-3256-11e6-8a2a-3af212ae24cf	16_64247394_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	16	64247394	A	AT	300	PASS	-	Ins	-	1	8	MSH6	child	16_64247394_AAT_MSH6	1	1	-	-	-	-	Ins
02fdc146-328d-11e6-af70-9d5c694da5d2	15_51796942_GACG	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	15	51796942	GAC	G	300	PASS	DMXL2	Del	intronic	2	1	POLM	child	15_51796942_GACG_POLM	2	2	1	A	0	-	Microhomology-mediated
03025ce0-3258-11e6-91d3-a68412ae24cf	7_114439491_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	114439491	AT	A	840	PASS	-	Del	-	1	8	MSH6	child	7_114439491_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
03163c96-3290-11e6-bc33-ab6919a91649	18_60675872_AAGG	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	18	60675872	A	AGG	480	PASS	-	Ins	-	2	2	NEIL1	child	18_60675872_AAGG_NEIL1	2	2	-	-	-	-	Ins
031e9cf4-3292-11e6-8b9f-eea73adbad45	3_65161054_CAC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	3	65161054	CA	C	300	PASS	RP11-543A18.1	Del	intronic	1	7	NEIL1	child	3_65161054_CAC_NEIL1	1	1	1	A	6	A	Repeat-mediated
03280c36-326e-11e6-b306-b5204b47a305	2_123728785_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	123728785	GT	G	420	PASS	-	Del	-	1	8	MSH6	child	2_123728785_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
032ed35a-3295-11e6-b4c5-47357a852e0e	8_79462734_TTCAT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	8	79462734	TTCA	T	420	PASS	PKIA	Del	intronic	3	2	CHK2	child	8_79462734_TTCAT_CHK2	3	3	3	TCA	1	TCA	Repeat-mediated
033037d6-3259-11e6-b950-8759fa52e078	X_77955938_TTG	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	X	77955938	T	TG	480	PASS	-	Ins	-	1	1	POLM	child	X_77955938_TTG_POLM	1	1	-	-	-	-	Ins
0337a774-3271-11e6-b923-6726694da5d2	5_112421385_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	112421385	CT	C	300	PASS	MCC	Del	intronic	1	7	MSH6	child	5_112421385_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
033ac1ec-328b-11e6-9035-7296cdacbbbf	2_219716603_GTTCAAGCGATTCG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	2	219716603	GTTCAAGCGATTC	G	600	PASS	-	Del	-	12	1	FANCC	child	2_219716603_GTTCAAGCGATTCG_FANCC	12	>=10	1	T	0	-	Microhomology-mediated
033f97ac-329b-11e6-b74d-b59fcc638e3d	18_75824145_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	75824145	CA	C	720	PASS	-	Del	-	1	7	MSH6	child	18_75824145_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
0340c4d8-3327-11e6-bd6e-9bc7cde16804	6_138888396_CTGGAACTATAGGCACACACCACCACACTTGACTACTTTTTCTATTTTTTTGTAGAGACAAGGTTTCGTCGTGTTCCCCAGGCTGGTCTTGAACTCCTGGGCTCAAGTGTTATGCCCACTTCGGCCTCCGAAAATGTTGGGATAACAAGCATGAGCCACCACGCCTGGCCCAGGAAGCTATTCCTAAGTCCCACCAATTTAAGGATTTTATTATCAGAAATAGATCACAGCTATTTACATGGAAACAGGATCTTGACTTTTGACCTAGCTGCTTTTGGTTTTTCATGTCATTTTTCTCCACTGTAATATCTGGTCATTAGTAATCTAATTATGTGCAAGGATCCTGCTTTCTGCAACTATTTTATTAGGAGAAAAACTGGGATGAAATTACTTTAAATAGATCCAACTCCCACACTCAAAAATTGATTATCTAGTATATGGATTATTCATTACCCTTGATGCCTAGTATGGTCATTCTCTGGCCATTTTTGTAGTGGCTGAGAAGGGAGGACACTGACATTCAAATGATTCAAAGCTGGTAACATTACTAGTCTGTACGATAAAGTCCAGAAGGAAAGGATGAAACATTGTTCAAAGCAAGGCTTTGCATGTCAATTACCTTCTCTATCTGCTGACCTGCCAATACCAGGATCATCAATCACGCTTCTGCCCAGCTAAATGGAGAGCTGGGGATACAACAAAACAAGCTCTGCTCAATGAGAAGACGGACACCCCATATGATTCCACCTCTTTTAGTTTTATTTGAGTGAGCAAGAAAGGGAAAGCACAGAATAAATACTACTAGTCATTAGTTTTCCTCAAGGACCTTCCACAGTGCTGGAAAAGCAGCAGGCACTCATTAAATCTTGTTCAGTTAAATGCTAACAGTTAGAAGACCATGCAAAACATGAAAATGTTCCAGATAAAGTTCCTTTATGCGGACCTTCTCATCTAGGTCATCGTGTTGCACTTTTTCACAATTATCCTACATTTTCTCTTTAACCCCCCTGCTTTAGATGTCTTATTTGCTTCTCCATTTAAGCATGAACTCCATGACTTCAGGGCCTGAGTGCTATCTTTCTTTGTATCCTGCACATAGTATTCAGTAATGATTCCACCAATAAATGCTCTCACAACTTCACGTGAAAAGTTACATATTGTCTTATCTACCACTGCATTCCACTTTTTTACTATAAAGAAGACACTGATTCACACCCTTGATTTGTATGGCTAATTAAGTCAAAACATCATCTACTACTCCTCCTGAGTA	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	6	138888396	CTGGAACTATAGGCACACACCACCACACTTGACTACTTTTTCTATTTTTTTGTAGAGACAAGGTTTCGTCGTGTTCCCCAGGCTGGTCTTGAACTCCTGGGCTCAAGTGTTATGCCCACTTCGGCCTCCGAAAATGTTGGGATAACAAGCATGAGCCACCACGCCTGGCCCAGGAAGCTATTCCTAAGTCCCACCAATTTAAGGATTTTATTATCAGAAATAGATCACAGCTATTTACATGGAAACAGGATCTTGACTTTTGACCTAGCTGCTTTTGGTTTTTCATGTCATTTTTCTCCACTGTAATATCTGGTCATTAGTAATCTAATTATGTGCAAGGATCCTGCTTTCTGCAACTATTTTATTAGGAGAAAAACTGGGATGAAATTACTTTAAATAGATCCAACTCCCACACTCAAAAATTGATTATCTAGTATATGGATTATTCATTACCCTTGATGCCTAGTATGGTCATTCTCTGGCCATTTTTGTAGTGGCTGAGAAGGGAGGACACTGACATTCAAATGATTCAAAGCTGGTAACATTACTAGTCTGTACGATAAAGTCCAGAAGGAAAGGATGAAACATTGTTCAAAGCAAGGCTTTGCATGTCAATTACCTTCTCTATCTGCTGACCTGCCAATACCAGGATCATCAATCACGCTTCTGCCCAGCTAAATGGAGAGCTGGGGATACAACAAAACAAGCTCTGCTCAATGAGAAGACGGACACCCCATATGATTCCACCTCTTTTAGTTTTATTTGAGTGAGCAAGAAAGGGAAAGCACAGAATAAATACTACTAGTCATTAGTTTTCCTCAAGGACCTTCCACAGTGCTGGAAAAGCAGCAGGCACTCATTAAATCTTGTTCAGTTAAATGCTAACAGTTAGAAGACCATGCAAAACATGAAAATGTTCCAGATAAAGTTCCTTTATGCGGACCTTCTCATCTAGGTCATCGTGTTGCACTTTTTCACAATTATCCTACATTTTCTCTTTAACCCCCCTGCTTTAGATGTCTTATTTGCTTCTCCATTTAAGCATGAACTCCATGACTTCAGGGCCTGAGTGCTATCTTTCTTTGTATCCTGCACATAGTATTCAGTAATGATTCCACCAATAAATGCTCTCACAACTTCACGTGAAAAGTTACATATTGTCTTATCTACCACTGCATTCCACTTTTTTACTATAAAGAAGACACTGATTCACACCCTTGATTTGTATGGCTAATTAAGTCAAAACATCATCTACTACT	CCTCCTGAGTA	600	PASS	NHSL1	Complex	intronic	1258	0	CHK2	child	6_138888396_CTGGAACTATAGGCACACACCACCACACTTGACTACTTTTTCTATTTTTTTGTAGAGACAAGGTTTCGTCGTGTTCCCCAGGCTGGTCTTGAACTCCTGGGCTCAAGTGTTATGCCCACTTCGGCCTCCGAAAATGTTGGGATAACAAGCATGAGCCACCACGCCTGGCCCAGGAAGCTATTCCTAAGTCCCACCAATTTAAGGATTTTATTATCAGAAATAGATCACAGCTATTTACATGGAAACAGGATCTTGACTTTTGACCTAGCTGCTTTTGGTTTTTCATGTCATTTTTCTCCACTGTAATATCTGGTCATTAGTAATCTAATTATGTGCAAGGATCCTGCTTTCTGCAACTATTTTATTAGGAGAAAAACTGGGATGAAATTACTTTAAATAGATCCAACTCCCACACTCAAAAATTGATTATCTAGTATATGGATTATTCATTACCCTTGATGCCTAGTATGGTCATTCTCTGGCCATTTTTGTAGTGGCTGAGAAGGGAGGACACTGACATTCAAATGATTCAAAGCTGGTAACATTACTAGTCTGTACGATAAAGTCCAGAAGGAAAGGATGAAACATTGTTCAAAGCAAGGCTTTGCATGTCAATTACCTTCTCTATCTGCTGACCTGCCAATACCAGGATCATCAATCACGCTTCTGCCCAGCTAAATGGAGAGCTGGGGATACAACAAAACAAGCTCTGCTCAATGAGAAGACGGACACCCCATATGATTCCACCTCTTTTAGTTTTATTTGAGTGAGCAAGAAAGGGAAAGCACAGAATAAATACTACTAGTCATTAGTTTTCCTCAAGGACCTTCCACAGTGCTGGAAAAGCAGCAGGCACTCATTAAATCTTGTTCAGTTAAATGCTAACAGTTAGAAGACCATGCAAAACATGAAAATGTTCCAGATAAAGTTCCTTTATGCGGACCTTCTCATCTAGGTCATCGTGTTGCACTTTTTCACAATTATCCTACATTTTCTCTTTAACCCCCCTGCTTTAGATGTCTTATTTGCTTCTCCATTTAAGCATGAACTCCATGACTTCAGGGCCTGAGTGCTATCTTTCTTTGTATCCTGCACATAGTATTCAGTAATGATTCCACCAATAAATGCTCTCACAACTTCACGTGAAAAGTTACATATTGTCTTATCTACCACTGCATTCCACTTTTTTACTATAAAGAAGACACTGATTCACACCCTTGATTTGTATGGCTAATTAAGTCAAAACATCATCTACTACTCCTCCTGAGTA_CHK2	1248	>=10	-	-	-	-	Complex
03443a70-328f-11e6-b8c3-19a5e7d0bdd7	12_119911261_ATA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	12	119911261	AT	A	540	PASS	CCDC60	Del	intronic	1	9	FANCC	child	12_119911261_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
034a6612-329d-11e6-aca6-b39fcc638e3d	2_208369199_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	208369199	TA	T	660	PASS	-	Del	-	1	9	MSH6	child	2_208369199_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
035db3ba-328f-11e6-b4fe-93c36f39e758	12_70783638_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	70783638	G	GT	360	PASS	KCNMB4	Ins	intronic	1	3	MSH6	child	12_70783638_GGT_MSH6	1	1	-	-	-	-	Ins
036658dc-3256-11e6-b7c7-cd919b6d3b88	18_76517275_AAGACCAGCACGTTCCAGCCTC	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	18	76517275	A	AGACCAGCACGTTCCAGCCTC	360	PASS	-	Ins	-	20	0	POLM	child	18_76517275_AAGACCAGCACGTTCCAGCCTC_POLM	20	>=10	-	-	-	-	Ins
036ce420-328a-11e6-b805-77090e01a414	2_49255238_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	49255238	CA	C	540	PASS	FSHR	Del	intronic	1	8	MSH6	child	2_49255238_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
036d5796-3287-11e6-b32c-fd87a2c71c31	5_81600752_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	81600752	GA	G	660	PASS	ATP6AP1L	Del	5prime_UTR_variant	1	9	MSH6	child	5_81600752_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
037068ca-328f-11e6-92cf-bf2a0e01a414	6_18649039_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	18649039	TA	T	360	PASS	-	Del	-	1	7	MSH6	child	6_18649039_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
0376421a-326f-11e6-8b35-58bb7872c165	13_21669081_CTC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	13	21669081	CT	C	360	PASS	-	Del	-	1	7	EXO1	parent	13_21669081_CTC_EXO1	1	1	1	T	6	T	Repeat-mediated
037789f8-3284-11e6-9546-b5936f39e758	15_31078169_GATAAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	15	31078169	GATAA	G	300	PASS	-	Del	-	4	2	EXO1	child	15_31078169_GATAAG_EXO1	4	4	4	ATAA	1	ATAA	Repeat-mediated
03941ee4-3291-11e6-9401-04ed6f39e758	3_69260572_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	69260572	CA	C	300	PASS	FRMD4B	Del	intronic	1	8	MSH6	child	3_69260572_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
039512bc-3288-11e6-8bbd-f88da2c71c31	21_43434518_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	21	43434518	CA	C	300	PASS	ZBTB21	Del	upstream	1	9	MSH6	child	21_43434518_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
03995698-3273-11e6-bfb2-2749c225ee11	12_48795002_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	48795002	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	12_48795002_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
039a2dec-329c-11e6-ae71-0c5325c9da85	1_119316859_AATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	119316859	AAT	A	263	PASS	-	Del	-	2	3	MSH6	child	1_119316859_AATA_MSH6	2	2	2	AT	2	AT	Repeat-mediated
039ad25e-328f-11e6-8f31-bfe16f39e758	9_95074261_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	95074261	GA	G	660	PASS	NOL8	Del	intronic	1	4	MSH6	child	9_95074261_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
039ba002-326d-11e6-9793-9a8fb0dab373	13_46973713_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	46973713	TA	T	300	PASS	KIAA0226L	Del	intronic	1	9	MSH6	child	13_46973713_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
03a73ac0-329f-11e6-aca6-b39fcc638e3d	2_82579709_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	82579709	A	AT	540	PASS	-	Ins	-	1	7	MSH6	child	2_82579709_AAT_MSH6	1	1	-	-	-	-	Ins
03a8b3f2-3270-11e6-aa5d-c85dcde16804	12_103695113_GAG	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	12	103695113	GA	G	360	PASS	C12orf42	Del	downstream	1	7	NEIL1	child	12_103695113_GAG_NEIL1	1	1	1	A	6	A	Repeat-mediated
03a9ada0-3277-11e6-998e-ba48fa52e078	8_98101793_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	98101793	TA	T	480	PASS	CPQ	Del	intronic	1	8	MSH6	child	8_98101793_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
03b00faa-328c-11e6-aa75-90c36f39e758	13_48186372_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	48186372	TA	T	540	PASS	-	Del	-	1	9	MSH6	child	13_48186372_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
03b33404-3256-11e6-b4d0-327a7872c165	11_32366718_AAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	32366718	A	AG	300	PASS	-	Ins	-	1	7	MSH6	child	11_32366718_AAG_MSH6	1	1	-	-	-	-	Ins
03bc281e-328a-11e6-8459-82090e01a414	12_46059623_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	46059623	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	12_46059623_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
03bcf54e-3291-11e6-92cf-bf2a0e01a414	6_143253608_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	143253608	TA	T	480	PASS	HIVEP2	Del	intronic	1	8	MSH6	child	6_143253608_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
03d020c2-328e-11e6-ab9a-705238e8a824	18_34440417_ATA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	18	34440417	AT	A	480	PASS	KIAA1328	Del	intronic	1	8	FANCC	child	18_34440417_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
03e70cec-327a-11e6-9dfe-7ec135761512	1_119299933_AGA	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	1	119299933	AG	A	840	PASS	-	Del	-	1	1	FANCC	parent	1_119299933_AGA_FANCC	1	1	0	-	0	G	None
041297b0-3273-11e6-aca7-e2b6dcd214c4	5_164819236_CAC	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	5	164819236	CA	C	480	PASS	CTC-535M15.2	Del	intronic	1	6	POLM	child	5_164819236_CAC_POLM	1	1	1	A	5	A	Repeat-mediated
0417f878-3272-11e6-b084-b6b99d7ad846	16_27864402_GAG	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	16	27864402	GA	G	540	PASS	GSG1L	Del	intronic	1	8	NEIL1	child	16_27864402_GAG_NEIL1	1	1	1	A	7	A	Repeat-mediated
041ab50c-3288-11e6-b9eb-c78fa2c71c31	6_15456821_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	15456821	AT	A	420	PASS	JARID2	Del	intronic	1	9	MSH6	child	6_15456821_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
041cae9a-326d-11e6-9793-9a8fb0dab373	13_47135701_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	47135701	AT	A	300	PASS	LRCH1	Del	intronic	1	5	MSH6	child	13_47135701_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
041e3fd8-326f-11e6-b306-b5204b47a305	2_212988216_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	212988216	AT	A	600	PASS	ERBB4	Del	intronic	1	6	MSH6	child	2_212988216_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
041e5ed2-3288-11e6-8feb-e6ab6f39e758	3_35802346_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	3	35802346	TA	T	300	PASS	ARPP21	Del	intronic	1	8	EXO1	child	3_35802346_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
0420305a-3273-11e6-9e18-3a69671699ea	10_43903536_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	43903536	AT	A	480	PASS	HNRNPF	Del	intronic	1	9	MSH6	child	10_43903536_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
042311ee-3278-11e6-9019-27a01da8ec0e	6_140055280_CTC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	6	140055280	CT	C	360	PASS	-	Del	-	1	8	FANCC	child	6_140055280_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
0426d5be-3290-11e6-b97d-a8b305ad5bc4	20_56515162_TTCTCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	56515162	TTCTC	T	480	PASS	-	Del	-	4	5	MSH6	child	20_56515162_TTCTCT_MSH6	4	4	4	TCTC	3	TC	Repeat-mediated
0428c49c-328a-11e6-a32d-75090e01a414	14_66068661_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	66068661	CT	C	360	PASS	FUT8	Del	intronic	1	8	MSH6	child	14_66068661_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
042a6a60-3256-11e6-89d3-d29498816cf3	2_13676700_TTA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	13676700	T	TA	540	PASS	AC092635.1	Ins	upstream	1	7	MSH6	child	2_13676700_TTA_MSH6	1	1	-	-	-	-	Ins
04322dfe-328d-11e6-8e48-791e0e01a414	8_32222882_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	32222882	CT	C	360	PASS	NRG1	Del	intronic	1	8	MSH6	child	8_32222882_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
0438621a-329b-11e6-ae71-0c5325c9da85	1_56231743_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	56231743	CA	C	420	PASS	-	Del	-	1	6	MSH6	child	1_56231743_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
04387354-32a0-11e6-aea7-956725c9da85	3_102057998_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	102057998	AT	A	660	PASS	ZPLD1	Del	intronic	1	8	MSH6	child	3_102057998_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
0438ecc8-3276-11e6-83cd-a472a178171f	4_68078160_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	68078160	CA	C	660	PASS	-	Del	-	1	8	MSH6	child	4_68078160_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
0439469e-3282-11e6-b1f4-d855f7d33ce3	10_132322305_CAATC	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	10	132322305	CAAT	C	480	PASS	-	Del	-	3	1	NUDT1	child	10_132322305_CAATC_NUDT1	3	3	1	A	0	-	Microhomology-mediated
044b1cce-328d-11e6-8256-94c36f39e758	17_74812036_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	74812036	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	17_74812036_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
044eee68-329b-11e6-bda6-065325c9da85	13_95467559_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	95467559	GA	G	660	PASS	-	Del	-	1	5	MSH6	child	13_95467559_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
0453325e-328f-11e6-bec1-ca1d0e01a414	X_141976642_CATC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	141976642	CAT	C	420	PASS	-	Del	-	2	6	MSH6	child	X_141976642_CATC_MSH6	2	2	2	AT	5	AT	Repeat-mediated
0457e49c-326d-11e6-9793-9a8fb0dab373	13_47181517_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	47181517	CT	C	300	PASS	LRCH1	Del	intronic	1	7	MSH6	child	13_47181517_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
04697f26-328c-11e6-b8e6-91c36f39e758	11_30849414_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	30849414	TA	T	360	PASS	-	Del	-	1	8	MSH6	child	11_30849414_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
048002ea-326f-11e6-9fba-41ebd8b4fa2c	11_88138285_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	88138285	GA	G	660	PASS	-	Del	-	1	7	MSH6	child	11_88138285_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
0483be78-3290-11e6-bf99-1e6bfc77b11e	11_127322593_GGTATTT	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	11	127322593	G	GTATTT	300	PASS	-	Ins	-	5	5	POLE	child	11_127322593_GGTATTT_POLE	5	5	-	-	-	-	Ins
04865d12-3255-11e6-a304-347a7872c165	1_93607731_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	93607731	GT	G	300	PASS	MTF2	Del	downstream	1	9	MSH6	child	1_93607731_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
0490cf5c-328e-11e6-8f31-bfe16f39e758	9_7671298_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	7671298	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	9_7671298_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
049da17a-3255-11e6-b4d0-327a7872c165	11_100687052_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	100687052	GT	G	300	PASS	ARHGAP42	Del	intronic	1	9	MSH6	child	11_100687052_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
04a0d314-3277-11e6-92d2-c259c225ee11	3_50009838_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	50009838	TA	T	600	PASS	RBM6	Del	intronic	1	8	MSH6	child	3_50009838_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
04a95132-3291-11e6-a454-be257a852e0e	17_5067728_TTTACGAGTTGATTAACAA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	17	5067728	TTTACGAGTTGAT	TAACAA	360	PASS	USP6	Complex	intronic	12	0	CHK2	child	17_5067728_TTTACGAGTTGATTAACAA_CHK2	7	7	-	-	-	-	Complex
04b38e86-3287-11e6-989a-645b51c54cdd	5_2491972_CAC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	5	2491972	CA	C	420	PASS	-	Del	-	1	8	EXO1	child	5_2491972_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
04b59dbe-3257-11e6-a304-347a7872c165	1_240755721_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	240755721	TA	T	480	PASS	GREM2	Del	intronic	1	8	MSH6	child	1_240755721_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
04b6103e-328c-11e6-ac7a-a3c36f39e758	18_33822982_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	33822982	AT	A	720	PASS	MOCOS	Del	intronic	1	9	MSH6	child	18_33822982_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
04bc8a30-326f-11e6-996e-f60b98ba1142	18_371594_ATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	18	371594	AT	A	420	PASS	COLEC12	Del	intronic	1	9	EXO1	parent	18_371594_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
04c46a5e-327c-11e6-a391-f6d67d6a9fc7	6_139192955_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	139192955	C	CA	420	PASS	ECT2L	Ins	intronic	1	8	MSH6	child	6_139192955_CCA_MSH6	1	1	-	-	-	-	Ins
04cbe20c-3290-11e6-9401-04ed6f39e758	3_2906122_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	2906122	GA	G	328	PASS	CNTN4	Del	intronic	1	9	MSH6	child	3_2906122_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
04d5c226-328c-11e6-88c1-95c36f39e758	14_50342246_TTGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	50342246	TTG	T	420	PASS	-	Del	-	2	6	MSH6	child	14_50342246_TTGT_MSH6	2	2	2	TG	5	TG	Repeat-mediated
04d8b8a0-326e-11e6-9f48-94df41c4520d	12_110334554_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	110334554	GA	G	300	PASS	TCHP	Del	upstream	1	8	MSH6	child	12_110334554_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
04da3cd8-3292-11e6-b81f-4ee66f39e758	8_545675_TTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	545675	T	TG	420	PASS	-	Ins	-	1	5	MSH6	child	8_545675_TTG_MSH6	1	1	-	-	-	-	Ins
04dbd192-3288-11e6-a284-4b89a2c71c31	4_136260651_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	136260651	AT	A	480	PASS	-	Del	-	1	6	MSH6	child	4_136260651_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
04e45e2c-329f-11e6-91d0-016425c9da85	7_92306919_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	92306919	CA	C	660	PASS	CDK6	Del	intronic	1	8	MSH6	child	7_92306919_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
04f2bba4-3293-11e6-90fc-6b0fb968caf4	12_55578986_ATA	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	12	55578986	AT	A	360	PASS	-	Del	-	1	7	POLB	child	12_55578986_ATA_POLB	1	1	1	T	6	T	Repeat-mediated
04f51910-3290-11e6-b97d-a8b305ad5bc4	20_57171024_TGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	57171024	TG	T	600	PASS	APCDD1L-AS1	Del	intronic	1	7	MSH6	child	20_57171024_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
04f7d018-326f-11e6-acc7-e55219a91649	1_215105534_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	215105534	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	1_215105534_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
04f86570-327c-11e6-8a91-643d87a84063	1_66170288_TAT	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	1	66170288	TA	T	720	PASS	-	Del	-	1	8	POLM	child	1_66170288_TAT_POLM	1	1	1	A	7	A	Repeat-mediated
05089bac-3281-11e6-86cf-8f288e4678dd	10_53771008_ATA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	10	53771008	AT	A	600	PASS	PRKG1	Del	intronic	1	7	FANCC	child	10_53771008_ATA_FANCC	1	1	1	T	6	T	Repeat-mediated
05134ab4-3292-11e6-9749-1e2c0625f869	4_179738168_ATA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	4	179738168	AT	A	600	PASS	-	Del	-	1	7	NEIL1	child	4_179738168_ATA_NEIL1	1	1	1	T	6	T	Repeat-mediated
0514febc-3257-11e6-a39a-dc8512ae24cf	8_21049383_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	21049383	GA	G	404	PASS	-	Del	-	1	9	MSH6	child	8_21049383_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
05186e34-3271-11e6-9850-b83e75253f64	12_16501216_GATAG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	12	16501216	GATA	G	300	PASS	MGST1	Del	intronic	3	2	FANCC	child	12_16501216_GATAG_FANCC	3	3	3	ATA	1	ATA	Repeat-mediated
0519e410-3278-11e6-a47c-77abeab8d062	5_129412145_CTC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	5	129412145	CT	C	360	PASS	CHSY3	Del	intronic	1	9	EXO1	child	5_129412145_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
051a5616-325a-11e6-8340-da9012ae24cf	6_106068621_TGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	106068621	TG	T	960	PASS	RP3-359N14.2	Del	intronic	1	6	MSH6	child	6_106068621_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
051eaab2-3346-11e6-b0ff-c495e84777f6	10_37649083_TAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	10	37649083	TA	T	420	PASS	ANKRD30A	Del	intronic	1	8	FANCC	child	10_37649083_TAT_FANCC	1	1	1	A	7	A	Repeat-mediated
052293c2-328b-11e6-a80b-87090e01a414	11_108471178_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	108471178	AT	A	360	PASS	-	Del	-	1	1	MSH6	child	11_108471178_ATA_MSH6	1	1	0	-	0	T	None
05263d06-329f-11e6-91d0-016425c9da85	7_92506342_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	92506342	GA	G	660	PASS	-	Del	-	1	8	MSH6	child	7_92506342_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
053a453e-3291-11e6-9401-04ed6f39e758	3_69473164_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	69473164	TA	T	660	PASS	-	Del	-	1	9	MSH6	child	3_69473164_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
054266ea-3284-11e6-ba80-c6262eaed38e	2_74715463_AAT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	2	74715463	A	AT	840	PASS	TTC31	Ins	intronic	1	8	POLB	child	2_74715463_AAT_POLB	1	1	-	-	-	-	Ins
054cb398-3329-11e6-a435-b8ae4430f757	20_49139288_GTATTTATTG	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	20	49139288	GTATTTATT	G	300	PASS	PTPN1	Del	intronic	8	4	CHK2	child	20_49139288_GTATTTATTG_CHK2	8	8	8	TATTTATT	2	TATT	Repeat-mediated
054d9556-329d-11e6-ae71-0c5325c9da85	1_184189051_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	184189051	TA	T	780	PASS	-	Del	-	1	8	MSH6	child	1_184189051_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
05503af6-326e-11e6-adc2-b7204b47a305	18_41712941_GGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	41712941	G	GA	540	PASS	-	Ins	-	1	8	MSH6	child	18_41712941_GGA_MSH6	1	1	-	-	-	-	Ins
055b1ec8-3271-11e6-9309-bdc34a47a305	8_84380226_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	84380226	GT	G	540	PASS	-	Del	-	1	8	MSH6	child	8_84380226_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
055bba0c-3327-11e6-8edd-1f307246d362	3_172045181_ATA	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	3	172045181	AT	A	720	PASS	FNDC3B	Del	intronic	1	7	CHK2	parent	3_172045181_ATA_CHK2	1	1	1	T	6	T	Repeat-mediated
056001a2-3278-11e6-ab69-1c1607e9a829	9_124423474_GGCAGCTT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	124423474	G	GCAGCTT	660	PASS	DAB2IP	Ins	intronic	6	0	MSH6	child	9_124423474_GGCAGCTT_MSH6	6	6	-	-	-	-	Ins
0560a5b6-3292-11e6-9413-6a7219a91649	5_109490253_TAT	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	5	109490253	TA	T	540	PASS	-	Del	-	1	7	NEIL1	child	5_109490253_TAT_NEIL1	1	1	1	A	6	A	Repeat-mediated
05632e52-3293-11e6-b733-69ecb41afd22	19_30755498_ATA	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	19	30755498	AT	A	300	PASS	ZNF536	Del	intronic	1	9	NEIL1	child	19_30755498_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
05668524-3258-11e6-9d15-298312ae24cf	X_91915903_ATTGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	91915903	ATTG	A	359	PASS	-	Del	-	3	2	MSH6	child	X_91915903_ATTGA_MSH6	3	3	3	TTG	1	TTG	Repeat-mediated
056ec6c6-3276-11e6-9e0f-7959cab49462	7_38929865_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	38929865	CA	C	540	PASS	VPS41	Del	intronic	1	7	MSH6	child	7_38929865_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
056ee930-3285-11e6-99f7-076ea2c71c31	12_55715793_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	55715793	CA	C	360	PASS	OR6C1	Del	downstream	1	9	MSH6	child	12_55715793_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
0571bd94-326d-11e6-adc2-b7204b47a305	18_35395358_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	35395358	TA	T	360	PASS	-	Del	-	1	6	MSH6	child	18_35395358_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
0572ee52-3273-11e6-8418-1c5942c4520d	3_81429643_TTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	81429643	T	TG	480	PASS	-	Ins	-	1	2	MSH6	child	3_81429643_TTG_MSH6	1	1	-	-	-	-	Ins
057c75f2-3297-11e6-8669-5f48a178171f	15_91831873_TTTC	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	15	91831873	T	TTC	420	PASS	SV2B	Ins	intronic	2	7	NEIL1	child	15_91831873_TTTC_NEIL1	2	2	-	-	-	-	Ins
058adc94-3294-11e6-8cd8-07045e753391	2_231618875_AAC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	2	231618875	A	AC	360	PASS	CAB39	Ins	intronic	1	3	POLB	child	2_231618875_AAC_POLB	1	1	-	-	-	-	Ins
058d4cba-325b-11e6-8b28-55ad7872c165	20_31358852_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	31358852	CT	C	300	PASS	DNMT3B	Del	intronic	1	9	MSH6	child	20_31358852_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
0591e98e-3281-11e6-9d0e-b4dad4957ca3	21_31461186_TAT	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	21	31461186	TA	T	660	PASS	AF096876.1	Del	upstream	1	9	NEIL1	child	21_31461186_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
059f196e-3255-11e6-8f56-7d832aaffa45	13_78527950_GAAAATG	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	13	78527950	GAAAAT	G	480	PASS	-	Del	-	5	2	POLM	child	13_78527950_GAAAATG_POLM	5	5	5	AAAAT	4	A	Microhomology-mediated
059f7d3c-3287-11e6-a5b3-3f1ebce6aa09	7_56355470_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	56355470	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	7_56355470_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
05a3a57c-328e-11e6-b6a6-1f1e0e01a414	4_95979139_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	95979139	TA	T	600	PASS	BMPR1B	Del	intronic	1	7	MSH6	child	4_95979139_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
05ad7072-3282-11e6-a1d1-b18df4b7c17d	1_234332690_GAG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	1	234332690	GA	G	420	PASS	SLC35F3	Del	intronic	1	9	FANCC	child	1_234332690_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
05b207f2-3293-11e6-93dd-5948a178171f	11_38328918_TACCAGAT	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	11	38328918	TACCAGA	T	360	PASS	-	Del	-	6	1	NEIL1	child	11_38328918_TACCAGAT_NEIL1	6	6	0	-	0	-	None
05b3f77e-3275-11e6-9ef9-d85a25c9da85	3_182820413_GAG	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	3	182820413	GA	G	720	PASS	MCCC1	Del	upstream	1	8	POLM	child	3_182820413_GAG_POLM	1	1	1	A	7	A	Repeat-mediated
05ca3c44-3277-11e6-8717-f13d8a20d9eb	6_126776923_CTAC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	6	126776923	CTA	C	300	PASS	-	Del	-	2	1	CHK2	child	6_126776923_CTAC_CHK2	2	2	1	T	0	-	Microhomology-mediated
05cc6fc8-327c-11e6-a9e7-37e798816cf3	14_91401262_CTTC	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	14	91401262	CTT	C	420	PASS	RPS6KA5	Del	intronic	2	3	POLM	child	14_91401262_CTTC_POLM	2	2	1	T	0	-	Microhomology-mediated
05da2748-3296-11e6-957b-aef8d8b4fa2c	8_57685794_TAT	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	8	57685794	TA	T	540	PASS	-	Del	-	1	1	NUDT1	child	8_57685794_TAT_NUDT1	1	1	0	-	0	A	None
05deee10-328a-11e6-a80b-87090e01a414	11_46134307_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	46134307	TA	T	420	PASS	PHF21A	Del	intronic	1	9	MSH6	child	11_46134307_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
05e0baf8-3274-11e6-a5d0-4fd14a47a305	2_142802194_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	142802194	AT	A	600	PASS	LRP1B	Del	intronic	1	9	MSH6	child	2_142802194_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
05e2aaaa-328f-11e6-8cd8-07045e753391	2_140733640_GATG	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	2	140733640	GAT	G	300	PASS	-	Del	-	2	5	POLB	child	2_140733640_GATG_POLB	2	2	2	AT	4	AT	Repeat-mediated
05e61854-3288-11e6-a5b3-3f1ebce6aa09	7_148548313_ACA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	148548313	AC	A	540	PASS	EZH2	Del	intronic	1	6	MSH6	child	7_148548313_ACA_MSH6	1	1	1	C	5	C	Repeat-mediated
05eeafa8-328a-11e6-8e41-628fa178171f	22_42681651_ATA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	22	42681651	AT	A	300	PASS	TCF20	Del	intronic	1	8	FANCC	child	22_42681651_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
05f3dcd4-3272-11e6-9303-36f41da8ec0e	14_97765528_CTC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	14	97765528	CT	C	300	PASS	-	Del	-	1	7	FANCC	child	14_97765528_CTC_FANCC	1	1	1	T	6	T	Repeat-mediated
05f756f2-3281-11e6-989b-28bd9b6d3b88	12_40629553_TAT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	12	40629553	TA	T	420	PASS	LRRK2	Del	intronic	1	9	EXO1	child	12_40629553_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
05ff892c-3271-11e6-a390-fc104530f757	1_20657036_TCTTTTTCCCTCTCAAGTTCTGAATGGGTGAGCTACCCATGCCTCTGCACACGACTCACAAGAGAAGCCCAGGGAGAGGTCCCACAGCCAAGGGAGAGGCTGCTCCCGCTCTGTGCTGGGTGGGAATTAATGGACTGTCTGTGGGTGAATTGATGGGTGTGTATGTGGGTACCCCCGATGGCCCCTCTTCCTTCTCCCTCTCCCTCTACCTGAATATAGGGCCAGCTCCAAGATCCTGCCAGACCATGCTCTGTCCCTTTCTGCATCAGGAGGCAAAGATGCAGAGAGGATAAGACATAGCAGCCTCTCTTCTCCCTTTCCGCCAGGTGCTATAGT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	1	20657036	TCTTTTTCCCTCTCAAGTTCTGAATGGGTGAGCTACCCATGCCTCTGCACACGACTCACAAGAGAAGCCCAGGGAGAGGTCCCACAGCCAAGGGAGAGGCTGCTCCCGCTCTGTGCTGGGTGGGAATTAATGGACTGTCTGTGGGTGAATTGATGGGTGTGTATGTGGGTACCCCCGATGGCCCCTCTTCCTTCTCCCTCTCCCTCTACCTGAATATAGGGCCAGCTCCAAGATCCTGCCAGACCATGCTCTGTCCCTTTCTGCATCAGGAGGCAAAGATGCAGAGAGGATAAGACATAGCAGCCTCTCTTCTCCCTTTCCGCCAGGTGCTATAG	T	360	PASS	VWA5B1	Del	ess_splice	334	1	FANCC	child	1_20657036_TCTTTTTCCCTCTCAAGTTCTGAATGGGTGAGCTACCCATGCCTCTGCACACGACTCACAAGAGAAGCCCAGGGAGAGGTCCCACAGCCAAGGGAGAGGCTGCTCCCGCTCTGTGCTGGGTGGGAATTAATGGACTGTCTGTGGGTGAATTGATGGGTGTGTATGTGGGTACCCCCGATGGCCCCTCTTCCTTCTCCCTCTCCCTCTACCTGAATATAGGGCCAGCTCCAAGATCCTGCCAGACCATGCTCTGTCCCTTTCTGCATCAGGAGGCAAAGATGCAGAGAGGATAAGACATAGCAGCCTCTCTTCTCCCTTTCCGCCAGGTGCTATAGT_FANCC	334	>=10	4	CTTT	0	-	Microhomology-mediated
0602179a-3281-11e6-9066-1ba854de4fc4	14_80682635_ACAAAGAGCA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	14	80682635	ACAAAGAGC	A	420	PASS	DIO2	Del	intronic	8	1	FANCC	child	14_80682635_ACAAAGAGCA_FANCC	8	8	2	CA	0	-	Microhomology-mediated
0608183a-3271-11e6-a390-fc104530f757	1_20661421_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	1	20661421	AT	A	360	PASS	VWA5B1	Del	intronic	1	6	FANCC	child	1_20661421_ATA_FANCC	1	1	1	T	5	T	Repeat-mediated
060b0d6e-3272-11e6-a0a7-943dc225ee11	1_221148118_GAG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	1	221148118	GA	G	480	PASS	-	Del	-	1	8	EXO1	parent	1_221148118_GAG_EXO1	1	1	1	A	7	A	Repeat-mediated
060f2efa-3270-11e6-a539-0e5542c4520d	7_73724689_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	73724689	CA	C	300	PASS	CLIP2	Del	intronic	1	6	MSH6	child	7_73724689_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
061a8aee-3328-11e6-9f5d-eba78a20d9eb	8_80452551_GTG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	8	80452551	GT	G	360	PASS	-	Del	-	1	5	EXO1	child	8_80452551_GTG_EXO1	1	1	1	T	4	T	Repeat-mediated
06248d1e-3283-11e6-aa13-78428e4678dd	5_32546324_CTC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	5	32546324	CT	C	300	PASS	SUB1	Del	intronic	1	9	EXO1	child	5_32546324_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
062c2ed8-328e-11e6-8f31-bfe16f39e758	9_8307540_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	8307540	CT	C	720	PASS	-	Del	-	1	8	MSH6	child	9_8307540_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
0631cc0a-3273-11e6-aa3b-ca60a178171f	13_59451956_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	59451956	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	13_59451956_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
0640ad5e-3257-11e6-91d3-a68412ae24cf	7_36762940_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	36762940	CA	C	300	PASS	AOAH	Del	intronic	1	8	MSH6	child	7_36762940_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
064bbcc2-3292-11e6-8d00-b1b0e7d0bdd7	5_167281352_GAG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	5	167281352	GA	G	360	PASS	TENM2	Del	intronic	1	7	FANCC	child	5_167281352_GAG_FANCC	1	1	1	A	6	A	Repeat-mediated
064db638-3271-11e6-8418-1c5942c4520d	3_103268831_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	103268831	GA	G	420	PASS	-	Del	-	1	7	MSH6	child	3_103268831_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
065050fc-3292-11e6-98e0-70dad8b4fa2c	2_62716266_ATGA	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	2	62716266	ATG	A	540	PASS	-	Del	-	2	2	NUDT1	child	2_62716266_ATGA_NUDT1	2	2	2	TG	1	TG	Repeat-mediated
0654d316-3288-11e6-a8ac-a28ea2c71c31	3_39871261_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	39871261	TA	T	1020	PASS	MYRIP	Del	intronic	1	8	MSH6	child	3_39871261_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
065716da-328d-11e6-8952-77c36f39e758	10_95642436_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	95642436	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	10_95642436_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
065a38ea-3285-11e6-870e-6af1bbe6aa09	19_39116158_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	39116158	CT	C	360	PASS	EIF3K	Del	intronic	1	9	MSH6	child	19_39116158_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
065c9ea2-329c-11e6-b549-1e5325c9da85	10_130971692_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	130971692	CT	C	420	PASS	-	Del	-	1	7	MSH6	child	10_130971692_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
066b4292-326d-11e6-9f48-94df41c4520d	12_32525819_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	32525819	GA	G	360	PASS	BICD1	Del	intronic	1	7	MSH6	child	12_32525819_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
066ee260-3288-11e6-b9eb-c78fa2c71c31	6_16372981_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	16372981	CA	C	540	PASS	ATXN1	Del	intronic	1	8	MSH6	child	6_16372981_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
0670bbc8-3281-11e6-9d0e-b4dad4957ca3	21_32056408_CAC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	21	32056408	CA	C	540	PASS	-	Del	-	1	8	NEIL1	child	21_32056408_CAC_NEIL1	1	1	1	A	7	A	Repeat-mediated
0671a260-328e-11e6-aa75-90c36f39e758	13_76224275_CCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	76224275	C	CT	420	PASS	LMO7	Ins	intronic	1	8	MSH6	child	13_76224275_CCT_MSH6	1	1	-	-	-	-	Ins
0679fc48-3320-11e6-898e-96c25d753391	11_32487164_TTGT	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	11	32487164	TTG	T	660	PASS	-	Del	-	2	8	CHK2	parent	11_32487164_TTGT_CHK2	2	2	2	TG	7	TG	Repeat-mediated
067c0d7e-327d-11e6-a791-f4a03adbad45	18_23324622_GGTTCTAACCCA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	18	23324622	G	GTTCTAACCCA	600	PASS	-	Ins	-	10	0	NUDT1	child	18_23324622_GGTTCTAACCCA_NUDT1	10	>=10	-	-	-	-	Ins
067fee2e-3275-11e6-9b52-2fdc6de4ab00	12_115066850_CAAC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	12	115066850	CAA	C	480	PASS	-	Del	-	2	4	EXO1	child	12_115066850_CAAC_EXO1	2	2	2	AA	2	A	Repeat-mediated
068420a4-3255-11e6-89d3-d29498816cf3	2_166199949_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	166199949	TA	T	600	PASS	SCN2A	Del	intronic	1	7	MSH6	child	2_166199949_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
068a74fa-3321-11e6-be49-204207e9a829	1_20340372_TAT	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	1	20340372	TA	T	300	PASS	-	Del	-	1	8	POLE	child	1_20340372_TAT_POLE	1	1	1	A	7	A	Repeat-mediated
068e0974-326f-11e6-acc7-e55219a91649	1_215753427_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	215753427	AT	A	360	PASS	KCTD3	Del	intronic	1	9	MSH6	child	1_215753427_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
069af016-3270-11e6-9573-f50b98ba1142	17_68034581_TAT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	17	68034581	TA	T	660	PASS	-	Del	-	1	8	EXO1	parent	17_68034581_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
069c2b94-3288-11e6-b093-c9c7b0dab373	2_44186708_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	44186708	T	TA	420	PASS	LRPPRC	Ins	intronic	1	5	MSH6	child	2_44186708_TTA_MSH6	1	1	-	-	-	-	Ins
06a06858-3292-11e6-9d24-ade56f39e758	7_64906934_GGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	64906934	G	GA	960	PASS	-	Ins	-	1	1	MSH6	child	7_64906934_GGA_MSH6	1	1	-	-	-	-	Ins
06a0efe6-3290-11e6-9432-c0e56f39e758	5_100823747_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	100823747	AT	A	600	PASS	-	Del	-	1	8	MSH6	child	5_100823747_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
06a5f158-328b-11e6-a7cf-80090e01a414	15_76152078_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	76152078	AT	A	300	PASS	UBE2Q2	Del	intronic	1	6	MSH6	child	15_76152078_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
06b62464-328c-11e6-b43c-7ec36f39e758	16_27927251_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	27927251	CT	C	360	PASS	GSG1L	Del	intronic	1	7	MSH6	child	16_27927251_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
06b815f4-3290-11e6-9d97-efe56f39e758	4_94337409_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	94337409	TA	T	300	PASS	GRID2	Del	intronic	1	8	MSH6	child	4_94337409_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
06b8bd80-3275-11e6-b2ab-fba69cdf095d	X_44593716_TGT	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	X	44593716	TG	T	300	PASS	-	Del	-	1	1	NUDT1	child	X_44593716_TGT_NUDT1	1	1	0	-	0	G	None
06d31c1a-3285-11e6-9daa-026ea2c71c31	14_83046179_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	83046179	AT	A	540	PASS	-	Del	-	1	8	MSH6	child	14_83046179_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
06d511fa-3276-11e6-a862-bc9becf1e924	1_243601016_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	243601016	AT	A	480	PASS	SDCCAG8	Del	intronic	1	5	MSH6	child	1_243601016_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
06d83da4-3289-11e6-bf15-aeb06f39e758	6_35816916_AAAACA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	6	35816916	AAAAC	A	600	PASS	SRPK1	Del	intronic	4	4	EXO1	child	6_35816916_AAAACA_EXO1	4	4	4	AAAC	3	AAAC	Repeat-mediated
06d8e80a-3255-11e6-a304-347a7872c165	1_94325907_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	94325907	GA	G	710	PASS	-	Del	-	1	8	MSH6	child	1_94325907_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
06d935ac-3283-11e6-b309-dd03987b3f23	15_75641369_GAGCAGTGCCTACCGCATCTCAGCTTCAGCCCGCGGCAAGGAGCTGCGCCTGATACTGAGCCCTCTGCCTGGGGCCCAGCCCCAACAGGAGCCACTGGCCCTGGTCTTCCGCTTCGGCATGTCCGGCTCTTTTCAGCTGGTGCCCCGCGAGGAGCTGCCACGCCATGCCCACCTGCGCTTTTAG	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	15	75641369	GAGCAGTGCCTACCGCATCTCAGCTTCAGCCCGCGGCAAGGAGCTGCGCCTGATACTGAGCCCTCTGCCTGGGGCCCAGCCCCAACAGGAGCCACTGGCCCTGGTCTTCCGCTTCGGCATGTCCGGCTCTTTTCAGCTGGTGCCCCGCGAGGAGCTGCCACGCCATGCCCACCTGCGCTTTTA	G	540	PASS	NEIL1	Del	frameshift	182	1	NEIL1	parent	15_75641369_GAGCAGTGCCTACCGCATCTCAGCTTCAGCCCGCGGCAAGGAGCTGCGCCTGATACTGAGCCCTCTGCCTGGGGCCCAGCCCCAACAGGAGCCACTGGCCCTGGTCTTCCGCTTCGGCATGTCCGGCTCTTTTCAGCTGGTGCCCCGCGAGGAGCTGCCACGCCATGCCCACCTGCGCTTTTAG_NEIL1	182	>=10	0	-	0	-	None
06e2e870-328f-11e6-bfa2-581f0e01a414	7_138830179_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	138830179	GT	G	300	PASS	TTC26	Del	intronic	1	7	MSH6	child	7_138830179_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
06e72942-3273-11e6-9e18-3a69671699ea	10_44582787_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	44582787	TA	T	660	PASS	-	Del	-	1	8	MSH6	child	10_44582787_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
06e80fb8-3275-11e6-8889-c85efc77b11e	4_75158537_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	4	75158537	AT	A	300	PASS	MTHFD2L	Del	intronic	1	9	MSH6	parent	4_75158537_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
06e846d6-3293-11e6-8b9f-eea73adbad45	3_173913588_ACA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	3	173913588	AC	A	360	PASS	NLGN1	Del	intronic	1	1	NEIL1	child	3_173913588_ACA_NEIL1	1	1	0	-	0	C	None
06ed52f0-3277-11e6-998e-ba48fa52e078	8_98869463_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	98869463	GA	G	660	PASS	LAPTM4B	Del	downstream	1	4	MSH6	child	8_98869463_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
06ee5bcc-328c-11e6-b43c-7ec36f39e758	16_27995878_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	27995878	GT	G	720	PASS	GSG1L	Del	intronic	1	8	MSH6	child	16_27995878_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
06f06abc-3281-11e6-884f-bffbf121c733	19_41275416_TGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACCCCATCTCCAAACAAAAAACAACCTAGGCTGGGCCAGGCACAGGGGCTCACACCTGTAATCCCAGCGCTTTGGGAAGCTGAGGTGGGTGGAACACTTCAGATCAAGAGTACGAGACCATCCTGGCCAACATGCTGAAACACTCTCTCTACTAAAAATACAACAACAGCCGGGCGCAGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAAGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGACTAACCCGGTGAAACCCCGTCTCTACTAAAAATACAAAAAAATTAGCCGGGTGTGGTGGCGGGCGCCTGTAGCCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAGCCATTCGGGAGGTGGAGCTTGCTGTGAGCCGAGATCGCT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	19	41275416	TGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACCCCATCTCCAAACAAAAAACAACCTAGGCTGGGCCAGGCACAGGGGCTCACACCTGTAATCCCAGCGCTTTGGGAAGCTGAGGTGGGTGGAACACTTCAGATCAAGAGTACGAGACCATCCTGGCCAACATGCTGAAACACTCTCTCTACTAAAAATACAACAACAGCCGGGCGCAGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAAGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGACTAACCCGGTGAAACCCCGTCTCTACTAAAAATACAAAAAAATTAGCCGGGTGTGGTGGCGGGCGCCTGTAGCCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAGCCATTCGGGAGGTGGAGCTTGCTGTGAGCCGAGATCGC	T	300	PASS	SNRPA	Del	downstream	442	1	FANCC	child	19_41275416_TGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACCCCATCTCCAAACAAAAAACAACCTAGGCTGGGCCAGGCACAGGGGCTCACACCTGTAATCCCAGCGCTTTGGGAAGCTGAGGTGGGTGGAACACTTCAGATCAAGAGTACGAGACCATCCTGGCCAACATGCTGAAACACTCTCTCTACTAAAAATACAACAACAGCCGGGCGCAGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAAGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCTGACTAACCCGGTGAAACCCCGTCTCTACTAAAAATACAAAAAAATTAGCCGGGTGTGGTGGCGGGCGCCTGTAGCCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAGCCATTCGGGAGGTGGAGCTTGCTGTGAGCCGAGATCGCT_FANCC	442	>=10	14	GCCACTGCACTCCA	0	-	Microhomology-mediated
070093ce-3286-11e6-9e78-7d3e51c54cdd	2_151567854_ATA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	2	151567854	AT	A	660	PASS	-	Del	-	1	6	EXO1	child	2_151567854_ATA_EXO1	1	1	1	T	5	T	Repeat-mediated
07044e80-329d-11e6-94ca-0aaecc638e3d	X_10115883_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	10115883	GA	G	600	PASS	WWC3	Del	downstream	1	8	MSH6	child	X_10115883_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
0706402c-328f-11e6-bfa2-581f0e01a414	7_138859786_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	138859786	GA	G	480	PASS	TTC26	Del	intronic	1	9	MSH6	child	7_138859786_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
0709cf40-3275-11e6-bb68-f04e3cfdbd24	1_219128547_ATA	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	1	219128547	AT	A	420	PASS	-	Del	-	1	7	NUDT1	child	1_219128547_ATA_NUDT1	1	1	1	T	6	T	Repeat-mediated
070aabba-3291-11e6-b77d-2eef6f39e758	6_33556265_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	33556265	CT	C	480	PASS	GGNBP1	Del	intronic	1	9	MSH6	child	6_33556265_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
070cdbde-3281-11e6-9fd8-b56f2aaffa45	13_47825763_ATA	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	13	47825763	AT	A	480	PASS	-	Del	-	1	7	POLE	child	13_47825763_ATA_POLE	1	1	1	T	6	T	Repeat-mediated
0728d44c-328b-11e6-a653-2591e7d0bdd7	1_57986259_GAG	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	1	57986259	GA	G	540	PASS	DAB1	Del	intronic	1	7	POLM	child	1_57986259_GAG_POLM	1	1	1	A	6	A	Repeat-mediated
072a29ae-329b-11e6-aca6-b39fcc638e3d	2_82808514_CTTGC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	82808514	CTTG	C	1020	PASS	-	Del	-	3	2	MSH6	child	2_82808514_CTTGC_MSH6	3	3	3	TTG	1	TTG	Repeat-mediated
072dfa44-3259-11e6-8cd9-139b7872c165	3_120578074_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	120578074	AT	A	600	PASS	-	Del	-	1	7	MSH6	child	3_120578074_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
073335f8-3287-11e6-a7ff-5779a178171f	10_91485581_GTG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	10	91485581	GT	G	300	PASS	KIF20B	Del	intronic	1	9	FANCC	child	10_91485581_GTG_FANCC	1	1	1	T	8	T	Repeat-mediated
0733e26e-329b-11e6-8d0f-075325c9da85	14_86338399_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	86338399	CT	C	900	PASS	-	Del	-	1	8	MSH6	child	14_86338399_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
073fa394-3285-11e6-9170-b6936f39e758	12_93760792_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	12	93760792	AT	A	420	PASS	-	Del	-	1	9	EXO1	child	12_93760792_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
0744e584-3271-11e6-a539-0e5542c4520d	7_150512802_ACA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	150512802	AC	A	360	PASS	-	Del	-	1	1	MSH6	child	7_150512802_ACA_MSH6	1	1	0	-	0	C	None
07475814-327b-11e6-ab1d-16d9ecf1e924	20_15338619_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	15338619	A	AT	540	PASS	MACROD2	Ins	intronic	1	7	MSH6	child	20_15338619_AAT_MSH6	1	1	-	-	-	-	Ins
074e4110-328a-11e6-a100-84090e01a414	18_52540798_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	52540798	CT	C	360	PASS	RAB27B	Del	intronic	1	9	MSH6	child	18_52540798_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
074f14ea-3277-11e6-a5d7-eb6be7d0bdd7	6_4343020_CAC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	6	4343020	CA	C	720	PASS	RP3-527G5.1	Del	downstream	1	8	EXO1	child	6_4343020_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
075216e4-328c-11e6-8770-3e160e01a414	9_26863336_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	26863336	GA	G	480	PASS	CAAP1	Del	intronic	1	8	MSH6	child	9_26863336_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
075f0072-3276-11e6-83cd-a472a178171f	4_68964022_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	68964022	CA	C	540	PASS	TMPRSS11F	Del	intronic	1	9	MSH6	child	4_68964022_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
0766164e-329b-11e6-b549-1e5325c9da85	10_72104284_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	72104284	TA	T	300	PASS	LRRC20	Del	intronic	1	9	MSH6	child	10_72104284_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
0768608a-3272-11e6-9850-b83e75253f64	12_81035643_ACTA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	12	81035643	ACT	A	300	PASS	PTPRQ	Del	intronic	2	9	FANCC	child	12_81035643_ACTA_FANCC	2	2	2	CT	8	CT	Repeat-mediated
076a131e-3298-11e6-800c-01f9d8b4fa2c	5_72045687_AAT	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	5	72045687	A	AT	420	PASS	CTC-347C20.1	Ins	intronic	1	0	NUDT1	child	5_72045687_AAT_NUDT1	1	1	-	-	-	-	Ins
076fb9fa-3328-11e6-868e-d16670cce0de	6_73743195_TAT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	6	73743195	TA	T	540	PASS	KCNQ5	Del	intronic	1	3	EXO1	child	6_73743195_TAT_EXO1	1	1	1	A	2	A	Repeat-mediated
0771e334-3296-11e6-b0f9-fcf7d8b4fa2c	X_82145893_CAC	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	X	82145893	CA	C	360	PASS	-	Del	-	1	8	NUDT1	child	X_82145893_CAC_NUDT1	1	1	1	A	7	A	Repeat-mediated
0778d898-3290-11e6-b97d-a8b305ad5bc4	20_59298903_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	59298903	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	20_59298903_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
078e50ac-328a-11e6-bbaf-7c090e01a414	19_32265841_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	32265841	GA	G	600	PASS	-	Del	-	1	6	MSH6	child	19_32265841_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
0795268c-3291-11e6-b6a6-1f1e0e01a414	4_86447114_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	86447114	C	CA	540	PASS	ARHGAP24	Ins	intronic	1	1	MSH6	child	4_86447114_CCA_MSH6	1	1	-	-	-	-	Ins
07999bcc-3282-11e6-9a0d-f803987b3f23	19_21084782_ACTA	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	19	21084782	ACT	A	480	PASS	-	Del	-	2	1	NEIL1	parent	19_21084782_ACTA_NEIL1	2	2	0	-	0	-	None
079c9a7a-32a0-11e6-bc66-17b4cc638e3d	8_77729472_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	77729472	GA	G	420	PASS	ZFHX4	Del	intronic	1	9	MSH6	child	8_77729472_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
079eec60-328e-11e6-bb1e-70e16f39e758	X_16298489_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	16298489	CA	C	300	PASS	-	Del	-	1	6	MSH6	child	X_16298489_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
079fc174-328b-11e6-a7cf-80090e01a414	15_76180877_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	76180877	GT	G	720	PASS	UBE2Q2	Del	intronic	1	7	MSH6	child	15_76180877_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
07a93c16-3288-11e6-8bf5-48a538e8a824	14_94312578_AAATCAGTA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	14	94312578	AAATCAGT	A	600	PASS	-	Del	-	7	1	NUDT1	parent	14_94312578_AAATCAGTA_NUDT1	7	7	1	A	0	-	Microhomology-mediated
07aa1d30-328c-11e6-ae53-96c36f39e758	15_43280790_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	43280790	AT	A	600	PASS	UBR1	Del	intronic	1	8	MSH6	child	15_43280790_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
07b6757e-3284-11e6-a8a4-f49d69062303	7_30236385_CAC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	7	30236385	CA	C	300	PASS	-	Del	-	1	6	FANCC	child	7_30236385_CAC_FANCC	1	1	1	A	5	A	Repeat-mediated
07b71ba6-3256-11e6-b4d0-327a7872c165	11_33079738_CCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	33079738	C	CT	300	PASS	TCP11L1	Ins	intronic	1	7	MSH6	child	11_33079738_CCT_MSH6	1	1	-	-	-	-	Ins
07b7296e-3271-11e6-a268-b1b97872c165	15_98248382_GTTAATGTAAG	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	15	98248382	GTTAATGTAA	G	840	PASS	-	Del	-	9	1	POLM	child	15_98248382_GTTAATGTAAG_POLM	9	9	2	TT	0	-	Microhomology-mediated
07bad7ac-3272-11e6-b306-b5204b47a305	2_216253605_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	216253605	C	CA	360	PASS	FN1	Ins	intronic	1	8	MSH6	child	2_216253605_CCA_MSH6	1	1	-	-	-	-	Ins
07cedffa-3258-11e6-a7ac-209a7872c165	22_17801732_TTA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	22	17801732	T	TA	360	PASS	-	Ins	-	1	5	MSH6	child	22_17801732_TTA_MSH6	1	1	-	-	-	-	Ins
07d3893e-3293-11e6-b81f-4ee66f39e758	8_76510456_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	76510456	T	TA	600	PASS	-	Ins	-	1	8	MSH6	child	8_76510456_TTA_MSH6	1	1	-	-	-	-	Ins
07d87c18-3276-11e6-ab69-1c1607e9a829	9_114161477_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	114161477	GA	G	660	PASS	KIAA0368	Del	intronic	1	9	MSH6	child	9_114161477_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
07e0756a-3291-11e6-9401-04ed6f39e758	3_70538537_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	70538537	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	3_70538537_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
07e6eff6-3324-11e6-aad6-fc2b9a696edf	9_632856_ATA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	9	632856	AT	A	660	PASS	KANK1	Del	intronic	1	9	EXO1	child	9_632856_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
07e6fdc6-3274-11e6-acf7-070eebb8d062	6_25130515_GTG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	6	25130515	GT	G	420	PASS	-	Del	-	1	9	NUDT1	child	6_25130515_GTG_NUDT1	1	1	1	T	8	T	Repeat-mediated
07e8fea0-329c-11e6-aca6-b39fcc638e3d	2_148582369_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	148582369	GA	G	300	PASS	-	Del	-	1	8	MSH6	child	2_148582369_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
07e94bee-3288-11e6-8bbd-f88da2c71c31	21_44522105_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	21	44522105	GA	G	600	PASS	U2AF1	Del	intronic	1	8	MSH6	child	21_44522105_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
07fd736a-3253-11e6-b240-4005ee3c4f5d	14_56080966_AAT	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	14	56080966	A	AT	660	PASS	KTN1	Ins	intronic	1	6	POLB	child	14_56080966_AAT_POLB	1	1	-	-	-	-	Ins
08071a60-3293-11e6-a645-5148a178171f	14_56242166_CAC	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	14	56242166	CA	C	480	PASS	RP11-813I20.2	Del	downstream	1	9	NEIL1	child	14_56242166_CAC_NEIL1	1	1	1	A	8	A	Repeat-mediated
08079f46-3278-11e6-ab69-1c1607e9a829	9_125206372_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	125206372	A	AT	720	PASS	-	Ins	-	1	7	MSH6	child	9_125206372_AAT_MSH6	1	1	-	-	-	-	Ins
080948ae-3274-11e6-abaf-4642cab49462	6_166820859_CTGC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	166820859	CTG	C	300	PASS	RPS6KA2	Del	downstream	2	2	MSH6	child	6_166820859_CTGC_MSH6	2	2	2	TG	1	TG	Repeat-mediated
08179ec0-3285-11e6-96d6-e945ee3c4f5d	3_113371504_TAT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	3	113371504	TA	T	300	PASS	KIAA2018	Del	3prime_UTR_variant	1	9	POLB	child	3_113371504_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
0819eb90-3257-11e6-a0fc-e737fa52e078	2_238797989_ATCTA	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	2	238797989	ATCT	A	1200	PASS	RAMP1	Del	intronic	3	2	POLM	child	2_238797989_ATCTA_POLM	3	3	3	TCT	1	TCT	Repeat-mediated
0829507a-3276-11e6-9e0f-7959cab49462	7_39569500_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	39569500	GA	G	360	PASS	-	Del	-	1	7	MSH6	child	7_39569500_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
082a965a-3277-11e6-8c34-46e27872c165	5_117133960_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	117133960	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	5_117133960_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
08367d1a-328d-11e6-b537-8a5c694da5d2	13_61186169_TCCT	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	13	61186169	TCC	T	660	PASS	RNA5SP31	Del	upstream	2	3	POLM	child	13_61186169_TCCT_POLM	2	2	1	C	0	-	Microhomology-mediated
08370f32-327e-11e6-8559-4f7ef7be831b	5_170454707_ATA	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	5	170454707	AT	A	300	PASS	RANBP17	Del	intronic	1	5	FANCC	parent	5_170454707_ATA_FANCC	1	1	1	T	4	T	Repeat-mediated
083d30d6-3285-11e6-8b67-086ea2c71c31	1_47144982_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	47144982	CT	C	608	PASS	EFCAB14	Del	intronic	1	8	MSH6	child	1_47144982_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
08477f0e-3272-11e6-8418-1c5942c4520d	3_193741515_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	193741515	TA	T	420	PASS	RP11-407B7.1	Del	intronic	1	8	MSH6	child	3_193741515_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
084889bc-326d-11e6-9d68-ac9acab49462	15_41834046_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	41834046	CA	C	480	PASS	RPAP1	Del	intronic	1	9	MSH6	child	15_41834046_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
085c5ee0-3288-11e6-a5b3-3f1ebce6aa09	7_149143651_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	149143651	GT	G	420	PASS	ZNF777	Del	intronic	1	9	MSH6	child	7_149143651_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
0860b586-3287-11e6-817a-6b15987b3f23	8_117909517_GAG	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	8	117909517	GA	G	420	PASS	-	Del	-	1	9	NEIL1	parent	8_117909517_GAG_NEIL1	1	1	1	A	8	A	Repeat-mediated
0880fe48-3275-11e6-998e-ba48fa52e078	8_2080891_ACA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	2080891	AC	A	660	PASS	MYOM2	Del	intronic	1	1	MSH6	child	8_2080891_ACA_MSH6	1	1	0	-	0	C	None
08865c96-3255-11e6-b4d0-327a7872c165	11_101890261_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	101890261	AT	A	660	PASS	-	Del	-	1	7	MSH6	child	11_101890261_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
088c4936-329a-11e6-8d0f-075325c9da85	14_28941941_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	28941941	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	14_28941941_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
088d0280-327d-11e6-aca3-49be4dc77248	16_70489041_CTC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	16	70489041	CT	C	600	PASS	FUK	Del	intronic	1	7	NUDT1	child	16_70489041_CTC_NUDT1	1	1	1	T	6	T	Repeat-mediated
08b2271a-3271-11e6-a17f-de771565c797	X_29462480_GAAAGAG	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	X	29462480	GAAAGA	G	300	PASS	IL1RAPL1	Del	intronic	5	3	POLM	child	X_29462480_GAAAGAG_POLM	5	5	5	AAAGA	2	AAAGA	Repeat-mediated
08bcaee6-3321-11e6-9ce3-f20142c4520d	11_76675747_GGTCTGAAG	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	11	76675747	GGTCTGAA	G	840	PASS	ACER3	Del	intronic	7	1	CHK2	child	11_76675747_GGTCTGAAG_CHK2	7	7	2	GT	0	-	Microhomology-mediated
08c24bec-328d-11e6-b6a6-1f1e0e01a414	4_37585626_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	37585626	AT	A	420	PASS	C4orf19	Del	upstream	1	7	MSH6	child	4_37585626_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
08c2c096-3287-11e6-83c9-bcc47d6a9fc7	20_45680696_TCT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	20	45680696	TC	T	840	PASS	EYA2	Del	intronic	1	6	POLB	child	20_45680696_TCT_POLB	1	1	1	C	5	C	Repeat-mediated
08c70d6e-3290-11e6-aaa2-31b34430f757	4_72786520_TGTCAAATATCCATATTTTATTAATGATGT	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	4	72786520	TGTCAAATATCCATATTTTATTAATGATG	T	540	PASS	-	Del	-	28	1	POLE	child	4_72786520_TGTCAAATATCCATATTTTATTAATGATGT_POLE	28	>=10	1	G	0	-	Microhomology-mediated
08c943d6-3290-11e6-b97d-a8b305ad5bc4	20_60306220_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	60306220	CT	C	360	PASS	CDH4	Del	intronic	1	1	MSH6	child	20_60306220_CTC_MSH6	1	1	0	-	0	T	None
08ca781e-326d-11e6-acc7-e55219a91649	1_52302785_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	52302785	CA	C	300	PASS	NRD1	Del	intronic	1	7	MSH6	child	1_52302785_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
08d263da-3286-11e6-8b2d-79a669062303	3_115624239_GAG	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	3	115624239	GA	G	540	PASS	LSAMP	Del	intronic	1	8	POLE	parent	3_115624239_GAG_POLE	1	1	1	A	7	A	Repeat-mediated
08e51b1e-328c-11e6-aff5-85090e01a414	16_60358923_GGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	60358923	G	GA	600	PASS	-	Ins	-	1	6	MSH6	child	16_60358923_GGA_MSH6	1	1	-	-	-	-	Ins
08e9e7a6-328d-11e6-bec1-ca1d0e01a414	X_52070061_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	52070061	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	X_52070061_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
08eeb106-3255-11e6-9f9d-2c7a7872c165	12_100364928_TACT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	100364928	TAC	T	360	PASS	ANKS1B	Del	intronic	2	5	MSH6	child	12_100364928_TACT_MSH6	2	2	2	AC	4	AC	Repeat-mediated
08faf61e-3287-11e6-b093-c9c7b0dab373	2_215859380_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	215859380	GT	G	780	PASS	ABCA12	Del	intronic	1	8	MSH6	child	2_215859380_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
090204b0-328f-11e6-b8c3-19a5e7d0bdd7	12_121248242_GTG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	12	121248242	GT	G	780	PASS	SPPL3	Del	intronic	1	9	FANCC	child	12_121248242_GTG_FANCC	1	1	1	T	8	T	Repeat-mediated
090259b4-3286-11e6-9e1f-6479a178171f	16_20866441_CAACAC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	16	20866441	CAACA	C	360	PASS	DCUN1D3	Del	3prime_UTR_variant	4	2	FANCC	child	16_20866441_CAACAC_FANCC	4	4	4	AACA	1	AACA	Repeat-mediated
090e1b2a-3270-11e6-bfba-13bf4a47a305	9_405014_CCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	405014	C	CT	420	PASS	DOCK8	Ins	frameshift	1	7	MSH6	child	9_405014_CCT_MSH6	1	1	-	-	-	-	Ins
0910a658-3287-11e6-adaf-064690e2c2e6	7_24655931_CAC	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	7	24655931	CA	C	420	PASS	MPP6	Del	intronic	1	8	POLE	child	7_24655931_CAC_POLE	1	1	1	A	7	A	Repeat-mediated
091748f8-328e-11e6-8c87-38240e01a414	22_38380091_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	22	38380091	CT	C	360	PASS	SOX10	Del	intronic	1	9	MSH6	child	22_38380091_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
091f5f30-3288-11e6-8bbd-f88da2c71c31	21_44980611_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	21	44980611	GA	G	420	PASS	HSF2BP	Del	intronic	1	8	MSH6	child	21_44980611_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
09200cd2-3292-11e6-9230-fb250e01a414	3_62109739_CCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	62109739	C	CT	300	PASS	PTPRG	Ins	intronic	1	9	MSH6	child	3_62109739_CCT_MSH6	1	1	-	-	-	-	Ins
09209842-3273-11e6-94cc-1ec335cec73b	19_22734416_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	22734416	AG	A	360	PASS	RNU6-1179P	Del	upstream	1	7	MSH6	child	19_22734416_AGA_MSH6	1	1	1	G	6	G	Repeat-mediated
09244fcc-3292-11e6-a9cd-ea307a852e0e	9_21503940_TAT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	9	21503940	TA	T	360	PASS	-	Del	-	1	8	CHK2	child	9_21503940_TAT_CHK2	1	1	1	A	7	A	Repeat-mediated
09253a32-326e-11e6-b306-b5204b47a305	2_126206869_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	126206869	CT	C	720	PASS	-	Del	-	1	6	MSH6	child	2_126206869_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
092ae22c-3271-11e6-b923-6726694da5d2	5_114580685_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	114580685	CT	C	660	PASS	PGGT1B	Del	intronic	1	9	MSH6	child	5_114580685_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
092b6fba-3278-11e6-99c3-088c3adbad45	6_148576765_CTC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	6	148576765	CT	C	660	PASS	-	Del	-	1	9	CHK2	child	6_148576765_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
092d0bd2-329a-11e6-bda6-065325c9da85	13_29687238_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	29687238	AT	A	600	PASS	MTUS2	Del	intronic	1	7	MSH6	child	13_29687238_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
094df96c-3288-11e6-a284-4b89a2c71c31	4_138030049_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	138030049	CT	C	480	PASS	RP11-138I17.1	Del	intronic	1	8	MSH6	child	4_138030049_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
0952ea62-3297-11e6-9718-edf997ba1142	15_62548203_AAGA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	15	62548203	AAG	A	1160	PASS	-	Del	-	2	2	CHK2	child	15_62548203_AAGA_CHK2	2	2	2	AG	1	AG	Repeat-mediated
0958c592-326d-11e6-acc7-e55219a91649	1_52387193_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	52387193	AT	A	300	PASS	RAB3B	Del	intronic	1	9	MSH6	child	1_52387193_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
0959f598-326d-11e6-adc2-b7204b47a305	18_36833255_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	36833255	GA	G	420	PASS	LINC00669	Del	intronic	1	7	MSH6	child	18_36833255_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
0963534a-3286-11e6-8e86-a8fc137bb207	8_95294741_GAG	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	8	95294741	GA	G	360	PASS	-	Del	-	1	9	FANCC	child	8_95294741_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
096432dc-3255-11e6-a304-347a7872c165	1_95126194_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	95126194	TA	T	780	PASS	LINC01057	Del	intronic	1	2	MSH6	child	1_95126194_TAT_MSH6	1	1	1	A	1	A	Repeat-mediated
096649dc-3282-11e6-a2e8-f2338e4678dd	15_84179541_TGT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	15	84179541	TG	T	660	PASS	SH3GL3	Del	intronic	1	2	EXO1	child	15_84179541_TGT_EXO1	1	1	1	G	1	G	Repeat-mediated
096c58a8-3274-11e6-8418-1c5942c4520d	3_185873998_AAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	185873998	A	AT	300	PASS	DGKG	Ins	intronic	1	7	MSH6	child	3_185873998_AAT_MSH6	1	1	-	-	-	-	Ins
096da764-326d-11e6-adc2-b7204b47a305	18_36886188_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	36886188	TA	T	540	PASS	LINC00669	Del	intronic	1	7	MSH6	child	18_36886188_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
096f0c18-3271-11e6-a539-0e5542c4520d	7_151170794_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	151170794	GA	G	780	PASS	RHEB	Del	intronic	1	8	MSH6	child	7_151170794_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
0976bc04-3255-11e6-89d3-d29498816cf3	2_167334837_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	167334837	GA	G	600	PASS	SCN7A	Del	intronic	1	9	MSH6	child	2_167334837_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
097d0452-3290-11e6-9230-fb250e01a414	3_138788232_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	138788232	CA	C	480	PASS	MRPS22	Del	intronic	1	8	MSH6	child	3_138788232_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
097d170c-3273-11e6-af89-7600ebb8d062	5_114587116_TAT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	5	114587116	TA	T	540	PASS	PGGT1B	Del	intronic	1	6	NUDT1	child	5_114587116_TAT_NUDT1	1	1	1	A	5	A	Repeat-mediated
097edfca-3290-11e6-9d24-ade56f39e758	7_96552186_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	96552186	GA	G	600	PASS	-	Del	-	1	9	MSH6	child	7_96552186_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
09947936-325c-11e6-8340-da9012ae24cf	6_57917903_CCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	57917903	C	CT	1171	PASS	-	Ins	-	1	1	MSH6	child	6_57917903_CCT_MSH6	1	1	-	-	-	-	Ins
0998f590-3254-11e6-89d3-d29498816cf3	2_55529931_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	55529931	GT	G	360	PASS	CCDC88A	Del	intronic	1	7	MSH6	child	2_55529931_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
099c5b9c-3275-11e6-9d2c-d6a1cc638e3d	18_22674868_AAT	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	18	22674868	A	AT	420	PASS	ZNF521	Ins	intronic	1	8	NEIL1	child	18_22674868_AAT_NEIL1	1	1	-	-	-	-	Ins
099deed2-3291-11e6-b77d-2eef6f39e758	6_34296205_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	34296205	AT	A	480	PASS	NUDT3	Del	intronic	1	7	MSH6	child	6_34296205_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
099f614a-3278-11e6-92d2-c259c225ee11	3_125184497_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	125184497	AT	A	420	PASS	SNX4	Del	intronic	1	7	MSH6	child	3_125184497_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
09a1b104-3285-11e6-817a-6b15987b3f23	8_36052765_CTC	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	8	36052765	CT	C	420	PASS	-	Del	-	1	9	NEIL1	parent	8_36052765_CTC_NEIL1	1	1	1	T	8	T	Repeat-mediated
09a2a914-3286-11e6-95c7-6dfa4430f757	11_33240730_AAG	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	11	33240730	A	AG	300	PASS	-	Ins	-	1	1	EXO1	child	11_33240730_AAG_EXO1	1	1	-	-	-	-	Ins
09aac486-325a-11e6-8cd9-139b7872c165	3_191440238_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	191440238	AT	A	600	PASS	-	Del	-	1	9	MSH6	child	3_191440238_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
09ad6354-3259-11e6-a39a-dc8512ae24cf	8_87823184_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	87823184	AT	A	720	PASS	RP11-386D6.2	Del	intronic	1	8	MSH6	child	8_87823184_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
09b02bb2-3325-11e6-b0c6-e1e369062303	5_29309732_TTGT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	5	29309732	TTG	T	360	PASS	-	Del	-	2	8	EXO1	child	5_29309732_TTGT_EXO1	2	2	2	TG	7	TG	Repeat-mediated
09b3423e-3276-11e6-8eca-83e079852e0e	11_130251591_ATGAAGCACCTGA	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	11	130251591	ATGAAGCACCTG	A	540	PASS	RP11-121M22.1	Del	intronic	11	1	POLM	child	11_130251591_ATGAAGCACCTGA_POLM	11	>=10	3	TGA	0	-	Microhomology-mediated
09b88d48-3276-11e6-acb5-bbf1bbe6aa09	7_102835072_GAG	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	7	102835072	GA	G	268	PASS	-	Del	-	1	7	POLB	child	7_102835072_GAG_POLB	1	1	1	A	6	A	Repeat-mediated
09bae334-3255-11e6-8ebc-3ef212ae24cf	15_74668207_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	74668207	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	15_74668207_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
09bf94de-3290-11e6-92cf-bf2a0e01a414	6_78826767_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	78826767	GA	G	360	PASS	-	Del	-	1	7	MSH6	child	6_78826767_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
09c0ba42-3274-11e6-9e18-3a69671699ea	10_110817235_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	110817235	GA	G	360	PASS	-	Del	-	1	9	MSH6	child	10_110817235_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
09c8cd98-328a-11e6-821d-8c090e01a414	13_64135462_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	64135462	GA	G	1080	PASS	-	Del	-	1	6	MSH6	child	13_64135462_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
09d1ec7c-3274-11e6-9e18-3a69671699ea	10_110843175_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	110843175	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	10_110843175_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
09d24a26-3299-11e6-bfe3-c11ec7271a47	2_233612247_ATA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	2	233612247	AT	A	600	PASS	GIGYF2	Del	intronic	1	8	CHK2	child	2_233612247_ATA_CHK2	1	1	1	T	7	T	Repeat-mediated
09ddef62-3275-11e6-a5d0-4fd14a47a305	2_227579690_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	227579690	TA	T	420	PASS	-	Del	-	1	3	MSH6	child	2_227579690_TAT_MSH6	1	1	1	A	2	A	Repeat-mediated
09eb7ffc-3283-11e6-9b68-79e41da8ec0e	2_203334571_GAG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	2	203334571	GA	G	300	PASS	BMPR2	Del	intronic	1	7	EXO1	child	2_203334571_GAG_EXO1	1	1	1	A	6	A	Repeat-mediated
09f106d6-3277-11e6-a45e-d57da2c71c31	21_41150082_ACTA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	21	41150082	ACT	A	540	PASS	IGSF5	Del	intronic	2	3	CHK2	child	21_41150082_ACTA_CHK2	2	2	2	CT	2	CT	Repeat-mediated
09f1080e-329d-11e6-94ca-0aaecc638e3d	X_11808012_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	11808012	AT	A	600	PASS	-	Del	-	1	6	MSH6	child	X_11808012_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
09f11604-3294-11e6-b01f-c8b64430f757	6_165302225_CCAA	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	6	165302225	C	CAA	300	PASS	-	Ins	-	2	0	POLE	child	6_165302225_CCAA_POLE	2	2	-	-	-	-	Ins
09f4eb36-3289-11e6-8353-a446fd44d094	1_11923641_ATA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	1	11923641	AT	A	300	PASS	NPPB	Del	upstream	1	9	FANCC	child	1_11923641_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
09fa0666-3270-11e6-b0d5-f40b98ba1142	19_53532152_GAG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	19	53532152	GA	G	780	PASS	-	Del	-	1	6	EXO1	parent	19_53532152_GAG_EXO1	1	1	1	A	5	A	Repeat-mediated
09fdc1f0-3277-11e6-998e-ba48fa52e078	8_99498646_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	99498646	TA	T	660	PASS	STK3	Del	intronic	1	2	MSH6	child	8_99498646_TAT_MSH6	1	1	1	A	1	A	Repeat-mediated
09fdf2fa-329b-11e6-a5cf-205325c9da85	11_73187724_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	73187724	TA	T	720	PASS	FAM168A	Del	intronic	1	9	MSH6	child	11_73187724_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
0a0a2356-3325-11e6-9918-868d0322d171	7_62925424_ATA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	7	62925424	AT	A	480	PASS	-	Del	-	1	9	EXO1	child	7_62925424_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
0a102102-3285-11e6-817a-6b15987b3f23	8_36647997_GAG	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	8	36647997	GA	G	840	PASS	KCNU1	Del	intronic	1	9	NEIL1	parent	8_36647997_GAG_NEIL1	1	1	1	A	8	A	Repeat-mediated
0a1d91c4-326d-11e6-9f48-94df41c4520d	12_33639685_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	33639685	CT	C	300	PASS	-	Del	-	1	6	MSH6	child	12_33639685_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
0a23bac6-326e-11e6-9793-9a8fb0dab373	13_20434613_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	20434613	T	TA	360	PASS	ZMYM5	Ins	intronic	1	1	MSH6	child	13_20434613_TTA_MSH6	1	1	-	-	-	-	Ins
0a28e0d6-3274-11e6-946d-9c2bc7271a47	2_86197669_TTAACT	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	2	86197669	TTAAC	T	480	PASS	-	Del	-	4	1	POLB	child	2_86197669_TTAACT_POLB	4	4	3	TAA	0	-	Microhomology-mediated
0a2c5da4-3276-11e6-a862-bc9becf1e924	1_244527742_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	244527742	AT	A	540	PASS	C1orf100	Del	intronic	1	9	MSH6	child	1_244527742_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
0a3f2d56-3273-11e6-923c-a6d5ed3c4f5d	4_118218491_ATA	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	4	118218491	AT	A	420	PASS	-	Del	-	1	7	POLB	child	4_118218491_ATA_POLB	1	1	1	T	6	T	Repeat-mediated
0a407fa4-3272-11e6-b89d-b2d6b0dab373	4_170768508_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	170768508	GA	G	540	PASS	-	Del	-	1	7	MSH6	child	4_170768508_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
0a4d7dd8-326f-11e6-acc7-e55219a91649	1_217004172_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	217004172	GA	G	300	PASS	ESRRG	Del	intronic	1	9	MSH6	child	1_217004172_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
0a526494-3326-11e6-91f6-970e147bb207	6_12585257_TAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	6	12585257	TA	T	300	PASS	RP11-125M16.1	Del	intronic	1	9	EXO1	child	6_12585257_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
0a54d1fa-3297-11e6-9baf-ebf997ba1142	14_73733517_AGTA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	14	73733517	AGT	A	300	PASS	PAPLN	Del	frameshift	2	2	CHK2	child	14_73733517_AGTA_CHK2	2	2	2	GT	1	GT	Repeat-mediated
0a617970-3272-11e6-8418-1c5942c4520d	3_194302768_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	194302768	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	3_194302768_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
0a66d5bc-3288-11e6-b9eb-c78fa2c71c31	6_17676921_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	17676921	CA	C	540	PASS	NUP153	Del	intronic	1	9	MSH6	child	6_17676921_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
0a745812-3324-11e6-9b94-35fee9d19ece	9_107329305_CTC	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	9	107329305	CT	C	420	PASS	OR13C8	Del	upstream	1	7	POLE	child	9_107329305_CTC_POLE	1	1	1	T	6	T	Repeat-mediated
0a829794-3273-11e6-aa3b-ca60a178171f	13_60495612_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	60495612	GA	G	480	PASS	DIAPH3	Del	intronic	1	8	MSH6	child	13_60495612_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
0a845d80-3292-11e6-b77d-2eef6f39e758	6_105591549_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	105591549	AT	A	480	PASS	-	Del	-	1	7	MSH6	child	6_105591549_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
0a880218-327a-11e6-92d2-c259c225ee11	3_62723632_CCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	62723632	C	CT	420	PASS	CADPS	Ins	intronic	1	8	MSH6	child	3_62723632_CCT_MSH6	1	1	-	-	-	-	Ins
0a8a86c6-3259-11e6-8cd9-139b7872c165	3_121616216_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	121616216	CT	C	600	PASS	SLC15A2	Del	intronic	1	8	MSH6	child	3_121616216_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
0a9a0ce6-3276-11e6-a3dd-600b4ec77248	2_230877745_TAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	2	230877745	TA	T	480	PASS	FBXO36	Del	3prime_UTR_variant	1	7	EXO1	child	2_230877745_TAT_EXO1	1	1	1	A	6	A	Repeat-mediated
0a9f7d1a-3272-11e6-9eec-5017987b3f23	10_106458396_CATAC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	10	106458396	CATA	C	600	PASS	SORCS3	Del	intronic	3	1	POLB	child	10_106458396_CATAC_POLB	3	3	2	AT	0	-	Microhomology-mediated
0aa1ed4c-3287-11e6-8b67-086ea2c71c31	1_236428144_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	236428144	CA	C	480	PASS	ERO1LB	Del	intronic	1	9	MSH6	child	1_236428144_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
0ab26da8-3254-11e6-89d3-d29498816cf3	2_55752422_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	55752422	TA	T	720	PASS	CCDC104	Del	intronic	1	8	MSH6	child	2_55752422_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
0ab2ede4-32a1-11e6-aea7-956725c9da85	3_172772533_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	172772533	CT	C	480	PASS	SPATA16	Del	intronic	1	9	MSH6	child	3_172772533_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
0ab81d04-3270-11e6-9068-b49eeab8d062	14_98701406_TAAT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	14	98701406	TAA	T	660	PASS	-	Del	-	2	4	NUDT1	child	14_98701406_TAAT_NUDT1	2	2	2	AA	2	A	Repeat-mediated
0ac4b8e2-3285-11e6-8b67-086ea2c71c31	1_48166208_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	48166208	CT	C	480	PASS	RP11-543D5.1	Del	intronic	1	9	MSH6	child	1_48166208_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
0ad03abe-3271-11e6-b5b8-e0c24a47a305	X_109424526_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	109424526	TA	T	360	PASS	TMEM164	Del	downstream	1	6	MSH6	child	X_109424526_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
0ad1ef34-3286-11e6-a0a8-096ea2c71c31	11_16322972_GGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	16322972	G	GT	840	PASS	SOX6	Ins	intronic	1	1	MSH6	child	11_16322972_GGT_MSH6	1	1	-	-	-	-	Ins
0ad39c7a-32a0-11e6-bc66-17b4cc638e3d	8_78688715_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	78688715	AT	A	420	PASS	-	Del	-	1	5	MSH6	child	8_78688715_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
0ad45238-3321-11e6-ae98-b2b5fa52e078	2_37100791_TAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	2	37100791	TA	T	360	PASS	STRN	Del	intronic	1	8	EXO1	child	2_37100791_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
0ad5785c-329a-11e6-8d0f-075325c9da85	14_29831790_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	29831790	GT	G	840	PASS	RP11-562L8.1	Del	intronic	1	8	MSH6	child	14_29831790_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
0ad58dce-3286-11e6-a1ac-fd6da2c71c31	13_68709678_CCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	68709678	C	CT	300	PASS	-	Ins	-	1	5	MSH6	child	13_68709678_CCT_MSH6	1	1	-	-	-	-	Ins
0ad5e79e-32a2-11e6-bc66-17b4cc638e3d	8_42202329_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	42202329	C	CA	480	PASS	POLB	Ins	intronic	1	7	MSH6	child	8_42202329_CCA_MSH6	1	1	-	-	-	-	Ins
0ad8a076-328c-11e6-b8e6-91c36f39e758	11_32604009_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	32604009	CT	C	480	PASS	EIF3M	Del	upstream	1	8	MSH6	child	11_32604009_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
0adde29e-3254-11e6-a304-347a7872c165	1_28528601_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	28528601	CA	C	300	PASS	DNAJC8	Del	intronic	1	9	MSH6	child	1_28528601_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
0ae58256-3290-11e6-b97d-a8b305ad5bc4	20_61783861_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	61783861	GA	G	540	PASS	-	Del	-	1	5	MSH6	child	20_61783861_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
0ae628f8-3288-11e6-8404-8e1fbce6aa09	8_82434137_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	82434137	AT	A	360	PASS	FABP12	Del	downstream	1	7	MSH6	child	8_82434137_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
0ae66f3a-3273-11e6-81c8-19f506e9a829	2_156941336_CTC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	2	156941336	CT	C	420	PASS	-	Del	-	1	8	FANCC	child	2_156941336_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
0aeca180-3290-11e6-bec1-ca1d0e01a414	X_66187503_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	66187503	T	TA	540	PASS	-	Ins	-	1	6	MSH6	child	X_66187503_TTA_MSH6	1	1	-	-	-	-	Ins
0af1bba6-3291-11e6-b81f-4ee66f39e758	8_90915404_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	90915404	TA	T	480	PASS	OSGIN2	Del	intronic	1	9	MSH6	child	8_90915404_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
0b152174-328a-11e6-815f-e4cd191589db	14_90165774_TCTCTGGTGTCTATTTAAT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	14	90165774	TCTCTGGTGTCTATTTAA	T	360	PASS	-	Del	-	17	1	FANCC	child	14_90165774_TCTCTGGTGTCTATTTAAT_FANCC	17	>=10	1	C	0	-	Microhomology-mediated
0b16da32-328a-11e6-bf15-aeb06f39e758	6_134310328_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	6	134310328	AT	A	300	PASS	SLC2A12	Del	3prime_UTR_variant	1	8	EXO1	child	6_134310328_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
0b27958a-3275-11e6-a6a8-746da178171f	4_63378924_CAC	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	4	63378924	CA	C	480	PASS	-	Del	-	1	8	NEIL1	child	4_63378924_CAC_NEIL1	1	1	1	A	7	A	Repeat-mediated
0b34b8b6-328c-11e6-bb2d-24a320e7b7a8	X_108277080_TAT	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	X	108277080	TA	T	480	PASS	-	Del	-	1	6	POLE	child	X_108277080_TAT_POLE	1	1	1	A	5	A	Repeat-mediated
0b372d18-328b-11e6-8459-82090e01a414	12_104725254_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	104725254	CT	C	300	PASS	TXNRD1	Del	intronic	1	9	MSH6	child	12_104725254_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
0b3d2f8e-3276-11e6-8a72-7c4784482639	22_19583568_GTG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	22	19583568	GT	G	780	PASS	-	Del	-	1	8	EXO1	child	22_19583568_GTG_EXO1	1	1	1	T	7	T	Repeat-mediated
0b51502a-327d-11e6-8020-f3a03adbad45	19_57525037_TCT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	19	57525037	TC	T	600	PASS	-	Del	-	1	1	NUDT1	child	19_57525037_TCT_NUDT1	1	1	0	-	0	C	None
0b518b72-328b-11e6-8001-44b47098ee92	1_146757540_ATA	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	1	146757540	AT	A	420	PASS	CHD1L	Del	intronic	1	8	NUDT1	child	1_146757540_ATA_NUDT1	1	1	1	T	7	T	Repeat-mediated
0b53cc7e-3273-11e6-b5b8-e0c24a47a305	X_150119960_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	150119960	C	CA	300	PASS	RNU6-383P	Ins	downstream	1	6	MSH6	child	X_150119960_CCA_MSH6	1	1	-	-	-	-	Ins
0b53cd82-3287-11e6-afcf-0311bce6aa09	9_136626189_GCG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	136626189	GC	G	420	PASS	VAV2	Del	downstream	1	6	MSH6	child	9_136626189_GCG_MSH6	1	1	1	C	5	C	Repeat-mediated
0b652ad6-329c-11e6-a0ea-135325c9da85	15_85562810_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	85562810	GT	G	480	PASS	PDE8A	Del	intronic	1	8	MSH6	child	15_85562810_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
0b657e8a-328f-11e6-919e-92c36f39e758	2_235560979_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	235560979	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	2_235560979_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
0b73072a-328b-11e6-a80b-87090e01a414	11_110101977_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	110101977	TA	T	360	PASS	RDX	Del	3prime_UTR_variant	1	9	MSH6	child	11_110101977_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
0b7a0336-329a-11e6-ae71-0c5325c9da85	1_11824183_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	11824183	AT	A	540	PASS	C1orf167	Del	intronic	1	3	MSH6	child	1_11824183_ATA_MSH6	1	1	1	T	2	T	Repeat-mediated
0b828da0-328e-11e6-8f31-bfe16f39e758	9_10140716_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	10140716	GA	G	429	PASS	-	Del	-	1	8	MSH6	child	9_10140716_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
0b8e405c-3287-11e6-ba61-6079a178171f	2_89919528_CAC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	2	89919528	CA	C	344	PASS	-	Del	-	1	9	FANCC	child	2_89919528_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
0b8e75a2-3252-11e6-96f0-d07d12ae24cf	15_41972043_GTG	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	15	41972043	GT	G	720	PASS	MGA	Del	intronic	1	9	POLB	child	15_41972043_GTG_POLB	1	1	1	T	8	T	Repeat-mediated
0b90e6e0-3287-11e6-9efa-64528e4678dd	6_45169725_AAT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	6	45169725	A	AT	960	PASS	SUPT3H	Ins	intronic	1	3	EXO1	child	6_45169725_AAT_EXO1	1	1	-	-	-	-	Ins
0b9279c0-3286-11e6-9546-b5936f39e758	15_94584965_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	15	94584965	TA	T	360	PASS	CTD-2643K12.3	Del	intronic	1	9	EXO1	child	15_94584965_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
0b93a600-3278-11e6-92d2-c259c225ee11	3_125428323_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	125428323	TG	T	900	PASS	-	Del	-	1	8	MSH6	child	3_125428323_TGT_MSH6	1	1	1	G	7	G	Repeat-mediated
0b9ef49a-328e-11e6-a278-48230e01a414	21_40998530_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	21	40998530	GT	G	480	PASS	B3GALT5	Del	intronic	1	9	MSH6	child	21_40998530_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
0b9fa6c6-328c-11e6-b8e6-91c36f39e758	11_32682205_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	32682205	TA	T	660	PASS	CCDC73	Del	intronic	1	9	MSH6	child	11_32682205_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
0bb3c3ce-329e-11e6-91d0-016425c9da85	7_35539765_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	35539765	GT	G	480	PASS	AC007652.1	Del	intronic	1	8	MSH6	child	7_35539765_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
0bb9e5a4-3273-11e6-bfb2-2749c225ee11	12_50551501_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	50551501	CA	C	660	PASS	CERS5	Del	intronic	1	9	MSH6	child	12_50551501_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
0bbdbfb2-32a0-11e6-a04f-c66a25c9da85	6_44074174_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	44074174	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	6_44074174_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
0bc28e42-3346-11e6-b5ef-938f38e8a824	13_65720618_ATA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	13	65720618	AT	A	660	PASS	-	Del	-	1	9	FANCC	child	13_65720618_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
0bf1ddf0-3288-11e6-a284-4b89a2c71c31	4_138860084_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	138860084	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	4_138860084_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
0bfd1d28-3288-11e6-8404-8e1fbce6aa09	8_82742648_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	82742648	CA	C	300	PASS	SNX16	Del	intronic	1	8	MSH6	child	8_82742648_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
0c042b78-3291-11e6-92cf-bf2a0e01a414	6_145766314_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	145766314	GT	G	420	PASS	-	Del	-	1	9	MSH6	child	6_145766314_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
0c0d4eb0-328c-11e6-ae53-96c36f39e758	15_44245100_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	44245100	GA	G	720	PASS	FRMD5	Del	intronic	1	7	MSH6	child	15_44245100_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
0c12e160-3271-11e6-b923-6726694da5d2	5_115233859_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	115233859	GA	G	360	PASS	AP3S1	Del	intronic	1	7	MSH6	child	5_115233859_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
0c1b13dc-3274-11e6-b332-88ba7d6a9fc7	15_76819379_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	76819379	AT	A	300	PASS	SCAPER	Del	intronic	1	9	MSH6	child	15_76819379_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
0c1d0464-3272-11e6-b799-add079852e0e	11_89993305_TAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	11	89993305	TA	T	360	PASS	DISC1FP1	Del	intronic	1	8	FANCC	child	11_89993305_TAT_FANCC	1	1	1	A	7	A	Repeat-mediated
0c1ec97c-3275-11e6-b872-fc996f39e758	8_41235523_TAT	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	8	41235523	TA	T	300	PASS	-	Del	-	1	9	NEIL1	child	8_41235523_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
0c201872-328e-11e6-919e-92c36f39e758	2_172515588_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	172515588	CT	C	840	PASS	-	Del	-	1	9	MSH6	child	2_172515588_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
0c21c686-3270-11e6-819e-9d1aa20b69d5	11_109026875_GTTCG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	11	109026875	GTTC	G	600	PASS	-	Del	-	3	2	EXO1	parent	11_109026875_GTTCG_EXO1	3	3	3	TTC	1	TTC	Repeat-mediated
0c293c8e-3277-11e6-83cd-a472a178171f	4_144183064_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	144183064	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	4_144183064_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
0c33318a-3290-11e6-9230-fb250e01a414	3_139556717_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	139556717	GT	G	420	PASS	RP11-166D18.1	Del	intronic	1	7	MSH6	child	3_139556717_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
0c338568-329a-11e6-a0ea-135325c9da85	15_25080371_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	25080371	TA	T	300	PASS	SNRPN	Del	intronic	1	7	MSH6	child	15_25080371_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
0c362af6-3273-11e6-abaf-4642cab49462	6_101901074_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	101901074	CT	C	720	PASS	GRIK2	Del	intronic	1	9	MSH6	child	6_101901074_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
0c366362-3274-11e6-a5d0-4fd14a47a305	2_145699621_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	145699621	CA	C	540	PASS	TEX41	Del	intronic	1	6	MSH6	child	2_145699621_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
0c3d4656-3322-11e6-ae98-b2b5fa52e078	2_127221335_CTC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	2	127221335	CT	C	300	PASS	-	Del	-	1	9	EXO1	child	2_127221335_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
0c46f22c-326f-11e6-8a0d-fc4238e8a824	1_37020361_TTGT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	1	37020361	TTG	T	600	PASS	-	Del	-	2	4	POLM	child	1_37020361_TTGT_POLM	2	2	2	TG	3	TG	Repeat-mediated
0c4d7f9a-329a-11e6-ae71-0c5325c9da85	1_11945063_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	11945063	AT	A	660	PASS	-	Del	-	1	7	MSH6	child	1_11945063_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
0c5257ca-3283-11e6-bb60-c21d694da5d2	6_18053715_GTG	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	6	18053715	GT	G	960	PASS	-	Del	-	1	8	NEIL1	child	6_18053715_GTG_NEIL1	1	1	1	T	7	T	Repeat-mediated
0c55bb82-328c-11e6-b805-77090e01a414	2_186846753_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	186846753	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	2_186846753_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
0c5a3f84-3284-11e6-b14f-ffbe2daed38e	X_98873377_GTG	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	X	98873377	GT	G	480	PASS	-	Del	-	1	3	POLB	child	X_98873377_GTG_POLB	1	1	1	T	2	T	Repeat-mediated
0c66fc32-3285-11e6-8b67-086ea2c71c31	1_49098421_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	49098421	GA	G	420	PASS	AGBL4	Del	intronic	1	8	MSH6	child	1_49098421_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
0c6f4c48-3276-11e6-8c58-fa31b51afd22	8_48900169_TGATGAATCAAGTGCAGTGTCTGCAAAATATCT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	8	48900169	TGATGAATCAAGTGCAGTGTCTGCAAAATATC	T	480	PASS	-	Del	-	31	1	FANCC	child	8_48900169_TGATGAATCAAGTGCAGTGTCTGCAAAATATCT_FANCC	31	>=10	0	-	0	-	None
0c7bec2c-3321-11e6-94fd-ff28038949d4	15_71007930_GTG	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	15	71007930	GT	G	1200	PASS	UACA	Del	intronic	1	5	CHK2	parent	15_71007930_GTG_CHK2	1	1	1	T	4	T	Repeat-mediated
0c7e60ee-3275-11e6-998e-ba48fa52e078	8_3204565_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	3204565	TA	T	600	PASS	CSMD1	Del	intronic	1	4	MSH6	child	8_3204565_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
0c8156a0-3257-11e6-885f-d1947872c165	4_62450276_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	62450276	AT	A	780	PASS	LPHN3	Del	intronic	1	7	MSH6	child	4_62450276_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
0c89db14-3274-11e6-a5d0-4fd14a47a305	2_145831523_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	145831523	CT	C	360	PASS	TEX41	Del	nc_variant	1	8	MSH6	child	2_145831523_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
0c8b63aa-3254-11e6-a03d-40f212ae24cf	18_36327125_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	18	36327125	GA	G	720	PASS	-	Del	-	1	9	MSH6	child	18_36327125_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
0c924a52-3291-11e6-824e-0fb44430f757	7_131157497_CAGGAGATCGAGACCATCCTGGCTAATGCGATGC	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	7	131157497	CAGGAGATCGAGACCATCCTGGCTAATGCGATG	C	480	PASS	MKLN1	Del	intronic	32	1	POLE	child	7_131157497_CAGGAGATCGAGACCATCCTGGCTAATGCGATGC_POLE	32	>=10	1	A	0	-	Microhomology-mediated
0c930f58-3289-11e6-9035-7296cdacbbbf	2_14139360_GCAATCAGAGAATTCTATGCCTCTGGGTTTATCATTAAATTTGACCCCTTAATAAAAATGGTTATTAATTCTTAAATGAAAAAAAGAATATATAGTCATTATATATATACATGCACCTAACATAAGAGTAGCTAAGATATAAAGCAACTATAAACAAATCTGATGGGAGAAATAGACAAAAATACAATAATAATAGGGAAATTCAGTACCTCACTTTTAAAAATAGATTGATCACCCAGACCTCACTTTTAAAAATAGATTGATCACCCAGACAATATTACTAAGGAAATATTGGATTTGAACTACACTCTAGACG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	2	14139360	GCAATCAGAGAATTCTATGCCTCTGGGTTTATCATTAAATTTGACCCCTTAATAAAAATGGTTATTAATTCTTAAATGAAAAAAAGAATATATAGTCATTATATATATACATGCACCTAACATAAGAGTAGCTAAGATATAAAGCAACTATAAACAAATCTGATGGGAGAAATAGACAAAAATACAATAATAATAGGGAAATTCAGTACCTCACTTTTAAAAATAGATTGATCACCCAGACCTCACTTTTAAAAATAGATTGATCACCCAGACAATATTACTAAGGAAATATTGGATTTGAACTACACTCTAGAC	G	420	PASS	LINC00276	Del	intronic	314	1	FANCC	child	2_14139360_GCAATCAGAGAATTCTATGCCTCTGGGTTTATCATTAAATTTGACCCCTTAATAAAAATGGTTATTAATTCTTAAATGAAAAAAAGAATATATAGTCATTATATATATACATGCACCTAACATAAGAGTAGCTAAGATATAAAGCAACTATAAACAAATCTGATGGGAGAAATAGACAAAAATACAATAATAATAGGGAAATTCAGTACCTCACTTTTAAAAATAGATTGATCACCCAGACCTCACTTTTAAAAATAGATTGATCACCCAGACAATATTACTAAGGAAATATTGGATTTGAACTACACTCTAGACG_FANCC	314	>=10	3	CAA	0	-	Microhomology-mediated
0c9e8f40-3284-11e6-90e0-6a2c36fc2f7d	X_86089079_ACTA	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	X	86089079	ACT	A	300	PASS	DACH2	Del	downstream	2	3	NUDT1	child	X_86089079_ACTA_NUDT1	2	2	2	CT	2	CT	Repeat-mediated
0ca6c6fa-3276-11e6-88b6-40832aaffa45	1_227345353_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	227345353	AT	A	480	PASS	CDC42BPA	Del	intronic	1	9	EXO1	child	1_227345353_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
0ca8c648-3321-11e6-842f-4d64694da5d2	19_14388771_TCCCACCGACCACCCAAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	19	14388771	TCCCACCGACCACCCAA	T	420	PASS	CTD-2189E23.1	Del	intronic	16	1	EXO1	child	19_14388771_TCCCACCGACCACCCAAT_EXO1	16	>=10	0	-	0	-	None
0caa5ed2-3285-11e6-a1ac-fd6da2c71c31	13_78810941_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	78810941	TA	T	660	PASS	-	Del	-	1	8	MSH6	child	13_78810941_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
0cac6ab2-3292-11e6-824e-0fb44430f757	7_57596500_CCTTTTAAA	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	7	57596500	C	CTTTTAAA	900	PASS	-	Ins	-	7	0	POLE	child	7_57596500_CCTTTTAAA_POLE	7	7	-	-	-	-	Ins
0caf51b4-3328-11e6-868e-d16670cce0de	6_74815696_CAC	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	6	74815696	CA	C	720	PASS	RP11-554D15.1	Del	intronic	1	8	EXO1	child	6_74815696_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
0cb1fd86-3285-11e6-b996-7c3e51c54cdd	14_85129903_ATTTCCAATTTA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	14	85129903	ATTTCCAATTT	A	540	PASS	-	Del	-	10	1	EXO1	child	14_85129903_ATTTCCAATTTA_EXO1	10	>=10	1	T	0	-	Microhomology-mediated
0cb52288-326f-11e6-9fba-41ebd8b4fa2c	11_90532715_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	90532715	TA	T	300	PASS	DISC1FP1	Del	intronic	1	9	MSH6	child	11_90532715_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
0cb67a54-3290-11e6-9432-c0e56f39e758	5_103041913_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	103041913	CT	C	780	PASS	-	Del	-	1	7	MSH6	child	5_103041913_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
0cb982f4-328a-11e6-8eee-76090e01a414	10_55033323_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	55033323	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	10_55033323_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
0cc34ac6-3282-11e6-944d-0704987b3f23	13_47672342_GTG	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	13	47672342	GT	G	780	PASS	-	Del	-	1	8	NEIL1	parent	13_47672342_GTG_NEIL1	1	1	1	T	7	T	Repeat-mediated
0cca50d4-3285-11e6-ac39-4c9efc1f1540	20_42187493_CAGC	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	20	42187493	CAG	C	540	PASS	SGK2	Del	upstream	2	3	FANCC	child	20_42187493_CAGC_FANCC	2	2	2	AG	2	AG	Repeat-mediated
0ccbb900-3254-11e6-8a2a-3af212ae24cf	16_29957216_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	16	29957216	AT	A	300	PASS	TMEM219	Del	intronic	1	9	MSH6	child	16_29957216_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
0ccd643e-326e-11e6-9f48-94df41c4520d	12_112138422_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	112138422	AT	A	300	PASS	ACAD10	Del	intronic	1	6	MSH6	child	12_112138422_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
0cd5e93e-3290-11e6-9401-04ed6f39e758	3_4996426_TCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	4996426	TC	T	480	PASS	-	Del	-	1	1	MSH6	child	3_4996426_TCT_MSH6	1	1	0	-	0	C	None
0ce2e844-3288-11e6-a8ac-a28ea2c71c31	3_42634359_ACA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	42634359	AC	A	480	PASS	SEC22C	Del	intronic	1	8	MSH6	child	3_42634359_ACA_MSH6	1	1	1	C	7	C	Repeat-mediated
0ce76742-3275-11e6-a79c-38c67d6a9fc7	19_50262965_ACCTGCAGTCA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	19	50262965	ACCTGCAGTC	A	419	PASS	TSKS	Del	intronic	9	1	NEIL1	child	19_50262965_ACCTGCAGTCA_NEIL1	9	9	2	CC	0	-	Microhomology-mediated
0cf0889e-328f-11e6-9c89-8d090e01a414	1_75486391_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	75486391	C	CA	480	PASS	-	Ins	-	1	7	MSH6	child	1_75486391_CCA_MSH6	1	1	-	-	-	-	Ins
0cfd2ebc-3255-11e6-9f9d-2c7a7872c165	12_101398669_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	101398669	CA	C	840	PASS	ANO4	Del	intronic	1	6	MSH6	child	12_101398669_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
0d09c284-3292-11e6-9809-b7370d016689	13_69238493_TGCACGAAGACAAT	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	13	69238493	TGCACGAAGACAA	T	420	PASS	-	Del	-	12	1	NUDT1	child	13_69238493_TGCACGAAGACAAT_NUDT1	12	>=10	3	GCA	0	-	Microhomology-mediated
0d0ab7a0-328a-11e6-927f-cebe38e8a824	7_2284304_GGAATGGCTG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	7	2284304	GGAATGGCT	G	540	PASS	NUDT1	Del	frameshift	8	1	NUDT1	parent	7_2284304_GGAATGGCTG_NUDT1	8	8	0	-	0	-	None
0d0bf24a-3321-11e6-ae0d-c299f7be831b	16_47792109_ATA	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	16	47792109	AT	A	480	PASS	RP11-523L20.2	Del	intronic	1	4	CHK2	child	16_47792109_ATA_CHK2	1	1	1	T	3	T	Repeat-mediated
0d1b9ace-3272-11e6-881e-8d938a20d9eb	15_73150629_CCTC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	15	73150629	CCT	C	360	PASS	-	Del	-	2	5	CHK2	child	15_73150629_CCTC_CHK2	2	2	2	CT	4	CT	Repeat-mediated
0d274310-3290-11e6-bb1e-70e16f39e758	X_141410325_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	141410325	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	X_141410325_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
0d2d05de-3272-11e6-b89d-b2d6b0dab373	4_171357108_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	171357108	CA	C	280	PASS	-	Del	-	1	6	MSH6	child	4_171357108_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
0d2f3de2-3275-11e6-81c8-19f506e9a829	2_34852574_AAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	2	34852574	A	AT	300	PASS	AC073218.1	Ins	intronic	1	9	FANCC	child	2_34852574_AAT_FANCC	1	1	-	-	-	-	Ins
0d2fd59a-3270-11e6-819e-9d1aa20b69d5	11_109725472_CAC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	11	109725472	CA	C	420	PASS	-	Del	-	1	2	EXO1	parent	11_109725472_CAC_EXO1	1	1	1	A	1	A	Repeat-mediated
0d339c4e-325b-11e6-8b28-55ad7872c165	20_33034437_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	33034437	AT	A	420	PASS	ITCH	Del	intronic	1	9	MSH6	child	20_33034437_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
0d35274a-3327-11e6-91f6-970e147bb207	6_76462938_GATTTTTTTCG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	6	76462938	GATTTTTTTC	G	300	PASS	MYO6	Del	intronic	9	1	EXO1	child	6_76462938_GATTTTTTTCG_EXO1	9	9	3	ATT	0	-	Microhomology-mediated
0d395ef8-3270-11e6-92dd-fda8977b3f23	10_121663055_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	121663055	T	TA	720	PASS	SEC23IP	Ins	intronic	1	7	MSH6	child	10_121663055_TTA_MSH6	1	1	-	-	-	-	Ins
0d39865e-3288-11e6-a284-4b89a2c71c31	4_139375733_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	139375733	CA	C	480	PASS	-	Del	-	1	6	MSH6	child	4_139375733_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
0d4f8484-3276-11e6-8d12-f4a14430f757	4_110608723_TAGAT	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	4	110608723	TAGA	T	600	PASS	CCDC109B	Del	inframe	3	2	NUDT1	child	4_110608723_TAGAT_NUDT1	3	3	3	AGA	1	AGA	Repeat-mediated
0d567e3a-328d-11e6-8952-77c36f39e758	10_97696509_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	97696509	TA	T	840	PASS	C10orf131	Del	intronic	1	8	MSH6	child	10_97696509_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
0d56f2b4-328f-11e6-847e-1aa5e7d0bdd7	13_34633148_CCCA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	13	34633148	C	CCA	300	PASS	-	Ins	-	2	1	FANCC	child	13_34633148_CCCA_FANCC	2	2	-	-	-	-	Ins
0d590afc-3287-11e6-adaf-064690e2c2e6	7_25842772_CTGTTC	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	7	25842772	CTGTT	C	720	PASS	-	Del	-	4	1	POLE	child	7_25842772_CTGTTC_POLE	4	4	2	TG	0	-	Microhomology-mediated
0d5a1d3a-328b-11e6-ba61-6079a178171f	2_108899816_AAT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	2	108899816	A	AT	480	PASS	-	Ins	-	1	5	FANCC	child	2_108899816_AAT_FANCC	1	1	-	-	-	-	Ins
0d5ae63e-328b-11e6-aff5-85090e01a414	16_1411644_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	1411644	C	CA	300	PASS	UNKL	Ins	downstream	1	8	MSH6	child	16_1411644_CCA_MSH6	1	1	-	-	-	-	Ins
0d5dda0e-3292-11e6-9432-c0e56f39e758	5_61048851_TTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	61048851	T	TC	420	PASS	-	Ins	-	1	7	MSH6	child	5_61048851_TTC_MSH6	1	1	-	-	-	-	Ins
0d686f4c-326e-11e6-acc7-e55219a91649	1_145643225_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	145643225	TA	T	480	PASS	RNF115	Del	intronic	1	9	MSH6	child	1_145643225_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
0d7bd43c-328d-11e6-bec1-ca1d0e01a414	X_53656382_TCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	53656382	TC	T	540	PASS	HUWE1	Del	intronic	1	8	MSH6	child	X_53656382_TCT_MSH6	1	1	1	C	7	C	Repeat-mediated
0d7ccf14-328c-11e6-88c1-95c36f39e758	14_51614395_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	51614395	GT	G	540	PASS	-	Del	-	1	8	MSH6	child	14_51614395_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
0d7d0fc4-3291-11e6-b81f-4ee66f39e758	8_91571746_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	91571746	AT	A	360	PASS	LINC00534	Del	intronic	1	8	MSH6	child	8_91571746_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
0d890db0-327d-11e6-b73f-448daea0a4d2	2_60192915_TAT	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	2	60192915	TA	T	420	PASS	RP11-444A22.1	Del	intronic	1	8	POLB	parent	2_60192915_TAT_POLB	1	1	1	A	7	A	Repeat-mediated
0d8a081e-3273-11e6-93da-67a49b6d3b88	14_37493845_TAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	14	37493845	TA	T	360	PASS	SLC25A21	Del	intronic	1	9	EXO1	child	14_37493845_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
0d9911ca-3277-11e6-998e-ba48fa52e078	8_101056481_CGTTTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	101056481	CGTTT	C	540	PASS	RGS22	Del	intronic	4	3	MSH6	child	8_101056481_CGTTTC_MSH6	4	4	4	GTTT	2	GTTT	Repeat-mediated
0d998ef2-3286-11e6-a8ad-04770d016689	9_111474630_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	9	111474630	TA	T	600	PASS	-	Del	-	1	8	EXO1	child	9_111474630_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
0da60634-3275-11e6-bfd3-a6593dc9300a	X_63398_ACA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	X	63398	AC	A	299	PASS	-	Del	-	1	5	EXO1	child	X_63398_ACA_EXO1	1	1	1	C	4	C	Repeat-mediated
0dabdc82-328c-11e6-8256-94c36f39e758	17_26503005_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	26503005	GT	G	600	PASS	NLK	Del	intronic	1	8	MSH6	child	17_26503005_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
0db2bdec-328f-11e6-919e-92c36f39e758	2_236146106_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	236146106	CA	C	480	PASS	-	Del	-	1	5	MSH6	child	2_236146106_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
0db67c86-328d-11e6-bfa2-581f0e01a414	7_22742481_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	22742481	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	7_22742481_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
0dbb5486-3274-11e6-b332-88ba7d6a9fc7	15_77017829_TTCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	77017829	TTC	T	300	PASS	SCAPER	Del	intronic	2	1	MSH6	child	15_77017829_TTCT_MSH6	2	2	1	T	0	-	Microhomology-mediated
0dbc1764-3255-11e6-a304-347a7872c165	1_96414021_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	96414021	TA	T	600	PASS	-	Del	-	1	8	MSH6	child	1_96414021_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
0dc1da5e-3323-11e6-98e4-0c20d8fd0a58	X_18269860_CAGC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	X	18269860	CAG	C	1200	PASS	SCML2	Del	intronic	2	2	CHK2	parent	X_18269860_CAGC_CHK2	2	2	2	AG	1	AG	Repeat-mediated
0dc82736-328f-11e6-bec1-ca1d0e01a414	X_145174479_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	145174479	CT	C	300	PASS	-	Del	-	1	4	MSH6	child	X_145174479_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
0dd675e8-3280-11e6-ba36-88d64dc77248	7_125356906_TGT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	7	125356906	TG	T	720	PASS	-	Del	-	1	5	NUDT1	child	7_125356906_TGT_NUDT1	1	1	1	G	4	G	Repeat-mediated
0dd6be0c-326e-11e6-acc7-e55219a91649	1_145707106_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	145707106	CT	C	420	PASS	CD160	Del	upstream	1	7	MSH6	child	1_145707106_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
0de71fb4-329f-11e6-94ca-0aaecc638e3d	X_89617459_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	89617459	CT	C	746	PASS	-	Del	-	1	9	MSH6	child	X_89617459_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
0de77802-3271-11e6-a539-0e5542c4520d	7_152239020_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	152239020	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	7_152239020_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
0de7adc4-3288-11e6-b32c-fd87a2c71c31	5_12925154_GGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	12925154	G	GA	420	PASS	RP11-419C19.2	Ins	intronic	1	8	MSH6	child	5_12925154_GGA_MSH6	1	1	-	-	-	-	Ins
0ded04a4-32a1-11e6-a04f-c66a25c9da85	6_113308718_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	113308718	GA	G	1080	PASS	-	Del	-	1	7	MSH6	child	6_113308718_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
0defde1a-3286-11e6-a8af-066ea2c71c31	15_91161097_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	91161097	CT	C	780	PASS	CRTC3	Del	intronic	1	9	MSH6	child	15_91161097_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
0dfa61e8-3289-11e6-a8ac-a28ea2c71c31	3_140465717_ATCA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	140465717	ATC	A	360	PASS	-	Del	-	2	8	MSH6	child	3_140465717_ATCA_MSH6	2	2	2	TC	7	TC	Repeat-mediated
0dfbc8bc-329d-11e6-aca6-b39fcc638e3d	2_210799603_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	210799603	CA	C	540	PASS	UNC80	Del	intronic	1	7	MSH6	child	2_210799603_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
0e0947e6-3291-11e6-9d78-ae5c38e8a824	9_116235379_TAT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	9	116235379	TA	T	480	PASS	RGS3	Del	intronic	1	7	FANCC	child	9_116235379_TAT_FANCC	1	1	1	A	6	A	Repeat-mediated
0e107f0e-328a-11e6-a19d-3c763adbad45	4_128288328_TTTCT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	4	128288328	TTTC	T	840	PASS	RP11-125O18.1	Del	intronic	3	4	NUDT1	parent	4_128288328_TTTCT_NUDT1	3	3	3	TTC	3	TTC	Repeat-mediated
0e17d256-3292-11e6-b717-5d42ead19ece	18_39030762_ATTTCATGA	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	18	39030762	ATTTCATG	A	300	PASS	-	Del	-	7	1	NUDT1	child	18_39030762_ATTTCATGA_NUDT1	7	7	2	TT	0	-	Microhomology-mediated
0e1aeeca-3277-11e6-83cd-a472a178171f	4_144601369_CTAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	144601369	CTA	C	540	PASS	FREM3	Del	intronic	2	7	MSH6	child	4_144601369_CTAC_MSH6	2	2	2	TA	6	TA	Repeat-mediated
0e20aff0-3271-11e6-b5b8-e0c24a47a305	X_110931602_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	110931602	TA	T	780	PASS	ALG13	Del	3prime_UTR_variant	1	7	MSH6	child	X_110931602_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
0e265d2c-328c-11e6-8952-77c36f39e758	10_29537131_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	29537131	CA	C	540	PASS	-	Del	-	1	7	MSH6	child	10_29537131_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
0e29ecd6-3277-11e6-8c34-46e27872c165	5_119369086_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	119369086	GT	G	540	PASS	-	Del	-	1	7	MSH6	child	5_119369086_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
0e2bebc8-328e-11e6-bec1-ca1d0e01a414	X_61923426_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	61923426	CT	C	420	PASS	-	Del	-	1	4	MSH6	child	X_61923426_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
0e30139e-3291-11e6-b81f-4ee66f39e758	8_91916933_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	91916933	TA	T	840	PASS	NECAB1	Del	intronic	1	8	MSH6	child	8_91916933_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
0e39af9e-3287-11e6-afcf-0311bce6aa09	9_137901699_TCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	137901699	TC	T	420	PASS	-	Del	-	1	5	MSH6	child	9_137901699_TCT_MSH6	1	1	1	C	4	C	Repeat-mediated
0e3ee950-3291-11e6-9401-04ed6f39e758	3_72351838_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	72351838	CA	C	480	PASS	-	Del	-	1	4	MSH6	child	3_72351838_CAC_MSH6	1	1	1	A	3	A	Repeat-mediated
0e446b3c-3273-11e6-b332-88ba7d6a9fc7	15_53521675_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	53521675	AT	A	840	PASS	-	Del	-	1	7	MSH6	child	15_53521675_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
0e4f313a-3290-11e6-92cf-bf2a0e01a414	6_79789193_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	79789193	GA	G	360	PASS	PHIP	Del	upstream	1	9	MSH6	child	6_79789193_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
0e5735fc-3285-11e6-9e78-7d3e51c54cdd	2_78188277_CTC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	2	78188277	CT	C	480	PASS	-	Del	-	1	8	EXO1	child	2_78188277_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
0e5add4a-3278-11e6-bf4d-b5224ec77248	8_86969824_GTG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	8	86969824	GT	G	420	PASS	-	Del	-	1	5	EXO1	child	8_86969824_GTG_EXO1	1	1	1	T	4	T	Repeat-mediated
0e5c8fb2-3298-11e6-8dc6-b86ca178171f	6_53626929_ACA	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	6	53626929	AC	A	300	PASS	-	Del	-	1	6	NEIL1	child	6_53626929_ACA_NEIL1	1	1	1	C	5	C	Repeat-mediated
0e62ee4e-3292-11e6-a1ea-b9b6e7d0bdd7	11_56404125_GTG	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	11	56404125	GT	G	360	PASS	OR5AP2	Del	downstream	1	7	NUDT1	child	11_56404125_GTG_NUDT1	1	1	1	T	6	T	Repeat-mediated
0e65ae0c-328a-11e6-b805-77090e01a414	2_52256513_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	52256513	CT	C	360	PASS	AC007682.1	Del	intronic	1	9	MSH6	child	2_52256513_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
0e6abdba-3286-11e6-9e78-7d3e51c54cdd	2_153251123_GAG	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	2	153251123	GA	G	360	PASS	FMNL2	Del	intronic	1	9	EXO1	child	2_153251123_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
0e6ec62a-328c-11e6-9777-62d8191589db	5_14022214_GAG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	5	14022214	GA	G	540	PASS	-	Del	-	1	9	FANCC	child	5_14022214_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
0e73a20a-3285-11e6-a0a8-096ea2c71c31	11_64459380_ACA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	64459380	AC	A	480	PASS	NRXN2	Del	intronic	1	7	MSH6	child	11_64459380_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
0e754496-3273-11e6-8f33-a6d9cde16804	11_63120329_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	63120329	TG	T	480	PASS	SLC22A10	Del	intronic	1	8	MSH6	child	11_63120329_TGT_MSH6	1	1	1	G	7	G	Repeat-mediated
0e75d834-3327-11e6-bff4-e70b694da5d2	3_83169227_TCGCCTCACTGCAACCTCT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	3	83169227	TCGCCTCACTGCAACCTC	T	300	PASS	-	Del	-	17	1	EXO1	child	3_83169227_TCGCCTCACTGCAACCTCT_EXO1	17	>=10	6	CGCCTC	0	-	Microhomology-mediated
0e7d4b3a-327f-11e6-9176-77c54dc77248	5_111582537_ACA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	5	111582537	AC	A	480	PASS	EPB41L4A	Del	intronic	1	6	NUDT1	child	5_111582537_ACA_NUDT1	1	1	1	C	5	C	Repeat-mediated
0e7d4c46-328b-11e6-bc2b-e5cd191589db	12_13479701_GTGAGGT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	12	13479701	GTGA	GGT	540	PASS	-	Complex	-	3	0	FANCC	child	12_13479701_GTGAGGT_FANCC	1	1	-	-	-	-	Complex
0e7e8060-328c-11e6-8106-81c36f39e758	19_24202738_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	24202738	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	19_24202738_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
0e895d88-3286-11e6-afcf-0311bce6aa09	9_23385989_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	23385989	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	9_23385989_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
0e91a380-3277-11e6-a2b7-2d8b671699ea	21_41822074_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	21	41822074	TA	T	420	PASS	DSCAM	Del	intronic	1	9	MSH6	child	21_41822074_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
0e92aad2-3286-11e6-b093-c9c7b0dab373	2_134919347_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	134919347	AT	A	780	PASS	MGAT5	Del	intronic	1	9	MSH6	child	2_134919347_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
0ea43f06-329d-11e6-ae71-0c5325c9da85	1_187005416_CGTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	187005416	CGT	C	480	PASS	-	Del	-	2	7	MSH6	child	1_187005416_CGTC_MSH6	2	2	2	GT	6	GT	Repeat-mediated
0ea56636-328b-11e6-9c89-8d090e01a414	1_100578874_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	100578874	CA	C	300	PASS	SASS6	Del	intronic	1	8	MSH6	child	1_100578874_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
0ea8f522-3285-11e6-8ebc-68f1bbe6aa09	18_74388813_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	74388813	CA	C	420	PASS	-	Del	-	1	7	MSH6	child	18_74388813_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
0eaa632c-3270-11e6-bd32-d83490e2c2e6	12_68455208_GAG	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	12	68455208	GA	G	480	PASS	-	Del	-	1	4	POLB	child	12_68455208_GAG_POLB	1	1	1	A	3	A	Repeat-mediated
0eaf7e04-3287-11e6-b32c-fd87a2c71c31	5_86923740_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	86923740	CA	C	600	PASS	-	Del	-	1	8	MSH6	child	5_86923740_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
0eb46b72-329f-11e6-9c44-d26625c9da85	21_45465312_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	21	45465312	AT	A	600	PASS	TRAPPC10	Del	intronic	1	9	MSH6	child	21_45465312_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
0eb69100-3271-11e6-b5b8-e0c24a47a305	X_111333704_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	111333704	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	X_111333704_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
0eba324e-3274-11e6-abaf-4642cab49462	6_168572154_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	168572154	AT	A	360	PASS	-	Del	-	1	5	MSH6	child	6_168572154_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
0ec18f7c-327d-11e6-864f-47be4dc77248	17_65706057_GAGAG	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	17	65706057	GAGA	G	834	PASS	-	Del	-	3	1	NUDT1	child	17_65706057_GAGAG_NUDT1	3	3	2	AG	0	-	Microhomology-mediated
0ec65010-327e-11e6-8559-4f7ef7be831b	5_172310210_AGTTCCTGTATGCCCTTTACCA	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	5	172310210	AGTTCCTGTATGCCCTTTACC	A	720	PASS	ERGIC1	Del	intronic	20	1	FANCC	parent	5_172310210_AGTTCCTGTATGCCCTTTACCA_FANCC	20	>=10	0	-	0	-	None
0ec787c4-3273-11e6-975f-8246cab49462	16_34853334_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	34853334	AT	A	540	PASS	-	Del	-	1	8	MSH6	child	16_34853334_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
0ec83fda-3259-11e6-8cd9-139b7872c165	3_122653937_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	122653937	TA	T	360	PASS	SEMA5B	Del	intronic	1	8	MSH6	child	3_122653937_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
0ed1c8ec-328c-11e6-b43c-7ec36f39e758	16_29437508_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	29437508	CA	C	462	PASS	SNX29P2	Del	intronic	1	9	MSH6	child	16_29437508_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
0ed5eea2-3270-11e6-b89d-b2d6b0dab373	4_39306872_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	39306872	TA	T	540	PASS	RFC1	Del	intronic	1	7	MSH6	child	4_39306872_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
0ed79604-329c-11e6-b74d-b59fcc638e3d	18_66304382_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	66304382	G	GA	900	PASS	-	Ins	-	1	6	MSH6	child	18_66304382_GGA_MSH6	1	1	-	-	-	-	Ins
0ed97ec2-3258-11e6-91d3-a68412ae24cf	7_119219154_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	119219154	GT	G	420	PASS	-	Del	-	1	1	MSH6	child	7_119219154_GTG_MSH6	1	1	0	-	0	T	None
0ede754c-3291-11e6-9d97-efe56f39e758	4_164524915_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	164524915	CA	C	660	PASS	MARCH1	Del	intronic	1	8	MSH6	child	4_164524915_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
0edfc18e-3289-11e6-a8ac-a28ea2c71c31	3_141019489_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	141019489	GT	G	300	PASS	-	Del	-	1	7	MSH6	child	3_141019489_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
0ee7420c-3279-11e6-9e0f-7959cab49462	7_76105008_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	76105008	T	TA	653	PASS	DTX2	Ins	intronic	1	8	MSH6	child	7_76105008_TTA_MSH6	1	1	-	-	-	-	Ins
0ee837dc-3276-11e6-83cd-a472a178171f	4_71663578_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	71663578	TA	T	540	PASS	RUFY3	Del	downstream	1	9	MSH6	child	4_71663578_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
0eea258a-3323-11e6-887a-7cd569062303	14_105775321_GAG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	14	105775321	GA	G	300	PASS	BRF1	Del	5prime_UTR_variant	1	9	EXO1	child	14_105775321_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
0eeb1092-328f-11e6-bc33-715238e8a824	2_104344070_GAG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	2	104344070	GA	G	300	PASS	-	Del	-	1	2	FANCC	child	2_104344070_GAG_FANCC	1	1	1	A	1	A	Repeat-mediated
0eef0c0a-326d-11e6-9793-9a8fb0dab373	13_48967071_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	48967071	CT	C	300	PASS	RB1	Del	intronic	1	6	MSH6	child	13_48967071_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
0ef53e2e-3293-11e6-9d97-efe56f39e758	4_120385410_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	120385410	C	CA	374	PASS	-	Ins	-	1	9	MSH6	child	4_120385410_CCA_MSH6	1	1	-	-	-	-	Ins
0efc59e0-329b-11e6-ae71-0c5325c9da85	1_59641946_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	59641946	AT	A	540	PASS	RP11-470E16.1	Del	intronic	1	7	MSH6	child	1_59641946_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
0f0482aa-3287-11e6-9a8e-d2b1f6dffcf6	1_20262919_GAG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	1	20262919	GA	G	840	PASS	-	Del	-	1	1	NUDT1	parent	1_20262919_GAG_NUDT1	1	1	0	-	0	A	None
0f06e764-329d-11e6-ae71-0c5325c9da85	1_187134671_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	187134671	CA	C	360	PASS	LINC01036	Del	intronic	1	9	MSH6	child	1_187134671_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
0f19ba04-329f-11e6-9c44-d26625c9da85	21_45530792_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	21	45530792	TA	T	540	PASS	TRAPPC10	Del	downstream	1	9	MSH6	child	21_45530792_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
0f1b343a-327a-11e6-ab1d-16d9ecf1e924	20_13715771_TCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	13715771	TC	T	540	PASS	ESF1	Del	intronic	1	7	MSH6	child	20_13715771_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
0f1d87aa-3291-11e6-984b-997830158702	1_5236459_GAG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	1	5236459	GA	G	300	PASS	-	Del	-	1	8	NUDT1	child	1_5236459_GAG_NUDT1	1	1	1	A	7	A	Repeat-mediated
0f226a90-3273-11e6-bfb2-2749c225ee11	12_51055266_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	51055266	CT	C	720	PASS	DIP2B	Del	intronic	1	7	MSH6	child	12_51055266_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
0f2783d6-3255-11e6-9f9d-2c7a7872c165	12_101953986_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	101953986	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	12_101953986_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
0f27fbd4-328e-11e6-bec1-ca1d0e01a414	X_62613243_GCG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	62613243	GC	G	360	PASS	-	Del	-	1	6	MSH6	child	X_62613243_GCG_MSH6	1	1	1	C	5	C	Repeat-mediated
0f291c3c-326e-11e6-9d68-ac9acab49462	15_74202841_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	74202841	CA	C	420	PASS	-	Del	-	1	1	MSH6	child	15_74202841_CAC_MSH6	1	1	0	-	0	A	None
0f2fac5c-3271-11e6-bfba-13bf4a47a305	9_113328434_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	113328434	C	CA	300	PASS	SVEP1	Ins	intronic	1	6	MSH6	child	9_113328434_CCA_MSH6	1	1	-	-	-	-	Ins
0f315c64-3285-11e6-ad7a-723e51c54cdd	17_56887050_ATA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	17	56887050	AT	A	360	PASS	PPM1E	Del	intronic	1	7	EXO1	child	17_56887050_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
0f363210-328b-11e6-8eee-76090e01a414	10_116171137_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	116171137	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	10_116171137_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
0f3c73f6-3258-11e6-9d15-298312ae24cf	X_96076328_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	96076328	CT	C	300	PASS	DIAPH2	Del	intronic	1	8	MSH6	child	X_96076328_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
0f46cdec-3299-11e6-9718-edf997ba1142	15_62196461_AACTC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	15	62196461	A	ACTC	360	PASS	VPS13C	Ins	intronic	3	0	CHK2	child	15_62196461_AACTC_CHK2	3	3	-	-	-	-	Ins
0f47f856-3259-11e6-8340-da9012ae24cf	6_33972445_TACT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	33972445	TAC	T	420	PASS	MIR1275	Del	upstream	2	7	MSH6	child	6_33972445_TACT_MSH6	2	2	2	AC	6	AC	Repeat-mediated
0f5a78b2-326f-11e6-8ee1-e5b97872c165	18_27876316_TTTTGT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	18	27876316	TTTTG	T	300	PASS	-	Del	-	4	3	NEIL1	child	18_27876316_TTTTGT_NEIL1	4	4	4	TTTG	2	TTTG	Repeat-mediated
0f600936-328c-11e6-88c1-95c36f39e758	14_52086555_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	52086555	GA	G	780	PASS	FRMD6	Del	intronic	1	8	MSH6	child	14_52086555_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
0f682044-3287-11e6-b32c-fd87a2c71c31	5_87459658_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	87459658	CT	C	462	PASS	-	Del	-	1	8	MSH6	child	5_87459658_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
0f687896-326e-11e6-b306-b5204b47a305	2_128793922_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	128793922	GA	G	360	PASS	-	Del	-	1	8	MSH6	child	2_128793922_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
0f6cae96-3275-11e6-a26e-5d0c25864c47	3_8206714_CATAC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	3	8206714	CATA	C	480	PASS	-	Del	-	3	2	CHK2	child	3_8206714_CATAC_CHK2	3	3	3	ATA	1	ATA	Repeat-mediated
0f793846-329d-11e6-ae71-0c5325c9da85	1_187218401_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	187218401	TA	T	540	PASS	LINC01036	Del	intronic	1	7	MSH6	child	1_187218401_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
0f7a3b02-3292-11e6-b77d-2eef6f39e758	6_106905736_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	106905736	GA	G	480	PASS	-	Del	-	1	6	MSH6	child	6_106905736_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
0f7b9a62-3286-11e6-a8af-066ea2c71c31	15_91589127_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	91589127	GT	G	360	PASS	-	Del	-	1	7	MSH6	child	15_91589127_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
0f86f04c-326d-11e6-b01f-1b4ba78019ab	17_63397317_ATA	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	17	63397317	AT	A	540	PASS	-	Del	-	1	9	POLM	parent	17_63397317_ATA_POLM	1	1	1	T	8	T	Repeat-mediated
0f8b5d38-327e-11e6-9c0f-26bd1da8ec0e	8_72423382_TAT	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	8	72423382	TA	T	600	PASS	-	Del	-	1	9	FANCC	parent	8_72423382_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
0f9c314a-3273-11e6-94cc-1ec335cec73b	19_24025662_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	24025662	CT	C	720	PASS	RP11-255H23.4	Del	intronic	1	8	MSH6	child	19_24025662_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
0fa2c128-328b-11e6-a100-84090e01a414	18_39151486_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	39151486	G	GT	300	PASS	RP11-142I20.1	Ins	intronic	1	8	MSH6	child	18_39151486_GGT_MSH6	1	1	-	-	-	-	Ins
0fa4e48a-3321-11e6-898e-96c25d753391	11_98723079_AAAACA	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	11	98723079	AAAAC	A	720	PASS	-	Del	-	4	5	CHK2	parent	11_98723079_AAAACA_CHK2	4	4	4	AAAC	4	AAAC	Repeat-mediated
0fa5c3ae-329b-11e6-8848-de28c7271a47	8_128766610_CCTC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	8	128766610	CCT	C	480	PASS	-	Del	-	2	5	CHK2	child	8_128766610_CCTC_CHK2	2	2	2	CT	4	CT	Repeat-mediated
0fb27c4e-3286-11e6-b093-c9c7b0dab373	2_135266151_TGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	135266151	TG	T	420	PASS	TMEM163	Del	intronic	1	1	MSH6	child	2_135266151_TGT_MSH6	1	1	0	-	0	G	None
0fb8b58a-328d-11e6-a0b5-40d57098ee92	3_57845282_TAT	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	3	57845282	TA	T	600	PASS	SLMAP	Del	intronic	1	7	NUDT1	child	3_57845282_TAT_NUDT1	1	1	1	A	6	A	Repeat-mediated
0fb8e7b4-3272-11e6-b89d-b2d6b0dab373	4_172365419_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	172365419	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	4_172365419_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
0fbc5c0c-328e-11e6-b8ba-0ad9191589db	8_55019688_GAG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	8	55019688	GA	G	300	PASS	-	Del	-	1	7	FANCC	child	8_55019688_GAG_FANCC	1	1	1	A	6	A	Repeat-mediated
0fbd8602-3259-11e6-8340-da9012ae24cf	6_34136703_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	34136703	AT	A	360	PASS	-	Del	-	1	7	MSH6	child	6_34136703_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
0fc23cd0-3289-11e6-8438-7fe95d753391	11_132868477_TAT	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	11	132868477	TA	T	300	PASS	OPCML	Del	intronic	1	6	POLE	child	11_132868477_TAT_POLE	1	1	1	A	5	A	Repeat-mediated
0fc25672-3287-11e6-a284-4b89a2c71c31	4_47042614_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	47042614	GA	G	300	PASS	GABRB1	Del	intronic	1	8	MSH6	child	4_47042614_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
0fc9b554-3276-11e6-9e0f-7959cab49462	7_41738089_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	41738089	GA	G	420	PASS	INHBA	Del	intronic	1	9	MSH6	child	7_41738089_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
0fca8686-3286-11e6-afcf-0311bce6aa09	9_24134186_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	24134186	AT	A	600	PASS	-	Del	-	1	5	MSH6	child	9_24134186_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
0fce22f8-326f-11e6-b5b8-e0c24a47a305	X_2485871_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	2485871	CA	C	480	PASS	-	Del	-	1	8	MSH6	child	X_2485871_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
0fcf090e-3290-11e6-9401-04ed6f39e758	3_5416826_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	5416826	CT	C	540	PASS	-	Del	-	1	7	MSH6	child	3_5416826_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
0fd4b638-328b-11e6-8eee-76090e01a414	10_116325402_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	116325402	AT	A	720	PASS	ABLIM1	Del	intronic	1	9	MSH6	child	10_116325402_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
0fd79d02-3273-11e6-b8ae-92c57872c165	14_63134603_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	63134603	AT	A	660	PASS	-	Del	-	1	7	MSH6	child	14_63134603_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
0fd888bc-3290-11e6-80a5-44e8977b3f23	21_24084085_CAC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	21	24084085	CA	C	480	PASS	-	Del	-	1	6	NEIL1	child	21_24084085_CAC_NEIL1	1	1	1	A	5	A	Repeat-mediated
0fd8c836-3286-11e6-afcf-0311bce6aa09	9_24160570_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	24160570	TA	T	360	PASS	-	Del	-	1	7	MSH6	child	9_24160570_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
0fdfe944-3322-11e6-a17c-098c64f80bad	14_107125261_TAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	14	107125261	TA	T	360	PASS	-	Del	-	1	9	EXO1	child	14_107125261_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
0ff6a3a8-3275-11e6-ab69-1c1607e9a829	9_29938644_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	29938644	TG	T	660	PASS	-	Del	-	1	6	MSH6	child	9_29938644_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
0ff92154-328f-11e6-8770-3e160e01a414	9_106072779_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	106072779	T	TA	360	PASS	RP11-341A22.2	Ins	intronic	1	3	MSH6	child	9_106072779_TTA_MSH6	1	1	-	-	-	-	Ins
0ff9e154-3323-11e6-8a20-9a0d75253f64	9_35623751_TAAT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	9	35623751	TAA	T	480	PASS	CD72	Del	upstream	2	5	CHK2	child	9_35623751_TAAT_CHK2	2	2	2	AA	3	A	Repeat-mediated
100b372c-3294-11e6-b25c-c77219a91649	8_51931613_TTA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	8	51931613	T	TA	360	PASS	-	Ins	-	1	0	NEIL1	child	8_51931613_TTA_NEIL1	1	1	-	-	-	-	Ins
100b5ba6-3273-11e6-8f33-a6d9cde16804	11_63549179_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	63549179	CA	C	441	PASS	-	Del	-	1	9	MSH6	child	11_63549179_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
10127d36-328d-11e6-8770-3e160e01a414	9_109271641_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	109271641	CT	C	300	PASS	RP11-308N19.1	Del	intronic	1	9	MSH6	child	9_109271641_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
10165654-3274-11e6-9e18-3a69671699ea	10_112495053_TCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	112495053	TC	T	660	PASS	RBM20	Del	intronic	1	6	MSH6	child	10_112495053_TCT_MSH6	1	1	1	C	5	C	Repeat-mediated
10253f8e-328d-11e6-bfa2-581f0e01a414	7_23219389_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	23219389	AT	A	360	PASS	KLHL7	Del	downstream	1	9	MSH6	child	7_23219389_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
10340e8a-326d-11e6-b306-b5204b47a305	2_39646384_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	39646384	TA	T	360	PASS	MAP4K3	Del	intronic	1	9	MSH6	child	2_39646384_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
103a72d0-3258-11e6-91d3-a68412ae24cf	7_119998940_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	119998940	CT	C	420	PASS	KCND2	Del	intronic	1	7	MSH6	child	7_119998940_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
1044a5e6-3273-11e6-abaf-4642cab49462	6_103562640_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	103562640	GT	G	420	PASS	-	Del	-	1	8	MSH6	child	6_103562640_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
1057ef36-3280-11e6-a2c9-149290e2c2e6	3_26370489_TAT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	3	26370489	TA	T	660	PASS	-	Del	-	1	9	NUDT1	child	3_26370489_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
105f5306-3277-11e6-83cd-a472a178171f	4_145246327_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	145246327	TA	T	540	PASS	-	Del	-	1	7	MSH6	child	4_145246327_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
10621ce8-3273-11e6-bfff-4333694da5d2	18_8896778_GGA	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	18	8896778	G	GA	300	PASS	-	Ins	-	1	7	NUDT1	child	18_8896778_GGA_NUDT1	1	1	-	-	-	-	Ins
10661614-328b-11e6-a80b-87090e01a414	11_111439358_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	111439358	AT	A	299	PASS	-	Del	-	1	8	MSH6	child	11_111439358_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
1076a2b0-327a-11e6-ab1d-16d9ecf1e924	20_13958237_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	13958237	CA	C	360	PASS	SEL1L2	Del	intronic	1	8	MSH6	child	20_13958237_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
107faa74-32a0-11e6-bc66-17b4cc638e3d	8_80407221_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	80407221	AT	A	540	PASS	-	Del	-	1	8	MSH6	child	8_80407221_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
1080f2c2-328b-11e6-b805-77090e01a414	2_119715743_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	119715743	TA	T	420	PASS	MARCO	Del	intronic	1	9	MSH6	child	2_119715743_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
1086fd02-3272-11e6-abaf-4642cab49462	6_32686159_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	32686159	CT	C	420	PASS	XXbac-BPG254F23.7	Del	nc_variant	1	7	MSH6	child	6_32686159_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
109be4b6-3285-11e6-821e-69f1bbe6aa09	16_60551886_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	60551886	GA	G	420	PASS	RP11-354I13.1	Del	intronic	1	9	MSH6	child	16_60551886_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
10a0373e-3274-11e6-ace0-120b4ec77248	17_43373911_GAG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	17	43373911	GA	G	420	PASS	-	Del	-	1	9	EXO1	child	17_43373911_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
10a3e0c2-3270-11e6-aff7-9ad52aaffa45	1_104441273_ATA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	1	104441273	AT	A	480	PASS	-	Del	-	1	6	NEIL1	child	1_104441273_ATA_NEIL1	1	1	1	T	5	T	Repeat-mediated
10c28ef6-328d-11e6-a7cf-80090e01a414	15_64719590_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	64719590	A	AT	420	PASS	TRIP4	Ins	intronic	1	7	MSH6	child	15_64719590_AAT_MSH6	1	1	-	-	-	-	Ins
10c3624e-3275-11e6-ab69-1c1607e9a829	9_30318470_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	30318470	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	9_30318470_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
10cc7d80-325b-11e6-885f-d1947872c165	4_155756721_GGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	155756721	G	GA	420	PASS	-	Ins	-	1	2	MSH6	child	4_155756721_GGA_MSH6	1	1	-	-	-	-	Ins
10d6dade-329f-11e6-94ca-0aaecc638e3d	X_90850081_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	90850081	TA	T	564	PASS	-	Del	-	1	8	MSH6	child	X_90850081_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
10dd3db6-3277-11e6-a71d-236235cec73b	X_81866776_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	81866776	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	X_81866776_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
10f2d868-3274-11e6-a5d0-4fd14a47a305	2_148132185_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	148132185	CA	C	360	PASS	-	Del	-	1	9	MSH6	child	2_148132185_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
10f93548-3277-11e6-83cd-a472a178171f	4_145620822_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	145620822	GA	G	600	PASS	HHIP	Del	intronic	1	9	MSH6	child	4_145620822_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
11015aa0-328d-11e6-b6a6-1f1e0e01a414	4_39306872_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	39306872	TA	T	360	PASS	RFC1	Del	intronic	1	7	MSH6	child	4_39306872_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
11029346-328a-11e6-a380-15ec54de4fc4	1_88450745_CAC	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	1	88450745	CA	C	420	PASS	-	Del	-	1	5	CHK2	child	1_88450745_CAC_CHK2	1	1	1	A	4	A	Repeat-mediated
110d421e-3276-11e6-9065-cc4890e2c2e6	1_72965638_GGT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	1	72965638	G	GT	480	PASS	-	Ins	-	1	0	MSH6	parent	1_72965638_GGT_MSH6	1	1	-	-	-	-	Ins
11159c4e-328e-11e6-b9c4-751d0e01a414	5_122733934_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	122733934	GA	G	360	PASS	CEP120	Del	intronic	1	9	MSH6	child	5_122733934_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
11176382-327d-11e6-8fd7-46dab41afd22	15_82227553_ATA	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	15	82227553	AT	A	540	PASS	-	Del	-	1	8	POLM	child	15_82227553_ATA_POLM	1	1	1	T	7	T	Repeat-mediated
1125b4d2-3278-11e6-a8d8-3e6075253f64	3_173510623_GTATTTTAAATGACTAGCTTCCATTTGGAATAGAAAATATCTTATTTTTGCTCATGAATTTCGAAAACATCAAAACTAGTGTTAAACCATATTTAGTTTTCATCTGTCTTGTTTG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	3	173510623	GTATTTTAAATGACTAGCTTCCATTTGGAATAGAAAATATCTTATTTTTGCTCATGAATTTCGAAAACATCAAAACTAGTGTTAAACCATATTTAGTTTTCATCTGTCTTGTTT	G	360	PASS	NLGN1	Del	intronic	113	1	FANCC	child	3_173510623_GTATTTTAAATGACTAGCTTCCATTTGGAATAGAAAATATCTTATTTTTGCTCATGAATTTCGAAAACATCAAAACTAGTGTTAAACCATATTTAGTTTTCATCTGTCTTGTTTG_FANCC	113	>=10	2	TA	0	-	Microhomology-mediated
113c99aa-3277-11e6-a71d-236235cec73b	X_82019763_AAGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	82019763	AAG	A	360	PASS	-	Del	-	2	8	MSH6	child	X_82019763_AAGA_MSH6	2	2	2	AG	7	AG	Repeat-mediated
1141dd46-328d-11e6-b4fe-93c36f39e758	12_94354894_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	94354894	CA	C	600	PASS	-	Del	-	1	5	MSH6	child	12_94354894_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
1142dcf0-3256-11e6-9f9d-2c7a7872c165	12_25160884_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	25160884	A	AT	480	PASS	RP11-713N11.5	Ins	upstream	1	8	MSH6	child	12_25160884_AAT_MSH6	1	1	-	-	-	-	Ins
114ea3c2-3275-11e6-a5d0-4fd14a47a305	2_229379061_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	229379061	CT	C	360	PASS	AC009410.1	Del	intronic	1	9	MSH6	child	2_229379061_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
115421a2-3258-11e6-b4fa-e69a7872c165	21_36760575_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	21	36760575	AT	A	660	PASS	RUNX1	Del	intronic	1	7	MSH6	child	21_36760575_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
115ad6ae-328b-11e6-a70a-47793adbad45	3_139468436_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	3	139468436	CT	C	660	PASS	-	Del	-	1	9	NUDT1	parent	3_139468436_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
11600872-329a-11e6-bda6-065325c9da85	13_31008815_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	31008815	GT	G	660	PASS	-	Del	-	1	8	MSH6	child	13_31008815_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
116963d6-326d-11e6-acc7-e55219a91649	1_54613869_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	54613869	AT	A	360	PASS	CDCP2	Del	intronic	1	9	MSH6	child	1_54613869_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
116a1104-329b-11e6-a0ea-135325c9da85	15_66804605_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	66804605	AT	A	480	PASS	ZWILCH	Del	intronic	1	6	MSH6	child	15_66804605_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
116bb286-328f-11e6-8e48-791e0e01a414	8_98225409_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	98225409	GA	G	300	PASS	-	Del	-	1	8	MSH6	child	8_98225409_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
116fc108-3287-11e6-afcf-0311bce6aa09	9_139263933_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	139263933	CT	C	900	PASS	CARD9	Del	intronic	1	8	MSH6	child	9_139263933_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
117056b0-3276-11e6-90a5-ccdb6de4ab00	2_231945244_ATGTA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	2	231945244	ATGT	A	720	PASS	PSMD1	Del	intronic	3	2	CHK2	child	2_231945244_ATGTA_CHK2	3	3	3	TGT	1	TGT	Repeat-mediated
11745486-3258-11e6-acc5-308412ae24cf	5_122704654_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	122704654	GT	G	720	PASS	CEP120	Del	intronic	1	9	MSH6	child	5_122704654_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
11778caa-3258-11e6-b4fa-e69a7872c165	21_36803970_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	21	36803970	AT	A	300	PASS	RUNX1	Del	intronic	1	6	MSH6	child	21_36803970_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
117ec62a-3274-11e6-a76d-26961565c797	1_95632463_ATA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	1	95632463	AT	A	360	PASS	TMEM56	Del	intronic	1	8	EXO1	child	1_95632463_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
11804b16-328e-11e6-b6a6-1f1e0e01a414	4_99356417_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	99356417	AT	A	300	PASS	RAP1GDS1	Del	intronic	1	7	MSH6	child	4_99356417_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
1188746a-329a-11e6-8dc6-b86ca178171f	6_23800357_GGTCTT	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	6	23800357	G	GTCTT	300	PASS	-	Ins	-	4	0	NEIL1	child	6_23800357_GGTCTT_NEIL1	4	4	-	-	-	-	Ins
118c55ec-3274-11e6-b332-88ba7d6a9fc7	15_77241716_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	77241716	GA	G	780	PASS	RCN2	Del	3prime_UTR_variant	1	9	MSH6	child	15_77241716_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
11967118-32a0-11e6-91d0-016425c9da85	7_152988858_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	152988858	CA	C	396	PASS	-	Del	-	1	8	MSH6	child	7_152988858_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
11975abc-328a-11e6-9539-3490a178171f	3_28793571_CAATAAC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	3	28793571	CAATAA	C	300	PASS	-	Del	-	5	1	FANCC	child	3_28793571_CAATAAC_FANCC	5	5	1	A	0	-	Microhomology-mediated
119eaec8-329b-11e6-ae71-0c5325c9da85	1_60745128_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	60745128	AT	A	250	PASS	-	Del	-	1	4	MSH6	child	1_60745128_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
119f6014-3270-11e6-8418-1c5942c4520d	3_11658175_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	11658175	GA	G	300	PASS	VGLL4	Del	intronic	1	8	MSH6	child	3_11658175_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
11a07f38-329a-11e6-8d0f-075325c9da85	14_31559123_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	31559123	TA	T	840	PASS	AP4S1	Del	downstream	1	7	MSH6	child	14_31559123_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
11a71d26-327b-11e6-a391-f6d67d6a9fc7	6_63224308_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	63224308	T	TA	720	PASS	-	Ins	-	1	9	MSH6	child	6_63224308_TTA_MSH6	1	1	-	-	-	-	Ins
11a71d64-3274-11e6-8ac8-25fbd7fd0a58	X_19667601_ATCTA	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	X	19667601	ATCT	A	900	PASS	SH3KBP1	Del	intronic	3	3	NEIL1	child	X_19667601_ATCTA_NEIL1	3	3	3	TCT	2	TCT	Repeat-mediated
11ab6d8c-3284-11e6-8597-c8186ee4ab00	8_61838525_TTCA	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	8	61838525	T	TCA	480	PASS	AC022182.1	Ins	intronic	2	0	POLB	parent	8_61838525_TTCA_POLB	2	2	-	-	-	-	Ins
11b7a310-32a0-11e6-ae71-0c5325c9da85	1_99607623_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	99607623	C	CA	360	PASS	-	Ins	-	1	7	MSH6	child	1_99607623_CCA_MSH6	1	1	-	-	-	-	Ins
11bcbef2-3324-11e6-a5dc-75b8cde16804	1_212156551_CTC	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	1	212156551	CT	C	720	PASS	INTS7	Del	intronic	1	9	EXO1	child	1_212156551_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
11c0e206-3276-11e6-9bb2-e658c225ee11	20_1483713_ATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	20	1483713	AT	A	600	PASS	-	Del	-	1	8	EXO1	parent	20_1483713_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
11c90588-3291-11e6-90b2-d6ec98816cf3	8_103689626_CTC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	8	103689626	CT	C	360	PASS	-	Del	-	1	9	POLB	child	8_103689626_CTC_POLB	1	1	1	T	8	T	Repeat-mediated
11ca8cf6-3281-11e6-ae55-ef338e4678dd	14_64489449_CTC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	14	64489449	CT	C	540	PASS	SYNE2	Del	intronic	1	9	EXO1	child	14_64489449_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
11cd11d0-3284-11e6-a912-733e51c54cdd	13_26048016_GTG	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	13	26048016	GT	G	420	PASS	ATP8A2	Del	intronic	1	7	EXO1	child	13_26048016_GTG_EXO1	1	1	1	T	6	T	Repeat-mediated
11cf740e-3255-11e6-89d3-d29498816cf3	2_170469842_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	170469842	AT	A	1080	PASS	PPIG	Del	intronic	1	6	MSH6	child	2_170469842_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
11d31a00-32a0-11e6-a04f-c66a25c9da85	6_45730052_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	45730052	GT	G	720	PASS	-	Del	-	1	6	MSH6	child	6_45730052_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
11d3bf3a-3275-11e6-b2ab-fba69cdf095d	X_48173606_TAT	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	X	48173606	TA	T	340	PASS	-	Del	-	1	8	NUDT1	child	X_48173606_TAT_NUDT1	1	1	1	A	7	A	Repeat-mediated
11d43c88-3281-11e6-a31e-d655f7d33ce3	1_26340443_ATA	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	1	26340443	AT	A	420	PASS	-	Del	-	1	8	NUDT1	child	1_26340443_ATA_NUDT1	1	1	1	T	7	T	Repeat-mediated
11dc55a4-329e-11e6-bc2c-2a5e25c9da85	4_75277539_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	75277539	TA	T	600	PASS	-	Del	-	1	6	MSH6	child	4_75277539_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
11dd739e-3285-11e6-821e-69f1bbe6aa09	16_61339380_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	61339380	AT	A	660	PASS	-	Del	-	1	8	MSH6	child	16_61339380_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
11e00c84-3254-11e6-89d3-d29498816cf3	2_60203156_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	60203156	CT	C	480	PASS	RP11-444A22.1	Del	intronic	1	9	MSH6	child	2_60203156_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
11e30880-3281-11e6-a6ac-c98169062303	17_41607631_CAAGC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	17	41607631	CAAG	C	360	PASS	ETV4	Del	5prime_UTR_variant	3	1	FANCC	child	17_41607631_CAAGC_FANCC	3	3	2	AA	0	-	Microhomology-mediated
11f1493a-3273-11e6-a5d0-4fd14a47a305	2_58597251_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	58597251	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	2_58597251_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
12038e0e-327a-11e6-8de8-fc8b5d753391	10_106986275_CTC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	10	106986275	CT	C	420	PASS	SORCS3	Del	intronic	1	7	FANCC	parent	10_106986275_CTC_FANCC	1	1	1	T	6	T	Repeat-mediated
1204e8fa-3287-11e6-99f7-076ea2c71c31	12_89326542_GGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	89326542	G	GT	480	PASS	-	Ins	-	1	8	MSH6	child	12_89326542_GGT_MSH6	1	1	-	-	-	-	Ins
120cd2b8-3273-11e6-a06f-b3ac8a20d9eb	17_10919483_AGACTCTCCTTGGGGTAGCAGGAGTACTTGCTTCTAAGCTGTCTCATGTA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	17	10919483	AGACTCTCCTTGGGGTAGCAGGAGTACTTGCTTCTAAGCTGTCTCATGT	A	360	PASS	-	Del	-	48	1	EXO1	child	17_10919483_AGACTCTCCTTGGGGTAGCAGGAGTACTTGCTTCTAAGCTGTCTCATGTA_EXO1	48	>=10	4	GACT	0	-	Microhomology-mediated
120fd26a-329b-11e6-a5cf-205325c9da85	11_74665070_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	74665070	CT	C	540	PASS	XRRA1	Del	upstream	1	7	MSH6	child	11_74665070_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
12113c72-328c-11e6-919e-92c36f39e758	2_37478338_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	37478338	TA	T	300	PASS	PRKD3	Del	3prime_UTR_variant	1	9	MSH6	child	2_37478338_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
1211de1a-3288-11e6-8bbd-f88da2c71c31	21_47736535_TGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	21	47736535	TG	T	600	PASS	C21orf58	Del	intronic	1	7	MSH6	child	21_47736535_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
1214aa8e-329f-11e6-9c44-d26625c9da85	21_46332604_GCG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	21	46332604	GC	G	915	PASS	ITGB2	Del	intronic	1	5	MSH6	child	21_46332604_GCG_MSH6	1	1	1	C	4	C	Repeat-mediated
1217d596-328c-11e6-aa75-90c36f39e758	13_51406557_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	51406557	CA	C	480	PASS	DLEU7	Del	intronic	1	6	MSH6	child	13_51406557_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
1218cccc-3277-11e6-998e-ba48fa52e078	8_102609011_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	102609011	TG	T	840	PASS	GRHL2	Del	intronic	1	1	MSH6	child	8_102609011_TGT_MSH6	1	1	0	-	0	G	None
121fe20a-3277-11e6-a2b7-2d8b671699ea	21_42720767_GTTTCCATGAGATCAGCATTAGAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	21	42720767	GTTTCCATGAGATCAGCATTAGA	G	660	PASS	FAM3B	Del	intronic	22	1	MSH6	child	21_42720767_GTTTCCATGAGATCAGCATTAGAG_MSH6	22	>=10	1	T	0	-	Microhomology-mediated
12296bfe-3290-11e6-9432-c0e56f39e758	5_104518852_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	104518852	GA	G	540	PASS	-	Del	-	1	5	MSH6	child	5_104518852_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
122a15f8-32a0-11e6-b696-dd6225c9da85	5_5511175_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	5511175	C	CT	420	PASS	-	Ins	-	1	1	MSH6	child	5_5511175_CCT_MSH6	1	1	-	-	-	-	Ins
122c6dec-327f-11e6-a534-1b233dc9300a	19_5693070_AAC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	19	5693070	A	AC	480	PASS	LONP1	Ins	intronic	1	6	NEIL1	child	19_5693070_AAC_NEIL1	1	1	-	-	-	-	Ins
1234f324-3273-11e6-83ef-69fb06e9a829	18_48463138_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	48463138	CA	C	540	PASS	ME2	Del	intronic	1	8	MSH6	child	18_48463138_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
12351ae4-329a-11e6-aca6-b39fcc638e3d	2_22330265_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	22330265	TA	T	840	PASS	AC068490.2	Del	intronic	1	9	MSH6	child	2_22330265_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
1238d062-3277-11e6-a71d-236235cec73b	X_82751997_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	82751997	AT	A	420	PASS	-	Del	-	1	6	MSH6	child	X_82751997_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
123f94b2-329d-11e6-bc2c-2a5e25c9da85	4_9929737_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	9929737	GA	G	660	PASS	SLC2A9	Del	intronic	1	8	MSH6	child	4_9929737_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
12442f62-3258-11e6-8cd9-139b7872c165	3_41470634_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	41470634	GA	G	300	PASS	ULK4	Del	intronic	1	7	MSH6	child	3_41470634_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
1244791c-328b-11e6-8459-82090e01a414	12_106501952_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	106501952	GA	G	300	PASS	NUAK1	Del	intronic	1	9	MSH6	child	12_106501952_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
1245b29e-3288-11e6-9d41-22c435cec73b	5_148286448_GAG	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	5	148286448	GA	G	420	PASS	-	Del	-	1	9	POLE	child	5_148286448_GAG_POLE	1	1	1	A	8	A	Repeat-mediated
1248961e-329a-11e6-8d0f-075325c9da85	14_31620913_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	31620913	TA	T	720	PASS	HECTD1	Del	intronic	1	8	MSH6	child	14_31620913_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
124b6e76-328a-11e6-938d-bbbd38e8a824	5_30615178_TAT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	5	30615178	TA	T	420	PASS	-	Del	-	1	6	NUDT1	parent	5_30615178_TAT_NUDT1	1	1	1	A	5	A	Repeat-mediated
12688ea0-328c-11e6-b43c-7ec36f39e758	16_29935504_AGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	29935504	AG	A	300	PASS	KCTD13	Del	intronic	1	1	MSH6	child	16_29935504_AGA_MSH6	1	1	0	-	0	G	None
126b0982-3287-11e6-9bc8-5079a178171f	15_73242440_CAC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	15	73242440	CA	C	540	PASS	-	Del	-	1	9	FANCC	child	15_73242440_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
126c4dba-328c-11e6-aa75-90c36f39e758	13_51524591_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	51524591	CA	C	960	PASS	RNASEH2B	Del	intronic	1	9	MSH6	child	13_51524591_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
126dd826-328f-11e6-8f31-bfe16f39e758	9_98473144_CGTCCCTGCACTAACTGC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	98473144	CGTCCCTGCACTAACTG	C	780	PASS	RP11-180I4.2	Del	intronic	16	1	MSH6	child	9_98473144_CGTCCCTGCACTAACTGC_MSH6	16	>=10	1	G	0	-	Microhomology-mediated
126eb124-328a-11e6-a8e5-1eb669062303	13_101927133_ATA	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	13	101927133	AT	A	360	PASS	NALCN	Del	intronic	1	7	CHK2	child	13_101927133_ATA_CHK2	1	1	1	T	6	T	Repeat-mediated
1271d884-328c-11e6-9892-02ba5d753391	5_142814604_CAGATC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	5	142814604	CAGAT	C	360	PASS	NR3C1	Del	5prime_UTR_variant	4	1	POLE	child	5_142814604_CAGATC_POLE	4	4	1	A	0	-	Microhomology-mediated
1273dd16-328a-11e6-b74f-549ba2c71c31	20_23785857_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	23785857	AT	A	458	PASS	-	Del	-	1	9	MSH6	child	20_23785857_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
127d2f86-3273-11e6-9e18-3a69671699ea	10_50155309_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	50155309	GA	G	540	PASS	WDFY4	Del	intronic	1	5	MSH6	child	10_50155309_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
12823afe-3277-11e6-8703-f161e7d0bdd7	X_154467299_ATA	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	X	154467299	AT	A	420	PASS	VBP1	Del	3prime_UTR_variant	1	9	POLB	child	X_154467299_ATA_POLB	1	1	1	T	8	T	Repeat-mediated
12900520-329b-11e6-8069-175325c9da85	12_70808011_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	70808011	CA	C	720	PASS	KCNMB4	Del	intronic	1	9	MSH6	child	12_70808011_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
129b2752-3273-11e6-bfb2-2749c225ee11	12_51557542_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	51557542	CA	C	420	PASS	TFCP2	Del	intronic	1	6	MSH6	child	12_51557542_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
129f2ce0-3286-11e6-9734-c5d59b6d3b88	20_10015196_GAAG	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	20	10015196	GAA	G	540	PASS	ANKEF1	Del	upstream	2	4	POLE	child	20_10015196_GAAG_POLE	2	2	2	AA	2	A	Repeat-mediated
12a123f4-3283-11e6-bf19-ebeb1da8ec0e	9_35456175_CTC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	9	35456175	CT	C	528	PASS	-	Del	-	1	8	EXO1	child	9_35456175_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
12a3606a-328d-11e6-b8e6-91c36f39e758	11_102568806_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	102568806	CT	C	480	PASS	MMP27	Del	intronic	1	9	MSH6	child	11_102568806_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
12ba68fe-328e-11e6-8c87-38240e01a414	22_40000594_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	22	40000594	CT	C	420	PASS	CACNA1I	Del	intronic	1	8	MSH6	child	22_40000594_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
12bac862-3289-11e6-b9eb-c78fa2c71c31	6_121560804_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	121560804	AT	A	600	PASS	TBC1D32	Del	intronic	1	9	MSH6	child	6_121560804_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
12c31288-328e-11e6-bec1-ca1d0e01a414	X_64874855_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	64874855	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	X_64874855_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
12c372ec-328d-11e6-9e01-8e5c694da5d2	12_50854278_ATA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	12	50854278	AT	A	420	PASS	LARP4	Del	intronic	1	9	POLM	child	12_50854278_ATA_POLM	1	1	1	T	8	T	Repeat-mediated
12cb89f2-3277-11e6-998e-ba48fa52e078	8_102769893_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	102769893	GT	G	300	PASS	NCALD	Del	intronic	1	9	MSH6	child	8_102769893_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
12d419e0-3282-11e6-ab87-22bd9b6d3b88	10_129385148_TTCCCCAT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	10	129385148	TTCCCCA	T	540	PASS	-	Del	-	6	1	EXO1	child	10_129385148_TTCCCCAT_EXO1	6	6	1	T	0	-	Microhomology-mediated
12d78c7e-329b-11e6-b549-1e5325c9da85	10_74312306_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	74312306	AT	A	960	PASS	MICU1	Del	intronic	1	4	MSH6	child	10_74312306_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
12d8e65a-328c-11e6-8106-81c36f39e758	19_28808685_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	28808685	AT	A	360	PASS	AC005780.1	Del	intronic	1	9	MSH6	child	19_28808685_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
12d95bea-326d-11e6-b9f4-5d1d694da5d2	14_53123051_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	53123051	GA	G	300	PASS	ERO1L	Del	intronic	1	8	MSH6	child	14_53123051_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
12e05dc8-3290-11e6-a2f5-49ab4430f757	15_86450409_AAC	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	15	86450409	A	AC	360	PASS	-	Ins	-	1	1	POLE	child	15_86450409_AAC_POLE	1	1	-	-	-	-	Ins
12e5a22c-3292-11e6-8c3d-0ab4e7d0bdd7	3_96263666_GAG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	3	96263666	GA	G	360	PASS	-	Del	-	1	9	FANCC	child	3_96263666_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
12e6f960-328d-11e6-bec1-ca1d0e01a414	X_55057043_AGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	55057043	AG	A	420	PASS	ALAS2	Del	intronic	1	5	MSH6	child	X_55057043_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
12f0169c-327b-11e6-a391-f6d67d6a9fc7	6_63800411_TTAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	63800411	T	TAC	420	PASS	-	Ins	-	2	8	MSH6	child	6_63800411_TTAC_MSH6	2	2	-	-	-	-	Ins
12f60ef4-328e-11e6-8c87-38240e01a414	22_40141309_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	22	40141309	TA	T	480	PASS	ENTHD1	Del	intronic	1	9	MSH6	child	22_40141309_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
12fda766-328b-11e6-9c12-b6c430158702	2_79706435_CAC	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	2	79706435	CA	C	360	PASS	CTNNA2	Del	intronic	1	4	POLM	child	2_79706435_CAC_POLM	1	1	1	A	3	A	Repeat-mediated
130486a2-3255-11e6-9f9d-2c7a7872c165	12_102910700_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	102910700	GA	G	660	PASS	-	Del	-	1	4	MSH6	child	12_102910700_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
1304bd76-3254-11e6-a03d-40f212ae24cf	18_37964629_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	18	37964629	CT	C	660	PASS	-	Del	-	1	8	MSH6	child	18_37964629_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
1306170a-3288-11e6-8404-8e1fbce6aa09	8_85698397_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	85698397	AT	A	300	PASS	RALYL	Del	intronic	1	7	MSH6	child	8_85698397_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
13097b1c-3296-11e6-958d-954f0d016689	3_177478527_CAAATGAATCATC	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	3	177478527	CAAATGAATCAT	C	300	PASS	-	Del	-	11	1	NUDT1	child	3_177478527_CAAATGAATCATC_NUDT1	11	>=10	5	AAATG	0	-	Microhomology-mediated
1312dad8-3271-11e6-b89d-b2d6b0dab373	4_106697543_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	106697543	GA	G	420	PASS	GSTCD	Del	intronic	1	8	MSH6	child	4_106697543_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
1317889c-3287-11e6-a284-4b89a2c71c31	4_48011859_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	48011859	CT	C	693	PASS	CNGA1	Del	intronic	1	8	MSH6	child	4_48011859_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
13184860-3285-11e6-9daa-026ea2c71c31	14_88844361_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	88844361	GA	G	540	PASS	-	Del	-	1	9	MSH6	child	14_88844361_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
131f6162-328b-11e6-ba48-afb3cc638e3d	2_157673868_GTTAGAATACAATTTCG	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	2	157673868	GTTAGAATACAATTTC	G	540	PASS	-	Del	-	15	1	NUDT1	child	2_157673868_GTTAGAATACAATTTCG_NUDT1	15	>=10	3	TTA	0	-	Microhomology-mediated
13284c0a-3254-11e6-a03d-40f212ae24cf	18_37977414_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	18	37977414	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	18_37977414_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
132fa3de-3271-11e6-9309-bdc34a47a305	8_88936376_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	88936376	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	8_88936376_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
133970d4-3290-11e6-9432-c0e56f39e758	5_104795386_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	104795386	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	5_104795386_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
133c9182-3273-11e6-826a-adb6fa52e078	17_39534902_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	17	39534902	GA	G	300	PASS	KRT34	Del	intronic	1	5	MSH6	child	17_39534902_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
13441602-3285-11e6-97d5-6cf1bbe6aa09	17_51843219_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	51843219	GA	G	420	PASS	-	Del	-	1	8	MSH6	child	17_51843219_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
135cf0e2-3270-11e6-b89d-b2d6b0dab373	4_39901604_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	39901604	GT	G	420	PASS	PDS5A	Del	intronic	1	7	MSH6	child	4_39901604_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
135ee5c6-3272-11e6-b89d-b2d6b0dab373	4_173339358_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	173339358	CT	C	300	PASS	GALNTL6	Del	intronic	1	8	MSH6	child	4_173339358_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
13683394-3270-11e6-8418-1c5942c4520d	3_12029056_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	12029056	GT	G	480	PASS	-	Del	-	1	8	MSH6	child	3_12029056_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
136cb66a-329f-11e6-b696-dd6225c9da85	5_130550184_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	130550184	CT	C	1200	PASS	-	Del	-	1	8	MSH6	child	5_130550184_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
136d7c1a-3274-11e6-8e5a-ca301daa6045	18_47927174_CTC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	18	47927174	CT	C	420	PASS	-	Del	-	1	7	EXO1	child	18_47927174_CTC_EXO1	1	1	1	T	6	T	Repeat-mediated
137302f6-3270-11e6-8325-b737c225ee11	1_77358053_CTC	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	1	77358053	CT	C	360	PASS	ST6GALNAC5	Del	intronic	1	8	NUDT1	child	1_77358053_CTC_NUDT1	1	1	1	T	7	T	Repeat-mediated
1373f2fa-3271-11e6-8fc7-e8702aaffa45	9_80122468_TAT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	9	80122468	TA	T	600	PASS	GNA14	Del	intronic	1	7	POLM	child	9_80122468_TAT_POLM	1	1	1	A	6	A	Repeat-mediated
1375e4c4-3290-11e6-bd11-15ea6f39e758	21_44719241_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	21	44719241	AC	A	720	PASS	-	Del	-	1	5	MSH6	child	21_44719241_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
13761e34-328c-11e6-b8e6-91c36f39e758	11_34171149_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	34171149	CT	C	480	PASS	ABTB2	Del	downstream	1	8	MSH6	child	11_34171149_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
1377da42-329d-11e6-94ca-0aaecc638e3d	X_14558343_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	14558343	GA	G	600	PASS	GLRA2	Del	intronic	1	7	MSH6	child	X_14558343_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
137b63aa-328a-11e6-a8b1-14ec54de4fc4	11_94907102_TAT	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	11	94907102	TA	T	480	PASS	SESN3	Del	intronic	1	5	CHK2	child	11_94907102_TAT_CHK2	1	1	1	A	4	A	Repeat-mediated
137bbc4e-328d-11e6-b8e6-91c36f39e758	11_102813167_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	102813167	AC	A	300	PASS	MMP13	Del	downstream	1	5	MSH6	child	11_102813167_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
137d0b48-328e-11e6-bec1-ca1d0e01a414	X_65290677_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	65290677	GA	G	360	PASS	-	Del	-	1	9	MSH6	child	X_65290677_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
138a7e3c-3297-11e6-854b-9fa830158702	20_1734487_TAT	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	20	1734487	TA	T	360	PASS	-	Del	-	1	8	NUDT1	child	20_1734487_TAT_NUDT1	1	1	1	A	7	A	Repeat-mediated
13945d7a-3275-11e6-865b-486635761512	18_28991064_CTC	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	18	28991064	CT	C	420	PASS	DSG4	Del	splice_region	1	3	POLM	child	18_28991064_CTC_POLM	1	1	1	T	2	T	Repeat-mediated
139f6cf2-329c-11e6-b129-195325c9da85	16_10684858_CCAAAAAAAAAAAA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	10684858	C	CAAAAAAAAAAAA	300	PASS	-	Ins	-	12	9	MSH6	child	16_10684858_CCAAAAAAAAAAAA_MSH6	12	>=10	-	-	-	-	Ins
13a46380-328b-11e6-aff5-85090e01a414	16_2657870_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	2657870	G	GT	260	PASS	PDPK1	Ins	downstream	1	9	MSH6	child	16_2657870_GGT_MSH6	1	1	-	-	-	-	Ins
13c3b0ae-327d-11e6-8559-4f7ef7be831b	5_97173505_CAC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	5	97173505	CA	C	660	PASS	-	Del	-	1	7	FANCC	parent	5_97173505_CAC_FANCC	1	1	1	A	6	A	Repeat-mediated
13c7eeac-328d-11e6-bec1-ca1d0e01a414	X_55603561_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	55603561	TA	T	300	PASS	-	Del	-	1	6	MSH6	child	X_55603561_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
13d0b90c-3278-11e6-b7b5-ce91a78019ab	5_108060381_ACA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	5	108060381	AC	A	720	PASS	LINC01023	Del	downstream	1	1	NEIL1	child	5_108060381_ACA_NEIL1	1	1	0	-	0	C	None
13d5a932-3285-11e6-a912-733e51c54cdd	13_96480614_CAC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	13	96480614	CA	C	960	PASS	UGGT2	Del	intronic	1	6	EXO1	child	13_96480614_CAC_EXO1	1	1	1	A	5	A	Repeat-mediated
13dc50ba-3272-11e6-b439-e34b3cfdbd24	2_72431328_CAC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	2	72431328	CA	C	540	PASS	EXOC6B	Del	intronic	1	7	MSH6	parent	2_72431328_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
13dfd50c-3324-11e6-9432-0b923cfdbd24	9_102308571_ATA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	9	102308571	AT	A	420	PASS	-	Del	-	1	5	EXO1	child	9_102308571_ATA_EXO1	1	1	1	T	4	T	Repeat-mediated
13e6b724-328d-11e6-a6b1-9a5c694da5d2	10_47105564_GAG	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	10	47105564	GA	G	720	PASS	LINC00842	Del	intronic	1	7	POLM	child	10_47105564_GAG_POLM	1	1	1	A	6	A	Repeat-mediated
13f07ac6-3273-11e6-bfb2-2749c225ee11	12_51710288_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	51710288	GA	G	540	PASS	BIN2	Del	intronic	1	9	MSH6	child	12_51710288_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
13fda86e-326d-11e6-9f48-94df41c4520d	12_40759333_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	40759333	CT	C	300	PASS	LRRK2	Del	intronic	1	7	MSH6	child	12_40759333_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
1400248e-328d-11e6-bd84-429305ad5bc4	1_208169981_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	208169981	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	1_208169981_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
1415a408-3274-11e6-a5d0-4fd14a47a305	2_149471231_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	149471231	AT	A	360	PASS	EPC2	Del	intronic	1	6	MSH6	child	2_149471231_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
14182ca6-3291-11e6-850b-ec0b9c6d3b88	4_157756630_CAC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	4	157756630	CA	C	540	PASS	PDGFC	Del	intronic	1	9	POLB	child	4_157756630_CAC_POLB	1	1	1	A	8	A	Repeat-mediated
1419939a-3271-11e6-a539-0e5542c4520d	7_153938654_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	153938654	CA	C	480	PASS	DPP6	Del	intronic	1	8	MSH6	child	7_153938654_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
141af5ea-328b-11e6-a8ac-a28ea2c71c31	3_157603291_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	157603291	T	TA	452	PASS	-	Ins	-	1	7	MSH6	child	3_157603291_TTA_MSH6	1	1	-	-	-	-	Ins
14300916-3287-11e6-b611-f56e3adbad45	11_16653344_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	11	16653344	AT	A	480	PASS	-	Del	-	1	5	NUDT1	parent	11_16653344_ATA_NUDT1	1	1	1	T	4	T	Repeat-mediated
1432832a-329c-11e6-9048-b49fcc638e3d	17_15566923_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	15566923	C	CT	600	PASS	TRIM16	Ins	intronic	1	2	MSH6	child	17_15566923_CCT_MSH6	1	1	-	-	-	-	Ins
143631b2-328f-11e6-bfa2-581f0e01a414	7_141232252_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	141232252	TA	T	480	PASS	-	Del	-	1	9	MSH6	child	7_141232252_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
14430330-3274-11e6-a862-bc9becf1e924	1_109838834_GCG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	109838834	GC	G	480	PASS	MYBPHL	Del	intronic	1	6	MSH6	child	1_109838834_GCG_MSH6	1	1	1	C	5	C	Repeat-mediated
14462194-3271-11e6-b89d-b2d6b0dab373	4_107041473_CGC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	107041473	CG	C	258	PASS	TBCK	Del	intronic	1	1	MSH6	child	4_107041473_CGC_MSH6	1	1	0	-	0	G	None
14494f72-328a-11e6-8eee-76090e01a414	10_56843223_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	56843223	TA	T	420	PASS	PCDH15	Del	intronic	1	7	MSH6	child	10_56843223_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
1449bb64-3290-11e6-92cf-bf2a0e01a414	6_82175798_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	82175798	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	6_82175798_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
144b8d4e-329b-11e6-9048-b49fcc638e3d	17_52642011_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	52642011	CA	C	300	PASS	-	Del	-	1	7	MSH6	child	17_52642011_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
14516866-3324-11e6-ada4-b8297e6a9fc7	13_88428872_AAT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	13	88428872	A	AT	360	PASS	-	Ins	-	1	5	EXO1	child	13_88428872_AAT_EXO1	1	1	-	-	-	-	Ins
14538532-3258-11e6-9d15-298312ae24cf	X_97627529_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	97627529	AT	A	540	PASS	-	Del	-	1	5	MSH6	child	X_97627529_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
145e3e7e-328e-11e6-ab9a-705238e8a824	18_39478851_TAT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	18	39478851	TA	T	360	PASS	-	Del	-	1	8	FANCC	child	18_39478851_TAT_FANCC	1	1	1	A	7	A	Repeat-mediated
146712b4-3271-11e6-b439-e34b3cfdbd24	2_1421900_CAC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	2	1421900	CA	C	553	PASS	TPO	Del	intronic	1	9	MSH6	parent	2_1421900_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
146fc41c-328b-11e6-9c89-8d090e01a414	1_101790121_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	101790121	GT	G	300	PASS	RP11-157N3.1	Del	intronic	1	9	MSH6	child	1_101790121_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
1470eb80-329a-11e6-a5cf-205325c9da85	11_14318366_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	14318366	TA	T	1260	PASS	RRAS2	Del	intronic	1	8	MSH6	child	11_14318366_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
1472b23a-329a-11e6-aca6-b39fcc638e3d	2_23329180_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	23329180	GA	G	780	PASS	AC016768.1	Del	intronic	1	9	MSH6	child	2_23329180_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
14878bb0-3254-11e6-8ebc-3ef212ae24cf	15_45931270_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	45931270	TA	T	540	PASS	SQRDL	Del	intronic	1	8	MSH6	child	15_45931270_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
1491a5ca-327a-11e6-92d2-c259c225ee11	3_66331994_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	66331994	T	TA	408	PASS	SLC25A26	Ins	intronic	1	6	MSH6	child	3_66331994_TTA_MSH6	1	1	-	-	-	-	Ins
1496998a-328a-11e6-b242-94e95d753391	1_178440252_ATA	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	1	178440252	AT	A	360	PASS	RASAL2	Del	intronic	1	6	POLE	child	1_178440252_ATA_POLE	1	1	1	T	5	T	Repeat-mediated
14b064aa-328a-11e6-821d-8c090e01a414	13_67651986_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	67651986	TA	T	1020	PASS	PCDH9	Del	intronic	1	9	MSH6	child	13_67651986_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
14b23868-32a1-11e6-a04f-c66a25c9da85	6_114742535_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	114742535	GA	G	600	PASS	-	Del	-	1	5	MSH6	child	6_114742535_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
14b491a8-3288-11e6-b093-c9c7b0dab373	2_48938446_CCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	48938446	C	CT	420	PASS	STON1-GTF2A1L	Ins	intronic	1	7	MSH6	child	2_48938446_CCT_MSH6	1	1	-	-	-	-	Ins
14b66168-328d-11e6-b2c7-5ecc977b3f23	2_118969229_ATGTA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	2	118969229	ATGT	A	720	PASS	-	Del	-	3	2	NEIL1	child	2_118969229_ATGTA_NEIL1	3	3	3	TGT	1	TGT	Repeat-mediated
14cb1bc6-3274-11e6-ad8b-494f3cfdbd24	7_153005700_GGAGGTGCTGCTGCCAG	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	7	153005700	GGAGGTGCTGCTGCCA	G	720	PASS	-	Del	-	15	1	POLM	child	7_153005700_GGAGGTGCTGCTGCCAG_POLM	15	>=10	0	-	0	-	None
14d20080-3288-11e6-a96d-ca044530f757	21_41187468_ATTTA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	21	41187468	ATTT	A	300	PASS	-	Del	-	3	5	EXO1	child	21_41187468_ATTTA_EXO1	3	3	2	TT	0	-	Microhomology-mediated
14d3d13c-3290-11e6-9d78-ae5c38e8a824	9_21935670_GTG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	9	21935670	GT	G	300	PASS	-	Del	-	1	9	FANCC	child	9_21935670_GTG_FANCC	1	1	1	T	8	T	Repeat-mediated
14d66a18-328c-11e6-bd84-429305ad5bc4	1_69414569_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	69414569	TA	T	420	PASS	-	Del	-	1	7	MSH6	child	1_69414569_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
14dc0ea0-3291-11e6-aaa2-31b34430f757	4_156693144_TAT	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	4	156693144	TA	T	720	PASS	GUCY1B3	Del	intronic	1	1	POLE	child	4_156693144_TAT_POLE	1	1	0	-	0	A	None
14e4a610-3277-11e6-83cd-a472a178171f	4_146845550_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	146845550	AT	A	660	PASS	ZNF827	Del	intronic	1	8	MSH6	child	4_146845550_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
14e7753e-3290-11e6-9401-04ed6f39e758	3_7145140_TCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	7145140	TC	T	420	PASS	GRM7	Del	intronic	1	6	MSH6	child	3_7145140_TCT_MSH6	1	1	1	C	5	C	Repeat-mediated
14f938bc-3274-11e6-b539-d702ebb8d062	7_126879343_ACA	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	7	126879343	AC	A	840	PASS	GRM8	Del	intronic	1	4	NUDT1	child	7_126879343_ACA_NUDT1	1	1	1	C	3	C	Repeat-mediated
1501872c-3271-11e6-8418-1c5942c4520d	3_108580489_ATCTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	108580489	ATCT	A	360	PASS	-	Del	-	3	2	MSH6	child	3_108580489_ATCTA_MSH6	3	3	3	TCT	1	TCT	Repeat-mediated
1508f0b6-328a-11e6-8eee-76090e01a414	10_56992919_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	56992919	TA	T	540	PASS	PCDH15	Del	intronic	1	5	MSH6	child	10_56992919_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
150e360c-328f-11e6-81d1-7ea5e7d0bdd7	3_144132271_AGTTTTATTCACA	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	3	144132271	AGTTTTATTCAC	A	600	PASS	-	Del	-	11	1	POLM	child	3_144132271_AGTTTTATTCACA_POLM	11	>=10	0	-	0	-	None
151d555e-325a-11e6-8cd9-139b7872c165	3_194294095_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	194294095	GT	G	300	PASS	-	Del	-	1	6	MSH6	child	3_194294095_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
151dc6ae-3293-11e6-baa6-1a7219a91649	X_53686062_CCAA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	X	53686062	C	CAA	480	PASS	HUWE1	Ins	intronic	2	3	NEIL1	child	X_53686062_CCAA_NEIL1	2	2	-	-	-	-	Ins
1525a0b6-3272-11e6-be56-9cdfd7fd0a58	4_32148511_ATA	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	4	32148511	AT	A	1020	PASS	RP11-734I18.1	Del	intronic	1	9	NUDT1	child	4_32148511_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
1527fd4e-3258-11e6-acc5-308412ae24cf	5_123772134_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	123772134	TA	T	540	PASS	-	Del	-	1	8	MSH6	child	5_123772134_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
15342a86-32a0-11e6-aea7-956725c9da85	3_107201443_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	107201443	TA	T	540	PASS	-	Del	-	1	5	MSH6	child	3_107201443_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
153bb72a-3254-11e6-8ebc-3ef212ae24cf	15_46094636_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	46094636	TA	T	720	PASS	RP11-718O11.1	Del	intronic	1	9	MSH6	child	15_46094636_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
1540ed72-3285-11e6-9daa-026ea2c71c31	14_89701345_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	89701345	CT	C	940	PASS	FOXN3	Del	intronic	1	4	MSH6	child	14_89701345_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
1542bbca-3285-11e6-b093-c9c7b0dab373	2_54125495_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	54125495	TA	T	600	PASS	PSME4	Del	splice_region	1	8	MSH6	child	2_54125495_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
154572ae-327e-11e6-a700-ff0e9ecd0b3a	4_27961391_TGAAT	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	4	27961391	TGAA	T	600	PASS	-	Del	-	3	4	POLM	child	4_27961391_TGAAT_POLM	3	3	3	GAA	3	GAA	Repeat-mediated
15495d4a-329e-11e6-91d0-016425c9da85	7_37770459_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	37770459	AT	A	480	PASS	GPR141	Del	intronic	1	6	MSH6	child	7_37770459_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
1549e3b8-3290-11e6-bb65-33afe7d0bdd7	20_21064347_CCTTGTCTC	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	20	21064347	CCTTGTCT	C	900	PASS	LINC00237	Del	downstream	7	1	POLM	child	20_21064347_CCTTGTCTC_POLM	7	7	2	CT	0	-	Microhomology-mediated
154ce3f0-3322-11e6-8d31-31bce7d0bdd7	1_111210119_ATA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	1	111210119	AT	A	300	PASS	KCNA3	Del	downstream	1	7	EXO1	child	1_111210119_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
15547278-329b-11e6-a5cf-205325c9da85	11_75656832_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	75656832	CT	C	480	PASS	UVRAG	Del	intronic	1	8	MSH6	child	11_75656832_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
15589bc6-327a-11e6-ab1d-16d9ecf1e924	20_15729051_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	15729051	AT	A	300	PASS	MACROD2	Del	intronic	1	9	MSH6	child	20_15729051_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
1559153a-328c-11e6-8459-82090e01a414	12_20204550_GGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	20204550	G	GA	420	PASS	RP11-664H17.1	Ins	intronic	1	8	MSH6	child	12_20204550_GGA_MSH6	1	1	-	-	-	-	Ins
1559b47e-3294-11e6-b574-0154e7d0bdd7	20_34758972_GTGTCTCCCGGCG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	20	34758972	GTGTCTCCCGGC	G	300	PASS	EPB41L1	Del	intronic	11	1	FANCC	child	20_34758972_GTGTCTCCCGGCG_FANCC	11	>=10	5	TGTCT	0	-	Microhomology-mediated
155db490-3274-11e6-bfb2-2749c225ee11	12_115628181_AAGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	115628181	AAG	A	600	PASS	-	Del	-	2	5	MSH6	child	12_115628181_AAGA_MSH6	2	2	2	AG	4	AG	Repeat-mediated
155df2fe-329a-11e6-b74d-b59fcc638e3d	18_14734737_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	14734737	CT	C	720	PASS	-	Del	-	1	7	MSH6	child	18_14734737_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
1561cb5a-3294-11e6-b963-13387a852e0e	3_68929633_GAG	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	3	68929633	GA	G	540	PASS	FAM19A4	Del	intronic	1	5	CHK2	child	3_68929633_GAG_CHK2	1	1	1	A	4	A	Repeat-mediated
15632bec-3273-11e6-8f33-a6d9cde16804	11_64689973_ACA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	64689973	AC	A	460	PASS	PPP2R5B	Del	upstream	1	1	MSH6	child	11_64689973_ACA_MSH6	1	1	0	-	0	C	None
1563507a-328e-11e6-bd84-429305ad5bc4	1_28778714_GGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	28778714	G	GA	480	PASS	PHACTR4	Ins	intronic	1	9	MSH6	child	1_28778714_GGA_MSH6	1	1	-	-	-	-	Ins
1567b22c-3294-11e6-b574-0154e7d0bdd7	20_34759201_CCCTTCCAAGGCTGTGGGCTCCCCTAGAGCAGCTCTCATTGCTTTGTATCCTGGCCTGGAGTCAGCACTCATTGTCCTGTAAGTGACAGAGAGCCTTTATTTAACTATGGCTTTACGTTATACCCATAAAGCAGAGAGTAGTGGCTTGAGTGGAAAGCATTTCTGGGTGGGGAGGAGGTGATGGGGACCCAGGCCTTCCCTTCCTCCTCATCTTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	20	34759201	CCCTTCCAAGGCTGTGGGCTCCCCTAGAGCAGCTCTCATTGCTTTGTATCCTGGCCTGGAGTCAGCACTCATTGTCCTGTAAGTGACAGAGAGCCTTTATTTAACTATGGCTTTACGTTATACCCATAAAGCAGAGAGTAGTGGCTTGAGTGGAAAGCATTTCTGGGTGGGGAGGAGGTGATGGGGACCCAGGCCTTCCCTTCCTCCTCATCTT	C	300	PASS	EPB41L1	Del	intronic	213	1	FANCC	child	20_34759201_CCCTTCCAAGGCTGTGGGCTCCCCTAGAGCAGCTCTCATTGCTTTGTATCCTGGCCTGGAGTCAGCACTCATTGTCCTGTAAGTGACAGAGAGCCTTTATTTAACTATGGCTTTACGTTATACCCATAAAGCAGAGAGTAGTGGCTTGAGTGGAAAGCATTTCTGGGTGGGGAGGAGGTGATGGGGACCCAGGCCTTCCCTTCCTCCTCATCTTC_FANCC	213	>=10	5	CCTTC	0	-	Microhomology-mediated
157127c8-32a1-11e6-bc2c-2a5e25c9da85	4_67467884_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	67467884	C	CA	780	PASS	-	Ins	-	1	6	MSH6	child	4_67467884_CCA_MSH6	1	1	-	-	-	-	Ins
1586c81c-326f-11e6-819e-9d1aa20b69d5	11_12866333_GATG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	11	12866333	GAT	G	300	PASS	TEAD1	Del	intronic	2	2	EXO1	parent	11_12866333_GATG_EXO1	2	2	2	AT	1	AT	Repeat-mediated
158ab266-3273-11e6-b332-88ba7d6a9fc7	15_55406549_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	55406549	CA	C	480	PASS	-	Del	-	1	7	MSH6	child	15_55406549_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
158b745e-329a-11e6-8d0f-075325c9da85	14_32084652_GCG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	32084652	GC	G	600	PASS	NUBPL	Del	intronic	1	7	MSH6	child	14_32084652_GCG_MSH6	1	1	1	C	6	C	Repeat-mediated
159bcdce-3324-11e6-ae91-9acb70cce0de	4_48310480_GAG	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	4	48310480	GA	G	360	PASS	-	Del	-	1	5	POLE	child	4_48310480_GAG_POLE	1	1	1	A	4	A	Repeat-mediated
15aa584a-32a1-11e6-aea7-956725c9da85	3_175660567_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	175660567	TA	T	399	PASS	RP11-809F4.3	Del	upstream	1	9	MSH6	child	3_175660567_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
15af2c2c-329b-11e6-8069-175325c9da85	12_71649550_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	71649550	CA	C	540	PASS	TSPAN8	Del	intronic	1	9	MSH6	child	12_71649550_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
15b171d8-327a-11e6-ab1d-16d9ecf1e924	20_15829011_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	15829011	AG	A	360	PASS	MACROD2	Del	intronic	1	8	MSH6	child	20_15829011_AGA_MSH6	1	1	1	G	7	G	Repeat-mediated
15b7013a-3274-11e6-93da-67a49b6d3b88	14_28728658_GGT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	14	28728658	G	GT	300	PASS	-	Ins	-	1	5	EXO1	child	14_28728658_GGT_EXO1	1	1	-	-	-	-	Ins
15b7247e-3320-11e6-8317-80eabbe6aa09	12_16935702_ATA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	12	16935702	AT	A	480	PASS	RP11-239A17.1	Del	upstream	1	5	POLE	child	12_16935702_ATA_POLE	1	1	1	T	4	T	Repeat-mediated
15cd0aca-3292-11e6-9749-1e2c0625f869	4_185040277_AACTA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	4	185040277	AACT	A	540	PASS	ENPP6	Del	intronic	3	2	NEIL1	child	4_185040277_AACTA_NEIL1	3	3	3	ACT	1	ACT	Repeat-mediated
15d1d092-325a-11e6-8cd9-139b7872c165	3_194424273_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	194424273	CT	C	660	PASS	AC090505.6	Del	upstream	1	6	MSH6	child	3_194424273_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
15d75288-3278-11e6-b13f-1ffc79852e0e	22_23661896_TCT	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	22	23661896	TC	T	417	PASS	BCR	Del	downstream	1	5	POLM	child	22_23661896_TCT_POLM	1	1	1	C	4	C	Repeat-mediated
15db769e-329e-11e6-a5cf-205325c9da85	11_132137823_GGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	132137823	G	GT	540	PASS	NTM	Ins	intronic	1	7	MSH6	child	11_132137823_GGT_MSH6	1	1	-	-	-	-	Ins
15dd8432-3273-11e6-9a4f-14b6dcd214c4	4_182102820_TAT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	4	182102820	TA	T	780	PASS	-	Del	-	1	3	POLM	child	4_182102820_TAT_POLM	1	1	1	A	2	A	Repeat-mediated
15e04bb4-328b-11e6-a2c2-fa8aa178171f	8_88607674_AATCCATTCAAAGTTTTTCATAACATGCATTTTCCATAAACTTTTTGAATTCTCCAGATGTGCCAGAATTTATTTATTCATTCACTTACTGCAGGGCATCTTGGTTGCTTCTAAGTTTTAGAAATTAAGAATAAAGCTA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	8	88607674	AATCCATTCAAAGTTTTTCATAACATGCATTTTCCATAAACTTTTTGAATTCTCCAGATGTGCCAGAATTTATTTATTCATTCACTTACTGCAGGGCATCTTGGTTGCTTCTAAGTTTTAGAAATTAAGAATAAAGCT	A	300	PASS	-	Del	-	137	1	FANCC	child	8_88607674_AATCCATTCAAAGTTTTTCATAACATGCATTTTCCATAAACTTTTTGAATTCTCCAGATGTGCCAGAATTTATTTATTCATTCACTTACTGCAGGGCATCTTGGTTGCTTCTAAGTTTTAGAAATTAAGAATAAAGCTA_FANCC	137	>=10	0	-	0	-	None
15e13858-3286-11e6-821e-69f1bbe6aa09	16_60306577_CCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	60306577	C	CT	600	PASS	-	Ins	-	1	7	MSH6	child	16_60306577_CCT_MSH6	1	1	-	-	-	-	Ins
15e80dc0-3274-11e6-9e18-3a69671699ea	10_114345150_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	114345150	CT	C	780	PASS	VTI1A	Del	intronic	1	9	MSH6	child	10_114345150_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
15ecef6a-327a-11e6-8b89-96b6ecf1e924	5_79991970_GGA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	5	79991970	G	GA	480	PASS	MSH3	Ins	intronic	1	1	CHK2	child	5_79991970_GGA_CHK2	1	1	-	-	-	-	Ins
15ed9ed2-3276-11e6-ab69-1c1607e9a829	9_115989922_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	115989922	TA	T	720	PASS	SLC31A1	Del	intronic	1	8	MSH6	child	9_115989922_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
15f00b6e-328e-11e6-a278-48230e01a414	21_43743952_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	21	43743952	CT	C	540	PASS	-	Del	-	1	5	MSH6	child	21_43743952_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
15f7bbcc-3291-11e6-9c89-8d090e01a414	1_214993306_CCAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	214993306	C	CAT	720	PASS	-	Ins	-	2	7	MSH6	child	1_214993306_CCAT_MSH6	2	2	-	-	-	-	Ins
15fa4cb4-328e-11e6-b805-77090e01a414	2_54913864_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	54913864	C	CA	360	PASS	-	Ins	-	1	5	MSH6	child	2_54913864_CCA_MSH6	1	1	-	-	-	-	Ins
15fb704c-3254-11e6-8a2a-3af212ae24cf	16_31313351_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	16	31313351	CA	C	420	PASS	ITGAM	Del	intronic	1	9	MSH6	child	16_31313351_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
15fc0d64-3276-11e6-ab69-1c1607e9a829	9_115998265_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	115998265	AT	A	420	PASS	SLC31A1	Del	intronic	1	7	MSH6	child	9_115998265_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
160a5ada-3286-11e6-9efa-64528e4678dd	6_140872055_CTC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	6	140872055	CT	C	840	PASS	-	Del	-	1	7	EXO1	child	6_140872055_CTC_EXO1	1	1	1	T	6	T	Repeat-mediated
160e692a-3323-11e6-9ef4-36112eaed38e	9_98734037_AAGACTACCAGACTATGATATTAAATCCTTAACA	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	9	98734037	AAGACTACCAGACTATGATATTAAATCCTTAAC	A	660	PASS	ERCC6L2	Del	downstream	32	1	CHK2	child	9_98734037_AAGACTACCAGACTATGATATTAAATCCTTAACA_CHK2	32	>=10	1	A	0	-	Microhomology-mediated
160e6eea-3281-11e6-a1d1-b18df4b7c17d	1_98184255_GTG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	1	98184255	GT	G	480	PASS	DPYD	Del	intronic	1	8	FANCC	child	1_98184255_GTG_FANCC	1	1	1	T	7	T	Repeat-mediated
1613aec0-328e-11e6-b43c-7ec36f39e758	16_63519907_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	63519907	G	GT	540	PASS	RP11-368L12.1	Ins	intronic	1	5	MSH6	child	16_63519907_GGT_MSH6	1	1	-	-	-	-	Ins
161523e4-3294-11e6-9401-04ed6f39e758	3_85286512_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	85286512	C	CA	660	PASS	CADM2	Ins	intronic	1	9	MSH6	child	3_85286512_CCA_MSH6	1	1	-	-	-	-	Ins
1625ad92-3288-11e6-a941-5a85a178171f	9_28441095_GTG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	9	28441095	GT	G	540	PASS	LINGO2	Del	intronic	1	7	FANCC	child	9_28441095_GTG_FANCC	1	1	1	T	6	T	Repeat-mediated
1628f4e4-3273-11e6-a685-a844e7d0bdd7	10_22423515_GAG	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	10	22423515	GA	G	420	PASS	-	Del	-	1	6	EXO1	child	10_22423515_GAG_EXO1	1	1	1	A	5	A	Repeat-mediated
16302c24-3277-11e6-9e4c-96041ea8ec0e	5_42576201_TTAAAATAAAATAAATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	5	42576201	T	TAAAATAAAATAAATA	300	PASS	GHR	Ins	intronic	15	0	FANCC	child	5_42576201_TTAAAATAAAATAAATA_FANCC	15	>=10	-	-	-	-	Ins
1631df0e-328d-11e6-b6a6-1f1e0e01a414	4_39948703_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	39948703	GA	G	360	PASS	PDS5A	Del	intronic	1	9	MSH6	child	4_39948703_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
1648d7dc-3296-11e6-9b8b-c9bbf530df36	20_5774824_CTCTTC	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	20	5774824	CTCTT	C	840	PASS	C20orf196	Del	intronic	4	2	POLB	child	20_5774824_CTCTTC_POLB	4	4	4	TCTT	1	TCTT	Repeat-mediated
16497640-328e-11e6-8c87-38240e01a414	22_40806781_GCG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	22	40806781	GC	G	720	PASS	MKL1	Del	3prime_UTR_variant	1	9	MSH6	child	22_40806781_GCG_MSH6	1	1	1	C	8	C	Repeat-mediated
16571030-3274-11e6-8418-1c5942c4520d	3_190550004_GGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	190550004	G	GA	480	PASS	-	Ins	-	1	8	MSH6	child	3_190550004_GGA_MSH6	1	1	-	-	-	-	Ins
1659cb1a-3281-11e6-b9fb-4420bce6aa09	9_21575053_CAC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	9	21575053	CA	C	420	PASS	-	Del	-	1	9	POLM	child	9_21575053_CAC_POLM	1	1	1	A	8	A	Repeat-mediated
165a846e-3273-11e6-af00-e951e7d0bdd7	19_7955274_TTTGT	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	19	7955274	TTTG	T	300	PASS	LRRC8E	Del	intronic	3	3	POLB	child	19_7955274_TTTGT_POLB	3	3	3	TTG	2	TTG	Repeat-mediated
165e14f0-3271-11e6-b923-6726694da5d2	5_118189219_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	118189219	TA	T	420	PASS	DTWD2	Del	intronic	1	8	MSH6	child	5_118189219_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
165e7956-328d-11e6-bfa2-581f0e01a414	7_24565164_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	24565164	CA	C	540	PASS	-	Del	-	1	7	MSH6	child	7_24565164_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
1660d208-328f-11e6-bd84-429305ad5bc4	1_177789316_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	177789316	C	CA	660	PASS	-	Ins	-	1	5	MSH6	child	1_177789316_CCA_MSH6	1	1	-	-	-	-	Ins
16621b2c-3285-11e6-ad7a-723e51c54cdd	17_58378822_ATA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	17	58378822	AT	A	720	PASS	USP32	Del	intronic	1	6	EXO1	child	17_58378822_ATA_EXO1	1	1	1	T	5	T	Repeat-mediated
16642eb2-3276-11e6-81cf-37408a20d9eb	8_8612729_TATATCAATGTAGT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	8	8612729	TATATCAATGTAG	T	300	PASS	RP11-211C9.1	Del	intronic	12	1	EXO1	child	8_8612729_TATATCAATGTAGT_EXO1	12	>=10	3	ATA	0	-	Microhomology-mediated
1667e7f0-3258-11e6-885f-d1947872c165	4_138030049_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	138030049	CT	C	540	PASS	RP11-138I17.1	Del	intronic	1	8	MSH6	child	4_138030049_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
16687d12-3273-11e6-803d-c550e7d0bdd7	11_22525749_ACA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	11	22525749	AC	A	480	PASS	RP11-34N19.1	Del	downstream	1	1	EXO1	child	11_22525749_ACA_EXO1	1	1	0	-	0	C	None
166c91aa-329a-11e6-ae71-0c5325c9da85	1_14548287_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	14548287	TA	T	540	PASS	RP11-344F13.1	Del	downstream	1	7	MSH6	child	1_14548287_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
166fd538-334c-11e6-9f94-b3873cfdbd24	6_88978570_ACTCTA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	6	88978570	ACTCT	A	420	PASS	-	Del	-	4	4	FANCC	child	6_88978570_ACTCTA_FANCC	4	4	4	CTCT	2	CT	Repeat-mediated
1675ccb2-3280-11e6-a6bc-51fe684da5d2	15_95230945_CAC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	15	95230945	CA	C	300	PASS	-	Del	-	1	9	NEIL1	child	15_95230945_CAC_NEIL1	1	1	1	A	8	A	Repeat-mediated
167c6120-3277-11e6-a71d-236235cec73b	X_84144599_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	84144599	GA	G	480	PASS	-	Del	-	1	8	MSH6	child	X_84144599_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
167de852-3276-11e6-8a72-7c4784482639	22_23187396_GAAG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	22	23187396	GAA	G	420	PASS	-	Del	-	2	3	EXO1	child	22_23187396_GAAG_EXO1	2	2	1	A	0	-	Microhomology-mediated
16804a80-3275-11e6-b6cd-6bb47098ee92	21_29994510_GACAAG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	21	29994510	GACAA	G	300	PASS	AF131217.1	Del	intronic	4	1	FANCC	child	21_29994510_GACAAG_FANCC	4	4	3	ACA	0	-	Microhomology-mediated
16851f50-328f-11e6-9d24-ade56f39e758	7_33294716_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	33294716	GT	G	840	PASS	BBS9	Del	intronic	1	7	MSH6	child	7_33294716_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
16924e3a-32a0-11e6-aea7-956725c9da85	3_107637162_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	107637162	AT	A	660	PASS	LINC00636	Del	intronic	1	4	MSH6	child	3_107637162_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
16978832-3278-11e6-b7b5-ce91a78019ab	5_109014470_CAC	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	5	109014470	CA	C	300	PASS	-	Del	-	1	9	NEIL1	child	5_109014470_CAC_NEIL1	1	1	1	A	8	A	Repeat-mediated
169d048a-3258-11e6-91d3-a68412ae24cf	7_122081276_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	122081276	GA	G	480	PASS	CADPS2	Del	intronic	1	8	MSH6	child	7_122081276_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
16aa0ca6-328b-11e6-a80b-87090e01a414	11_113146295_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	113146295	CT	C	540	PASS	NCAM1	Del	3prime_UTR_variant	1	5	MSH6	child	11_113146295_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
16b1eac0-3290-11e6-bb1e-70e16f39e758	X_145199225_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	145199225	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	X_145199225_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
16b28864-3280-11e6-aba2-2800bce6aa09	18_71390250_GTG	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	18	71390250	GT	G	360	PASS	-	Del	-	1	9	POLM	child	18_71390250_GTG_POLM	1	1	1	T	8	T	Repeat-mediated
16b44f0a-3276-11e6-83cd-a472a178171f	4_74243196_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	74243196	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	4_74243196_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
16b65164-3290-11e6-9230-fb250e01a414	3_142414030_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	142414030	AT	A	600	PASS	PLS1	Del	intronic	1	9	MSH6	child	3_142414030_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
16ba0bb6-329e-11e6-a5cf-205325c9da85	11_132540628_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	132540628	A	AT	300	PASS	OPCML	Ins	intronic	1	8	MSH6	child	11_132540628_AAT_MSH6	1	1	-	-	-	-	Ins
16c11a6c-328c-11e6-bd84-429305ad5bc4	1_69807616_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	69807616	AT	A	387	PASS	-	Del	-	1	9	MSH6	child	1_69807616_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
16cab554-3287-11e6-8358-6179a178171f	17_74483700_TCAGAT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	17	74483700	TCAGA	T	463	PASS	RHBDF2	Del	intronic	4	2	FANCC	child	17_74483700_TCAGAT_FANCC	4	4	4	CAGA	1	CAGA	Repeat-mediated
16d34504-3258-11e6-885f-d1947872c165	4_138116508_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	138116508	CT	C	660	PASS	RP11-138I17.1	Del	intronic	1	9	MSH6	child	4_138116508_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
16df0a42-3258-11e6-91d3-a68412ae24cf	7_122139951_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	122139951	TA	T	300	PASS	CADPS2	Del	intronic	1	7	MSH6	child	7_122139951_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
16df14ca-3257-11e6-b4d0-327a7872c165	11_114989202_CCATAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	114989202	C	CATAT	300	PASS	-	Ins	-	4	2	MSH6	child	11_114989202_CCATAT_MSH6	4	4	-	-	-	-	Ins
16e149fa-3290-11e6-bb1e-70e16f39e758	X_145324946_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	145324946	GT	G	420	PASS	-	Del	-	1	9	MSH6	child	X_145324946_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
16e4c8f6-3271-11e6-b89d-b2d6b0dab373	4_108137027_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	108137027	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	4_108137027_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
16f28b78-328d-11e6-8459-82090e01a414	12_87548669_GGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	87548669	G	GA	540	PASS	-	Ins	-	1	7	MSH6	child	12_87548669_GGA_MSH6	1	1	-	-	-	-	Ins
16f81168-3276-11e6-96f3-ccbe99696edf	12_99550218_CCTTCTGTGGTTTTCTGTTGTC	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	12	99550218	CCTTCTGTGGTTTTCTGTTGT	C	660	PASS	ANKS1B	Del	intronic	20	1	POLM	child	12_99550218_CCTTCTGTGGTTTTCTGTTGTC_POLM	20	>=10	4	CTTC	0	-	Microhomology-mediated
16ffade6-326d-11e6-adc2-b7204b47a305	18_41630474_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	41630474	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	18_41630474_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
1703bc96-3273-11e6-b636-ce0fead19ece	12_105948499_CTC	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	12	105948499	CT	C	360	PASS	-	Del	-	1	7	NEIL1	child	12_105948499_CTC_NEIL1	1	1	1	T	6	T	Repeat-mediated
1712d5b6-328f-11e6-9230-fb250e01a414	3_74836060_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	74836060	TA	T	540	PASS	-	Del	-	1	8	MSH6	child	3_74836060_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
1718b19c-3272-11e6-bf40-308964f80bad	4_75387461_AAG	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	4	75387461	A	AG	720	PASS	-	Ins	-	1	1	POLM	parent	4_75387461_AAG_POLM	1	1	-	-	-	-	Ins
171b975e-326d-11e6-b306-b5204b47a305	2_42406174_AGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	42406174	AG	A	960	PASS	EML4	Del	intronic	1	7	MSH6	child	2_42406174_AGA_MSH6	1	1	1	G	6	G	Repeat-mediated
1722d84a-328e-11e6-b6a6-1f1e0e01a414	4_100805722_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	100805722	CA	C	540	PASS	LAMTOR3	Del	intronic	1	9	MSH6	child	4_100805722_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
172657fe-327a-11e6-9e0f-7959cab49462	7_149554472_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	149554472	A	AT	480	PASS	ZNF862	Ins	intronic	1	7	MSH6	child	7_149554472_AAT_MSH6	1	1	-	-	-	-	Ins
1736b660-3290-11e6-94e1-63e1191589db	3_191156696_TAT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	3	191156696	TA	T	540	PASS	-	Del	-	1	7	FANCC	child	3_191156696_TAT_FANCC	1	1	1	A	6	A	Repeat-mediated
173e5910-3272-11e6-b08b-a578ecf1e924	11_76267150_GGTC	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	11	76267150	G	GTC	480	PASS	C11orf30	Ins	downstream	2	1	NUDT1	child	11_76267150_GGTC_NUDT1	2	2	-	-	-	-	Ins
173e7378-3277-11e6-b872-fc996f39e758	8_125421959_CAGGC	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	8	125421959	CAGG	C	300	PASS	-	Del	-	3	1	NEIL1	child	8_125421959_CAGGC_NEIL1	3	3	2	AG	0	-	Microhomology-mediated
174b999a-329f-11e6-94ca-0aaecc638e3d	X_92949006_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	92949006	AT	A	420	PASS	FAM133A	Del	intronic	1	8	MSH6	child	X_92949006_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
174f3044-325b-11e6-8b28-55ad7872c165	20_34333486_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	34333486	AT	A	340	PASS	RBM39	Del	upstream	1	9	MSH6	child	20_34333486_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
175420be-3287-11e6-afcf-0311bce6aa09	9_140927516_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	140927516	CT	C	660	PASS	CACNA1B	Del	intronic	1	6	MSH6	child	9_140927516_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
1764fac2-3324-11e6-9b79-b58f0cfb5812	1_159319704_CCA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	1	159319704	C	CA	720	PASS	-	Ins	-	1	6	POLE	child	1_159319704_CCA_POLE	1	1	-	-	-	-	Ins
17720412-334a-11e6-be18-768ca20b69d5	3_87067527_AACCAATGCAGAGAAGTCCTTAAAGGACCTGA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	3	87067527	AACCAATGCAGAGAAGTCCTTAAAGGACCTG	A	300	PASS	-	Del	-	30	1	FANCC	child	3_87067527_AACCAATGCAGAGAAGTCCTTAAAGGACCTGA_FANCC	30	>=10	1	A	0	-	Microhomology-mediated
1778a13e-3285-11e6-be43-0a6ea2c71c31	10_63682022_AGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	63682022	AG	A	1380	PASS	ARID5B	Del	intronic	1	2	MSH6	child	10_63682022_AGA_MSH6	1	1	1	G	1	G	Repeat-mediated
177b572c-328e-11e6-ad95-4e7f30158702	X_129322642_TGCCCAGGCTGGAGTGCAGTGGCACAGTCTCAGCTCACTACAACCTCTGTGTCCCAGGTTCAAGTGATTCTCCCGCCTCAGCCTCCTGAGCAGCTGGGATTACAAGTGTACCACCACACCCAGCTAATTTTTGTATTTTTGGTAGAGACGAGGTTTCACCATGTTGGCCAGGCTCAAACTCCTGACCTCAAGTGAGGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCATGCCCAGCCTCCTATTTTATGTTTTTGAGACAGGATCTCACTCTGTCT	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	X	129322642	TGCCCAGGCTGGAGTGCAGTGGCACAGTCTCAGCTCACTACAACCTCTGTGTCCCAGGTTCAAGTGATTCTCCCGCCTCAGCCTCCTGAGCAGCTGGGATTACAAGTGTACCACCACACCCAGCTAATTTTTGTATTTTTGGTAGAGACGAGGTTTCACCATGTTGGCCAGGCTCAAACTCCTGACCTCAAGTGAGGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCATGCCCAGCCTCCTATTTTATGTTTTTGAGACAGGATCTCACTCTGTC	T	300	PASS	RAB33A	Del	downstream	286	1	POLM	child	X_129322642_TGCCCAGGCTGGAGTGCAGTGGCACAGTCTCAGCTCACTACAACCTCTGTGTCCCAGGTTCAAGTGATTCTCCCGCCTCAGCCTCCTGAGCAGCTGGGATTACAAGTGTACCACCACACCCAGCTAATTTTTGTATTTTTGGTAGAGACGAGGTTTCACCATGTTGGCCAGGCTCAAACTCCTGACCTCAAGTGAGGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCATGCCCAGCCTCCTATTTTATGTTTTTGAGACAGGATCTCACTCTGTCT_POLM	286	>=10	24	GCCCAGGCTGGAGTGCAGTGGCAC	0	-	Microhomology-mediated
1784be84-327f-11e6-85d6-b940d5957ca3	10_122047903_CTC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	10	122047903	CT	C	420	PASS	-	Del	-	1	8	NEIL1	child	10_122047903_CTC_NEIL1	1	1	1	T	7	T	Repeat-mediated
1788daf2-329b-11e6-aca6-b39fcc638e3d	2_86231023_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	86231023	GA	G	1020	PASS	-	Del	-	1	5	MSH6	child	2_86231023_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
17915ae0-3275-11e6-b548-a01fd9b4fa2c	22_28996299_CGC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	22	28996299	CG	C	360	PASS	TTC28	Del	intronic	1	6	MSH6	parent	22_28996299_CGC_MSH6	1	1	1	G	5	G	Repeat-mediated
179d64aa-328b-11e6-a42b-8cc430158702	18_68836171_ATA	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	18	68836171	AT	A	300	PASS	-	Del	-	1	6	POLM	child	18_68836171_ATA_POLM	1	1	1	T	5	T	Repeat-mediated
179ff316-3284-11e6-ba12-fc09694da5d2	3_38241199_AAT	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	3	38241199	A	AT	300	PASS	OXSR1	Ins	intronic	1	7	NEIL1	child	3_38241199_AAT_NEIL1	1	1	-	-	-	-	Ins
17a4d950-3291-11e6-919e-92c36f39e758	2_128109859_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	128109859	C	CA	480	PASS	MAP3K2	Ins	intronic	1	6	MSH6	child	2_128109859_CCA_MSH6	1	1	-	-	-	-	Ins
17a6898e-3274-11e6-a5d0-4fd14a47a305	2_150928269_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	150928269	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	2_150928269_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
17b59408-326d-11e6-acc7-e55219a91649	1_56231718_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	56231718	TA	T	360	PASS	-	Del	-	1	8	MSH6	child	1_56231718_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
17bbdd24-329d-11e6-a5cf-e5abcc638e3d	9_72559888_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	72559888	TA	T	540	PASS	-	Del	-	1	9	MSH6	child	9_72559888_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
17cdcd44-328a-11e6-a70a-47793adbad45	3_37471195_AGGA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	3	37471195	AGG	A	874	PASS	C3orf35	Del	intronic	2	3	NUDT1	parent	3_37471195_AGGA_NUDT1	2	2	1	G	0	-	Microhomology-mediated
17dd7bd0-329f-11e6-94ca-0aaecc638e3d	X_93167259_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	93167259	CT	C	660	PASS	-	Del	-	1	8	MSH6	child	X_93167259_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
17e9c2a0-3272-11e6-b89d-b2d6b0dab373	4_174401915_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	174401915	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	4_174401915_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
17f2eda8-328b-11e6-a8ac-a28ea2c71c31	3_159946567_GGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	159946567	G	GT	900	PASS	C3orf80	Ins	downstream	1	5	MSH6	child	3_159946567_GGT_MSH6	1	1	-	-	-	-	Ins
17f6cfdc-3258-11e6-885f-d1947872c165	4_138361608_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	138361608	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	4_138361608_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
18111b42-328c-11e6-8106-81c36f39e758	19_30260725_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	30260725	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	19_30260725_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
1816d24c-3324-11e6-85fa-8f2b51c54cdd	7_53643435_TAT	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	7	53643435	TA	T	720	PASS	-	Del	-	1	9	CHK2	parent	7_53643435_TAT_CHK2	1	1	1	A	8	A	Repeat-mediated
181cdd02-326d-11e6-b9f4-5d1d694da5d2	14_54305159_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	54305159	TA	T	354	PASS	AL162759.1	Del	intronic	1	7	MSH6	child	14_54305159_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
182c58fc-326f-11e6-a539-0e5542c4520d	7_4066214_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	4066214	GA	G	420	PASS	SDK1	Del	intronic	1	9	MSH6	child	7_4066214_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
183b228a-329a-11e6-ae71-0c5325c9da85	1_14903289_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	14903289	CA	C	540	PASS	-	Del	-	1	9	MSH6	child	1_14903289_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
183fe0bc-3287-11e6-a48c-4ba538e8a824	16_10111510_CTGC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	16	10111510	CTG	C	660	PASS	GRIN2A	Del	intronic	2	2	NUDT1	parent	16_10111510_CTGC_NUDT1	2	2	2	TG	1	TG	Repeat-mediated
1846a288-3275-11e6-b2ab-fba69cdf095d	X_50422497_CTTATGTTTAATATACTTTTATTGAAC	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	X	50422497	CTTATGTTTAATATACTTTTATTGAA	C	360	PASS	SHROOM4	Del	intronic	25	1	NUDT1	child	X_50422497_CTTATGTTTAATATACTTTTATTGAAC_NUDT1	25	>=10	1	T	0	-	Microhomology-mediated
18471e98-3275-11e6-90fa-056466a58581	4_97719707_CAC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	4	97719707	CA	C	255	PASS	RP11-145G20.1	Del	intronic	1	6	FANCC	child	4_97719707_CAC_FANCC	1	1	1	A	5	A	Repeat-mediated
18522b42-328b-11e6-a100-84090e01a414	18_41712941_GGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	41712941	G	GA	420	PASS	-	Ins	-	1	8	MSH6	child	18_41712941_GGA_MSH6	1	1	-	-	-	-	Ins
1856f82a-3259-11e6-8340-da9012ae24cf	6_35524113_TCACCCAGGCTGGAGTGCAGTGGCACAATCATGGCTCACTGCAGCCTAGAACTCCTGGGCTCAAGCGATCCTCCCACCTCAACCTCCCCAGTAGCTGGGACTACAGAGGCATGCCACCCTAACCGCCTAATTTTTAAATTTTTTGTAGAGATGAGGTTTCACTATGTTTCCCAAGCTGGTCTCAAACTCCTGGACTCAAGTGATCCTCCCACCTCAGCTCTCTAGTAGCTGGTACTATAGGCATATGCCACCACACGGGCTAATTTTATTTTATTTTATTTTATTTATTTATTTACTGTTTATTTATTGAGACAGAGTCTCGCTCTGCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	35524113	TCACCCAGGCTGGAGTGCAGTGGCACAATCATGGCTCACTGCAGCCTAGAACTCCTGGGCTCAAGCGATCCTCCCACCTCAACCTCCCCAGTAGCTGGGACTACAGAGGCATGCCACCCTAACCGCCTAATTTTTAAATTTTTTGTAGAGATGAGGTTTCACTATGTTTCCCAAGCTGGTCTCAAACTCCTGGACTCAAGTGATCCTCCCACCTCAGCTCTCTAGTAGCTGGTACTATAGGCATATGCCACCACACGGGCTAATTTTATTTTATTTTATTTTATTTATTTATTTACTGTTTATTTATTGAGACAGAGTCTCGCTCTGC	T	272	PASS	-	Del	-	327	1	MSH6	child	6_35524113_TCACCCAGGCTGGAGTGCAGTGGCACAATCATGGCTCACTGCAGCCTAGAACTCCTGGGCTCAAGCGATCCTCCCACCTCAACCTCCCCAGTAGCTGGGACTACAGAGGCATGCCACCCTAACCGCCTAATTTTTAAATTTTTTGTAGAGATGAGGTTTCACTATGTTTCCCAAGCTGGTCTCAAACTCCTGGACTCAAGTGATCCTCCCACCTCAGCTCTCTAGTAGCTGGTACTATAGGCATATGCCACCACACGGGCTAATTTTATTTTATTTTATTTTATTTATTTATTTACTGTTTATTTATTGAGACAGAGTCTCGCTCTGCT_MSH6	327	>=10	22	CACCCAGGCTGGAGTGCAGTGG	0	-	Microhomology-mediated
185820ea-328d-11e6-8e48-791e0e01a414	8_38694161_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	38694161	AT	A	300	PASS	TACC1	Del	intronic	1	7	MSH6	child	8_38694161_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
1861e626-3287-11e6-a031-e026038949d4	20_24048699_ATTTGTTCTGATACCCAGCCTAGTGGCTATAATGTTATATCTCACTGGGGTTTTTAATTGTGTTTGCCTAGTGAAAAATGATGTCGAGTATTTTTTGCCTGTTTTTAAATTGGATTACTTGTCTTTTTTATGATTGAGA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	20	24048699	ATTTGTTCTGATACCCAGCCTAGTGGCTATAATGTTATATCTCACTGGGGTTTTTAATTGTGTTTGCCTAGTGAAAAATGATGTCGAGTATTTTTTGCCTGTTTTTAAATTGGATTACTTGTCTTTTTTATGATTGAG	A	300	PASS	-	Del	-	137	1	POLM	child	20_24048699_ATTTGTTCTGATACCCAGCCTAGTGGCTATAATGTTATATCTCACTGGGGTTTTTAATTGTGTTTGCCTAGTGAAAAATGATGTCGAGTATTTTTTGCCTGTTTTTAAATTGGATTACTTGTCTTTTTTATGATTGAGA_POLM	137	>=10	2	TT	0	-	Microhomology-mediated
18626b1a-326d-11e6-9d68-ac9acab49462	15_44974971_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	44974971	TA	T	360	PASS	-	Del	-	1	8	MSH6	child	15_44974971_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
1866b756-329a-11e6-b129-195325c9da85	16_12922240_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	12922240	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	16_12922240_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
1877b014-32a0-11e6-aea7-956725c9da85	3_108100325_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	108100325	GT	G	720	PASS	MYH15	Del	3prime_UTR_variant	1	5	MSH6	child	3_108100325_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
187cd8b2-3275-11e6-ae98-bb49694da5d2	19_12163232_GAG	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	19	12163232	GA	G	360	PASS	ZNF878	Del	intronic	1	9	POLM	child	19_12163232_GAG_POLM	1	1	1	A	8	A	Repeat-mediated
18835058-3288-11e6-9d41-22c435cec73b	5_150740436_TGT	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	5	150740436	TG	T	780	PASS	-	Del	-	1	2	POLE	child	5_150740436_TGT_POLE	1	1	1	G	1	G	Repeat-mediated
188609c6-3254-11e6-89d3-d29498816cf3	2_62293367_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	62293367	CT	C	840	PASS	COMMD1	Del	intronic	1	9	MSH6	child	2_62293367_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
188c456e-328d-11e6-8952-77c36f39e758	10_100877889_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	100877889	CA	C	480	PASS	HPSE2	Del	intronic	1	9	MSH6	child	10_100877889_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
18905014-3323-11e6-ba3d-227d3adbad45	4_91424021_ATA	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	4	91424021	AT	A	360	PASS	CCSER1	Del	intronic	1	9	CHK2	child	4_91424021_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
1891d54a-328a-11e6-9021-40b47098ee92	13_100305925_CTC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	13	100305925	CT	C	600	PASS	CLYBL	Del	intronic	1	9	NUDT1	child	13_100305925_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
18a3830e-329d-11e6-ae71-0c5325c9da85	1_189382227_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	189382227	CT	C	788	PASS	-	Del	-	1	7	MSH6	child	1_189382227_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
18a42e14-328c-11e6-ac7a-a3c36f39e758	18_39188792_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	39188792	AT	A	660	PASS	RP11-142I20.1	Del	intronic	1	7	MSH6	child	18_39188792_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
18ac2978-328e-11e6-bc12-79ae12ae24cf	8_76252540_CTC	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	8	76252540	CT	C	300	PASS	-	Del	-	1	9	CHK2	child	8_76252540_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
18adf788-328b-11e6-b9eb-c78fa2c71c31	6_157489976_AAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	157489976	A	AT	780	PASS	ARID1B	Ins	intronic	1	6	MSH6	child	6_157489976_AAT_MSH6	1	1	-	-	-	-	Ins
18b2cd4e-329a-11e6-a0ea-135325c9da85	15_27925705_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	27925705	CT	C	720	PASS	RP11-30G8.1	Del	downstream	1	7	MSH6	child	15_27925705_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
18b62d2e-3257-11e6-91d3-a68412ae24cf	7_43018428_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	43018428	GT	G	360	PASS	AC005537.2	Del	intronic	1	8	MSH6	child	7_43018428_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
18b99630-3275-11e6-90ac-b4c37872c165	8_3835933_AAT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	8	3835933	A	AT	660	PASS	CSMD1	Ins	intronic	1	7	NEIL1	child	8_3835933_AAT_NEIL1	1	1	-	-	-	-	Ins
18bb05c8-328a-11e6-bbaf-7c090e01a414	19_35343097_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	35343097	CT	C	600	PASS	CTC-523E23.5	Del	nc_variant	1	9	MSH6	child	19_35343097_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
18bbe32a-3281-11e6-bd52-75299ecd0b3a	11_61154933_CAGAGCAC	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	11	61154933	CAGAGCA	C	300	PASS	TMEM216	Del	upstream	6	1	POLB	child	11_61154933_CAGAGCAC_POLB	6	6	3	AGA	0	-	Microhomology-mediated
18c7a152-3325-11e6-841a-c49690e2c2e6	6_25767976_ATA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	6	25767976	AT	A	300	PASS	SLC17A4	Del	intronic	1	7	POLE	child	6_25767976_ATA_POLE	1	1	1	T	6	T	Repeat-mediated
18d02a70-3271-11e6-8418-1c5942c4520d	3_109784799_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	109784799	GA	G	420	PASS	-	Del	-	1	8	MSH6	child	3_109784799_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
18d57150-3321-11e6-ae98-b2b5fa52e078	2_40577668_ATA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	2	40577668	AT	A	360	PASS	SLC8A1	Del	intronic	1	6	EXO1	child	2_40577668_ATA_EXO1	1	1	1	T	5	T	Repeat-mediated
18de182c-3287-11e6-b32c-fd87a2c71c31	5_92192845_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	92192845	AT	A	600	PASS	-	Del	-	1	7	MSH6	child	5_92192845_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
18de6ff4-328f-11e6-9d97-efe56f39e758	4_34154863_AATTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	34154863	AATT	A	420	PASS	RP11-548L20.1	Del	intronic	3	2	MSH6	child	4_34154863_AATTA_MSH6	3	3	3	ATT	1	ATT	Repeat-mediated
18e88e9a-3270-11e6-93c5-fd61ecf1e924	11_109353031_CAC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	11	109353031	CA	C	600	PASS	-	Del	-	1	6	NEIL1	child	11_109353031_CAC_NEIL1	1	1	1	A	5	A	Repeat-mediated
18e9cb2e-3271-11e6-aff7-9ad52aaffa45	1_190394400_CATC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	1	190394400	CAT	C	600	PASS	BRINP3	Del	intronic	2	2	NEIL1	child	1_190394400_CATC_NEIL1	2	2	2	AT	1	AT	Repeat-mediated
18f22930-329a-11e6-b74d-b59fcc638e3d	18_18683578_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	18683578	AT	A	360	PASS	ROCK1	Del	intronic	1	8	MSH6	child	18_18683578_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
19062e70-3291-11e6-b77d-2eef6f39e758	6_36890968_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	36890968	GA	G	360	PASS	C6orf89	Del	intronic	1	8	MSH6	child	6_36890968_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
1909565e-325a-11e6-acc5-308412ae24cf	5_88783029_TTA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	88783029	T	TA	720	PASS	-	Ins	-	1	7	MSH6	child	5_88783029_TTA_MSH6	1	1	-	-	-	-	Ins
1910cc54-328c-11e6-8106-81c36f39e758	19_30388359_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	30388359	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	19_30388359_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
191d3ff4-328f-11e6-9d24-ade56f39e758	7_34286526_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	34286526	CT	C	360	PASS	AC009262.2	Del	intronic	1	9	MSH6	child	7_34286526_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
19238c5e-3322-11e6-9802-cf66694da5d2	12_33301293_CAC	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	12	33301293	CA	C	360	PASS	-	Del	-	1	3	EXO1	child	12_33301293_CAC_EXO1	1	1	1	A	2	A	Repeat-mediated
19298d78-3324-11e6-925a-9564694da5d2	2_80781002_ACATGAATT	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	2	80781002	ACATG	AATT	420	PASS	CTNNA2	Complex	intronic	4	0	POLE	child	2_80781002_ACATGAATT_POLE	1	1	-	-	-	-	Complex
19362f76-3291-11e6-9d97-efe56f39e758	4_166572290_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	166572290	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	4_166572290_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
1938d17e-329e-11e6-91d0-016425c9da85	7_38708101_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	38708101	CT	C	480	PASS	-	Del	-	1	7	MSH6	child	7_38708101_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
19411f26-329b-11e6-9048-b49fcc638e3d	17_53958413_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	53958413	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	17_53958413_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
1943343e-3285-11e6-8b67-086ea2c71c31	1_53694257_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	53694257	CT	C	540	PASS	MAGOH	Del	intronic	1	6	MSH6	child	1_53694257_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
194620da-3281-11e6-83f7-b4262eaed38e	15_66409233_CGTGC	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	15	66409233	CGTG	C	600	PASS	MEGF11	Del	intronic	3	1	POLB	child	15_66409233_CGTGC_POLB	3	3	0	-	0	-	None
1951e682-3271-11e6-b5d9-38f41da8ec0e	15_34244443_GAG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	15	34244443	GA	G	300	PASS	AVEN	Del	intronic	1	8	FANCC	child	15_34244443_GAG_FANCC	1	1	1	A	7	A	Repeat-mediated
1954ac08-329b-11e6-8d0f-075325c9da85	14_90617328_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	90617328	GA	G	720	PASS	KCNK13	Del	intronic	1	9	MSH6	child	14_90617328_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
195e2f86-329a-11e6-a5cf-205325c9da85	11_15530073_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	15530073	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	11_15530073_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
1960a494-3288-11e6-8404-8e1fbce6aa09	8_88328849_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	88328849	CT	C	360	PASS	CNBD1	Del	intronic	1	9	MSH6	child	8_88328849_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
196525f2-326d-11e6-b2ac-b6204b47a305	17_28390551_AGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	28390551	AG	A	360	PASS	EFCAB5	Del	intronic	1	5	MSH6	child	17_28390551_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
196c015a-3273-11e6-94cc-1ec335cec73b	19_29704467_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	29704467	AT	A	600	PASS	UQCRFS1	Del	upstream	1	5	MSH6	child	19_29704467_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
19737bc2-329d-11e6-b696-dd6225c9da85	5_1661812_CGC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	1661812	CG	C	720	PASS	-	Del	-	1	6	MSH6	child	5_1661812_CGC_MSH6	1	1	1	G	5	G	Repeat-mediated
197dc198-3349-11e6-b3a1-d0f2137bb207	5_63367060_ATA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	5	63367060	AT	A	420	PASS	-	Del	-	1	7	FANCC	child	5_63367060_ATA_FANCC	1	1	1	T	6	T	Repeat-mediated
198150e8-3271-11e6-b923-6726694da5d2	5_119204016_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	119204016	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	5_119204016_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
1982ab50-3285-11e6-b930-8f14987b3f23	4_54436894_CAC	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	4	54436894	CA	C	253	PASS	LNX1	Del	intronic	1	9	NEIL1	parent	4_54436894_CAC_NEIL1	1	1	1	A	8	A	Repeat-mediated
1987b6ca-32a0-11e6-a04f-c66a25c9da85	6_48053487_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	48053487	AT	A	720	PASS	-	Del	-	1	6	MSH6	child	6_48053487_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
198db466-3292-11e6-984b-997830158702	1_90655685_TGT	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	1	90655685	TG	T	480	PASS	-	Del	-	1	1	NUDT1	child	1_90655685_TGT_NUDT1	1	1	0	-	0	G	None
199caef0-329a-11e6-a5cf-205325c9da85	11_15607624_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	15607624	AT	A	540	PASS	RP11-531H8.1	Del	intronic	1	4	MSH6	child	11_15607624_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
19a2e280-3271-11e6-961c-b84b3cfdbd24	18_3339161_GTG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	18	3339161	GT	G	660	PASS	-	Del	-	1	7	MSH6	parent	18_3339161_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
19a76c30-3279-11e6-9e0f-7959cab49462	7_78689402_CCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	78689402	C	CT	300	PASS	MAGI2	Ins	intronic	1	6	MSH6	child	7_78689402_CCT_MSH6	1	1	-	-	-	-	Ins
19aa3322-3254-11e6-89d3-d29498816cf3	2_62788068_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	62788068	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	2_62788068_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
19afa07a-3284-11e6-96d6-e945ee3c4f5d	3_29238964_GACAATTATACATTGGTTTTTAATGTCATTGTGAGAATTTAATGAGATAATATGTGTAAAGCTGTTGAACACAGAATTACTATTTATAAATCACTTAATAAATACAAATTATATTAAAATAGGAAAGAAATCAATTTCAATTTGGGTCTTCAAAGAAGGCTTACAGACTCCCAGTTTATACTCTTAGGGTGGCATCTGTTTTTAAGACCCTGAGACTCAGGCTTTAAACTGTTGAGAACCCCTCAGGTACAAAAAGACTTATTTGTGTCTGCCTGGAAATTTCTACCTTTCTCCTTTATCTGCTGTTTAACATTCATGCTTTAGTAGACCAAGACAAGGAAAGCATTAAAACTGTGCCAAGATTTAGTCAATTATAGTAAGGTCTAAGATTTAAACGCTATTTTTTTCATATGCTTTTTTCCAAGTAGCAGTGTTTTCCAGATAAAATTGAGATTCCTGTTCTGCTTCTCTCCCTTATGACTTTTATTTTTCACACATGGTATGAAAGACTAAGATTTCATCTGGTATACTTCGTTCCCTTCATTTAGTTCCTAGCCATGATGGAGTATCCCTTCCCATGACCTTTCCTCTCTCCTAATAGTCCCTTACACCATTTCCATAATGCATGGCTTGATACTACTTAATTCTGAGTGTTCCAAACAGATGTTCTGGGGAAAGGATTCAGCCATCCATCTGGGCTGGGTCTATACCTCCCATGGCAGATGGTTAAATTTCATAAGACATTGTTGGAAATCCAGGCTGTGGTATTTTATGCTGTTCTACCCAGTTTCGTATGTTTGATTTTTAAAAAAATCTCCTGCCGTGATAATTATTAAAAATTAACATTGAAGTTGATTAAATGCAATAAATGTCACATTAAATAGTAAATTTTAAAATTATCAATAAAATATTAACTTATAGAAATAAGCTAGATTCAAATATTTTAGTTGCTAGCATGGTGTCTTATACAGTTTGGTTATGATCACTGGGGCAAGATTAAACTCTCTTTATAATAGGGAATCTGACACATGAGAAGAATTTCAAGATTTTTTTTTTCCAAACATGGCACCATTCTTG	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	3	29238964	GACAATTATACATTGGTTTTTAATGTCATTGTGAGAATTTAATGAGATAATATGTGTAAAGCTGTTGAACACAGAATTACTATTTATAAATCACTTAATAAATACAAATTATATTAAAATAGGAAAGAAATCAATTTCAATTTGGGTCTTCAAAGAAGGCTTACAGACTCCCAGTTTATACTCTTAGGGTGGCATCTGTTTTTAAGACCCTGAGACTCAGGCTTTAAACTGTTGAGAACCCCTCAGGTACAAAAAGACTTATTTGTGTCTGCCTGGAAATTTCTACCTTTCTCCTTTATCTGCTGTTTAACATTCATGCTTTAGTAGACCAAGACAAGGAAAGCATTAAAACTGTGCCAAGATTTAGTCAATTATAGTAAGGTCTAAGATTTAAACGCTATTTTTTTCATATGCTTTTTTCCAAGTAGCAGTGTTTTCCAGATAAAATTGAGATTCCTGTTCTGCTTCTCTCCCTTATGACTTTTATTTTTCACACATGGTATGAAAGACTAAGATTTCATCTGGTATACTTCGTTCCCTTCATTTAGTTCCTAGCCATGATGGAGTATCCCTTCCCATGACCTTTCCTCTCTCCTAATAGTCCCTTACACCATTTCCATAATGCATGGCTTGATACTACTTAATTCTGAGTGTTCCAAACAGATGTTCTGGGGAAAGGATTCAGCCATCCATCTGGGCTGGGTCTATACCTCCCATGGCAGATGGTTAAATTTCATAAGACATTGTTGGAAATCCAGGCTGTGGTATTTTATGCTGTTCTACCCAGTTTCGTATGTTTGATTTTTAAAAAAATCTCCTGCCGTGATAATTATTAAAAATTAACATTGAAGTTGATTAAATGCAATAAATGTCACATTAAATAGTAAATTTTAAAATTATCAATAAAATATTAACTTATAGAAATAAGCTAGATTCAAATATTTTAGTTGCTAGCATGGTGTCTTATACAGTTTGGTTATGATCACTGGGGCAAGATTAAACTCTCTTTATAATAGGGAATCTGACACATGAGAAGAATTTCAAGATTTTTTTTTTCCAAACATGGCACCATTCTT	G	360	PASS	-	Del	-	1075	1	POLB	child	3_29238964_GACAATTATACATTGGTTTTTAATGTCATTGTGAGAATTTAATGAGATAATATGTGTAAAGCTGTTGAACACAGAATTACTATTTATAAATCACTTAATAAATACAAATTATATTAAAATAGGAAAGAAATCAATTTCAATTTGGGTCTTCAAAGAAGGCTTACAGACTCCCAGTTTATACTCTTAGGGTGGCATCTGTTTTTAAGACCCTGAGACTCAGGCTTTAAACTGTTGAGAACCCCTCAGGTACAAAAAGACTTATTTGTGTCTGCCTGGAAATTTCTACCTTTCTCCTTTATCTGCTGTTTAACATTCATGCTTTAGTAGACCAAGACAAGGAAAGCATTAAAACTGTGCCAAGATTTAGTCAATTATAGTAAGGTCTAAGATTTAAACGCTATTTTTTTCATATGCTTTTTTCCAAGTAGCAGTGTTTTCCAGATAAAATTGAGATTCCTGTTCTGCTTCTCTCCCTTATGACTTTTATTTTTCACACATGGTATGAAAGACTAAGATTTCATCTGGTATACTTCGTTCCCTTCATTTAGTTCCTAGCCATGATGGAGTATCCCTTCCCATGACCTTTCCTCTCTCCTAATAGTCCCTTACACCATTTCCATAATGCATGGCTTGATACTACTTAATTCTGAGTGTTCCAAACAGATGTTCTGGGGAAAGGATTCAGCCATCCATCTGGGCTGGGTCTATACCTCCCATGGCAGATGGTTAAATTTCATAAGACATTGTTGGAAATCCAGGCTGTGGTATTTTATGCTGTTCTACCCAGTTTCGTATGTTTGATTTTTAAAAAAATCTCCTGCCGTGATAATTATTAAAAATTAACATTGAAGTTGATTAAATGCAATAAATGTCACATTAAATAGTAAATTTTAAAATTATCAATAAAATATTAACTTATAGAAATAAGCTAGATTCAAATATTTTAGTTGCTAGCATGGTGTCTTATACAGTTTGGTTATGATCACTGGGGCAAGATTAAACTCTCTTTATAATAGGGAATCTGACACATGAGAAGAATTTCAAGATTTTTTTTTTCCAAACATGGCACCATTCTTG_POLB	1075	>=10	4	ACAA	0	-	Microhomology-mediated
19affd7a-3254-11e6-bf41-357a7872c165	10_35035043_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	35035043	GA	G	660	PASS	PARD3	Del	intronic	1	9	MSH6	child	10_35035043_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
19b0c0fa-3256-11e6-81f9-42f212ae24cf	17_50234376_GGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	17	50234376	G	GA	780	PASS	CA10	Ins	intronic	1	2	MSH6	child	17_50234376_GGA_MSH6	1	1	-	-	-	-	Ins
19b35cf4-3326-11e6-95a6-476ac042253c	3_81010899_CAC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	3	81010899	CA	C	480	PASS	-	Del	-	1	8	CHK2	child	3_81010899_CAC_CHK2	1	1	1	A	7	A	Repeat-mediated
19b5da36-328d-11e6-bd84-429305ad5bc4	1_211648432_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	211648432	GT	G	900	PASS	RD3	Del	downstream	1	7	MSH6	child	1_211648432_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
19bcb0aa-328c-11e6-8256-94c36f39e758	17_28568044_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	28568044	GT	G	420	PASS	-	Del	-	1	8	MSH6	child	17_28568044_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
19e6e106-329e-11e6-b696-dd6225c9da85	5_62285723_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	62285723	TA	T	540	PASS	-	Del	-	1	7	MSH6	child	5_62285723_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
19e72c54-328c-11e6-8106-81c36f39e758	19_30664714_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	30664714	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	19_30664714_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
19f2ec72-3324-11e6-a066-657f12ae24cf	X_65551968_CATC	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	X	65551968	CAT	C	300	PASS	-	Del	-	2	5	POLE	child	X_65551968_CATC_POLE	2	2	2	AT	4	AT	Repeat-mediated
19f70e84-3279-11e6-a391-f6d67d6a9fc7	6_110212068_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	110212068	GT	G	540	PASS	-	Del	-	1	7	MSH6	child	6_110212068_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
19f845f4-3285-11e6-a1ac-fd6da2c71c31	13_84641794_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	84641794	TA	T	300	PASS	-	Del	-	1	3	MSH6	child	13_84641794_TAT_MSH6	1	1	1	A	2	A	Repeat-mediated
19fe1816-327c-11e6-a391-f6d67d6a9fc7	6_146764738_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	146764738	T	TA	480	PASS	-	Ins	-	1	9	MSH6	child	6_146764738_TTA_MSH6	1	1	-	-	-	-	Ins
19fe70f6-327a-11e6-9e0f-7959cab49462	7_150249221_GGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	150249221	G	GA	720	PASS	-	Ins	-	1	6	MSH6	child	7_150249221_GGA_MSH6	1	1	-	-	-	-	Ins
1a0d7a84-325b-11e6-8b28-55ad7872c165	20_34957033_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	34957033	GT	G	600	PASS	DLGAP4	Del	intronic	1	7	MSH6	child	20_34957033_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
1a114976-3255-11e6-8ebc-3ef212ae24cf	15_75663094_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	75663094	GA	G	420	PASS	SIN3A	Del	3prime_UTR_variant	1	7	MSH6	child	15_75663094_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
1a183164-3327-11e6-afff-8a61fc77b11e	7_114259676_TAT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	7	114259676	TA	T	480	PASS	FOXP2	Del	intronic	1	4	EXO1	child	7_114259676_TAT_EXO1	1	1	1	A	3	A	Repeat-mediated
1a18430e-3276-11e6-bfcc-6defed3c4f5d	2_205450048_CTCTTC	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	2	205450048	CTCTT	C	360	PASS	PARD3B	Del	intronic	4	3	NEIL1	child	2_205450048_CTCTTC_NEIL1	4	4	4	TCTT	2	TCTT	Repeat-mediated
1a1dcdac-3293-11e6-92cf-bf2a0e01a414	6_99398985_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	99398985	G	GT	420	PASS	FBXL4	Ins	upstream	1	7	MSH6	child	6_99398985_GGT_MSH6	1	1	-	-	-	-	Ins
1a1f9990-3291-11e6-b3a9-d5afe7d0bdd7	4_95251585_CTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	4	95251585	CT	C	300	PASS	HPGDS	Del	intronic	1	8	FANCC	child	4_95251585_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
1a23e412-3275-11e6-a862-bc9becf1e924	1_182911067_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	182911067	TA	T	360	PASS	SHCBP1L	Del	intronic	1	8	MSH6	child	1_182911067_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
1a3586ce-326e-11e6-9003-ae204b47a305	19_6414075_GGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	6414075	G	GA	300	PASS	KHSRP	Ins	3prime_UTR_variant	1	9	MSH6	child	19_6414075_GGA_MSH6	1	1	-	-	-	-	Ins
1a380cc2-326f-11e6-bfba-13bf4a47a305	9_74232518_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	74232518	GA	G	300	PASS	-	Del	-	1	7	MSH6	child	9_74232518_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
1a398fde-3288-11e6-a5b3-3f1ebce6aa09	7_155562117_AGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	155562117	AG	A	540	PASS	RBM33	Del	intronic	1	6	MSH6	child	7_155562117_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
1a466d7c-3273-11e6-b332-88ba7d6a9fc7	15_56239395_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	56239395	CA	C	628	PASS	NEDD4	Del	intronic	1	6	MSH6	child	15_56239395_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
1a4b2d20-3274-11e6-9210-65fa620e6611	5_164265915_CTC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	5	164265915	CT	C	540	PASS	-	Del	-	1	9	EXO1	parent	5_164265915_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
1a52775e-3271-11e6-88fb-e99ffa52e078	11_46250995_ATGTA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	11	46250995	ATGT	A	345	PASS	-	Del	-	3	2	CHK2	child	11_46250995_ATGTA_CHK2	3	3	3	TGT	1	TGT	Repeat-mediated
1a5aa420-3284-11e6-845d-6b29bce6aa09	X_137963528_CCA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	X	137963528	C	CA	300	PASS	FGF13	Ins	intronic	1	7	POLM	child	X_137963528_CCA_POLM	1	1	-	-	-	-	Ins
1a5f0dec-326d-11e6-adc2-b7204b47a305	18_43210602_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	43210602	CA	C	360	PASS	SLC14A2	Del	intronic	1	7	MSH6	child	18_43210602_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
1a606218-3322-11e6-ada4-b8297e6a9fc7	13_47825986_ATA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	13	47825986	AT	A	600	PASS	-	Del	-	1	7	EXO1	child	13_47825986_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
1a6a8c4e-328b-11e6-a380-15ec54de4fc4	1_205315289_GTGTCG	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	1	205315289	GTGTC	G	420	PASS	KLHDC8A	Del	intronic	4	1	CHK2	child	1_205315289_GTGTCG_CHK2	4	4	3	TGT	0	-	Microhomology-mediated
1a6b7cb0-3274-11e6-8165-0dc17872c165	9_123149952_AAT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	9	123149952	A	AT	360	PASS	CDK5RAP2	Ins	downstream	1	2	NEIL1	child	9_123149952_AAT_NEIL1	1	1	-	-	-	-	Ins
1a6d52ba-3283-11e6-aa13-78428e4678dd	5_38645412_GTG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	5	38645412	GT	G	600	PASS	-	Del	-	1	4	EXO1	child	5_38645412_GTG_EXO1	1	1	1	T	3	T	Repeat-mediated
1a8725fe-3270-11e6-aa96-e6b97872c165	15_72765146_AAACA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	15	72765146	AAAC	A	420	PASS	ARIH1	Del	upstream	3	6	NEIL1	child	15_72765146_AAACA_NEIL1	3	3	3	AAC	5	AAC	Repeat-mediated
1a8780b4-328c-11e6-88c1-95c36f39e758	14_54919096_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	54919096	CA	C	540	PASS	-	Del	-	1	9	MSH6	child	14_54919096_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
1a89a28a-3283-11e6-9ece-78393dc9300a	11_134668213_CTC	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	11	134668213	CT	C	720	PASS	-	Del	-	1	9	NEIL1	parent	11_134668213_CTC_NEIL1	1	1	1	T	8	T	Repeat-mediated
1a8e656e-328c-11e6-8256-94c36f39e758	17_28772482_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	28772482	TA	T	600	PASS	CPD	Del	intronic	1	8	MSH6	child	17_28772482_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
1a8f6660-329d-11e6-aca6-b39fcc638e3d	2_214629242_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	214629242	AT	A	540	PASS	SPAG16	Del	intronic	1	8	MSH6	child	2_214629242_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
1a8f6f7e-328a-11e6-8909-3ebb38e8a824	9_120746341_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	9	120746341	CT	C	720	PASS	-	Del	-	1	8	NUDT1	parent	9_120746341_CTC_NUDT1	1	1	1	T	7	T	Repeat-mediated
1a9eed20-3292-11e6-9401-04ed6f39e758	3_149404412_TACT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	149404412	TAC	T	780	PASS	WWTR1	Del	intronic	2	6	MSH6	child	3_149404412_TACT_MSH6	2	2	2	AC	5	AC	Repeat-mediated
1aa300e0-326f-11e6-bfba-13bf4a47a305	9_74343929_AGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	74343929	AG	A	300	PASS	TMEM2	Del	intronic	1	5	MSH6	child	9_74343929_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
1aa8dbca-3281-11e6-9e64-c48569062303	13_25920401_CTC	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	13	25920401	CT	C	480	PASS	NUPL1	Del	downstream	1	8	POLE	parent	13_25920401_CTC_POLE	1	1	1	T	7	T	Repeat-mediated
1aaf6762-3270-11e6-b923-6726694da5d2	5_46338769_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	46338769	GT	G	300	PASS	-	Del	-	1	5	MSH6	child	5_46338769_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
1ac3bffa-329d-11e6-ae71-0c5325c9da85	1_189972382_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	189972382	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	1_189972382_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
1ac7bf10-3289-11e6-b9eb-c78fa2c71c31	6_124927427_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	124927427	CT	C	480	PASS	NKAIN2	Del	intronic	1	8	MSH6	child	6_124927427_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
1ac8d416-3290-11e6-9401-04ed6f39e758	3_8940736_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	8940736	GA	G	540	PASS	RAD18	Del	splice_region	1	6	MSH6	child	3_8940736_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
1acf6528-3273-11e6-826a-adb6fa52e078	17_41017565_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	17	41017565	CA	C	720	PASS	-	Del	-	1	8	MSH6	child	17_41017565_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
1ad14540-3256-11e6-ad95-79832aaffa45	15_97765506_GTG	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	15	97765506	GT	G	365	PASS	-	Del	-	1	1	POLM	child	15_97765506_GTG_POLM	1	1	0	-	0	T	None
1ad538c4-3325-11e6-841a-c49690e2c2e6	6_26580944_AAGA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	6	26580944	AAG	A	300	PASS	-	Del	-	2	3	POLE	child	6_26580944_AAGA_POLE	2	2	2	AG	2	AG	Repeat-mediated
1ada10c4-3271-11e6-b5d9-38f41da8ec0e	15_34420368_TGTAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	15	34420368	TGTA	T	660	PASS	-	Del	-	3	2	FANCC	child	15_34420368_TGTAT_FANCC	3	3	3	GTA	1	GTA	Repeat-mediated
1adae3f0-329e-11e6-b549-1e5325c9da85	10_124895626_GGC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	124895626	G	GC	540	PASS	HMX3	Ins	frameshift	1	7	MSH6	child	10_124895626_GGC_MSH6	1	1	-	-	-	-	Ins
1adbe954-329d-11e6-bc2c-2a5e25c9da85	4_12806880_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	12806880	AT	A	720	PASS	-	Del	-	1	7	MSH6	child	4_12806880_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
1aee5802-325a-11e6-8340-da9012ae24cf	6_111153056_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	111153056	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	6_111153056_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
1af1cbe8-328e-11e6-ab9a-705238e8a824	18_41893830_CTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	18	41893830	CT	C	420	PASS	-	Del	-	1	4	FANCC	child	18_41893830_CTC_FANCC	1	1	1	T	3	T	Repeat-mediated
1af9c54c-3292-11e6-92cf-bf2a0e01a414	6_26149859_CCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	26149859	C	CT	360	PASS	-	Ins	-	1	7	MSH6	child	6_26149859_CCT_MSH6	1	1	-	-	-	-	Ins
1afc1f32-3291-11e6-9432-c0e56f39e758	5_178331015_AGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	178331015	AG	A	300	PASS	ZFP2	Del	intronic	1	1	MSH6	child	5_178331015_AGA_MSH6	1	1	0	-	0	G	None
1b03cdb6-328e-11e6-ace9-29a5e7d0bdd7	16_34743483_TAT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	16	34743483	TA	T	780	PASS	RP11-80F22.15	Del	upstream	1	9	FANCC	child	16_34743483_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
1b16e27c-3273-11e6-abaf-4642cab49462	6_106459693_ACA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	106459693	AC	A	300	PASS	-	Del	-	1	5	MSH6	child	6_106459693_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
1b1a9a92-3292-11e6-9401-04ed6f39e758	3_149573423_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	149573423	AT	A	540	PASS	RNF13	Del	intronic	1	8	MSH6	child	3_149573423_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
1b1e5b04-3289-11e6-8580-eccd191589db	16_10230153_TGAAGGCT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	16	10230153	TGAAGGC	T	420	PASS	GRIN2A	Del	intronic	6	1	FANCC	child	16_10230153_TGAAGGCT_FANCC	6	6	3	GAA	0	-	Microhomology-mediated
1b21cd78-329f-11e6-ae71-0c5325c9da85	1_38328109_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	38328109	G	GA	360	PASS	INPP5B	Ins	splice_region	1	5	MSH6	child	1_38328109_GGA_MSH6	1	1	-	-	-	-	Ins
1b225f5a-328a-11e6-8353-a446fd44d094	1_114518139_ATA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	1	114518139	AT	A	420	PASS	HIPK1	Del	3prime_UTR_variant	1	9	FANCC	child	1_114518139_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
1b2f50a6-3272-11e6-8418-1c5942c4520d	3_197722613_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	197722613	CA	C	480	PASS	LMLN	Del	intronic	1	7	MSH6	child	3_197722613_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
1b3a44c8-3292-11e6-b01f-c8b64430f757	6_155997178_ATGA	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	6	155997178	ATG	A	780	PASS	-	Del	-	2	1	POLE	child	6_155997178_ATGA_POLE	2	2	1	T	0	-	Microhomology-mediated
1b3cda22-3282-11e6-989b-28bd9b6d3b88	12_128345389_ATA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	12	128345389	AT	A	660	PASS	-	Del	-	1	1	EXO1	child	12_128345389_ATA_EXO1	1	1	0	-	0	T	None
1b3e0376-3272-11e6-8418-1c5942c4520d	3_197734156_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	197734156	GT	G	420	PASS	LMLN	Del	intronic	1	7	MSH6	child	3_197734156_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
1b4545de-3275-11e6-b6cd-6bb47098ee92	21_31161305_ACATGGCCCATTA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	21	31161305	ACATGGCCCATT	A	480	PASS	GRIK1	Del	intronic	11	1	FANCC	child	21_31161305_ACATGGCCCATTA_FANCC	11	>=10	0	-	0	-	None
1b4ba16a-329b-11e6-b129-195325c9da85	16_56450232_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	56450232	GA	G	420	PASS	AMFR	Del	intronic	1	8	MSH6	child	16_56450232_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
1b532ee4-3273-11e6-a862-bc9becf1e924	1_42841840_TCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	42841840	TC	T	660	PASS	RIMKLA	Del	upstream	1	1	MSH6	child	1_42841840_TCT_MSH6	1	1	0	-	0	C	None
1b53d1aa-329b-11e6-9048-b49fcc638e3d	17_54563686_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	54563686	CT	C	480	PASS	ANKFN1	Del	downstream	1	7	MSH6	child	17_54563686_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
1b59eea8-3275-11e6-ab69-1c1607e9a829	9_33147261_TTCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	33147261	TTC	T	420	PASS	B4GALT1	Del	intronic	2	1	MSH6	child	9_33147261_TTCT_MSH6	2	2	0	-	0	-	None
1b5fd892-328c-11e6-ba7b-64cc977b3f23	18_53605047_ATTTATTCTA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	18	53605047	ATTTATTCT	A	480	PASS	CTD-2008L17.1	Del	intronic	8	1	NEIL1	child	18_53605047_ATTTATTCTA_NEIL1	8	8	6	TTTATT	0	-	Microhomology-mediated
1b6172d4-3286-11e6-931c-baa482d12d16	3_78160397_TTA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	3	78160397	T	TA	360	PASS	-	Ins	-	1	9	FANCC	child	3_78160397_TTA_FANCC	1	1	-	-	-	-	Ins
1b67e558-3270-11e6-9dd9-e411987b3f23	2_109606279_GGAG	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	2	109606279	GGA	G	280	PASS	EDAR	Del	upstream	2	1	NEIL1	child	2_109606279_GGAG_NEIL1	2	2	0	-	0	-	None
1b719b24-328a-11e6-821d-8c090e01a414	13_69750161_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	69750161	GA	G	420	PASS	-	Del	-	1	8	MSH6	child	13_69750161_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
1b745d46-3258-11e6-885f-d1947872c165	4_139375733_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	139375733	CA	C	480	PASS	-	Del	-	1	6	MSH6	child	4_139375733_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
1b80ad24-3291-11e6-9413-6a7219a91649	5_28856097_ATA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	5	28856097	AT	A	300	PASS	-	Del	-	1	9	NEIL1	child	5_28856097_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
1b818f5c-329e-11e6-a0ea-135325c9da85	15_72814894_TTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	72814894	T	TA	420	PASS	ARIH1	Ins	intronic	1	7	MSH6	child	15_72814894_TTA_MSH6	1	1	-	-	-	-	Ins
1b82ec58-328f-11e6-9432-c0e56f39e758	5_35299001_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	35299001	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	5_35299001_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
1b980898-326e-11e6-b306-b5204b47a305	2_133169914_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	133169914	TA	T	300	PASS	GPR39	Del	upstream	1	9	MSH6	child	2_133169914_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
1ba04b8e-32a0-11e6-ae71-0c5325c9da85	1_101808391_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	101808391	C	CA	840	PASS	RP11-157N3.1	Ins	intronic	1	1	MSH6	child	1_101808391_CCA_MSH6	1	1	-	-	-	-	Ins
1ba2a018-328d-11e6-bd84-429305ad5bc4	1_212388121_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	212388121	GA	G	300	PASS	-	Del	-	1	8	MSH6	child	1_212388121_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
1bac891a-3275-11e6-ac11-cc1ed9b4fa2c	14_45867608_GAG	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	14	45867608	GA	G	600	PASS	-	Del	-	1	7	POLM	child	14_45867608_GAG_POLM	1	1	1	A	6	A	Repeat-mediated
1bacb27c-3271-11e6-8fc7-e8702aaffa45	9_83570310_GAG	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	9	83570310	GA	G	360	PASS	-	Del	-	1	8	POLM	child	9_83570310_GAG_POLM	1	1	1	A	7	A	Repeat-mediated
1bad55f0-3290-11e6-b805-77090e01a414	2_199301524_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	199301524	G	GT	360	PASS	-	Ins	-	1	5	MSH6	child	2_199301524_GGT_MSH6	1	1	-	-	-	-	Ins
1bae6ecc-3286-11e6-8b67-086ea2c71c31	1_152107913_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	152107913	GT	G	720	PASS	-	Del	-	1	9	MSH6	child	1_152107913_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
1bb1160e-329f-11e6-aca6-b39fcc638e3d	2_89070905_TTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	89070905	T	TA	600	PASS	-	Ins	-	1	6	MSH6	child	2_89070905_TTA_MSH6	1	1	-	-	-	-	Ins
1bb89cb4-3289-11e6-a8ac-a28ea2c71c31	3_146722931_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	146722931	GT	G	600	PASS	-	Del	-	1	8	MSH6	child	3_146722931_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
1bc25996-3272-11e6-9065-cc4890e2c2e6	1_68103523_CATC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	1	68103523	CAT	C	480	PASS	-	Del	-	2	1	MSH6	parent	1_68103523_CATC_MSH6	2	2	1	A	0	-	Microhomology-mediated
1bc26ee2-328e-11e6-bfa2-581f0e01a414	7_84557686_TACT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	84557686	TAC	T	300	PASS	-	Del	-	2	3	MSH6	child	7_84557686_TACT_MSH6	2	2	2	AC	2	AC	Repeat-mediated
1bc566ba-3275-11e6-a93d-2de179852e0e	22_33710706_AGA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	22	33710706	AG	A	300	PASS	LARGE	Del	intronic	1	6	FANCC	child	22_33710706_AGA_FANCC	1	1	1	G	5	G	Repeat-mediated
1bcbc224-329a-11e6-b549-1e5325c9da85	10_14618441_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	14618441	AT	A	720	PASS	FAM107B	Del	intronic	1	3	MSH6	child	10_14618441_ATA_MSH6	1	1	1	T	2	T	Repeat-mediated
1bd0d89c-3275-11e6-b439-e34b3cfdbd24	2_37099026_GGA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	2	37099026	G	GA	600	PASS	STRN	Ins	intronic	1	7	MSH6	parent	2_37099026_GGA_MSH6	1	1	-	-	-	-	Ins
1bd15dbe-328c-11e6-aa75-90c36f39e758	13_53771618_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	53771618	AT	A	720	PASS	-	Del	-	1	9	MSH6	child	13_53771618_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
1bd1cafc-329a-11e6-b549-1e5325c9da85	10_14620502_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	14620502	GA	G	600	PASS	FAM107B	Del	intronic	1	8	MSH6	child	10_14620502_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
1bd8698e-3277-11e6-aad4-1aca35cec73b	X_97025440_TTTGCTGC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	X	97025440	T	TTGCTGC	420	PASS	-	Ins	-	6	0	CHK2	child	X_97025440_TTTGCTGC_CHK2	6	6	-	-	-	-	Ins
1bd8c662-328c-11e6-ac7a-a3c36f39e758	18_40080805_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	40080805	GA	G	840	PASS	LINC00907	Del	intronic	1	9	MSH6	child	18_40080805_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
1be4dff0-326f-11e6-b5b8-e0c24a47a305	X_6754191_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	6754191	GT	G	480	PASS	-	Del	-	1	6	MSH6	child	X_6754191_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
1beeec58-3322-11e6-8ccd-5c056323ba5a	2_32233012_GACTCG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	2	32233012	GACTC	G	840	PASS	MEMO1	Del	intronic	4	1	EXO1	child	2_32233012_GACTCG_EXO1	4	4	0	-	0	-	None
1bf6d3d4-328f-11e6-8e48-791e0e01a414	8_100270536_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	100270536	CT	C	300	PASS	VPS13B	Del	intronic	1	8	MSH6	child	8_100270536_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
1bfda1be-3276-11e6-9e0f-7959cab49462	7_45473391_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	45473391	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	7_45473391_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
1c03cb54-326f-11e6-9f48-94df41c4520d	12_58389497_CCAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	58389497	C	CAT	420	PASS	-	Ins	-	2	4	MSH6	child	12_58389497_CCAT_MSH6	2	2	-	-	-	-	Ins
1c057466-3294-11e6-89b3-f12a3dc9300a	15_95490675_CAC	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	15	95490675	CA	C	480	PASS	-	Del	-	1	6	POLB	child	15_95490675_CAC_POLB	1	1	1	A	5	A	Repeat-mediated
1c07c3a8-328d-11e6-b537-8a5c694da5d2	13_68940652_CTGC	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	13	68940652	CTG	C	300	PASS	-	Del	-	2	1	POLM	child	13_68940652_CTGC_POLM	2	2	1	T	0	-	Microhomology-mediated
1c0ce128-3272-11e6-991b-161a987b3f23	X_57185873_ATA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	X	57185873	AT	A	407	PASS	-	Del	-	1	4	NEIL1	child	X_57185873_ATA_NEIL1	1	1	1	T	3	T	Repeat-mediated
1c11719c-3278-11e6-a47c-77abeab8d062	5_137155570_AGA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	5	137155570	AG	A	300	PASS	-	Del	-	1	1	EXO1	child	5_137155570_AGA_EXO1	1	1	0	-	0	G	None
1c17cd32-329e-11e6-ae71-0c5325c9da85	1_246480616_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	246480616	CT	C	540	PASS	SMYD3	Del	intronic	1	6	MSH6	child	1_246480616_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
1c1f7c96-328d-11e6-8e48-791e0e01a414	8_39661072_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	39661072	TA	T	300	PASS	ADAM2	Del	intronic	1	6	MSH6	child	8_39661072_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
1c22518e-329a-11e6-b549-1e5325c9da85	10_14678820_GCTCG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	14678820	GCTC	G	900	PASS	FAM107B	Del	intronic	3	1	MSH6	child	10_14678820_GCTCG_MSH6	3	3	2	CT	0	-	Microhomology-mediated
1c338da4-328c-11e6-bd84-429305ad5bc4	1_72196705_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	72196705	CT	C	660	PASS	NEGR1	Del	intronic	1	7	MSH6	child	1_72196705_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
1c353dde-328c-11e6-9c89-8d090e01a414	1_167368610_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	167368610	TA	T	300	PASS	POU2F1	Del	splice_region	1	6	MSH6	child	1_167368610_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
1c368122-329a-11e6-8069-175325c9da85	12_14064138_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	14064138	GA	G	720	PASS	GRIN2B	Del	intronic	1	9	MSH6	child	12_14064138_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
1c387c3c-326f-11e6-a576-d8f3eab8d062	17_10508830_CAGGC	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	17	10508830	CAGG	C	300	PASS	-	Del	-	3	2	NUDT1	child	17_10508830_CAGGC_NUDT1	3	3	3	AGG	1	AGG	Repeat-mediated
1c417be4-3273-11e6-a5d0-4fd14a47a305	2_61851219_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	61851219	TA	T	720	PASS	-	Del	-	1	8	MSH6	child	2_61851219_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
1c474840-3277-11e6-92d2-c259c225ee11	3_55403460_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	55403460	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	3_55403460_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
1c4b058c-328d-11e6-8e48-791e0e01a414	8_39781956_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	39781956	GT	G	540	PASS	IDO1	Del	intronic	1	9	MSH6	child	8_39781956_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
1c4d84ae-328a-11e6-94b1-74090e01a414	17_41993565_GCG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	41993565	GC	G	540	PASS	FAM215A	Del	upstream	1	6	MSH6	child	17_41993565_GCG_MSH6	1	1	1	C	5	C	Repeat-mediated
1c52d00a-3274-11e6-85f4-61dd6de4ab00	13_46570328_AATA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	13	46570328	AAT	A	900	PASS	ZC3H13	Del	intronic	2	2	NEIL1	child	13_46570328_AATA_NEIL1	2	2	2	AT	1	AT	Repeat-mediated
1c591ab8-328e-11e6-b9c4-751d0e01a414	5_125271138_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	125271138	GA	G	480	PASS	-	Del	-	1	7	MSH6	child	5_125271138_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
1c648302-3285-11e6-95c7-6dfa4430f757	11_98044783_ATA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	11	98044783	AT	A	780	PASS	-	Del	-	1	1	EXO1	child	11_98044783_ATA_EXO1	1	1	0	-	0	T	None
1c677af4-328e-11e6-8f31-bfe16f39e758	9_14457319_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	14457319	TA	T	468	PASS	-	Del	-	1	7	MSH6	child	9_14457319_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
1c692902-3285-11e6-8dac-d9fc137bb207	5_84297289_TAT	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	5	84297289	TA	T	600	PASS	-	Del	-	1	9	FANCC	child	5_84297289_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
1c6e04d0-329a-11e6-ae71-0c5325c9da85	1_15868805_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	15868805	CA	C	540	PASS	DNAJC16	Del	intronic	1	8	MSH6	child	1_15868805_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
1c708c08-3328-11e6-9673-d7281daa6045	X_7476835_GTG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	X	7476835	GT	G	540	PASS	-	Del	-	1	9	EXO1	child	X_7476835_GTG_EXO1	1	1	1	T	8	T	Repeat-mediated
1c71513c-32a2-11e6-aea7-956725c9da85	3_36072870_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	36072870	A	AT	480	PASS	-	Ins	-	1	8	MSH6	child	3_36072870_AAT_MSH6	1	1	-	-	-	-	Ins
1c7b3b2e-327b-11e6-b554-cb0a0e01a414	16_32946371_TTA	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	16	32946371	T	TA	442	PASS	-	Ins	-	1	1	FANCC	parent	16_32946371_TTA_FANCC	1	1	-	-	-	-	Ins
1c80d548-3325-11e6-9271-15989d7ad846	5_124702714_ATA	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	5	124702714	AT	A	540	PASS	RP11-395P13.3	Del	downstream	1	9	CHK2	child	5_124702714_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
1c826592-326d-11e6-9f48-94df41c4520d	12_43158606_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	43158606	AT	A	540	PASS	-	Del	-	1	8	MSH6	child	12_43158606_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
1c827c2c-3285-11e6-97d5-6cf1bbe6aa09	17_55954833_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	55954833	GA	G	660	PASS	CUEDC1	Del	intronic	1	9	MSH6	child	17_55954833_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
1c86cc12-3287-11e6-bc08-5710147bb207	3_163236453_ATA	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	3	163236453	AT	A	360	PASS	-	Del	-	1	7	FANCC	child	3_163236453_ATA_FANCC	1	1	1	T	6	T	Repeat-mediated
1c896158-3290-11e6-9d97-efe56f39e758	4_100549101_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	100549101	GT	G	540	PASS	MTTP	Del	downstream	1	9	MSH6	child	4_100549101_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
1c8f0574-3275-11e6-bfcc-6defed3c4f5d	2_115840814_CTC	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	2	115840814	CT	C	540	PASS	DPP10	Del	intronic	1	8	NEIL1	child	2_115840814_CTC_NEIL1	1	1	1	T	7	T	Repeat-mediated
1c97fac4-3281-11e6-8857-3d859cdf095d	18_35517240_ATTCCTTGA	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	18	35517240	ATTCCTTG	A	480	PASS	-	Del	-	7	1	POLE	child	18_35517240_ATTCCTTGA_POLE	7	7	0	-	0	-	None
1c9949a6-3272-11e6-b630-aeceb41afd22	17_71711449_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	17	71711449	AT	A	600	PASS	-	Del	-	1	7	FANCC	child	17_71711449_ATA_FANCC	1	1	1	T	6	T	Repeat-mediated
1ca9d4f0-3273-11e6-aa3b-ca60a178171f	13_66882659_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	66882659	AT	A	720	PASS	PCDH9	Del	intronic	1	7	MSH6	child	13_66882659_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
1cab634e-328f-11e6-92cf-bf2a0e01a414	6_23521934_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	23521934	CA	C	780	PASS	-	Del	-	1	9	MSH6	child	6_23521934_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
1cb6c504-327b-11e6-92d2-c259c225ee11	3_147621640_GGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	147621640	G	GA	360	PASS	-	Ins	-	1	8	MSH6	child	3_147621640_GGA_MSH6	1	1	-	-	-	-	Ins
1cbcc178-3273-11e6-a42e-2f51e7d0bdd7	1_17691309_TAT	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	1	17691309	TA	T	360	PASS	PADI4	Del	downstream	1	9	POLB	child	1_17691309_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
1cc5db98-3271-11e6-b62b-e162a78019ab	8_114377551_CATC	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	8	114377551	CAT	C	720	PASS	CSMD3	Del	intronic	2	1	POLM	parent	8_114377551_CATC_POLM	2	2	1	A	0	-	Microhomology-mediated
1cd37a7c-3286-11e6-b19c-6afa4430f757	1_182174141_CAC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	1	182174141	CA	C	420	PASS	GS1-122H1.2	Del	intronic	1	4	EXO1	child	1_182174141_CAC_EXO1	1	1	1	A	3	A	Repeat-mediated
1cd86e28-3291-11e6-9d97-efe56f39e758	4_167635506_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	167635506	GT	G	480	PASS	-	Del	-	1	6	MSH6	child	4_167635506_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
1cdbb874-3324-11e6-85fa-8f2b51c54cdd	7_54995835_TAGT	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	7	54995835	TAG	T	300	PASS	-	Del	-	2	5	CHK2	parent	7_54995835_TAGT_CHK2	2	2	2	AG	4	AG	Repeat-mediated
1cdcaf4a-3324-11e6-a56f-7e1a2eaed38e	21_16778590_TGT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	21	16778590	TG	T	600	PASS	AJ006998.2	Del	upstream	1	2	EXO1	child	21_16778590_TGT_EXO1	1	1	1	G	1	G	Repeat-mediated
1cdd07bc-3273-11e6-b332-88ba7d6a9fc7	15_56857123_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	56857123	CA	C	594	PASS	-	Del	-	1	8	MSH6	child	15_56857123_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
1ce3f2e4-3290-11e6-ba05-bfb14430f757	X_130604960_CTC	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	X	130604960	CT	C	460	PASS	-	Del	-	1	9	POLE	child	X_130604960_CTC_POLE	1	1	1	T	8	T	Repeat-mediated
1ce5e938-3325-11e6-9271-15989d7ad846	5_124806233_ATA	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	5	124806233	AT	A	480	PASS	-	Del	-	1	7	CHK2	child	5_124806233_ATA_CHK2	1	1	1	T	6	T	Repeat-mediated
1cea24c4-329b-11e6-bda6-065325c9da85	13_99959160_CCTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	99959160	CCT	C	360	PASS	UBAC2	Del	intronic	2	1	MSH6	child	13_99959160_CCTC_MSH6	2	2	0	-	0	-	None
1ced0d68-3293-11e6-9432-c0e56f39e758	5_159443404_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	159443404	T	TA	360	PASS	TTC1	Ins	intronic	1	5	MSH6	child	5_159443404_TTA_MSH6	1	1	-	-	-	-	Ins
1cf0f49e-3290-11e6-9d24-ade56f39e758	7_100742202_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	100742202	CT	C	300	PASS	-	Del	-	1	7	MSH6	child	7_100742202_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
1cfe70a2-328f-11e6-b6a6-1f1e0e01a414	4_165407347_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	165407347	GA	G	300	PASS	-	Del	-	1	5	MSH6	child	4_165407347_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
1d046520-3276-11e6-b48f-cc371daa6045	9_38148366_CTC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	9	38148366	CT	C	900	PASS	-	Del	-	1	7	EXO1	child	9_38148366_CTC_EXO1	1	1	1	T	6	T	Repeat-mediated
1d0bf164-3276-11e6-8eca-83e079852e0e	11_96221651_CCTGAAAGTGACATTTGAT	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	11	96221651	CCTGAAAGTGA	CATTTGAT	300	PASS	JRKL-AS1	Complex	intronic	10	0	POLM	child	11_96221651_CCTGAAAGTGACATTTGAT_POLM	3	3	-	-	-	-	Complex
1d1098f4-328a-11e6-a380-15ec54de4fc4	1_93356852_GTG	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	1	93356852	GT	G	300	PASS	FAM69A	Del	intronic	1	9	CHK2	child	1_93356852_GTG_CHK2	1	1	1	T	8	T	Repeat-mediated
1d113d26-326d-11e6-9d68-ac9acab49462	15_46153218_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	46153218	GT	G	300	PASS	RP11-718O11.1	Del	intronic	1	7	MSH6	child	15_46153218_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
1d15232e-328f-11e6-9d24-ade56f39e758	7_35796442_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	35796442	CA	C	540	PASS	AC007551.3	Del	intronic	1	5	MSH6	child	7_35796442_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
1d18a260-3271-11e6-8418-1c5942c4520d	3_111620360_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	111620360	TA	T	420	PASS	PHLDB2	Del	intronic	1	8	MSH6	child	3_111620360_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
1d19e45e-328f-11e6-8e48-791e0e01a414	8_100899976_AGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	100899976	AG	A	660	PASS	COX6C	Del	intronic	1	4	MSH6	child	8_100899976_AGA_MSH6	1	1	1	G	3	G	Repeat-mediated
1d1ff7ae-328f-11e6-8e48-791e0e01a414	8_100917667_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	100917667	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	8_100917667_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
1d28e742-3276-11e6-88aa-2d54a966024e	7_148967341_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	7	148967341	AT	A	336	PASS	ZNF783	Del	intronic	1	8	MSH6	parent	7_148967341_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
1d2d6038-3285-11e6-a8af-066ea2c71c31	15_64131547_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	64131547	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	15_64131547_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
1d34cfa2-3277-11e6-8440-785ac225ee11	20_38800372_TGGCTTAT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	20	38800372	TGGCTTA	T	900	PASS	-	Del	-	6	1	NUDT1	child	20_38800372_TGGCTTAT_NUDT1	6	6	2	GG	0	-	Microhomology-mediated
1d3bb0f6-3272-11e6-90e8-e7f6620e6611	19_54419484_GTG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	19	54419484	GT	G	600	PASS	CACNG7	Del	intronic	1	9	FANCC	child	19_54419484_GTG_FANCC	1	1	1	T	8	T	Repeat-mediated
1d3ee7d2-3347-11e6-94cb-be633cfdbd24	16_58605568_GAAGGGAGAAAAAGACAGTTAAAATAATAGGAGGCCGGGCATAGTGGCTCATGCCTGTGATCCCAGCACTTTGGGAGGCTGAGGCGAGTGGATCACTTGAGGTCAGGAGTTTGAGAGCAAAA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	16	58605568	GAAGGGAGAAAAAGACAGTTAAAATAATAGGAGGCCGGGCATAGTGGCTCATGCCTGTGATCCCAGCACTTTGGGAGGCTGAGGCGAGTGGATCACTTGAGGTCAGGAGTTTGAGA	GCAAAA	420	PASS	CNOT1	Complex	intronic	115	0	FANCC	child	16_58605568_GAAGGGAGAAAAAGACAGTTAAAATAATAGGAGGCCGGGCATAGTGGCTCATGCCTGTGATCCCAGCACTTTGGGAGGCTGAGGCGAGTGGATCACTTGAGGTCAGGAGTTTGAGAGCAAAA_FANCC	110	>=10	-	-	-	-	Complex
1d3ef020-328d-11e6-b548-9fc2cf376b51	6_90059852_CAC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	6	90059852	CA	C	1200	PASS	UBE2J1	Del	intronic	1	9	NUDT1	child	6_90059852_CAC_NUDT1	1	1	1	A	8	A	Repeat-mediated
1d416420-328f-11e6-bfa2-581f0e01a414	7_144241083_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	144241083	CT	C	360	PASS	TPK1	Del	intronic	1	9	MSH6	child	7_144241083_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
1d44145c-3291-11e6-9d97-efe56f39e758	4_167923859_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	167923859	TA	T	720	PASS	SPOCK3	Del	intronic	1	8	MSH6	child	4_167923859_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
1d5fafb0-3254-11e6-81f9-42f212ae24cf	17_28124949_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	17	28124949	GT	G	360	PASS	SSH2	Del	intronic	1	9	MSH6	child	17_28124949_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
1d6ce2be-3274-11e6-8655-1dc619a91649	19_42067655_AGA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	19	42067655	AG	A	540	PASS	-	Del	-	1	1	EXO1	child	19_42067655_AGA_EXO1	1	1	0	-	0	G	None
1d6ed4cc-3272-11e6-b306-b5204b47a305	2_223245200_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	223245200	C	CA	300	PASS	-	Ins	-	1	9	MSH6	child	2_223245200_CCA_MSH6	1	1	-	-	-	-	Ins
1d72d990-3273-11e6-9210-65fa620e6611	5_86731893_CTC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	5	86731893	CT	C	720	PASS	-	Del	-	1	7	EXO1	parent	5_86731893_CTC_EXO1	1	1	1	T	6	T	Repeat-mediated
1d72e4ac-3279-11e6-a391-f6d67d6a9fc7	6_111306052_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	111306052	CA	C	660	PASS	RPF2	Del	intronic	1	9	MSH6	child	6_111306052_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
1d7c4a3a-3272-11e6-abaf-4642cab49462	6_35070161_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	35070161	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	6_35070161_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
1d87cd82-3278-11e6-a76d-26961565c797	1_174931342_CCCA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	1	174931342	C	CCA	420	PASS	RABGAP1L	Ins	intronic	2	6	EXO1	child	1_174931342_CCCA_EXO1	2	2	-	-	-	-	Ins
1d902c9a-328f-11e6-9d41-3ba5e7d0bdd7	11_123535663_TTTATGAGGATTAAATAAGT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	11	123535663	TTTATGAGGATTAAATAAG	T	360	PASS	RP11-634B22.4	Del	upstream	18	1	FANCC	child	11_123535663_TTTATGAGGATTAAATAAGT_FANCC	18	>=10	3	TTA	0	-	Microhomology-mediated
1d90ed2c-3282-11e6-a5e9-0107694da5d2	7_137701914_TGT	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	7	137701914	TG	T	300	PASS	-	Del	-	1	4	NEIL1	child	7_137701914_TGT_NEIL1	1	1	1	G	3	G	Repeat-mediated
1d9650ca-3294-11e6-ae2c-d2ab9b6d3b88	3_16932785_ACCTA	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	3	16932785	ACCT	A	720	PASS	PLCL2	Del	intronic	3	2	NUDT1	child	3_16932785_ACCTA_NUDT1	3	3	3	CCT	1	CCT	Repeat-mediated
1d9b1608-3278-11e6-9019-27a01da8ec0e	6_148171977_GATCAGCTGTGGCAGTG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	6	148171977	GATCAGCTGTGGCAGT	G	300	PASS	RP11-307P5.1	Del	intronic	15	1	FANCC	child	6_148171977_GATCAGCTGTGGCAGTG_FANCC	15	>=10	3	ATC	0	-	Microhomology-mediated
1da201c8-328e-11e6-8f31-bfe16f39e758	9_14830636_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	14830636	CT	C	720	PASS	FREM1	Del	intronic	1	1	MSH6	child	9_14830636_CTC_MSH6	1	1	0	-	0	T	None
1da6b6a8-3254-11e6-b4d0-327a7872c165	11_38939358_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	38939358	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	11_38939358_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
1db196e0-3290-11e6-9432-c0e56f39e758	5_107532585_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	107532585	CT	C	660	PASS	FBXL17	Del	intronic	1	8	MSH6	child	5_107532585_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
1db7aa2a-32a0-11e6-94ca-0aaecc638e3d	X_6889112_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	6889112	C	CA	360	PASS	-	Ins	-	1	8	MSH6	child	X_6889112_CCA_MSH6	1	1	-	-	-	-	Ins
1dbf9fe0-3283-11e6-b2ac-df03987b3f23	12_109800965_CAC	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	12	109800965	CA	C	720	PASS	MYO1H	Del	intronic	1	8	NEIL1	parent	12_109800965_CAC_NEIL1	1	1	1	A	7	A	Repeat-mediated
1dcee362-329a-11e6-aca6-b39fcc638e3d	2_25250751_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	25250751	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	2_25250751_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
1dd54f8a-329b-11e6-a5cf-205325c9da85	11_77326713_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	77326713	GT	G	420	PASS	CLNS1A	Del	3prime_UTR_variant	1	8	MSH6	child	11_77326713_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
1dd7ce38-328f-11e6-9d24-ade56f39e758	7_36040781_TCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	36040781	TC	T	600	PASS	-	Del	-	1	6	MSH6	child	7_36040781_TCT_MSH6	1	1	1	C	5	C	Repeat-mediated
1de46d52-328d-11e6-919e-92c36f39e758	2_108140920_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	108140920	TA	T	360	PASS	AC096669.2	Del	intronic	1	9	MSH6	child	2_108140920_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
1de7eb7c-3273-11e6-94cc-1ec335cec73b	19_30715247_ACA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	30715247	AC	A	360	PASS	ZNF536	Del	upstream	1	5	MSH6	child	19_30715247_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
1dec2db8-3322-11e6-98d8-e3f9cf737e61	17_79045777_TCT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	17	79045777	TC	T	480	PASS	BAIAP2	Del	intronic	1	7	EXO1	child	17_79045777_TCT_EXO1	1	1	1	C	6	C	Repeat-mediated
1dec5936-326f-11e6-819e-9d1aa20b69d5	11_16617227_CAGGC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	11	16617227	CAGG	C	360	PASS	-	Del	-	3	1	EXO1	parent	11_16617227_CAGGC_EXO1	3	3	2	AG	0	-	Microhomology-mediated
1df254fe-328c-11e6-ae53-96c36f39e758	15_49437304_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	49437304	GA	G	720	PASS	COPS2	Del	intronic	1	7	MSH6	child	15_49437304_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
1dff4d20-32a1-11e6-b696-dd6225c9da85	5_78811949_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	78811949	C	CT	480	PASS	HOMER1	Ins	upstream	1	7	MSH6	child	5_78811949_CCT_MSH6	1	1	-	-	-	-	Ins
1e06fcf6-3322-11e6-bda0-2f6519a91649	12_129751933_TAACAT	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	12	129751933	TAACA	T	420	PASS	TMEM132D	Del	intronic	4	3	CHK2	child	12_129751933_TAACAT_CHK2	4	4	4	AACA	2	AACA	Repeat-mediated
1e248522-3274-11e6-826a-adb6fa52e078	17_19778621_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	17	19778621	A	AT	480	PASS	-	Ins	-	1	9	MSH6	child	17_19778621_AAT_MSH6	1	1	-	-	-	-	Ins
1e28fd66-3326-11e6-aa06-7ca120e7b7a8	7_33841366_GCGGGAA	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	7	33841366	GCGG	GAA	420	PASS	RP11-89N17.4	Complex	intronic	3	0	CHK2	child	7_33841366_GCGGGAA_CHK2	1	1	-	-	-	-	Complex
1e3a74f4-32a1-11e6-aea7-956725c9da85	3_177831903_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	177831903	GA	G	960	PASS	-	Del	-	1	9	MSH6	child	3_177831903_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
1e3c7afa-3275-11e6-a501-63cd7872c165	6_98740426_CTC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	6	98740426	CT	C	600	PASS	RP11-436D23.1	Del	intronic	1	8	NEIL1	child	6_98740426_CTC_NEIL1	1	1	1	T	7	T	Repeat-mediated
1e42962e-3289-11e6-8feb-e6ab6f39e758	3_124268134_CTC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	3	124268134	CT	C	360	PASS	KALRN	Del	intronic	1	8	EXO1	child	3_124268134_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
1e43822e-328d-11e6-938d-bbbd38e8a824	5_85143931_TTA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	5	85143931	T	TA	360	PASS	CTD-2036A18.2	Ins	upstream	1	5	NUDT1	parent	5_85143931_TTA_NUDT1	1	1	-	-	-	-	Ins
1e4f666a-3289-11e6-989a-645b51c54cdd	5_155984679_CAGAGAC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	5	155984679	CAGAGA	C	600	PASS	SGCD	Del	intronic	5	1	EXO1	child	5_155984679_CAGAGAC_EXO1	5	5	0	-	0	-	None
1e4ffd84-3282-11e6-989b-28bd9b6d3b88	12_129372827_CTC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	12	129372827	CT	C	720	PASS	GLT1D1	Del	intronic	1	7	EXO1	child	12_129372827_CTC_EXO1	1	1	1	T	6	T	Repeat-mediated
1e5397b0-3259-11e6-9d15-298312ae24cf	X_26886222_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	26886222	A	AT	260	PASS	-	Ins	-	1	5	MSH6	child	X_26886222_AAT_MSH6	1	1	-	-	-	-	Ins
1e5661aa-3279-11e6-9972-dabcecf1e924	3_135321917_ATA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	3	135321917	AT	A	600	PASS	-	Del	-	1	6	NEIL1	child	3_135321917_ATA_NEIL1	1	1	1	T	5	T	Repeat-mediated
1e68167c-3286-11e6-9efa-64528e4678dd	6_145048738_CAC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	6	145048738	CA	C	480	PASS	UTRN	Del	intronic	1	7	EXO1	child	6_145048738_CAC_EXO1	1	1	1	A	6	A	Repeat-mediated
1e6a84e4-3348-11e6-b0ff-c495e84777f6	10_27789776_GGACA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	10	27789776	G	GACA	300	PASS	RAB18	Ins	upstream	3	5	FANCC	child	10_27789776_GGACA_FANCC	3	3	-	-	-	-	Ins
1e6f9ba2-3323-11e6-be49-204207e9a829	1_163503396_AGA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	1	163503396	AG	A	300	PASS	-	Del	-	1	1	POLE	child	1_163503396_AGA_POLE	1	1	0	-	0	G	None
1e6ff7e6-3288-11e6-8734-49a538e8a824	15_68782389_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	15	68782389	AT	A	480	PASS	-	Del	-	1	8	NUDT1	parent	15_68782389_ATA_NUDT1	1	1	1	T	7	T	Repeat-mediated
1e7afd22-329b-11e6-b549-1e5325c9da85	10_75701439_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	75701439	CT	C	900	PASS	-	Del	-	1	8	MSH6	child	10_75701439_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
1e81a84c-3288-11e6-8404-8e1fbce6aa09	8_90773377_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	90773377	GT	G	420	PASS	RIPK2	Del	intronic	1	7	MSH6	child	8_90773377_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
1e81cbc0-328c-11e6-aa75-90c36f39e758	13_54699269_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	54699269	TA	T	660	PASS	LINC00458	Del	intronic	1	9	MSH6	child	13_54699269_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
1e8250e4-326f-11e6-bbd0-e88a64f80bad	16_5098794_GAG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	16	5098794	GA	G	360	PASS	C16orf89	Del	intronic	1	9	EXO1	parent	16_5098794_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
1e87e240-3321-11e6-a5ff-2d2ef7d33ce3	10_89467823_ATA	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	10	89467823	AT	A	360	PASS	PAPSS2	Del	intronic	1	6	CHK2	child	10_89467823_ATA_CHK2	1	1	1	T	5	T	Repeat-mediated
1e8d306e-327d-11e6-89da-51be4dc77248	15_70760322_CATC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	15	70760322	CAT	C	600	PASS	-	Del	-	2	1	NUDT1	child	15_70760322_CATC_NUDT1	2	2	1	A	0	-	Microhomology-mediated
1e8dd142-329e-11e6-bc66-17b4cc638e3d	8_40087902_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	40087902	AT	A	420	PASS	-	Del	-	1	7	MSH6	child	8_40087902_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
1e8e0754-328d-11e6-bfa2-581f0e01a414	7_26622594_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	26622594	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	7_26622594_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
1e957c48-329a-11e6-aca6-b39fcc638e3d	2_25392915_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	25392915	AT	A	720	PASS	POMC	Del	upstream	1	7	MSH6	child	2_25392915_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
1e997258-329f-11e6-94ca-0aaecc638e3d	X_95668363_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	95668363	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	X_95668363_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
1ea8cd8a-3285-11e6-a722-38d09b6d3b88	3_103665354_CAC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	3	103665354	CA	C	480	PASS	-	Del	-	1	4	EXO1	child	3_103665354_CAC_EXO1	1	1	1	A	3	A	Repeat-mediated
1ea9c2dc-3274-11e6-a6a8-746da178171f	4_2667419_TAT	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	4	2667419	TA	T	600	PASS	FAM193A	Del	intronic	1	9	NEIL1	child	4_2667419_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
1eaef358-3254-11e6-8ebc-3ef212ae24cf	15_49465859_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	49465859	GT	G	480	PASS	GALK2	Del	intronic	1	9	MSH6	child	15_49465859_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
1eb2bd9a-329e-11e6-bc66-17b4cc638e3d	8_40166216_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	40166216	TA	T	780	PASS	CTA-392C11.1	Del	intronic	1	8	MSH6	child	8_40166216_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
1ec76818-3270-11e6-8418-1c5942c4520d	3_15815179_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	15815179	GA	G	300	PASS	ANKRD28	Del	intronic	1	7	MSH6	child	3_15815179_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
1ed1d93c-3285-11e6-a0a8-096ea2c71c31	11_68060849_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	68060849	TA	T	420	PASS	-	Del	-	1	5	MSH6	child	11_68060849_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
1ed62fe8-3279-11e6-a391-f6d67d6a9fc7	6_111548336_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	111548336	GA	G	420	PASS	SLC16A10	Del	downstream	1	9	MSH6	child	6_111548336_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
1ee031c0-3272-11e6-90d3-9639fc77b11e	13_94708471_CTC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	13	94708471	CT	C	300	PASS	GPC6	Del	intronic	1	7	MSH6	parent	13_94708471_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
1ee53352-3293-11e6-a24a-86b34430f757	5_162210995_TTA	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	5	162210995	T	TA	300	PASS	-	Ins	-	1	8	POLE	child	5_162210995_TTA_POLE	1	1	-	-	-	-	Ins
1eeb6bfe-328f-11e6-9230-fb250e01a414	3_77247897_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	77247897	CA	C	300	PASS	ROBO2	Del	intronic	1	7	MSH6	child	3_77247897_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
1eebdb64-334f-11e6-911d-cdceb0dab373	9_103509504_AAGT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	9	103509504	A	AGT	720	PASS	-	Ins	-	2	0	FANCC	child	9_103509504_AAGT_FANCC	2	2	-	-	-	-	Ins
1eec6846-3290-11e6-8954-6972fc77b11e	4_125385135_ACTTTA	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	4	125385135	ACTTT	A	420	PASS	-	Del	-	4	1	POLE	child	4_125385135_ACTTTA_POLE	4	4	3	CTT	0	-	Microhomology-mediated
1eed24c2-3284-11e6-b996-7c3e51c54cdd	14_27300208_CGC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	14	27300208	CG	C	840	PASS	RP11-626P14.2	Del	intronic	1	7	EXO1	child	14_27300208_CGC_EXO1	1	1	1	G	6	G	Repeat-mediated
1eef7d92-3286-11e6-8b67-086ea2c71c31	1_153606850_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	153606850	GA	G	360	PASS	CHTOP	Del	intronic	1	1	MSH6	child	1_153606850_GAG_MSH6	1	1	0	-	0	A	None
1ef09084-3271-11e6-b89d-b2d6b0dab373	4_110386016_ATAGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	110386016	ATAG	A	360	PASS	SEC24B	Del	intronic	3	2	MSH6	child	4_110386016_ATAGA_MSH6	3	3	3	TAG	1	TAG	Repeat-mediated
1ef57754-3297-11e6-8cdf-7a91faf1a024	16_69742088_CTC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	16	69742088	CT	C	300	PASS	NFAT5	Del	downstream	1	9	CHK2	child	16_69742088_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
1ef73772-328a-11e6-a100-84090e01a414	18_57139730_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	57139730	AT	A	300	PASS	CCBE1	Del	intronic	1	6	MSH6	child	18_57139730_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
1ef9261a-32a1-11e6-aea7-956725c9da85	3_178088188_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	178088188	AT	A	300	PASS	RP11-33A14.1	Del	intronic	1	7	MSH6	child	3_178088188_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
1efaf20e-3276-11e6-83cd-a472a178171f	4_77133132_ACA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	77133132	AC	A	660	PASS	SCARB2	Del	intronic	1	5	MSH6	child	4_77133132_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
1f0483bc-334a-11e6-a997-309d38e8a824	4_135813730_AAATGTCTATATCTTGCTCTTGTTCTGAATTTAGTCAGACCTTTACCACCACTTTATCTGTCTGCTTCCAGTGCCTGCCTTCCTGTGCCTAAGTTCCTGTCAATTTACCTTTTTAGTAGATTTGTTCTTCTGGAATTATGGTCTTATTTGCTAATCTAACCCATCTTCATGGAGTTTGTATTACTTGGATCTAAACCATGAAGAGAACAGATTTCCAGGCTTCTAGGGACACTGTTCACATGTGATGATATGTGATGCTCACATGCTTAGATCTCCCTTTATTGCCTAGTTAATGTCTTGTTTAAAGACAATCTTTGCCTGATCATTAATATCTCTTTAATCTATTTTTTCCAATATGTTCATTTCCTCTTGAGATGTGCCTAAGCCCTGGACGTGACATGTCCAGGTATTGGGTTACTTAGAAAAATGTTTCTGCTCTATAGTTTTAAAATAAGCTATCTTTTACCCCAGCTTCTCTTCTGAGTCACAGCCATGCTGATGCTATTTGCTGGTACTAGATTTATGTACCAAGACTACAGCATCATTTAAAATATGGTATTTCTATATTGTAAAATCCATCAGTAGTGCTCCGTTGCATATAGGATGCTTTACTCTCAGGCCTGTTCATAATTCTTGCAATATGCTTTCTTCACTTTTCAAATCCATCCTCAAACTCCTCAGTATATTATCCCAGTGCAGTCAAAATTGTATATAAGCCCCCCAAATGCATGTGTATACATAGATACATATATATTTTTAAACCTTGCTGAAGTTCCAATTTGTGAAGTATCTTTTTTTTATCACCACCAGTCTCCAGTGACCTCACCTTCCCAGTGTCTAAAACACTATTATCTAAACACAATGTGAAACTGTCATTTGAAACTTTATGCTTTACTTGAACTAAATTTTAAAGCCAGTACACAGAACACATTGTTAAGACCCTTGAACAGTAACTTGTTAAATTAGTAAGAAATGAAATAAAACACTTTAAATTATTCAATTATATAAATAGCTCGATGGGTCATTTGTGAATGGATAGATATCATAATTTTGGTTCTCCCAGAAGTAGACCTTGAGACACATAATAGAGTGCAAATAGATTGTTTGGGAAGAAATTCCATGAACATGATTAAAACCCTAAGGAAATAACACCCTAAGGA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	4	135813730	AAATGTCTATATCTTGCTCTTGTTCTGAATTTAGTCAGACCTTTACCACCACTTTATCTGTCTGCTTCCAGTGCCTGCCTTCCTGTGCCTAAGTTCCTGTCAATTTACCTTTTTAGTAGATTTGTTCTTCTGGAATTATGGTCTTATTTGCTAATCTAACCCATCTTCATGGAGTTTGTATTACTTGGATCTAAACCATGAAGAGAACAGATTTCCAGGCTTCTAGGGACACTGTTCACATGTGATGATATGTGATGCTCACATGCTTAGATCTCCCTTTATTGCCTAGTTAATGTCTTGTTTAAAGACAATCTTTGCCTGATCATTAATATCTCTTTAATCTATTTTTTCCAATATGTTCATTTCCTCTTGAGATGTGCCTAAGCCCTGGACGTGACATGTCCAGGTATTGGGTTACTTAGAAAAATGTTTCTGCTCTATAGTTTTAAAATAAGCTATCTTTTACCCCAGCTTCTCTTCTGAGTCACAGCCATGCTGATGCTATTTGCTGGTACTAGATTTATGTACCAAGACTACAGCATCATTTAAAATATGGTATTTCTATATTGTAAAATCCATCAGTAGTGCTCCGTTGCATATAGGATGCTTTACTCTCAGGCCTGTTCATAATTCTTGCAATATGCTTTCTTCACTTTTCAAATCCATCCTCAAACTCCTCAGTATATTATCCCAGTGCAGTCAAAATTGTATATAAGCCCCCCAAATGCATGTGTATACATAGATACATATATATTTTTAAACCTTGCTGAAGTTCCAATTTGTGAAGTATCTTTTTTTTATCACCACCAGTCTCCAGTGACCTCACCTTCCCAGTGTCTAAAACACTATTATCTAAACACAATGTGAAACTGTCATTTGAAACTTTATGCTTTACTTGAACTAAATTTTAAAGCCAGTACACAGAACACATTGTTAAGACCCTTGAACAGTAACTTGTTAAATTAGTAAGAAATGAAATAAAACACTTTAAATTATTCAATTATATAAATAGCTCGATGGGTCATTTGTGAATGGATAGATATCATAATTTTGGTTCTCCCAGAAGTAGACCTTGAGACACATAATAGAGTGCAAATAGATTGTTTGGGAAGAAATTCCATGAACATGATTAAAACCCTAAGGAAATAACACCCTAAGG	A	360	PASS	-	Del	-	1158	1	FANCC	child	4_135813730_AAATGTCTATATCTTGCTCTTGTTCTGAATTTAGTCAGACCTTTACCACCACTTTATCTGTCTGCTTCCAGTGCCTGCCTTCCTGTGCCTAAGTTCCTGTCAATTTACCTTTTTAGTAGATTTGTTCTTCTGGAATTATGGTCTTATTTGCTAATCTAACCCATCTTCATGGAGTTTGTATTACTTGGATCTAAACCATGAAGAGAACAGATTTCCAGGCTTCTAGGGACACTGTTCACATGTGATGATATGTGATGCTCACATGCTTAGATCTCCCTTTATTGCCTAGTTAATGTCTTGTTTAAAGACAATCTTTGCCTGATCATTAATATCTCTTTAATCTATTTTTTCCAATATGTTCATTTCCTCTTGAGATGTGCCTAAGCCCTGGACGTGACATGTCCAGGTATTGGGTTACTTAGAAAAATGTTTCTGCTCTATAGTTTTAAAATAAGCTATCTTTTACCCCAGCTTCTCTTCTGAGTCACAGCCATGCTGATGCTATTTGCTGGTACTAGATTTATGTACCAAGACTACAGCATCATTTAAAATATGGTATTTCTATATTGTAAAATCCATCAGTAGTGCTCCGTTGCATATAGGATGCTTTACTCTCAGGCCTGTTCATAATTCTTGCAATATGCTTTCTTCACTTTTCAAATCCATCCTCAAACTCCTCAGTATATTATCCCAGTGCAGTCAAAATTGTATATAAGCCCCCCAAATGCATGTGTATACATAGATACATATATATTTTTAAACCTTGCTGAAGTTCCAATTTGTGAAGTATCTTTTTTTTATCACCACCAGTCTCCAGTGACCTCACCTTCCCAGTGTCTAAAACACTATTATCTAAACACAATGTGAAACTGTCATTTGAAACTTTATGCTTTACTTGAACTAAATTTTAAAGCCAGTACACAGAACACATTGTTAAGACCCTTGAACAGTAACTTGTTAAATTAGTAAGAAATGAAATAAAACACTTTAAATTATTCAATTATATAAATAGCTCGATGGGTCATTTGTGAATGGATAGATATCATAATTTTGGTTCTCCCAGAAGTAGACCTTGAGACACATAATAGAGTGCAAATAGATTGTTTGGGAAGAAATTCCATGAACATGATTAAAACCCTAAGGAAATAACACCCTAAGGA_FANCC	1158	>=10	2	AA	0	-	Microhomology-mediated
1f0d2da0-3273-11e6-8f33-a6d9cde16804	11_66896554_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	66896554	TA	T	600	PASS	KDM2A	Del	intronic	1	7	MSH6	child	11_66896554_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
1f0f5d04-3288-11e6-8404-8e1fbce6aa09	8_90940685_TCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	90940685	TC	T	420	PASS	NBN	Del	downstream	1	8	MSH6	child	8_90940685_TCT_MSH6	1	1	1	C	7	C	Repeat-mediated
1f1c26b2-3277-11e6-9bb2-e658c225ee11	20_14603822_GGT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	20	14603822	G	GT	300	PASS	MACROD2	Ins	intronic	1	7	EXO1	parent	20_14603822_GGT_EXO1	1	1	-	-	-	-	Ins
1f1c6b34-32a1-11e6-94ca-0aaecc638e3d	X_96612465_TTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	96612465	T	TC	300	PASS	DIAPH2	Ins	intronic	1	5	MSH6	child	X_96612465_TTC_MSH6	1	1	-	-	-	-	Ins
1f243484-3325-11e6-ada1-2957fc77b11e	5_154810040_TTGT	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	5	154810040	TTG	T	720	PASS	-	Del	-	2	2	POLE	child	5_154810040_TTGT_POLE	2	2	2	TG	1	TG	Repeat-mediated
1f277758-3270-11e6-a073-e3d0d7fd0a58	13_109229118_CTC	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	13	109229118	CT	C	540	PASS	-	Del	-	1	9	NUDT1	child	13_109229118_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
1f2f04a8-3286-11e6-80aa-1e3936fc2f7d	6_123384371_CTC	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	6	123384371	CT	C	300	PASS	CLVS2	Del	intronic	1	8	NUDT1	child	6_123384371_CTC_NUDT1	1	1	1	T	7	T	Repeat-mediated
1f385a44-3290-11e6-9432-c0e56f39e758	5_108023763_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	108023763	CA	C	420	PASS	-	Del	-	1	6	MSH6	child	5_108023763_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
1f476a2e-3282-11e6-8049-10fc028949d4	1_180292663_GTCTCG	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	1	180292663	GTCTC	G	660	PASS	ACBD6	Del	intronic	4	6	POLM	child	1_180292663_GTCTCG_POLM	4	4	4	TCTC	4	TC	Repeat-mediated
1f4cca34-328f-11e6-bfa2-581f0e01a414	7_144805431_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	144805431	GA	G	540	PASS	-	Del	-	1	8	MSH6	child	7_144805431_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
1f51d2ae-3325-11e6-ada1-2957fc77b11e	5_154874262_ATA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	5	154874262	AT	A	540	PASS	-	Del	-	1	7	POLE	child	5_154874262_ATA_POLE	1	1	1	T	6	T	Repeat-mediated
1f534bca-3253-11e6-b4e1-b8e612ae24cf	18_50040521_GGTA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	18	50040521	G	GTA	300	PASS	DCC	Ins	intronic	2	5	POLB	child	18_50040521_GGTA_POLB	2	2	-	-	-	-	Ins
1f53f8b0-329c-11e6-8069-175325c9da85	12_129357414_GTCG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	129357414	GTC	G	600	PASS	GLT1D1	Del	intronic	2	7	MSH6	child	12_129357414_GTCG_MSH6	2	2	2	TC	6	TC	Repeat-mediated
1f5844b8-3276-11e6-9e0f-7959cab49462	7_46804857_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	46804857	AG	A	660	PASS	-	Del	-	1	5	MSH6	child	7_46804857_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
1f62de90-3290-11e6-bd11-15ea6f39e758	21_47955469_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	21	47955469	CA	C	300	PASS	DIP2A	Del	intronic	1	7	MSH6	child	21_47955469_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
1f7c20a4-3276-11e6-9e0f-7959cab49462	7_46840477_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	46840477	CT	C	540	PASS	-	Del	-	1	6	MSH6	child	7_46840477_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
1f7c808e-329a-11e6-bda6-065325c9da85	13_34286849_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	34286849	GA	G	660	PASS	-	Del	-	1	9	MSH6	child	13_34286849_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
1f858e02-3288-11e6-bea5-2b9c20e7b7a8	17_37538745_ACA	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	17	37538745	AC	A	290	PASS	FBXL20	Del	intronic	1	1	POLE	child	17_37538745_ACA_POLE	1	1	0	-	0	C	None
1f91b016-3291-11e6-b77d-2eef6f39e758	6_38211335_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	38211335	GA	G	720	PASS	BTBD9	Del	intronic	1	8	MSH6	child	6_38211335_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
1f9d329e-32a3-11e6-b970-398625c9da85	20_49702896_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	49702896	AT	A	780	PASS	-	Del	-	1	7	MSH6	child	20_49702896_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
1f9dbbb8-329b-11e6-a0ea-135325c9da85	15_67858067_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	67858067	CT	C	1260	PASS	MAP2K5	Del	intronic	1	8	MSH6	child	15_67858067_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
1fa3ba22-328c-11e6-bd84-429305ad5bc4	1_73930623_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	73930623	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	1_73930623_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
1fa45a1c-3274-11e6-b7b8-aca7ecf1e924	12_29284379_AGA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	12	29284379	AG	A	660	PASS	-	Del	-	1	5	NEIL1	child	12_29284379_AGA_NEIL1	1	1	1	G	4	G	Repeat-mediated
1fb1fbac-3276-11e6-a862-bc9becf1e924	1_249193573_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	249193573	CA	C	540	PASS	-	Del	-	1	6	MSH6	child	1_249193573_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
1fb426c4-329a-11e6-9048-b49fcc638e3d	17_12066746_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	12066746	AT	A	900	PASS	-	Del	-	1	6	MSH6	child	17_12066746_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
1fb52434-3290-11e6-9230-fb250e01a414	3_145335996_ATGACA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	145335996	ATGAC	A	660	PASS	-	Del	-	4	1	MSH6	child	3_145335996_ATGACA_MSH6	4	4	3	TGA	0	-	Microhomology-mediated
1fc65812-3281-11e6-befb-a32236fc2f7d	2_35254632_CAC	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	2	35254632	CA	C	540	PASS	AC012593.1	Del	intronic	1	6	NUDT1	child	2_35254632_CAC_NUDT1	1	1	1	A	5	A	Repeat-mediated
1fcd0296-3288-11e6-a0f6-76a56f39e758	7_148116511_CTC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	7	148116511	CT	C	300	PASS	CNTNAP2	Del	3prime_UTR_variant	1	8	EXO1	child	7_148116511_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
1fcfcc9a-326c-11e6-a247-c785191589db	12_7609666_ATA	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	12	7609666	AT	A	600	PASS	-	Del	-	1	1	POLM	parent	12_7609666_ATA_POLM	1	1	0	-	0	T	None
1fd1315c-3258-11e6-971b-98a02aaffa45	5_131330193_GCG	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	5	131330193	GC	G	840	PASS	ACSL6	Del	intronic	1	3	POLM	child	5_131330193_GCG_POLM	1	1	1	C	2	C	Repeat-mediated
1fd5074e-3287-11e6-940d-53a538e8a824	2_16645329_GAG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	2	16645329	GA	G	540	PASS	-	Del	-	1	7	NUDT1	parent	2_16645329_GAG_NUDT1	1	1	1	A	6	A	Repeat-mediated
1fecbe74-328d-11e6-b9c4-751d0e01a414	5_54291419_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	54291419	AT	A	300	PASS	ESM1	Del	intronic	1	9	MSH6	child	5_54291419_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
1ff554f4-329b-11e6-8069-175325c9da85	12_75278514_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	75278514	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	12_75278514_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
1ffe8a06-325a-11e6-91d3-a68412ae24cf	7_111150728_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	111150728	C	CA	420	PASS	IMMP2L	Ins	intronic	1	1	MSH6	child	7_111150728_CCA_MSH6	1	1	-	-	-	-	Ins
2001cc9e-326d-11e6-b9f4-5d1d694da5d2	14_55819410_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	55819410	CA	C	360	PASS	FBXO34	Del	3prime_UTR_variant	1	7	MSH6	child	14_55819410_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
200816f6-3274-11e6-a5d0-4fd14a47a305	2_153571935_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	153571935	TA	T	600	PASS	PRPF40A	Del	intronic	1	9	MSH6	child	2_153571935_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
2008984a-328f-11e6-944d-00b812ae24cf	6_94898204_TTGAT	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	6	94898204	TTGA	T	300	PASS	RP3-463P15.1	Del	intronic	3	1	CHK2	child	6_94898204_TTGAT_CHK2	3	3	1	T	0	-	Microhomology-mediated
2018310c-3284-11e6-9e78-7d3e51c54cdd	2_15479745_CAC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	2	15479745	CA	C	480	PASS	NBAS	Del	intronic	1	5	EXO1	child	2_15479745_CAC_EXO1	1	1	1	A	4	A	Repeat-mediated
2022def2-3277-11e6-9e0f-7959cab49462	7_109022888_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	109022888	CA	C	525	PASS	-	Del	-	1	7	MSH6	child	7_109022888_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
20231e0e-3285-11e6-8b67-086ea2c71c31	1_55649671_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	55649671	GA	G	660	PASS	USP24	Del	intronic	1	6	MSH6	child	1_55649671_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
202bf4de-329e-11e6-b549-1e5325c9da85	10_126446287_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	126446287	C	CA	360	PASS	METTL10	Ins	downstream	1	9	MSH6	child	10_126446287_CCA_MSH6	1	1	-	-	-	-	Ins
20315cb4-3288-11e6-a5b3-3f1ebce6aa09	7_157702078_TGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	157702078	TG	T	540	PASS	PTPRN2	Del	intronic	1	9	MSH6	child	7_157702078_TGT_MSH6	1	1	1	G	8	G	Repeat-mediated
203209fe-3272-11e6-950d-d529694da5d2	16_80950258_CAC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	16	80950258	CA	C	360	PASS	-	Del	-	1	8	CHK2	child	16_80950258_CAC_CHK2	1	1	1	A	7	A	Repeat-mediated
203768b6-325b-11e6-8cd9-139b7872c165	3_60988355_CCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	60988355	C	CT	420	PASS	FHIT	Ins	intronic	1	9	MSH6	child	3_60988355_CCT_MSH6	1	1	-	-	-	-	Ins
2039c356-3321-11e6-aa01-c73272d7bc54	12_46262670_GTG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	12	46262670	GT	G	780	PASS	ARID2	Del	intronic	1	6	EXO1	child	12_46262670_GTG_EXO1	1	1	1	T	5	T	Repeat-mediated
204134c8-3273-11e6-8f33-a6d9cde16804	11_67279319_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	67279319	TA	T	480	PASS	CDK2AP2	Del	upstream	1	7	MSH6	child	11_67279319_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
204e54a4-3288-11e6-8b67-086ea2c71c31	1_69675526_TTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	69675526	T	TC	300	PASS	-	Ins	-	1	1	MSH6	child	1_69675526_TTC_MSH6	1	1	-	-	-	-	Ins
204ec928-3320-11e6-9b79-b58f0cfb5812	1_22422116_TAT	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	1	22422116	TA	T	660	PASS	CDC42	Del	downstream	1	8	POLE	child	1_22422116_TAT_POLE	1	1	1	A	7	A	Repeat-mediated
20588754-326e-11e6-b306-b5204b47a305	2_135414139_TCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	135414139	TC	T	285	PASS	TMEM163	Del	intronic	1	6	MSH6	child	2_135414139_TCT_MSH6	1	1	1	C	5	C	Repeat-mediated
205b2cde-328c-11e6-9892-02ba5d753391	5_146360625_ATA	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	5	146360625	AT	A	300	PASS	PPP2R2B	Del	intronic	1	9	POLE	child	5_146360625_ATA_POLE	1	1	1	T	8	T	Repeat-mediated
205e3fac-32a3-11e6-b970-398625c9da85	20_49849605_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	49849605	AC	A	480	PASS	-	Del	-	1	8	MSH6	child	20_49849605_ACA_MSH6	1	1	1	C	7	C	Repeat-mediated
2064c890-329e-11e6-b696-dd6225c9da85	5_64595394_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	64595394	GT	G	780	PASS	ADAMTS6	Del	intronic	1	9	MSH6	child	5_64595394_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
2064f448-3274-11e6-9210-65fa620e6611	5_165838163_CATTTTC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	5	165838163	CATTTT	C	540	PASS	-	Del	-	5	1	EXO1	parent	5_165838163_CATTTTC_EXO1	5	5	1	A	0	-	Microhomology-mediated
206da668-3271-11e6-9309-bdc34a47a305	8_93707849_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	93707849	CT	C	300	PASS	-	Del	-	1	6	MSH6	child	8_93707849_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
20760638-329d-11e6-bc2c-2a5e25c9da85	4_14775381_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	14775381	GA	G	780	PASS	LINC00504	Del	intronic	1	9	MSH6	child	4_14775381_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
20781776-32a1-11e6-bc2c-2a5e25c9da85	4_70291262_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	70291262	C	CT	660	PASS	-	Ins	-	1	8	MSH6	child	4_70291262_CCT_MSH6	1	1	-	-	-	-	Ins
20817d22-326d-11e6-9d68-ac9acab49462	15_47402565_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	47402565	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	15_47402565_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
2083affa-328d-11e6-ab2c-1d6bfc77b11e	14_69015860_GCTGTG	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	14	69015860	GCTGT	G	380	PASS	RAD51B	Del	intronic	4	2	POLE	child	14_69015860_GCTGTG_POLE	4	4	4	CTGT	1	CTGT	Repeat-mediated
208d4b68-3257-11e6-a304-347a7872c165	1_247362106_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	247362106	TA	T	540	PASS	MIR3916	Del	downstream	1	6	MSH6	child	1_247362106_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
20972a96-3286-11e6-b093-c9c7b0dab373	2_140757065_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	140757065	AT	A	300	PASS	-	Del	-	1	6	MSH6	child	2_140757065_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
209f0aea-3321-11e6-b11e-cd7b90e2c2e6	15_69254795_ATA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	15	69254795	AT	A	420	PASS	NOX5	Del	intronic	1	7	POLE	child	15_69254795_ATA_POLE	1	1	1	T	6	T	Repeat-mediated
209ffcae-328e-11e6-bb1e-70e16f39e758	X_25530725_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	25530725	GT	G	420	PASS	-	Del	-	1	9	MSH6	child	X_25530725_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
20a08570-329d-11e6-bc2c-2a5e25c9da85	4_14844986_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	14844986	TA	T	420	PASS	LINC00504	Del	intronic	1	4	MSH6	child	4_14844986_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
20a14bba-3291-11e6-aac9-4e6b694da5d2	3_66812472_ATA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	3	66812472	AT	A	300	PASS	-	Del	-	1	8	POLM	child	3_66812472_ATA_POLM	1	1	1	T	7	T	Repeat-mediated
20a63c2e-3255-11e6-acd5-c91dee3c4f5d	4_128586288_AGA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	4	128586288	AG	A	360	PASS	INTU	Del	intronic	1	1	POLB	child	4_128586288_AGA_POLB	1	1	0	-	0	G	None
20b3791e-329d-11e6-9048-b49fcc638e3d	17_69497796_CCAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	69497796	C	CAG	300	PASS	-	Ins	-	2	1	MSH6	child	17_69497796_CCAG_MSH6	2	2	-	-	-	-	Ins
20b42676-329c-11e6-aca6-b39fcc638e3d	2_154562520_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	154562520	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	2_154562520_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
20bd927c-3276-11e6-83cd-a472a178171f	4_77634160_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	77634160	TA	T	420	PASS	SHROOM3	Del	intronic	1	5	MSH6	child	4_77634160_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
20c62490-3286-11e6-a7ff-5779a178171f	10_28644861_TTTTTGTCTACTCGGTAT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	10	28644861	TTTTTGTCTACTCGGTA	T	360	PASS	-	Del	-	16	1	FANCC	child	10_28644861_TTTTTGTCTACTCGGTAT_FANCC	16	>=10	1	T	0	-	Microhomology-mediated
20ce9ef8-3322-11e6-9ab5-b30c2eaed38e	10_123315202_CAGC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	10	123315202	CAG	C	360	PASS	FGFR2	Del	intronic	2	1	EXO1	child	10_123315202_CAGC_EXO1	2	2	1	A	0	-	Microhomology-mediated
20d02f1c-329a-11e6-a5cf-205325c9da85	11_17358814_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	17358814	TA	T	540	PASS	-	Del	-	1	7	MSH6	child	11_17358814_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
20d08392-329d-11e6-b696-dd6225c9da85	5_3997024_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	3997024	TA	T	600	PASS	-	Del	-	1	9	MSH6	child	5_3997024_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
20d52572-3276-11e6-ab69-1c1607e9a829	9_118875018_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	118875018	GA	G	540	PASS	-	Del	-	1	9	MSH6	child	9_118875018_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
20e10c6e-3322-11e6-8250-3bb0cde16804	15_95829917_TAT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	15	95829917	TA	T	900	PASS	CTD-2536I1.1	Del	intronic	1	9	CHK2	child	15_95829917_TAT_CHK2	1	1	1	A	8	A	Repeat-mediated
20e33a0e-3276-11e6-8295-ecba9b6d3b88	5_81342934_GAG	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	5	81342934	GA	G	480	PASS	ATG10	Del	intronic	1	8	EXO1	child	5_81342934_GAG_EXO1	1	1	1	A	7	A	Repeat-mediated
20ea7838-3289-11e6-a19d-3c763adbad45	4_30087795_TAT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	4	30087795	TA	T	420	PASS	-	Del	-	1	8	NUDT1	parent	4_30087795_TAT_NUDT1	1	1	1	A	7	A	Repeat-mediated
20f62f5a-326d-11e6-9003-ae204b47a305	19_21727346_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	21727346	GT	G	360	PASS	-	Del	-	1	9	MSH6	child	19_21727346_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
20fa3f22-3291-11e6-b0cf-8b7219a91649	7_23463474_TAAGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGCAGATCACGAGGTCAGAAGTTCGAGACCAGCCTGATCAACATGGTGAAACCTCGTCTCTACTAAAAACATAAAAATTAGCTGGGCATGGTGGTATGCGCCTGCAATCCCAGCTACTCAGGAGGCTGAGGCAGCAGAATTGCTTGAACCCGGGAGACGGAGGTTGCAGTTAGCCAAGACTGCACCACTGCACTCCAGCCTAGGCGACAGAGTGAGACTCCATCTCAAACAAAAAAATTTTTTTTTCAACACAGTTTAAGGGTTCCCCACCAGAGGGGAAATACGGTAAATTTTAGTTCTCAGGCTAATAGATTAAAAATTTAAAGGCCAGGCGCAGTGGCTCT	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	7	23463474	TAAGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGCAGATCACGAGGTCAGAAGTTCGAGACCAGCCTGATCAACATGGTGAAACCTCGTCTCTACTAAAAACATAAAAATTAGCTGGGCATGGTGGTATGCGCCTGCAATCCCAGCTACTCAGGAGGCTGAGGCAGCAGAATTGCTTGAACCCGGGAGACGGAGGTTGCAGTTAGCCAAGACTGCACCACTGCACTCCAGCCTAGGCGACAGAGTGAGACTCCATCTCAAACAAAAAAATTTTTTTTTCAACACAGTTTAAGGGTTCCCCACCAGAGGGGAAATACGGTAAATTTTAGTTCTCAGGCTAATAGATTAAAAATTTAAAGGCCAGGCGCAGTGGCTC	T	291	PASS	IGF2BP3	Del	intronic	379	1	NEIL1	child	7_23463474_TAAGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGCAGATCACGAGGTCAGAAGTTCGAGACCAGCCTGATCAACATGGTGAAACCTCGTCTCTACTAAAAACATAAAAATTAGCTGGGCATGGTGGTATGCGCCTGCAATCCCAGCTACTCAGGAGGCTGAGGCAGCAGAATTGCTTGAACCCGGGAGACGGAGGTTGCAGTTAGCCAAGACTGCACCACTGCACTCCAGCCTAGGCGACAGAGTGAGACTCCATCTCAAACAAAAAAATTTTTTTTTCAACACAGTTTAAGGGTTCCCCACCAGAGGGGAAATACGGTAAATTTTAGTTCTCAGGCTAATAGATTAAAAATTTAAAGGCCAGGCGCAGTGGCTCT_NEIL1	379	>=10	29	AAGCCTGTAATCCCAGCACTTTGGGAGGC	0	-	Microhomology-mediated
2103bcbc-3257-11e6-a39a-dc8512ae24cf	8_27695148_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	27695148	CA	C	360	PASS	PBK	Del	intronic	1	9	MSH6	child	8_27695148_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
21067056-3329-11e6-a435-b8ae4430f757	20_56021269_TGAT	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	20	56021269	TGA	T	540	PASS	-	Del	-	2	7	CHK2	child	20_56021269_TGAT_CHK2	2	2	2	GA	6	GA	Repeat-mediated
2107962c-3273-11e6-a862-bc9becf1e924	1_44129473_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	44129473	CT	C	660	PASS	KDM4A	Del	intronic	1	9	MSH6	child	1_44129473_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
21113766-329d-11e6-bc2c-2a5e25c9da85	4_15070967_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	15070967	TA	T	1020	PASS	CPEB2	Del	3prime_UTR_variant	1	9	MSH6	child	4_15070967_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
21121476-3291-11e6-835c-61b3e7d0bdd7	21_22427518_TATAT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	21	22427518	TATA	T	300	PASS	NCAM2	Del	intronic	3	5	FANCC	child	21_22427518_TATAT_FANCC	3	3	3	ATA	4	ATA	Repeat-mediated
211315a0-3288-11e6-a8ac-a28ea2c71c31	3_48428834_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	48428834	GT	G	720	PASS	FBXW12	Del	intronic	1	7	MSH6	child	3_48428834_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
211ce37a-3286-11e6-8b67-086ea2c71c31	1_154025200_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	154025200	CA	C	540	PASS	NUP210L	Del	intronic	1	5	MSH6	child	1_154025200_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
211cedfc-3254-11e6-9f9d-2c7a7872c165	12_40505629_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	40505629	GA	G	480	PASS	-	Del	-	1	8	MSH6	child	12_40505629_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
211f34f0-3258-11e6-a7ac-209a7872c165	22_23721435_CCG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	22	23721435	C	CG	420	PASS	-	Ins	-	1	6	MSH6	child	22_23721435_CCG_MSH6	1	1	-	-	-	-	Ins
21233b08-3277-11e6-a2b7-2d8b671699ea	21_46228127_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	21	46228127	TA	T	600	PASS	SUMO3	Del	intronic	1	9	MSH6	child	21_46228127_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
212bfa5e-3254-11e6-89d3-d29498816cf3	2_65452694_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	65452694	CT	C	420	PASS	ACTR2	Del	upstream	1	8	MSH6	child	2_65452694_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
212c1232-3259-11e6-885f-d1947872c165	4_4457990_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	4457990	C	CA	360	PASS	STX18	Ins	intronic	1	7	MSH6	child	4_4457990_CCA_MSH6	1	1	-	-	-	-	Ins
2138e648-329e-11e6-bc2c-2a5e25c9da85	4_78809871_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	78809871	AT	A	300	PASS	MRPL1	Del	intronic	1	8	MSH6	child	4_78809871_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
214222ac-3295-11e6-b963-13387a852e0e	3_159488050_TTATCT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	3	159488050	TTATC	T	300	PASS	IQCJ-SCHIP1	Del	intronic	4	1	CHK2	child	3_159488050_TTATCT_CHK2	4	4	3	TAT	0	-	Microhomology-mediated
21467992-3290-11e6-b805-77090e01a414	2_201056822_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	201056822	C	CA	420	PASS	-	Ins	-	1	5	MSH6	child	2_201056822_CCA_MSH6	1	1	-	-	-	-	Ins
21491126-328a-11e6-a80b-87090e01a414	11_55867722_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	55867722	GA	G	420	PASS	OR8H2	Del	upstream	1	8	MSH6	child	11_55867722_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
2150775e-3271-11e6-b18b-f276a20b69d5	17_39450260_CTC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	17	39450260	CT	C	540	PASS	-	Del	-	1	8	POLB	child	17_39450260_CTC_POLB	1	1	1	T	7	T	Repeat-mediated
2152af60-328f-11e6-ad16-6b56f0f7a29c	10_74363590_CAC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	10	74363590	CA	C	540	PASS	MICU1	Del	intronic	1	7	NEIL1	child	10_74363590_CAC_NEIL1	1	1	1	A	6	A	Repeat-mediated
21563e38-3324-11e6-aad6-fc2b9a696edf	9_7456676_GAAGAAAG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	9	7456676	GAAGAAA	G	540	PASS	-	Del	-	6	2	EXO1	child	9_7456676_GAAGAAAG_EXO1	6	6	6	AAGAAA	1	AAGAAA	Repeat-mediated
215df648-329b-11e6-ae71-0c5325c9da85	1_63602018_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	63602018	CT	C	360	PASS	RP11-335E6.2	Del	upstream	1	9	MSH6	child	1_63602018_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
216e2594-328d-11e6-b9c4-751d0e01a414	5_54649607_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	54649607	CA	C	540	PASS	SKIV2L2	Del	intronic	1	9	MSH6	child	5_54649607_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
21703488-3279-11e6-8c34-46e27872c165	5_80675304_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	80675304	T	TA	360	PASS	ACOT12	Ins	intronic	1	9	MSH6	child	5_80675304_TTA_MSH6	1	1	-	-	-	-	Ins
2170bc0a-3274-11e6-98e1-30573cfdbd24	9_94014223_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	9	94014223	AT	A	300	PASS	AUH	Del	intronic	1	8	MSH6	parent	9_94014223_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
21776d26-328c-11e6-ac7a-a3c36f39e758	18_41362302_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	41362302	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	18_41362302_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
217bb62e-327d-11e6-809e-fbdaeff7a29c	12_65417933_TATAT	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	12	65417933	TATA	T	720	PASS	RP11-168J19.2	Del	downstream	3	2	POLB	parent	12_65417933_TATAT_POLB	3	3	3	ATA	1	ATA	Repeat-mediated
218062e4-3257-11e6-885f-d1947872c165	4_68415567_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	68415567	TA	T	300	PASS	CENPC	Del	upstream	1	9	MSH6	child	4_68415567_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
21867b88-328a-11e6-b74f-549ba2c71c31	20_32445248_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	32445248	CA	C	300	PASS	CHMP4B	Del	downstream	1	9	MSH6	child	20_32445248_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
2187c09e-328d-11e6-bd84-429305ad5bc4	1_215101626_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	215101626	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	1_215101626_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
2195825a-329d-11e6-a5cf-e5abcc638e3d	9_74502209_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	74502209	TA	T	600	PASS	ABHD17B	Del	intronic	1	9	MSH6	child	9_74502209_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
2198c720-3271-11e6-8ed8-0863a78019ab	5_172565712_GTG	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	5	172565712	GT	G	480	PASS	CREBRF	Del	3prime_UTR_variant	1	7	POLM	parent	5_172565712_GTG_POLM	1	1	1	T	6	T	Repeat-mediated
219a2a66-3348-11e6-b1a0-0d1e4ec77248	X_57631196_TAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	X	57631196	TA	T	360	PASS	-	Del	-	1	4	FANCC	child	X_57631196_TAT_FANCC	1	1	1	A	3	A	Repeat-mediated
219d6296-328d-11e6-9c1f-afbe38e8a824	8_144864656_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	8	144864656	CT	C	420	PASS	-	Del	-	1	9	NUDT1	parent	8_144864656_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
219de69a-3291-11e6-b77d-2eef6f39e758	6_38808684_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	38808684	AT	A	600	PASS	DNAH8	Del	intronic	1	9	MSH6	child	6_38808684_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
219e9a9a-329b-11e6-b129-195325c9da85	16_57418330_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	57418330	CT	C	600	PASS	CX3CL1	Del	3prime_UTR_variant	1	6	MSH6	child	16_57418330_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
21a2ce98-325b-11e6-8b28-55ad7872c165	20_36395658_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	36395658	TA	T	540	PASS	CTNNBL1	Del	intronic	1	9	MSH6	child	20_36395658_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
21a6beec-3295-11e6-b77d-2eef6f39e758	6_144660900_AAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	144660900	A	AC	900	PASS	UTRN	Ins	intronic	1	4	MSH6	child	6_144660900_AAC_MSH6	1	1	-	-	-	-	Ins
21bcf7f0-327e-11e6-94f7-5bfe684da5d2	14_37402464_GCG	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	14	37402464	GC	G	840	PASS	SLC25A21	Del	intronic	1	4	NEIL1	child	14_37402464_GCG_NEIL1	1	1	1	C	3	C	Repeat-mediated
21bd38b0-329b-11e6-a5cf-205325c9da85	11_77859474_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	77859474	GT	G	960	PASS	-	Del	-	1	8	MSH6	child	11_77859474_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
21d334ae-329a-11e6-a0ea-135325c9da85	15_29956065_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	29956065	AT	A	767	PASS	-	Del	-	1	2	MSH6	child	15_29956065_ATA_MSH6	1	1	1	T	1	T	Repeat-mediated
21d6ec86-3289-11e6-b9eb-c78fa2c71c31	6_128442907_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	128442907	GT	G	420	PASS	PTPRK	Del	intronic	1	9	MSH6	child	6_128442907_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
21d87a12-3291-11e6-b6a6-1f1e0e01a414	4_94227243_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	94227243	G	GT	360	PASS	GRID2	Ins	intronic	1	6	MSH6	child	4_94227243_GGT_MSH6	1	1	-	-	-	-	Ins
21ea23ba-3288-11e6-afcf-0311bce6aa09	9_127840505_CCA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	127840505	C	CA	480	PASS	SCAI	Ins	intronic	1	7	MSH6	child	9_127840505_CCA_MSH6	1	1	-	-	-	-	Ins
21f304c4-3320-11e6-9b79-b58f0cfb5812	1_23030072_TAT	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	1	23030072	TA	T	540	PASS	-	Del	-	1	9	POLE	child	1_23030072_TAT_POLE	1	1	1	A	8	A	Repeat-mediated
21f4d1c8-329e-11e6-bc66-17b4cc638e3d	8_40970127_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	40970127	CA	C	660	PASS	-	Del	-	1	9	MSH6	child	8_40970127_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
21fad636-328f-11e6-9d97-efe56f39e758	4_36783026_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	36783026	CA	C	540	PASS	-	Del	-	1	6	MSH6	child	4_36783026_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
21fc1254-3257-11e6-b4d0-327a7872c165	11_117909321_TTA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	117909321	T	TA	840	PASS	-	Ins	-	1	4	MSH6	child	11_117909321_TTA_MSH6	1	1	-	-	-	-	Ins
22041fb2-328e-11e6-bfa2-581f0e01a414	7_86292929_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	86292929	CT	C	720	PASS	GRM3	Del	intronic	1	8	MSH6	child	7_86292929_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
2208c246-328f-11e6-8f31-bfe16f39e758	9_102912075_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	102912075	GA	G	360	PASS	INVS	Del	intronic	1	8	MSH6	child	9_102912075_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
220dcfa0-328c-11e6-8952-77c36f39e758	10_33374665_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	33374665	GA	G	660	PASS	RP11-462L8.1	Del	downstream	1	9	MSH6	child	10_33374665_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
2216fffe-3295-11e6-b963-13387a852e0e	3_159995586_TAT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	3	159995586	TA	T	480	PASS	IFT80	Del	intronic	1	8	CHK2	child	3_159995586_TAT_CHK2	1	1	1	A	7	A	Repeat-mediated
221d3b70-3273-11e6-a5d0-4fd14a47a305	2_63811086_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	63811086	GA	G	480	PASS	WDPCP	Del	intronic	1	9	MSH6	child	2_63811086_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
22253334-328c-11e6-bd84-429305ad5bc4	1_75599860_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	75599860	AT	A	480	PASS	LHX8	Del	intronic	1	9	MSH6	child	1_75599860_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
22263c3a-329a-11e6-bda6-065325c9da85	13_35126833_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	35126833	TA	T	480	PASS	RP11-16D22.2	Del	intronic	1	6	MSH6	child	13_35126833_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
222abbe2-3287-11e6-a284-4b89a2c71c31	4_52801237_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	52801237	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	4_52801237_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
2230e1be-3293-11e6-a1c8-fb347a852e0e	7_37012069_TCACAGTTCTGGAGGCTGGAAGTCTGCATCAGCAGGGTCGGTTCCTCTTGAAGGCTGTAAGGGGCTCTGTTCCAGGCCTTTCTCCTTGGCCTGTAGATGACTGTCTCCTCCCTGTGTCTCTTTACATCATCTTCCTTCTATGCATGTCTGTCTCTGCATCCAGTGTTCCCTTTTTATAAGGACACTAGTCACACTGGATTAGGGTCCATCTGATGTCCTCATTTTAACTTGATTACCTCTGTAAGACCCTATCTCCAAATAAGGGAACTTTCGGAGGTTAGGACTTCAATCTATATATCTATATAACTATATCTATATCTATAGTTTTTTGAAACAGAGTTTCATTCTTGTTGCCTAGGCTGGATGGAGTACAATGGCGCGATCTCGGCTCACTGCAACTTCTACCTCCCAGTTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGCAGCTGGGATTACAGGCGCCCACCACCACACCCAGCTAATTTTTGTATTTTTAGTGGAGACGAGGTTTTGCCATGTTGACCAGGCTGGTCTCGAACTACTGACCTCAGGTGATCTACCTACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTAAGCCACCCATGCCAGGCCAGGACTCTGGTATATATTTTTGAGGAGGACATATTTCAAACTATAACATGCATCAAGGTTTCTAAGCAGGCTTAAATGTCCACTTGAGTGGTACAACCCAATCCGTGAAGCCAGAGCATGGTGCAGGCTCCCATCCATCCTACAGGTACATCAGGATAAAGGCCAGCCTTCTGCCTCCTGGAGCGAGACTGCTGTTCTTTTTCTCCCCTAGCTGGCTAATCAGTAGTGCCAGTACAGGGAAAATTTTTCTGATCTATATAACTGAGGCCTGACATTTAGGAGACTGTGTTTTAACAATGTCCCATTAGGGCCCTATGTCTCTATCAGCTACCATCTAAGTTGCAGAGCAATAGACTGAGTGAGGGCTGAGATGCCCACATAGGCCTCAATTTGCTCCATGAGAAGGAAACAAGTTCCAGTCCATCATTAGGATGGTCTTGAACTATGGAAGCT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	7	37012069	TCACAGTTCTGGAGGCTGGAAGTCTGCATCAGCAGGGTCGGTTCCTCTTGAAGGCTGTAAGGGGCTCTGTTCCAGGCCTTTCTCCTTGGCCTGTAGATGACTGTCTCCTCCCTGTGTCTCTTTACATCATCTTCCTTCTATGCATGTCTGTCTCTGCATCCAGTGTTCCCTTTTTATAAGGACACTAGTCACACTGGATTAGGGTCCATCTGATGTCCTCATTTTAACTTGATTACCTCTGTAAGACCCTATCTCCAAATAAGGGAACTTTCGGAGGTTAGGACTTCAATCTATATATCTATATAACTATATCTATATCTATAGTTTTTTGAAACAGAGTTTCATTCTTGTTGCCTAGGCTGGATGGAGTACAATGGCGCGATCTCGGCTCACTGCAACTTCTACCTCCCAGTTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGCAGCTGGGATTACAGGCGCCCACCACCACACCCAGCTAATTTTTGTATTTTTAGTGGAGACGAGGTTTTGCCATGTTGACCAGGCTGGTCTCGAACTACTGACCTCAGGTGATCTACCTACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTAAGCCACCCATGCCAGGCCAGGACTCTGGTATATATTTTTGAGGAGGACATATTTCAAACTATAACATGCATCAAGGTTTCTAAGCAGGCTTAAATGTCCACTTGAGTGGTACAACCCAATCCGTGAAGCCAGAGCATGGTGCAGGCTCCCATCCATCCTACAGGTACATCAGGATAAAGGCCAGCCTTCTGCCTCCTGGAGCGAGACTGCTGTTCTTTTTCTCCCCTAGCTGGCTAATCAGTAGTGCCAGTACAGGGAAAATTTTTCTGATCTATATAACTGAGGCCTGACATTTAGGAGACTGTGTTTTAACAATGTCCCATTAGGGCCCTATGTCTCTATCAGCTACCATCTAAGTTGCAGAGCAATAGACTGAGTGAGGGCTGAGATGCCCACATAGGCCTCAATTTGCTCCATGAGAAGGAAACAAGTTCCAGTCCATCATTAGGATGGTCTTGAACTATGGAAGC	T	471	PASS	ELMO1	Del	intronic	1069	1	CHK2	child	7_37012069_TCACAGTTCTGGAGGCTGGAAGTCTGCATCAGCAGGGTCGGTTCCTCTTGAAGGCTGTAAGGGGCTCTGTTCCAGGCCTTTCTCCTTGGCCTGTAGATGACTGTCTCCTCCCTGTGTCTCTTTACATCATCTTCCTTCTATGCATGTCTGTCTCTGCATCCAGTGTTCCCTTTTTATAAGGACACTAGTCACACTGGATTAGGGTCCATCTGATGTCCTCATTTTAACTTGATTACCTCTGTAAGACCCTATCTCCAAATAAGGGAACTTTCGGAGGTTAGGACTTCAATCTATATATCTATATAACTATATCTATATCTATAGTTTTTTGAAACAGAGTTTCATTCTTGTTGCCTAGGCTGGATGGAGTACAATGGCGCGATCTCGGCTCACTGCAACTTCTACCTCCCAGTTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGCAGCTGGGATTACAGGCGCCCACCACCACACCCAGCTAATTTTTGTATTTTTAGTGGAGACGAGGTTTTGCCATGTTGACCAGGCTGGTCTCGAACTACTGACCTCAGGTGATCTACCTACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTAAGCCACCCATGCCAGGCCAGGACTCTGGTATATATTTTTGAGGAGGACATATTTCAAACTATAACATGCATCAAGGTTTCTAAGCAGGCTTAAATGTCCACTTGAGTGGTACAACCCAATCCGTGAAGCCAGAGCATGGTGCAGGCTCCCATCCATCCTACAGGTACATCAGGATAAAGGCCAGCCTTCTGCCTCCTGGAGCGAGACTGCTGTTCTTTTTCTCCCCTAGCTGGCTAATCAGTAGTGCCAGTACAGGGAAAATTTTTCTGATCTATATAACTGAGGCCTGACATTTAGGAGACTGTGTTTTAACAATGTCCCATTAGGGCCCTATGTCTCTATCAGCTACCATCTAAGTTGCAGAGCAATAGACTGAGTGAGGGCTGAGATGCCCACATAGGCCTCAATTTGCTCCATGAGAAGGAAACAAGTTCCAGTCCATCATTAGGATGGTCTTGAACTATGGAAGCT_CHK2	1069	>=10	4	CACA	0	-	Microhomology-mediated
2236c2be-3324-11e6-9eb4-dd99cf737e61	8_17232149_TAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	8	17232149	TA	T	596	PASS	MTMR7	Del	intronic	1	4	EXO1	child	8_17232149_TAT_EXO1	1	1	1	A	3	A	Repeat-mediated
223a0abc-3349-11e6-a9cc-a0a270cce0de	2_211965542_CTTGAC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	2	211965542	CTTGA	C	600	PASS	-	Del	-	4	1	FANCC	child	2_211965542_CTTGAC_FANCC	4	4	2	TT	0	-	Microhomology-mediated
2240fb04-328d-11e6-b6a6-1f1e0e01a414	4_41227735_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	41227735	TA	T	654	PASS	-	Del	-	1	5	MSH6	child	4_41227735_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
22436704-3323-11e6-9802-cf66694da5d2	12_105126681_ATA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	12	105126681	AT	A	660	PASS	CHST11	Del	intronic	1	8	EXO1	child	12_105126681_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
224b4bea-3274-11e6-8607-751ad9b4fa2c	22_30914196_AGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	22	30914196	AG	A	254	PASS	SEC14L6	Del	downstream	1	5	MSH6	child	22_30914196_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
22681d3e-326e-11e6-9f48-94df41c4520d	12_118849296_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	118849296	CT	C	300	PASS	SUDS3	Del	intronic	1	9	MSH6	child	12_118849296_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
226c4048-328d-11e6-8770-3e160e01a414	9_113734994_AGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	113734994	AG	A	360	PASS	LPAR1	Del	intronic	1	5	MSH6	child	9_113734994_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
2271bbea-3288-11e6-8404-8e1fbce6aa09	8_92350305_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	92350305	TA	T	480	PASS	SLC26A7	Del	intronic	1	5	MSH6	child	8_92350305_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
227815ea-3278-11e6-a5d7-eb6be7d0bdd7	6_116744751_GTG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	6	116744751	GT	G	480	PASS	DSE	Del	intronic	1	7	EXO1	child	6_116744751_GTG_EXO1	1	1	1	T	6	T	Repeat-mediated
227eacb6-3287-11e6-9e1f-6479a178171f	16_86201051_CTC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	16	86201051	CT	C	420	PASS	-	Del	-	1	7	FANCC	child	16_86201051_CTC_FANCC	1	1	1	T	6	T	Repeat-mediated
2287337e-3276-11e6-ab69-1c1607e9a829	9_119378153_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	119378153	TA	T	664	PASS	ASTN2	Del	intronic	1	8	MSH6	child	9_119378153_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
22878240-328d-11e6-bd84-429305ad5bc4	1_215684980_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	215684980	GA	G	660	PASS	-	Del	-	1	7	MSH6	child	1_215684980_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
2299e750-3274-11e6-a5d0-4fd14a47a305	2_154241263_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	154241263	AT	A	300	PASS	-	Del	-	1	5	MSH6	child	2_154241263_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
229a98b8-327d-11e6-8723-889be7d0bdd7	2_102116572_CAAGTC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	2	102116572	CAAGT	C	600	PASS	-	Del	-	4	2	NUDT1	child	2_102116572_CAAGTC_NUDT1	4	4	4	AAGT	1	AAGT	Repeat-mediated
229c4700-328f-11e6-8e48-791e0e01a414	8_102393319_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	102393319	AT	A	600	PASS	-	Del	-	1	6	MSH6	child	8_102393319_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
22b0df18-3284-11e6-b293-6ca635cec73b	11_37160954_GAG	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	11	37160954	GA	G	420	PASS	-	Del	-	1	9	POLE	child	11_37160954_GAG_POLE	1	1	1	A	8	A	Repeat-mediated
22b67a50-328d-11e6-8256-94c36f39e758	17_80905077_GCG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	80905077	GC	G	600	PASS	TBCD	Del	downstream	1	7	MSH6	child	17_80905077_GCG_MSH6	1	1	1	C	6	C	Repeat-mediated
22b9de9c-329d-11e6-a5cf-e5abcc638e3d	9_74698953_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	74698953	CA	C	540	PASS	-	Del	-	1	7	MSH6	child	9_74698953_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
22cf2320-328d-11e6-8f4b-33ab4430f757	13_73166479_CTC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	13	73166479	CT	C	540	PASS	-	Del	-	1	7	POLE	child	13_73166479_CTC_POLE	1	1	1	T	6	T	Repeat-mediated
22d22338-326d-11e6-92dd-fda8977b3f23	10_51787968_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	51787968	GA	G	300	PASS	-	Del	-	1	1	MSH6	child	10_51787968_GAG_MSH6	1	1	0	-	0	A	None
22d3b2b8-3275-11e6-adf7-9df5ed3c4f5d	21_15459315_AGA	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	21	15459315	AG	A	360	PASS	-	Del	-	1	1	NEIL1	child	21_15459315_AGA_NEIL1	1	1	0	-	0	G	None
22d44c8a-3277-11e6-9e0f-7959cab49462	7_109863594_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	109863594	GT	G	720	PASS	-	Del	-	1	9	MSH6	child	7_109863594_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
22d9986a-3278-11e6-92d2-c259c225ee11	3_131695602_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	131695602	TA	T	480	PASS	CPNE4	Del	intronic	1	8	MSH6	child	3_131695602_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
22e323fe-3277-11e6-a71d-236235cec73b	X_87645871_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	87645871	GA	G	360	PASS	-	Del	-	1	8	MSH6	child	X_87645871_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
22f1800a-328d-11e6-8770-3e160e01a414	9_113827190_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	113827190	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	9_113827190_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
22f788b2-3277-11e6-a5d7-eb6be7d0bdd7	6_14731368_CTC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	6	14731368	CT	C	660	PASS	-	Del	-	1	1	EXO1	child	6_14731368_CTC_EXO1	1	1	0	-	0	T	None
22fa724e-3276-11e6-83cd-a472a178171f	4_78050137_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	78050137	CT	C	780	PASS	-	Del	-	1	9	MSH6	child	4_78050137_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
22fed136-328a-11e6-9c89-8d090e01a414	1_43128550_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	43128550	CT	C	540	PASS	PPIH	Del	intronic	1	7	MSH6	child	1_43128550_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
22ffbf98-3293-11e6-a157-907af530df36	1_89306250_TGT	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	1	89306250	TG	T	480	PASS	PKN2	Del	downstream	1	8	POLB	child	1_89306250_TGT_POLB	1	1	1	G	7	G	Repeat-mediated
2309a97c-328e-11e6-b9c4-751d0e01a414	5_126738596_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	126738596	TA	T	360	PASS	MEGF10	Del	intronic	1	8	MSH6	child	5_126738596_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
23206572-3257-11e6-885f-d1947872c165	4_68855560_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	68855560	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	4_68855560_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
232e9248-3322-11e6-8db2-39e579852e0e	2_165299707_AGATTA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	2	165299707	AGATT	A	600	PASS	-	Del	-	4	2	POLE	child	2_165299707_AGATTA_POLE	4	4	4	GATT	1	GATT	Repeat-mediated
233803f6-326d-11e6-9f48-94df41c4520d	12_45672332_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	45672332	CT	C	300	PASS	ANO6	Del	intronic	1	8	MSH6	child	12_45672332_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
2341ba3c-328f-11e6-9432-c0e56f39e758	5_37474173_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	37474173	GT	G	540	PASS	WDR70	Del	intronic	1	7	MSH6	child	5_37474173_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
2347c1e2-326d-11e6-92dd-fda8977b3f23	10_52046223_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	52046223	CA	C	360	PASS	-	Del	-	1	7	MSH6	child	10_52046223_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
234a71b0-3274-11e6-90fa-056466a58581	4_31898338_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	4	31898338	AT	A	780	PASS	-	Del	-	1	8	FANCC	child	4_31898338_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
234f4a50-3288-11e6-b024-69a4b0dab373	20_46686553_TAT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	20	46686553	TA	T	540	PASS	-	Del	-	1	9	POLE	parent	20_46686553_TAT_POLE	1	1	1	A	8	A	Repeat-mediated
23510e34-3275-11e6-a5d0-4fd14a47a305	2_235035662_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	235035662	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	2_235035662_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
23542b7e-3323-11e6-9b94-35fee9d19ece	9_19222515_TCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACCGGTGCGTGCCATCACGCCCAGCTAATTTTTATATTTTTAGTAGAGGCAGGGTTTCACCATGTTGGCCAGGAAGGTCTCAATCTCTTGACCTTGTGATCCACCCGCCTCGGCCTACCAAAGTGCTGGGATTACAGGCGTGAGCCACTATGCCTGGCCAAAACGAATGCTAGTATTTTTAAAATTTAATCTTTTTTTGTTGTTGTTTTTGAGACAAAATCTTGCGCTGTCACCCAGGCTTGAGTACAGTGGCAAGATCTCAGCTTACTGCAGCCGTGACCTCTTAGACTCAAGTGATCT	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	9	19222515	TCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACCGGTGCGTGCCATCACGCCCAGCTAATTTTTATATTTTTAGTAGAGGCAGGGTTTCACCATGTTGGCCAGGAAGGTCTCAATCTCTTGACCTTGTGATCCACCCGCCTCGGCCTACCAAAGTGCTGGGATTACAGGCGTGAGCCACTATGCCTGGCCAAAACGAATGCTAGTATTTTTAAAATTTAATCTTTTTTTGTTGTTGTTTTTGAGACAAAATCTTGCGCTGTCACCCAGGCTTGAGTACAGTGGCAAGATCTCAGCTTACTGCAGCCGTGACCTCTTAGACTCAAGTGATC	T	262	PASS	-	Del	-	331	1	POLE	child	9_19222515_TCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACCGGTGCGTGCCATCACGCCCAGCTAATTTTTATATTTTTAGTAGAGGCAGGGTTTCACCATGTTGGCCAGGAAGGTCTCAATCTCTTGACCTTGTGATCCACCCGCCTCGGCCTACCAAAGTGCTGGGATTACAGGCGTGAGCCACTATGCCTGGCCAAAACGAATGCTAGTATTTTTAAAATTTAATCTTTTTTTGTTGTTGTTTTTGAGACAAAATCTTGCGCTGTCACCCAGGCTTGAGTACAGTGGCAAGATCTCAGCTTACTGCAGCCGTGACCTCTTAGACTCAAGTGATCT_POLE	331	>=10	19	CTCCTGCCTCAGCCTCCCG	0	-	Microhomology-mediated
2355fc2e-327e-11e6-8cd6-250199816cf3	5_101780310_ATA	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	5	101780310	AT	A	660	PASS	SLCO6A1	Del	intronic	1	9	POLM	child	5_101780310_ATA_POLM	1	1	1	T	8	T	Repeat-mediated
235704cc-3326-11e6-9915-920b694da5d2	22_35025749_GGTG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	22	35025749	GGT	G	600	PASS	-	Del	-	2	7	EXO1	child	22_35025749_GGTG_EXO1	2	2	2	GT	6	GT	Repeat-mediated
235ebae0-328c-11e6-88c1-95c36f39e758	14_56379916_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	56379916	AC	A	600	PASS	RP11-1012E15.1	Del	upstream	1	4	MSH6	child	14_56379916_ACA_MSH6	1	1	1	C	3	C	Repeat-mediated
23639a2a-3290-11e6-b52f-4eeb6f39e758	22_41551623_GTCACG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	22	41551623	GTCAC	G	780	PASS	EP300	Del	intronic	4	2	MSH6	child	22_41551623_GTCACG_MSH6	4	4	4	TCAC	1	TCAC	Repeat-mediated
23653518-3283-11e6-89eb-f2eacdacbbbf	4_64344447_CAC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	4	64344447	CA	C	480	PASS	RP11-12K22.1	Del	intronic	1	9	EXO1	child	4_64344447_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
23670d10-328e-11e6-919e-92c36f39e758	2_177984339_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	177984339	AT	A	420	PASS	AC079305.11	Del	intronic	1	9	MSH6	child	2_177984339_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
236dd914-3285-11e6-870e-6af1bbe6aa09	19_46876074_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	46876074	TA	T	600	PASS	PPP5C	Del	intronic	1	9	MSH6	child	19_46876074_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
2376338a-3275-11e6-b332-88ba7d6a9fc7	15_26367244_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	26367244	A	AT	540	PASS	LINC00929	Ins	intronic	1	7	MSH6	child	15_26367244_AAT_MSH6	1	1	-	-	-	-	Ins
237f2e10-3278-11e6-8629-39703cfdbd24	4_125086049_TAT	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	4	125086049	TA	T	540	PASS	CTD-2325B11.1	Del	intronic	1	5	CHK2	child	4_125086049_TAT_CHK2	1	1	1	A	4	A	Repeat-mediated
237f4fbe-328a-11e6-b805-77090e01a414	2_57752027_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	57752027	CT	C	720	PASS	-	Del	-	1	8	MSH6	child	2_57752027_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
237fd25a-3289-11e6-a8ac-a28ea2c71c31	3_150600177_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	150600177	CT	C	720	PASS	FAM188B2	Del	intronic	1	8	MSH6	child	3_150600177_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
238a07fe-3273-11e6-8418-1c5942c4520d	3_98812666_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	98812666	T	TA	420	PASS	-	Ins	-	1	8	MSH6	child	3_98812666_TTA_MSH6	1	1	-	-	-	-	Ins
23927052-3272-11e6-949c-85d3ed3c4f5d	19_53673565_GAG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	19	53673565	GA	G	450	PASS	ZNF665	Del	intronic	1	6	MSH6	parent	19_53673565_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
23953678-326f-11e6-9f48-94df41c4520d	12_62542007_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	62542007	C	CA	420	PASS	FAM19A2	Ins	intronic	1	4	MSH6	child	12_62542007_CCA_MSH6	1	1	-	-	-	-	Ins
2396f84e-328a-11e6-9453-299c20e7b7a8	2_238489398_AGA	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	2	238489398	AG	A	300	PASS	RAB17	Del	intronic	1	8	POLE	child	2_238489398_AGA_POLE	1	1	1	G	7	G	Repeat-mediated
2397848a-328f-11e6-ad16-6b56f0f7a29c	10_74884644_AAATA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	10	74884644	AAAT	A	360	PASS	NUDT13	Del	intronic	3	3	NEIL1	child	10_74884644_AAATA_NEIL1	3	3	3	AAT	2	AAT	Repeat-mediated
23a58b52-3276-11e6-8fe4-214938e8a824	20_31499924_GACG	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	20	31499924	GAC	G	720	PASS	-	Del	-	2	2	POLM	child	20_31499924_GACG_POLM	2	2	2	AC	1	AC	Repeat-mediated
23a7e726-3280-11e6-92a3-70670cfb5812	16_61022201_GAG	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	16	61022201	GA	G	300	PASS	-	Del	-	1	7	POLM	child	16_61022201_GAG_POLM	1	1	1	A	6	A	Repeat-mediated
23ada8be-328f-11e6-9d24-ade56f39e758	7_37463262_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	37463262	AT	A	408	PASS	ELMO1	Del	intronic	1	8	MSH6	child	7_37463262_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
23af92d2-328a-11e6-b74f-549ba2c71c31	20_32988344_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	32988344	TA	T	780	PASS	ITCH	Del	intronic	1	8	MSH6	child	20_32988344_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
23b46b44-329a-11e6-bda6-065325c9da85	13_35693718_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	35693718	AT	A	420	PASS	NBEA	Del	intronic	1	9	MSH6	child	13_35693718_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
23b65a20-3282-11e6-9a85-856e0cfb5812	7_64116774_AGCCCAGCACACAGGTGAGATTGTGTTTCTCATATGCACACACCACCAACCATAAGGATTGTCACCCTCAAACATGGACAGATCCCACTAGTGAGGTCCTGAATCTTACACGGAGACATAGTTCACAATTGGAATTGTGATTGTCATTTGTTAACATCTGGCCACAGTTTGAATGGTGACTCACTTCTAAACTTACCACATGGGCAGGTGATGACTGTATTATTTTCACACAGCCAATTGAAAAGATGCTGACTCTCATACCTGGGCCTAGGATCACAGCTACAATCATTGGTCTGTACCAGCATGAAGGTATCAGAGCATATTGTGACTCACGTGTATATTATATAAAGCCCTCGAGTGGTATAGAGAGTGTCCTAACAAGA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	7	64116774	AGCCCAGCACACAGGTGAGATTGTGTTTCTCATATGCACACACCACCAACCATAAGGATTGTCACCCTCAAACATGGACAGATCCCACTAGTGAGGTCCTGAATCTTACACGGAGACATAGTTCACAATTGGAATTGTGATTGTCATTTGTTAACATCTGGCCACAGTTTGAATGGTGACTCACTTCTAAACTTACCACATGGGCAGGTGATGACTGTATTATTTTCACACAGCCAATTGAAAAGATGCTGACTCTCATACCTGGGCCTAGGATCACAGCTACAATCATTGGTCTGTACCAGCATGAAGGTATCAGAGCATATTGTGACTCACGTGTATATTATATAAAGCCCTCGAGTGGTATAGAGAGTGTCCTAACAAG	A	300	PASS	-	Del	-	381	1	POLM	child	7_64116774_AGCCCAGCACACAGGTGAGATTGTGTTTCTCATATGCACACACCACCAACCATAAGGATTGTCACCCTCAAACATGGACAGATCCCACTAGTGAGGTCCTGAATCTTACACGGAGACATAGTTCACAATTGGAATTGTGATTGTCATTTGTTAACATCTGGCCACAGTTTGAATGGTGACTCACTTCTAAACTTACCACATGGGCAGGTGATGACTGTATTATTTTCACACAGCCAATTGAAAAGATGCTGACTCTCATACCTGGGCCTAGGATCACAGCTACAATCATTGGTCTGTACCAGCATGAAGGTATCAGAGCATATTGTGACTCACGTGTATATTATATAAAGCCCTCGAGTGGTATAGAGAGTGTCCTAACAAGA_POLM	381	>=10	24	GCCCAGCACACAGGTGAGATTGTG	0	-	Microhomology-mediated
23bb2d94-3254-11e6-bc65-c9667872c165	13_62513374_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	62513374	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	13_62513374_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
23bb564c-3291-11e6-b55e-be65694da5d2	X_33158001_AAT	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	X	33158001	A	AT	360	PASS	DMD	Ins	intronic	1	1	POLM	child	X_33158001_AAT_POLM	1	1	-	-	-	-	Ins
23c0a21a-328b-11e6-b805-77090e01a414	2_125088418_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	125088418	TA	T	300	PASS	CNTNAP5	Del	intronic	1	6	MSH6	child	2_125088418_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
23cfba7a-328b-11e6-8459-82090e01a414	12_110334554_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	110334554	GA	G	480	PASS	TCHP	Del	upstream	1	8	MSH6	child	12_110334554_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
23d94fb4-3325-11e6-8527-5503694da5d2	X_69461437_CTC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	X	69461437	CT	C	540	PASS	AWAT1	Del	downstream	1	9	EXO1	child	X_69461437_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
23e2e2be-329d-11e6-bc2c-2a5e25c9da85	4_15765840_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	15765840	TA	T	660	PASS	-	Del	-	1	6	MSH6	child	4_15765840_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
23e3437e-328b-11e6-ba48-afb3cc638e3d	2_162030754_ATA	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	2	162030754	AT	A	360	PASS	TANK	Del	intronic	1	8	NUDT1	child	2_162030754_ATA_NUDT1	1	1	1	T	7	T	Repeat-mediated
23f06900-329a-11e6-bda6-065325c9da85	13_35904300_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	35904300	GT	G	600	PASS	NBEA	Del	intronic	1	8	MSH6	child	13_35904300_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
23f1f6f8-3290-11e6-8612-7b73fc77b11e	5_81010061_CTC	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	5	81010061	CT	C	600	PASS	SSBP2	Del	intronic	1	6	POLE	child	5_81010061_CTC_POLE	1	1	1	T	5	T	Repeat-mediated
24031444-3293-11e6-baeb-4e0b987b3f23	20_4975810_GAG	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	20	4975810	GA	G	360	PASS	SLC23A2	Del	intronic	1	6	NEIL1	child	20_4975810_GAG_NEIL1	1	1	1	A	5	A	Repeat-mediated
24057d82-328a-11e6-8f9e-1f8aa178171f	4_105232854_GAG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	4	105232854	GA	G	360	PASS	RP11-729M20.1	Del	intronic	1	9	FANCC	child	4_105232854_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
240af91a-328a-11e6-8459-82090e01a414	12_52588158_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	52588158	CA	C	420	PASS	KRT80	Del	upstream	1	6	MSH6	child	12_52588158_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
24113c40-3270-11e6-8418-1c5942c4520d	3_17524812_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	17524812	TA	T	420	PASS	TBC1D5	Del	intronic	1	6	MSH6	child	3_17524812_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
241e46e8-3292-11e6-a366-d0257a852e0e	2_189407620_ATTCA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	2	189407620	ATTC	A	300	PASS	GULP1	Del	intronic	3	2	CHK2	child	2_189407620_ATTCA_CHK2	3	3	3	TTC	1	TTC	Repeat-mediated
2421ea5a-328d-11e6-b4fe-93c36f39e758	12_97338269_TCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	97338269	TC	T	360	PASS	NEDD1	Del	intronic	1	1	MSH6	child	12_97338269_TCT_MSH6	1	1	0	-	0	C	None
243352e8-3285-11e6-870e-6af1bbe6aa09	19_46987705_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	46987705	CA	C	480	PASS	PPP5D1	Del	intronic	1	8	MSH6	child	19_46987705_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
2434b830-326d-11e6-9f48-94df41c4520d	12_46059623_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	46059623	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	12_46059623_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
2437bdcc-3291-11e6-9432-c0e56f39e758	5_179970752_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	179970752	CT	C	300	PASS	CNOT6	Del	intronic	1	6	MSH6	child	5_179970752_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
243931ec-3283-11e6-9607-56b01ac527ab	4_55956320_CAC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	4	55956320	CA	C	540	PASS	KDR	Del	intronic	1	9	FANCC	child	4_55956320_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
243cdb12-3328-11e6-868e-d16670cce0de	6_82896180_GTG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	6	82896180	GT	G	420	PASS	IBTK	Del	intronic	1	9	EXO1	child	6_82896180_GTG_EXO1	1	1	1	T	8	T	Repeat-mediated
243de93c-3281-11e6-ae55-ef338e4678dd	14_71685252_CAGC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	14	71685252	CAG	C	480	PASS	RP6-91H8.5	Del	upstream	2	1	EXO1	child	14_71685252_CAGC_EXO1	2	2	0	-	0	-	None
2440ea08-328e-11e6-b9c4-751d0e01a414	5_127201861_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	127201861	GA	G	480	PASS	CTC-228N24.1	Del	intronic	1	8	MSH6	child	5_127201861_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
24413e1c-3294-11e6-b574-0154e7d0bdd7	20_40719902_TGT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	20	40719902	TG	T	480	PASS	PTPRT	Del	intronic	1	6	FANCC	child	20_40719902_TGT_FANCC	1	1	1	G	5	G	Repeat-mediated
2442e586-3254-11e6-89d3-d29498816cf3	2_66550381_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	66550381	TA	T	540	PASS	AC092669.6	Del	upstream	1	8	MSH6	child	2_66550381_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
24459dd4-3273-11e6-a5d0-4fd14a47a305	2_64537468_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	64537468	GA	G	480	PASS	-	Del	-	1	7	MSH6	child	2_64537468_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
2446df56-329a-11e6-8069-175325c9da85	12_15802555_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	15802555	GA	G	660	PASS	EPS8	Del	intronic	1	9	MSH6	child	12_15802555_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
2447b3e4-326e-11e6-9fba-41ebd8b4fa2c	11_62308134_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	62308134	AT	A	300	PASS	AHNAK	Del	intronic	1	8	MSH6	child	11_62308134_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
244d01d4-3285-11e6-9e78-7d3e51c54cdd	2_85352327_CAGAAC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	2	85352327	CAGAA	C	780	PASS	-	Del	-	4	1	EXO1	child	2_85352327_CAGAAC_EXO1	4	4	3	AGA	0	-	Microhomology-mediated
244e9472-3258-11e6-885f-d1947872c165	4_141007674_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	141007674	GA	G	660	PASS	MAML3	Del	intronic	1	9	MSH6	child	4_141007674_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
245997c8-3271-11e6-9309-bdc34a47a305	8_95086056_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	95086056	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	8_95086056_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
245bff50-3324-11e6-8c6b-3c0f42c4520d	4_71483398_GAG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	4	71483398	GA	G	360	PASS	-	Del	-	1	6	EXO1	child	4_71483398_GAG_EXO1	1	1	1	A	5	A	Repeat-mediated
2460ae62-328c-11e6-9c89-8d090e01a414	1_169265394_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	169265394	CA	C	360	PASS	NME7	Del	intronic	1	9	MSH6	child	1_169265394_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
2479094a-3321-11e6-8c1c-2deb137bb207	15_43063516_TAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	15	43063516	TA	T	360	PASS	TTBK2	Del	intronic	1	9	EXO1	child	15_43063516_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
24817ea4-3254-11e6-b4d0-327a7872c165	11_40729394_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	40729394	CT	C	627	PASS	LRRC4C	Del	intronic	1	8	MSH6	child	11_40729394_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
2483ea96-328a-11e6-8eee-76090e01a414	10_60530095_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	60530095	AT	A	660	PASS	BICC1	Del	intronic	1	6	MSH6	child	10_60530095_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
2487a4ec-3285-11e6-ac39-4c9efc1f1540	20_55362749_CCCTGCCTC	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	20	55362749	CCCTGCCT	C	420	PASS	RNU6-929P	Del	upstream	7	2	FANCC	child	20_55362749_CCCTGCCTC_FANCC	7	7	7	CCTGCCT	1	CCTGCCT	Repeat-mediated
248a8d02-3270-11e6-a576-d8f3eab8d062	17_70893164_GCTGGGCGACAGAGTAAGACTCTGTCTCAAAAAAAAAAAAAAAAAAACAAACAGAAAAACAGAAAAGTCCTCAAGGGTGAGTGAGAGCACTCCAACAACAGAAATTTGGAAAGGACCAGGAAGCATGGAAACCAATTTGGGAGCTCCTGTAGTAATTCATGGCAGAGATGATGAAGGCCTGAACTGAGAGGACCCCAGTGGGGACAGACAGTGACCTGCTGGACATCGGAGGTGGGAAAAGGAAGCCATCTGCACTGTGCTGTCTAATATGAGAACCACAAGCCACATGCAGTCATCTAATATAACG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	17	70893164	GCTGGGCGACAGAGTAAGACTCTGTCTCAAAAAAAAAAAAAAAAAAACAAACAGAAAAACAGAAAAGTCCTCAAGGGTGAGTGAGAGCACTCCAACAACAGAAATTTGGAAAGGACCAGGAAGCATGGAAACCAATTTGGGAGCTCCTGTAGTAATTCATGGCAGAGATGATGAAGGCCTGAACTGAGAGGACCCCAGTGGGGACAGACAGTGACCTGCTGGACATCGGAGGTGGGAAAAGGAAGCCATCTGCACTGTGCTGTCTAATATGAGAACCACAAGCCACATGCAGTCATCTAATATAAC	G	540	PASS	SLC39A11	Del	intronic	305	1	NUDT1	child	17_70893164_GCTGGGCGACAGAGTAAGACTCTGTCTCAAAAAAAAAAAAAAAAAAACAAACAGAAAAACAGAAAAGTCCTCAAGGGTGAGTGAGAGCACTCCAACAACAGAAATTTGGAAAGGACCAGGAAGCATGGAAACCAATTTGGGAGCTCCTGTAGTAATTCATGGCAGAGATGATGAAGGCCTGAACTGAGAGGACCCCAGTGGGGACAGACAGTGACCTGCTGGACATCGGAGGTGGGAAAAGGAAGCCATCTGCACTGTGCTGTCTAATATGAGAACCACAAGCCACATGCAGTCATCTAATATAACG_NUDT1	305	>=10	2	CT	0	-	Microhomology-mediated
248b8b1a-329f-11e6-94ca-0aaecc638e3d	X_97124679_ATCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	97124679	ATC	A	720	PASS	-	Del	-	2	5	MSH6	child	X_97124679_ATCA_MSH6	2	2	2	TC	4	TC	Repeat-mediated
248be114-329f-11e6-b696-dd6225c9da85	5_134333602_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	134333602	CT	C	764	PASS	CATSPER3	Del	intronic	1	8	MSH6	child	5_134333602_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
249698aa-3256-11e6-bf41-357a7872c165	10_35815420_GGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	35815420	G	GA	360	PASS	CCNY	Ins	intronic	1	7	MSH6	child	10_35815420_GGA_MSH6	1	1	-	-	-	-	Ins
24a83c64-3287-11e6-a284-4b89a2c71c31	4_53976090_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	53976090	CA	C	540	PASS	SCFD2	Del	intronic	1	8	MSH6	child	4_53976090_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
24b322d8-3290-11e6-ae53-96c36f39e758	15_88129444_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	88129444	T	TA	540	PASS	RP11-648K4.2	Ins	intronic	1	7	MSH6	child	15_88129444_TTA_MSH6	1	1	-	-	-	-	Ins
24b6d05c-3292-11e6-8d18-13cc0d01a414	20_32429535_TCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	20	32429535	TC	T	480	PASS	CHMP4B	Del	intronic	1	7	MSH6	child	20_32429535_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
24ca274e-3277-11e6-bc24-bc6e3cfdbd24	6_65460370_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	6	65460370	AT	A	420	PASS	EYS	Del	intronic	1	9	MSH6	parent	6_65460370_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
24ceab02-3290-11e6-ae53-96c36f39e758	15_88143165_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	88143165	A	AT	300	PASS	RP11-648K4.2	Ins	intronic	1	6	MSH6	child	15_88143165_AAT_MSH6	1	1	-	-	-	-	Ins
24d3f450-328a-11e6-a19d-3c763adbad45	4_136895554_CAC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	4	136895554	CA	C	540	PASS	-	Del	-	1	9	NUDT1	parent	4_136895554_CAC_NUDT1	1	1	1	A	8	A	Repeat-mediated
24dedf7a-329c-11e6-9e74-4e638cd8cd69	20_43006874_ATA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	20	43006874	AT	A	540	PASS	HNF4A	Del	intronic	1	6	CHK2	child	20_43006874_ATA_CHK2	1	1	1	T	5	T	Repeat-mediated
24dff572-326f-11e6-b5b8-e0c24a47a305	X_10198013_ACA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	10198013	AC	A	472	PASS	CLCN4	Del	intronic	1	5	MSH6	child	X_10198013_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
24eb5706-3287-11e6-a284-4b89a2c71c31	4_54075821_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	54075821	GA	G	600	PASS	SCFD2	Del	intronic	1	5	MSH6	child	4_54075821_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
24effb30-328c-11e6-919e-92c36f39e758	2_42309586_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	42309586	AT	A	600	PASS	-	Del	-	1	7	MSH6	child	2_42309586_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
24f8fd6c-326d-11e6-b9f4-5d1d694da5d2	14_56983598_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	56983598	GT	G	420	PASS	RP11-624J12.1	Del	intronic	1	6	MSH6	child	14_56983598_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
25041570-328c-11e6-8770-3e160e01a414	9_33716450_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	33716450	CA	C	480	PASS	RP11-384P7.5	Del	upstream	1	7	MSH6	child	9_33716450_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
2505efdc-326c-11e6-b01f-1b4ba78019ab	17_6010489_CTCTC	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	17	6010489	CTCT	C	480	PASS	WSCD1	Del	intronic	3	2	POLM	parent	17_6010489_CTCTC_POLM	3	3	3	TCT	1	TCT	Repeat-mediated
2512e93e-3277-11e6-b332-88ba7d6a9fc7	15_88510205_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	88510205	C	CA	720	PASS	NTRK3	Ins	intronic	1	4	MSH6	child	15_88510205_CCA_MSH6	1	1	-	-	-	-	Ins
2523e430-3323-11e6-a947-acb5cde16804	15_44043421_AAT	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	15	44043421	A	AT	600	PASS	PDIA3	Ins	intronic	1	9	POLE	child	15_44043421_AAT_POLE	1	1	-	-	-	-	Ins
25244014-3275-11e6-b8ae-92c57872c165	14_95500742_CCCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	95500742	C	CCT	360	PASS	-	Ins	-	2	6	MSH6	child	14_95500742_CCCT_MSH6	2	2	-	-	-	-	Ins
25253ab8-328a-11e6-8eee-76090e01a414	10_60770252_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	60770252	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	10_60770252_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
25283d42-3273-11e6-83ef-69fb06e9a829	18_53701861_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	53701861	TA	T	600	PASS	CTD-2008L17.2	Del	intronic	1	8	MSH6	child	18_53701861_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
2528a94e-328c-11e6-8952-77c36f39e758	10_34217123_GAGAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	34217123	GAGA	G	720	PASS	-	Del	-	3	2	MSH6	child	10_34217123_GAGAG_MSH6	3	3	3	AGA	1	AGA	Repeat-mediated
252dde0c-329e-11e6-8c2e-3f6625c9da85	22_17023868_ATTATTAGGCTTTCTTGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	22	17023868	ATTATTAGGCTTTCTTG	A	399	PASS	-	Del	-	16	1	MSH6	child	22_17023868_ATTATTAGGCTTTCTTGA_MSH6	16	>=10	3	TTA	0	-	Microhomology-mediated
25314884-326d-11e6-9793-9a8fb0dab373	13_54501999_TCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	54501999	TC	T	480	PASS	-	Del	-	1	5	MSH6	child	13_54501999_TCT_MSH6	1	1	1	C	4	C	Repeat-mediated
25358a6e-3297-11e6-8932-5889e84777f6	20_20811985_ATA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	20	20811985	AT	A	480	PASS	-	Del	-	1	6	CHK2	child	20_20811985_ATA_CHK2	1	1	1	T	5	T	Repeat-mediated
25379516-328d-11e6-919e-92c36f39e758	2_109767280_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	109767280	TA	T	600	PASS	SH3RF3	Del	intronic	1	9	MSH6	child	2_109767280_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
253aab1a-3289-11e6-b32c-fd87a2c71c31	5_143036113_CCAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	143036113	C	CAT	300	PASS	-	Ins	-	2	5	MSH6	child	5_143036113_CCAT_MSH6	2	2	-	-	-	-	Ins
253b9faa-3259-11e6-9d15-298312ae24cf	X_29668876_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	29668876	C	CA	360	PASS	IL1RAPL1	Ins	intronic	1	7	MSH6	child	X_29668876_CCA_MSH6	1	1	-	-	-	-	Ins
2560136c-326d-11e6-9d68-ac9acab49462	15_49122296_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	49122296	CT	C	300	PASS	SHC4	Del	intronic	1	7	MSH6	child	15_49122296_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
2561e2be-3281-11e6-9e54-079882d12d16	12_76147039_GATATG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	12	76147039	GATAT	G	360	PASS	RP11-114H23.1	Del	intronic	4	3	FANCC	child	12_76147039_GATATG_FANCC	4	4	2	AT	0	-	Microhomology-mediated
25637af8-328f-11e6-bd90-978e3adbad45	12_71685887_ATA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	12	71685887	AT	A	660	PASS	TSPAN8	Del	intronic	1	8	NEIL1	child	12_71685887_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
25663e82-3271-11e6-881e-8d938a20d9eb	15_44065000_CATTC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	15	44065000	CATT	C	600	PASS	PDIA3	Del	3prime_UTR_variant	3	2	CHK2	child	15_44065000_CATTC_CHK2	3	3	3	ATT	1	ATT	Repeat-mediated
256c7cb0-3272-11e6-b89d-b2d6b0dab373	4_177763561_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	177763561	TA	T	480	PASS	-	Del	-	1	9	MSH6	child	4_177763561_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
2574b980-3271-11e6-8418-1c5942c4520d	3_114298538_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	114298538	TA	T	420	PASS	ZBTB20	Del	intronic	1	8	MSH6	child	3_114298538_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
2576d542-32a0-11e6-bc66-17b4cc638e3d	8_85459621_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	85459621	AT	A	420	PASS	RALYL	Del	intronic	1	9	MSH6	child	8_85459621_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
25787244-328c-11e6-8256-94c36f39e758	17_30702531_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	30702531	CT	C	660	PASS	ZNF207	Del	3prime_UTR_variant	1	9	MSH6	child	17_30702531_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
2579cf96-3295-11e6-a298-c9f1d0959d89	22_24792594_ATATA	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	22	24792594	ATAT	A	660	PASS	SPECC1L	Del	intronic	3	3	POLB	child	22_24792594_ATATA_POLB	3	3	3	TAT	2	TAT	Repeat-mediated
257da6d8-328c-11e6-88c1-95c36f39e758	14_56932120_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	56932120	CA	C	720	PASS	-	Del	-	1	6	MSH6	child	14_56932120_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
2581e2ea-3325-11e6-ada1-2957fc77b11e	5_156992278_GAG	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	5	156992278	GA	G	720	PASS	ADAM19	Del	intronic	1	7	POLE	child	5_156992278_GAG_POLE	1	1	1	A	6	A	Repeat-mediated
2585d55c-3290-11e6-92cf-bf2a0e01a414	6_87377895_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	87377895	AT	A	285	PASS	-	Del	-	1	6	MSH6	child	6_87377895_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
25a21cba-3274-11e6-826a-adb6fa52e078	17_21882212_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	17	21882212	C	CA	300	PASS	-	Ins	-	1	6	MSH6	child	17_21882212_CCA_MSH6	1	1	-	-	-	-	Ins
25a40188-3283-11e6-83f8-60792aaffa45	7_2809577_GTG	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	7	2809577	GT	G	540	PASS	GNA12	Del	intronic	1	7	POLE	child	7_2809577_GTG_POLE	1	1	1	T	6	T	Repeat-mediated
25a50356-3258-11e6-9d15-298312ae24cf	X_104557404_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	104557404	GT	G	600	PASS	IL1RAPL2	Del	intronic	1	9	MSH6	child	X_104557404_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
25a51912-3281-11e6-906b-a52236fc2f7d	15_43787122_TACACCTGTAATCCCAGCACTTTGGGAGGCAGAGGCAGGTGGATTACTTGAGCCCAGGAATTTGAGACCAGCCTGGGCAACATGGCAAAAGCCCATCTCTAAAAAATATACGAAAAAAATTAGCTGGGTGTGGTGGCATGTGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGTGAGAGCATCTCCTGAACTAGGAGGCACAGGTTGCAATGAGCCAAGATTGCAACACTGTGCTCCAGCCTGGGCAAGAGAGTGAGACCCTGTCTGAAACAACAACAATAAAAACCTAAAAACCGCCAGGCGCAGTGGCTCT	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	15	43787122	TACACCTGTAATCCCAGCACTTTGGGAGGCAGAGGCAGGTGGATTACTTGAGCCCAGGAATTTGAGACCAGCCTGGGCAACATGGCAAAAGCCCATCTCTAAAAAATATACGAAAAAAATTAGCTGGGTGTGGTGGCATGTGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGTGAGAGCATCTCCTGAACTAGGAGGCACAGGTTGCAATGAGCCAAGATTGCAACACTGTGCTCCAGCCTGGGCAAGAGAGTGAGACCCTGTCTGAAACAACAACAATAAAAACCTAAAAACCGCCAGGCGCAGTGGCTC	T	300	PASS	TP53BP1	Del	intronic	311	1	NUDT1	child	15_43787122_TACACCTGTAATCCCAGCACTTTGGGAGGCAGAGGCAGGTGGATTACTTGAGCCCAGGAATTTGAGACCAGCCTGGGCAACATGGCAAAAGCCCATCTCTAAAAAATATACGAAAAAAATTAGCTGGGTGTGGTGGCATGTGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGTGAGAGCATCTCCTGAACTAGGAGGCACAGGTTGCAATGAGCCAAGATTGCAACACTGTGCTCCAGCCTGGGCAAGAGAGTGAGACCCTGTCTGAAACAACAACAATAAAAACCTAAAAACCGCCAGGCGCAGTGGCTCT_NUDT1	311	>=10	28	ACACCTGTAATCCCAGCACTTTGGGAGG	0	-	Microhomology-mediated
25a5e814-328c-11e6-8952-77c36f39e758	10_34306641_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	34306641	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	10_34306641_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
25aa6824-328e-11e6-b9c4-751d0e01a414	5_127638575_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	127638575	AT	A	300	PASS	FBN2	Del	intronic	1	9	MSH6	child	5_127638575_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
25ae1872-329b-11e6-aca6-b39fcc638e3d	2_89427599_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	89427599	GA	G	348	PASS	-	Del	-	1	9	MSH6	child	2_89427599_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
25b007f2-3293-11e6-ba1f-69cccdacbbbf	20_2888458_GGT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	20	2888458	G	GT	600	PASS	PTPRA	Ins	intronic	1	9	POLB	child	20_2888458_GGT_POLB	1	1	-	-	-	-	Ins
25b575b0-328f-11e6-b6a6-1f1e0e01a414	4_167259588_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	167259588	AT	A	900	PASS	-	Del	-	1	8	MSH6	child	4_167259588_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
25bc2966-3256-11e6-a304-347a7872c165	1_179948619_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	179948619	AT	A	420	PASS	CEP350	Del	intronic	1	6	MSH6	child	1_179948619_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
25cd8270-327d-11e6-9cfc-ec8590e2c2e6	1_60152251_ATA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	1	60152251	AT	A	480	PASS	FGGY	Del	intronic	1	9	NUDT1	child	1_60152251_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
25cf596c-3294-11e6-9524-ab4c0d016689	5_75403788_ATCTA	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	5	75403788	ATCT	A	300	PASS	SV2C	Del	intronic	3	2	NUDT1	child	5_75403788_ATCTA_NUDT1	3	3	3	TCT	1	TCT	Repeat-mediated
25d51d8a-3270-11e6-a0a7-943dc225ee11	1_80014906_CAC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	1	80014906	CA	C	480	PASS	-	Del	-	1	4	EXO1	parent	1_80014906_CAC_EXO1	1	1	1	A	3	A	Repeat-mediated
25d91ef0-328c-11e6-88c1-95c36f39e758	14_57009661_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	57009661	AT	A	420	PASS	RP11-624J12.1	Del	intronic	1	4	MSH6	child	14_57009661_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
25d942ce-328f-11e6-bd84-429305ad5bc4	1_187463254_CCTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	187463254	C	CTA	480	PASS	-	Ins	-	2	4	MSH6	child	1_187463254_CCTA_MSH6	2	2	-	-	-	-	Ins
25ddf028-3256-11e6-8ebc-3ef212ae24cf	15_22304109_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	22304109	A	AT	660	PASS	-	Ins	-	1	8	MSH6	child	15_22304109_AAT_MSH6	1	1	-	-	-	-	Ins
25e7e9ac-328d-11e6-8e48-791e0e01a414	8_42050891_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	42050891	AT	A	300	PASS	PLAT	Del	intronic	1	6	MSH6	child	8_42050891_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
25f05e3c-3258-11e6-9d5a-0c8112ae24cf	9_21664308_CCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	21664308	C	CT	900	PASS	-	Ins	-	1	2	MSH6	child	9_21664308_CCT_MSH6	1	1	-	-	-	-	Ins
25f1d886-3288-11e6-adaf-064690e2c2e6	7_100094967_CAC	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	7	100094967	CA	C	600	PASS	NYAP1	Del	downstream	1	8	POLE	child	7_100094967_CAC_POLE	1	1	1	A	7	A	Repeat-mediated
25fca644-3323-11e6-8db2-39e579852e0e	2_232577044_CAGTC	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	2	232577044	CAGT	C	908	PASS	PTMA	Del	intronic	3	1	POLE	child	2_232577044_CAGTC_POLE	3	3	2	AG	0	-	Microhomology-mediated
2612ae52-3257-11e6-aa0b-72f912ae24cf	8_99706583_CTC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	8	99706583	CT	C	660	PASS	STK3	Del	intronic	1	9	POLB	child	8_99706583_CTC_POLB	1	1	1	T	8	T	Repeat-mediated
26160ed8-3286-11e6-a1ac-fd6da2c71c31	13_77806350_CCA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	77806350	C	CA	300	PASS	MYCBP2	Ins	intronic	1	7	MSH6	child	13_77806350_CCA_MSH6	1	1	-	-	-	-	Ins
26197048-3270-11e6-aff7-9ad52aaffa45	1_111405901_CTC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	1	111405901	CT	C	360	PASS	-	Del	-	1	8	NEIL1	child	1_111405901_CTC_NEIL1	1	1	1	T	7	T	Repeat-mediated
2625e696-3277-11e6-9e0f-7959cab49462	7_111002199_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	111002199	CA	C	540	PASS	IMMP2L	Del	intronic	1	9	MSH6	child	7_111002199_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
26279162-328b-11e6-8459-82090e01a414	12_110669586_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	110669586	TA	T	360	PASS	-	Del	-	1	7	MSH6	child	12_110669586_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
26285b8a-3270-11e6-8418-1c5942c4520d	3_18943282_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	18943282	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	3_18943282_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
262c04b2-326e-11e6-92dd-fda8977b3f23	10_112338967_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	112338967	CT	C	360	PASS	SMC3	Del	intronic	1	9	MSH6	child	10_112338967_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
2632cda2-329f-11e6-91d0-016425c9da85	7_99830598_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	99830598	AT	A	300	PASS	GATS	Del	intronic	1	8	MSH6	child	7_99830598_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
26440e28-3277-11e6-a71d-236235cec73b	X_88695600_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	88695600	AT	A	319	PASS	RP13-348B13.2	Del	intronic	1	5	MSH6	child	X_88695600_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
26462b46-3285-11e6-9346-16323cfdbd24	2_59695518_AAT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	2	59695518	A	AT	360	PASS	AC007131.2	Ins	intronic	1	1	POLE	parent	2_59695518_AAT_POLE	1	1	-	-	-	-	Ins
264db94e-3274-11e6-841e-3c0fc7271a47	12_100816023_AAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	12	100816023	A	AT	540	PASS	SLC17A8	Ins	downstream	1	8	MSH6	parent	12_100816023_AAT_MSH6	1	1	-	-	-	-	Ins
264fcad2-3255-11e6-89d3-d29498816cf3	2_175683359_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	175683359	AT	A	1080	PASS	CHN1	Del	intronic	1	9	MSH6	child	2_175683359_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
26512574-3293-11e6-92cf-bf2a0e01a414	6_103130833_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	103130833	T	TA	480	PASS	-	Ins	-	1	7	MSH6	child	6_103130833_TTA_MSH6	1	1	-	-	-	-	Ins
26572660-327d-11e6-b10b-a867faf1a024	1_62415924_ATA	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	1	62415924	AT	A	720	PASS	INADL	Del	intronic	1	7	POLB	parent	1_62415924_ATA_POLB	1	1	1	T	6	T	Repeat-mediated
265ed042-329e-11e6-bc2c-2a5e25c9da85	4_79880936_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	79880936	CT	C	900	PASS	-	Del	-	1	8	MSH6	child	4_79880936_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
266202d8-3287-11e6-8358-6179a178171f	17_77042335_CAC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	17	77042335	CA	C	420	PASS	C1QTNF1	Del	intronic	1	3	FANCC	child	17_77042335_CAC_FANCC	1	1	1	A	2	A	Repeat-mediated
26663976-3277-11e6-998e-ba48fa52e078	8_110761210_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	110761210	AG	A	540	PASS	-	Del	-	1	1	MSH6	child	8_110761210_AGA_MSH6	1	1	0	-	0	G	None
266ccc72-3278-11e6-ab97-84f471d7bc54	6_133581145_TAT	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	6	133581145	TA	T	1140	PASS	EYA4	Del	intronic	1	7	NEIL1	child	6_133581145_TAT_NEIL1	1	1	1	A	6	A	Repeat-mediated
267960ea-3291-11e6-9401-04ed6f39e758	3_78992365_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	78992365	CA	C	420	PASS	ROBO1	Del	intronic	1	8	MSH6	child	3_78992365_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
26853240-3286-11e6-aa79-5da038e8a824	6_39603077_TAT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	6	39603077	TA	T	300	PASS	KIF6	Del	intronic	1	8	POLE	parent	6_39603077_TAT_POLE	1	1	1	A	7	A	Repeat-mediated
2689ebaa-3277-11e6-a390-fc104530f757	1_164886825_AAGATAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	1	164886825	A	AGATAT	300	PASS	-	Ins	-	5	0	FANCC	child	1_164886825_AAGATAT_FANCC	5	5	-	-	-	-	Ins
268bf196-3279-11e6-a71d-236235cec73b	X_103768241_CCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	103768241	C	CT	300	PASS	-	Ins	-	1	9	MSH6	child	X_103768241_CCT_MSH6	1	1	-	-	-	-	Ins
268cd412-326f-11e6-bbd0-e88a64f80bad	16_7063027_GCG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	16	7063027	GC	G	480	PASS	RBFOX1	Del	intronic	1	3	EXO1	parent	16_7063027_GCG_EXO1	1	1	1	C	2	C	Repeat-mediated
26906644-328e-11e6-bfa2-581f0e01a414	7_88045452_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	88045452	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	7_88045452_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
26912bf4-3259-11e6-91d3-a68412ae24cf	7_41814390_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	41814390	C	CA	300	PASS	-	Ins	-	1	8	MSH6	child	7_41814390_CCA_MSH6	1	1	-	-	-	-	Ins
269b79d2-3255-11e6-a304-347a7872c165	1_103437774_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	103437774	CT	C	480	PASS	COL11A1	Del	intronic	1	8	MSH6	child	1_103437774_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
269f9e26-3279-11e6-a862-bc9becf1e924	1_205202987_CCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	205202987	C	CT	420	PASS	TMCC2	Ins	intronic	1	9	MSH6	child	1_205202987_CCT_MSH6	1	1	-	-	-	-	Ins
26aa464c-3273-11e6-a685-a844e7d0bdd7	10_27422615_TAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	10	27422615	TA	T	660	PASS	YME1L1	Del	intronic	1	8	EXO1	child	10_27422615_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
26ad2df0-328a-11e6-940d-53a538e8a824	2_235460552_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	2	235460552	AT	A	360	PASS	-	Del	-	1	9	NUDT1	parent	2_235460552_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
26b06a00-326d-11e6-b9f4-5d1d694da5d2	14_57377001_ACA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	57377001	AC	A	300	PASS	-	Del	-	1	7	MSH6	child	14_57377001_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
26bcd7b6-328d-11e6-b9c4-751d0e01a414	5_55432593_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	55432593	CA	C	540	PASS	ANKRD55	Del	intronic	1	6	MSH6	child	5_55432593_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
26c03c88-3276-11e6-9608-84e46de4ab00	7_20064603_TAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	7	20064603	TA	T	480	PASS	-	Del	-	1	9	EXO1	child	7_20064603_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
26c14750-3293-11e6-92cf-bf2a0e01a414	6_103402421_CCTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	103402421	C	CTG	300	PASS	-	Ins	-	2	7	MSH6	child	6_103402421_CCTG_MSH6	2	2	-	-	-	-	Ins
26ce8760-3290-11e6-b52f-4eeb6f39e758	22_42113174_TTAAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	22	42113174	TTAA	T	480	PASS	MEI1	Del	intronic	3	6	MSH6	child	22_42113174_TTAAT_MSH6	3	3	3	TAA	5	TAA	Repeat-mediated
26e3df70-3281-11e6-ab82-b5262eaed38e	14_95916849_CAC	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	14	95916849	CA	C	420	PASS	SYNE3	Del	intronic	1	7	POLB	child	14_95916849_CAC_POLB	1	1	1	A	6	A	Repeat-mediated
26e440fa-3281-11e6-9e54-079882d12d16	12_76578263_AGA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	12	76578263	AG	A	300	PASS	-	Del	-	1	1	FANCC	child	12_76578263_AGA_FANCC	1	1	0	-	0	G	None
26e6f194-329d-11e6-b696-dd6225c9da85	5_6060983_TTCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	6060983	TTC	T	480	PASS	-	Del	-	2	5	MSH6	child	5_6060983_TTCT_MSH6	2	2	2	TC	4	TC	Repeat-mediated
26ecc334-329e-11e6-bc2c-2a5e25c9da85	4_79967444_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	79967444	AT	A	720	PASS	-	Del	-	1	9	MSH6	child	4_79967444_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
26fc3ec0-328c-11e6-b805-77090e01a414	2_192887732_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	192887732	CT	C	660	PASS	TMEFF2	Del	intronic	1	9	MSH6	child	2_192887732_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
270058a2-3291-11e6-9d97-efe56f39e758	4_170612953_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	170612953	CT	C	660	PASS	CLCN3	Del	intronic	1	7	MSH6	child	4_170612953_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
270a6fe0-326e-11e6-bc62-6d4742c4520d	16_19642809_GGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	19642809	G	GT	420	PASS	C16orf62	Ins	intronic	1	7	MSH6	child	16_19642809_GGT_MSH6	1	1	-	-	-	-	Ins
270b9788-3275-11e6-a862-bc9becf1e924	1_186943846_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	186943846	AT	A	600	PASS	PLA2G4A	Del	intronic	1	7	MSH6	child	1_186943846_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
2710a776-3272-11e6-94a5-6c01ebb8d062	8_20891943_CTC	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	8	20891943	CT	C	300	PASS	-	Del	-	1	8	NUDT1	child	8_20891943_CTC_NUDT1	1	1	1	T	7	T	Repeat-mediated
2711761c-3275-11e6-a5d0-4fd14a47a305	2_236132020_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	236132020	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	2_236132020_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
2712a47e-329d-11e6-bc2c-2a5e25c9da85	4_16801492_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	16801492	TA	T	360	PASS	LDB2	Del	intronic	1	7	MSH6	child	4_16801492_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
271b7e94-328b-11e6-b805-77090e01a414	2_126206869_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	126206869	CT	C	1080	PASS	-	Del	-	1	6	MSH6	child	2_126206869_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
271c89dc-329b-11e6-a5cf-205325c9da85	11_79537137_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	79537137	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	11_79537137_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
271eefd2-3292-11e6-8c3d-0ab4e7d0bdd7	3_105769286_CTGCGGATGC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	3	105769286	CTGCGGATG	C	600	PASS	-	Del	-	8	1	FANCC	child	3_105769286_CTGCGGATGC_FANCC	8	8	2	TG	0	-	Microhomology-mediated
271ef2bc-3287-11e6-86fa-e88f1da8ec0e	21_27781593_AGA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	21	27781593	AG	A	300	PASS	-	Del	-	1	4	EXO1	child	21_27781593_AGA_EXO1	1	1	1	G	3	G	Repeat-mediated
272054c6-3283-11e6-ab87-22bd9b6d3b88	10_80924978_AAT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	10	80924978	A	AT	660	PASS	ZMIZ1	Ins	intronic	1	0	EXO1	child	10_80924978_AAT_EXO1	1	1	-	-	-	-	Ins
273c3cd4-328f-11e6-8e48-791e0e01a414	8_103453230_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	103453230	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	8_103453230_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
27440a38-3288-11e6-a284-4b89a2c71c31	4_149262895_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	149262895	TA	T	480	PASS	NR3C2	Del	intronic	1	8	MSH6	child	4_149262895_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
274e27e4-32a0-11e6-bc66-17b4cc638e3d	8_86103360_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	86103360	TA	T	420	PASS	E2F5	Del	intronic	1	9	MSH6	child	8_86103360_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
2750fbb2-3292-11e6-b953-aba9fa52e078	16_54650989_GTG	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	16	54650989	GT	G	300	PASS	-	Del	-	1	8	NUDT1	child	16_54650989_GTG_NUDT1	1	1	1	T	7	T	Repeat-mediated
2752f90c-3257-11e6-91d3-a68412ae24cf	7_48845469_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	48845469	GA	G	360	PASS	-	Del	-	1	8	MSH6	child	7_48845469_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
2759ba00-328c-11e6-b43c-7ec36f39e758	16_32647797_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	32647797	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	16_32647797_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
275e3496-3277-11e6-998e-ba48fa52e078	8_111227640_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	111227640	AG	A	300	PASS	-	Del	-	1	1	MSH6	child	8_111227640_AGA_MSH6	1	1	0	-	0	G	None
275fc080-326e-11e6-b306-b5204b47a305	2_137791349_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	137791349	AT	A	480	PASS	THSD7B	Del	intronic	1	8	MSH6	child	2_137791349_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
27726ec2-329d-11e6-a5cf-e5abcc638e3d	9_75358497_AGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	75358497	AG	A	277	PASS	TMC1	Del	intronic	1	1	MSH6	child	9_75358497_AGA_MSH6	1	1	0	-	0	G	None
27782950-328b-11e6-9c89-8d090e01a414	1_106694878_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	106694878	GA	G	480	PASS	-	Del	-	1	7	MSH6	child	1_106694878_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
277865cc-3287-11e6-8392-fc5a51c54cdd	7_16988585_GCG	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	7	16988585	GC	G	1080	PASS	-	Del	-	1	4	EXO1	child	7_16988585_GCG_EXO1	1	1	1	C	3	C	Repeat-mediated
27842698-3280-11e6-8049-10fc028949d4	1_39251198_CCTTC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	1	39251198	CCTT	C	840	PASS	-	Del	-	3	2	POLM	child	1_39251198_CCTTC_POLM	3	3	3	CTT	1	CTT	Repeat-mediated
27845226-3294-11e6-8d91-0b8730158702	1_240941022_CGTTC	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	1	240941022	CGTT	C	299	PASS	RGS7	Del	intronic	3	1	NUDT1	child	1_240941022_CGTTC_NUDT1	3	3	2	GT	0	-	Microhomology-mediated
279539de-3270-11e6-b4bf-85eb97ba1142	2_104448558_TCT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	2	104448558	TC	T	360	PASS	-	Del	-	1	1	EXO1	parent	2_104448558_TCT_EXO1	1	1	0	-	0	C	None
27a0dd2e-3271-11e6-b923-6726694da5d2	5_123545829_AGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	123545829	AG	A	300	PASS	-	Del	-	1	4	MSH6	child	5_123545829_AGA_MSH6	1	1	1	G	3	G	Repeat-mediated
27a53308-328d-11e6-bd84-429305ad5bc4	1_218370791_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	218370791	AT	A	420	PASS	-	Del	-	1	7	MSH6	child	1_218370791_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
27abb88a-3284-11e6-847a-5cef1da8ec0e	11_32627683_TTTTCAAGTTACT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	11	32627683	TTTTCAAGTTAC	T	300	PASS	EIF3M	Del	3prime_UTR_variant	11	1	EXO1	child	11_32627683_TTTTCAAGTTACT_EXO1	11	>=10	3	TTT	0	-	Microhomology-mediated
27b40db6-3273-11e6-b89d-b2d6b0dab373	4_42699162_GGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	42699162	G	GT	340	PASS	-	Ins	-	1	8	MSH6	child	4_42699162_GGT_MSH6	1	1	-	-	-	-	Ins
27b564d0-3274-11e6-9c69-5197cdacbbbf	8_27273606_TAT	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	8	27273606	TA	T	360	PASS	PTK2B	Del	intronic	1	9	NUDT1	child	8_27273606_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
27b6161e-3288-11e6-a284-4b89a2c71c31	4_149467432_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	149467432	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	4_149467432_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
27b8cafe-3273-11e6-8f33-a6d9cde16804	11_69347919_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	69347919	TG	T	900	PASS	-	Del	-	1	7	MSH6	child	11_69347919_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
27bb7922-3271-11e6-90d3-9639fc77b11e	13_26433371_CAC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	13	26433371	CA	C	720	PASS	ATP8A2	Del	intronic	1	9	MSH6	parent	13_26433371_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
27bca00e-328a-11e6-a8b1-14ec54de4fc4	11_103647633_ATA	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	11	103647633	AT	A	300	PASS	RP11-563P16.1	Del	intronic	1	8	CHK2	child	11_103647633_ATA_CHK2	1	1	1	T	7	T	Repeat-mediated
27c62a78-3291-11e6-93a2-2649d7db33ec	20_3117552_TGGCCTCCCAAAGTGCTGGGTTTACAGGCGTGAGCTACTGCACCCAGTCCCTGTTTTTCTGAGACAGTGTCTCACTCTGATGCCCGGGCTGGAGTGCAGTGGGGCAATCTCGACTCACTGCAGCCTTCACCTCCCGGGTTCAAGCAATTTTTGTGCCTCAGCCTCCCAAGTAGGTAGGACTACAGGCATGACCCATGCCTGGCTAATTTTCGCATTTTCAGTAGAGACAGGGTTTCACCATGGTAGCCAGGATGGTCTCGAACTTCTGACCTCAAGTGATCCACCTGCCTCT	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	20	3117552	TGGCCTCCCAAAGTGCTGGGTTTACAGGCGTGAGCTACTGCACCCAGTCCCTGTTTTTCTGAGACAGTGTCTCACTCTGATGCCCGGGCTGGAGTGCAGTGGGGCAATCTCGACTCACTGCAGCCTTCACCTCCCGGGTTCAAGCAATTTTTGTGCCTCAGCCTCCCAAGTAGGTAGGACTACAGGCATGACCCATGCCTGGCTAATTTTCGCATTTTCAGTAGAGACAGGGTTTCACCATGGTAGCCAGGATGGTCTCGAACTTCTGACCTCAAGTGATCCACCTGCCTC	T	289	PASS	UBOX5	Del	intronic	290	1	POLE	child	20_3117552_TGGCCTCCCAAAGTGCTGGGTTTACAGGCGTGAGCTACTGCACCCAGTCCCTGTTTTTCTGAGACAGTGTCTCACTCTGATGCCCGGGCTGGAGTGCAGTGGGGCAATCTCGACTCACTGCAGCCTTCACCTCCCGGGTTCAAGCAATTTTTGTGCCTCAGCCTCCCAAGTAGGTAGGACTACAGGCATGACCCATGCCTGGCTAATTTTCGCATTTTCAGTAGAGACAGGGTTTCACCATGGTAGCCAGGATGGTCTCGAACTTCTGACCTCAAGTGATCCACCTGCCTCT_POLE	290	>=10	19	GGCCTCCCAAAGTGCTGGG	0	-	Microhomology-mediated
27cfd6d2-327c-11e6-afd3-40acd8b4fa2c	5_176021841_GGGT	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	5	176021841	G	GGT	300	PASS	CDHR2	Ins	intronic	2	6	POLM	child	5_176021841_GGGT_POLM	2	2	-	-	-	-	Ins
27d0b588-3255-11e6-b4d0-327a7872c165	11_110008662_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	110008662	GA	G	660	PASS	ZC3H12C	Del	intronic	1	8	MSH6	child	11_110008662_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
27e2b208-3285-11e6-bec9-6bfa4430f757	10_85612279_CAC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	10	85612279	CA	C	1020	PASS	-	Del	-	1	8	EXO1	child	10_85612279_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
27e4bfc2-328e-11e6-b6a6-1f1e0e01a414	4_105961401_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	105961401	GA	G	300	PASS	RP11-556I14.1	Del	intronic	1	5	MSH6	child	4_105961401_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
27e9e3a6-3290-11e6-9432-c0e56f39e758	5_110996121_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	110996121	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	5_110996121_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
27efbc9c-329d-11e6-b129-195325c9da85	16_75711637_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	75711637	C	CA	420	PASS	-	Ins	-	1	6	MSH6	child	16_75711637_CCA_MSH6	1	1	-	-	-	-	Ins
27f8b15c-328f-11e6-8f31-bfe16f39e758	9_105054546_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	105054546	GA	G	420	PASS	-	Del	-	1	5	MSH6	child	9_105054546_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
2805f268-3271-11e6-8454-c65566a58581	13_44603204_TAAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	13	44603204	TAA	T	360	PASS	LINC00284	Del	nc_variant	2	3	FANCC	child	13_44603204_TAAT_FANCC	2	2	1	A	0	-	Microhomology-mediated
280a2200-3278-11e6-998e-ba48fa52e078	8_34981467_GGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	34981467	G	GA	300	PASS	-	Ins	-	1	7	MSH6	child	8_34981467_GGA_MSH6	1	1	-	-	-	-	Ins
280b7f8e-3349-11e6-a997-309d38e8a824	4_62326331_CGAGACTGGGTAATATATAAAGAAAAAGGGGTTTAGTATACTCACAGTTCCACATGGCTGGGGAGGCCTCACAATCATGGTGGAAGGCAAAGGAGGAGAAAGGCATATCTTTCATGGCAGCAGGCAAGAGAGAAGCCAAGCAAAAGGGGAAACCCTTTATAAAACCATCAGATCGGCCAGGCGCAGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGCAGATCACCTGAGATCAGAAGTTCAAGACCAGCCTGGCCAACAATGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCCAGGCGCGGTGGCAGGCACCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAGCCTGGC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	4	62326331	CGAGACTGGGTAATATATAAAGAAAAAGGGGTTTAGTATACTCACAGTTCCACATGGCTGGGGAGGCCTCACAATCATGGTGGAAGGCAAAGGAGGAGAAAGGCATATCTTTCATGGCAGCAGGCAAGAGAGAAGCCAAGCAAAAGGGGAAACCCTTTATAAAACCATCAGATCGGCCAGGCGCAGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGCAGATCACCTGAGATCAGAAGTTCAAGACCAGCCTGGCCAACAATGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCCAGGCGCGGTGGCAGGCACCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAGCCTGG	C	480	PASS	LPHN3	Del	intronic	383	1	FANCC	child	4_62326331_CGAGACTGGGTAATATATAAAGAAAAAGGGGTTTAGTATACTCACAGTTCCACATGGCTGGGGAGGCCTCACAATCATGGTGGAAGGCAAAGGAGGAGAAAGGCATATCTTTCATGGCAGCAGGCAAGAGAGAAGCCAAGCAAAAGGGGAAACCCTTTATAAAACCATCAGATCGGCCAGGCGCAGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGCAGATCACCTGAGATCAGAAGTTCAAGACCAGCCTGGCCAACAATGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCCAGGCGCGGTGGCAGGCACCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAGCCTGGC_FANCC	383	>=10	3	GAG	0	-	Microhomology-mediated
280e4fca-3272-11e6-abaf-4642cab49462	6_36841078_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	36841078	CA	C	420	PASS	PPIL1	Del	intronic	1	9	MSH6	child	6_36841078_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
280f1e44-326f-11e6-b5b8-e0c24a47a305	X_11973704_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	11973704	CA	C	300	PASS	-	Del	-	1	7	MSH6	child	X_11973704_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
2811979a-3257-11e6-acc5-308412ae24cf	5_51796082_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	51796082	GA	G	540	PASS	-	Del	-	1	4	MSH6	child	5_51796082_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
2813401c-3285-11e6-b1ba-6def1da8ec0e	1_100162722_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	1	100162722	AT	A	300	PASS	PALMD	Del	downstream	1	7	EXO1	child	1_100162722_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
28163d02-3286-11e6-b093-c9c7b0dab373	2_142911109_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	142911109	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	2_142911109_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
2820d792-3323-11e6-917a-b666694da5d2	11_108318057_ATA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	11	108318057	AT	A	592	PASS	C11orf65	Del	intronic	1	9	EXO1	child	11_108318057_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
2825a06e-3275-11e6-abaf-4642cab49462	6_58168366_GGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	58168366	G	GA	343	PASS	-	Ins	-	1	5	MSH6	child	6_58168366_GGA_MSH6	1	1	-	-	-	-	Ins
28287fec-3279-11e6-bb6d-38aec042253c	3_153989587_CATC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	3	153989587	CAT	C	420	PASS	DHX36	Del	downstream	2	2	CHK2	child	3_153989587_CATC_CHK2	2	2	2	AT	1	AT	Repeat-mediated
282a0544-329f-11e6-bc2c-2a5e25c9da85	4_145455630_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	145455630	CT	C	780	PASS	-	Del	-	1	8	MSH6	child	4_145455630_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
282fbd98-326f-11e6-a6cd-d6ad4dc77248	2_24173067_TAGGT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	2	24173067	TAGG	T	660	PASS	UBXN2A	Del	intronic	3	2	NUDT1	child	2_24173067_TAGGT_NUDT1	3	3	3	AGG	1	AGG	Repeat-mediated
2830cd0a-3279-11e6-b34d-d86cf7be831b	14_49761119_CTGAGGCAATGC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	14	49761119	CTGAGGCAATG	C	660	PASS	-	Del	-	10	1	FANCC	parent	14_49761119_CTGAGGCAATGC_FANCC	10	>=10	1	T	0	-	Microhomology-mediated
284051d6-328c-11e6-bd84-429305ad5bc4	1_79310967_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	79310967	GA	G	280	PASS	-	Del	-	1	7	MSH6	child	1_79310967_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
284053da-326d-11e6-b306-b5204b47a305	2_47266692_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	47266692	AT	A	360	PASS	TTC7A	Del	intronic	1	9	MSH6	child	2_47266692_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
2843efd4-3256-11e6-bf41-357a7872c165	10_36973666_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	36973666	C	CA	540	PASS	-	Ins	-	1	6	MSH6	child	10_36973666_CCA_MSH6	1	1	-	-	-	-	Ins
284aba5c-329d-11e6-a5cf-e5abcc638e3d	9_75617371_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	75617371	GT	G	480	PASS	ALDH1A1	Del	intronic	1	9	MSH6	child	9_75617371_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
284b1210-3255-11e6-8ebc-3ef212ae24cf	15_76539016_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	76539016	CA	C	720	PASS	ETFA	Del	intronic	1	8	MSH6	child	15_76539016_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
2851c216-3270-11e6-a202-899bcc638e3d	16_75843274_TAT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	16	75843274	TA	T	360	PASS	-	Del	-	1	8	NEIL1	child	16_75843274_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
2861bd84-3274-11e6-9fdc-736366a58581	6_47139367_AAATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	6	47139367	AAAT	A	300	PASS	-	Del	-	3	3	EXO1	parent	6_47139367_AAATA_EXO1	3	3	3	AAT	2	AAT	Repeat-mediated
2863c834-3271-11e6-8418-1c5942c4520d	3_115552888_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	115552888	GA	G	360	PASS	LSAMP	Del	intronic	1	9	MSH6	child	3_115552888_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
286be2b0-3282-11e6-8767-7cd94dc77248	6_86933295_TTG	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	6	86933295	T	TG	300	PASS	-	Ins	-	1	0	NUDT1	child	6_86933295_TTG_NUDT1	1	1	-	-	-	-	Ins
287236fe-3270-11e6-8325-b737c225ee11	1_83186765_CTTC	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	1	83186765	CTT	C	540	PASS	-	Del	-	2	3	NUDT1	child	1_83186765_CTTC_NUDT1	2	2	1	T	0	-	Microhomology-mediated
2874a2dc-3279-11e6-a391-f6d67d6a9fc7	6_113962581_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	113962581	CA	C	600	PASS	RP11-367G18.1	Del	intronic	1	6	MSH6	child	6_113962581_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
28757b26-326f-11e6-bfba-13bf4a47a305	9_78435779_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	78435779	GT	G	480	PASS	-	Del	-	1	6	MSH6	child	9_78435779_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
2876af1a-328c-11e6-b805-77090e01a414	2_193274942_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	193274942	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	2_193274942_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
2878f7a6-3274-11e6-a862-bc9becf1e924	1_114886510_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	114886510	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	1_114886510_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
28792790-32a0-11e6-b696-dd6225c9da85	5_12060869_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	12060869	C	CA	360	PASS	-	Ins	-	1	6	MSH6	child	5_12060869_CCA_MSH6	1	1	-	-	-	-	Ins
287a64f0-328e-11e6-bec1-ca1d0e01a414	X_71584747_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	71584747	AT	A	480	PASS	HDAC8	Del	intronic	1	8	MSH6	child	X_71584747_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
287ea7ae-329d-11e6-bc2c-2a5e25c9da85	4_17155087_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	17155087	CT	C	960	PASS	-	Del	-	1	6	MSH6	child	4_17155087_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
287facda-328e-11e6-b9c4-751d0e01a414	5_128560959_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	128560959	CT	C	540	PASS	-	Del	-	1	6	MSH6	child	5_128560959_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
288bea24-3291-11e6-919e-92c36f39e758	2_132777002_CCAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	132777002	C	CAT	381	PASS	-	Ins	-	2	5	MSH6	child	2_132777002_CCAT_MSH6	2	2	-	-	-	-	Ins
288f9a1a-3288-11e6-b093-c9c7b0dab373	2_56267073_AAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	56267073	A	AC	600	PASS	RP11-481J13.1	Ins	intronic	1	7	MSH6	child	2_56267073_AAC_MSH6	1	1	-	-	-	-	Ins
28919e56-3273-11e6-83ef-69fb06e9a829	18_54581880_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	54581880	AT	A	540	PASS	WDR7	Del	intronic	1	8	MSH6	child	18_54581880_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
2899867a-329b-11e6-b549-1e5325c9da85	10_77370261_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	77370261	AC	A	720	PASS	-	Del	-	1	1	MSH6	child	10_77370261_ACA_MSH6	1	1	0	-	0	C	None
289b5c5a-3289-11e6-b686-d35a51c54cdd	4_155418551_ATA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	4	155418551	AT	A	540	PASS	-	Del	-	1	3	EXO1	child	4_155418551_ATA_EXO1	1	1	1	T	2	T	Repeat-mediated
289fe730-3279-11e6-909e-86e86de4ab00	3_133986998_CTC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	3	133986998	CT	C	480	PASS	-	Del	-	1	7	EXO1	child	3_133986998_CTC_EXO1	1	1	1	T	6	T	Repeat-mediated
28a18818-3285-11e6-870e-6af1bbe6aa09	19_47924063_AGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	47924063	AG	A	360	PASS	MEIS3	Del	upstream	1	6	MSH6	child	19_47924063_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
28a77ab8-3274-11e6-803d-c550e7d0bdd7	11_113570375_ACA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	11	113570375	AC	A	300	PASS	TMPRSS5	Del	frameshift	1	1	EXO1	child	11_113570375_ACA_EXO1	1	1	0	-	0	C	None
28aaa204-329e-11e6-bc2c-2a5e25c9da85	4_80495725_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	80495725	GA	G	300	PASS	LINC00989	Del	intronic	1	4	MSH6	child	4_80495725_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
28ab0d30-3275-11e6-ab69-1c1607e9a829	9_35627289_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	35627289	AT	A	600	PASS	-	Del	-	1	9	MSH6	child	9_35627289_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
28b69636-3258-11e6-b950-8759fa52e078	X_141547847_TAT	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	X	141547847	TA	T	540	PASS	-	Del	-	1	8	POLM	child	X_141547847_TAT_POLM	1	1	1	A	7	A	Repeat-mediated
28c8bdb4-3273-11e6-94cc-1ec335cec73b	19_33390211_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	33390211	AT	A	960	PASS	CEP89	Del	intronic	1	9	MSH6	child	19_33390211_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
28ca5c96-328c-11e6-a80b-87090e01a414	11_40865790_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	40865790	A	AT	780	PASS	LRRC4C	Ins	intronic	1	1	MSH6	child	11_40865790_AAT_MSH6	1	1	-	-	-	-	Ins
28d4bb32-328c-11e6-bd84-429305ad5bc4	1_79698515_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	79698515	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	1_79698515_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
28da03ca-3274-11e6-bfb2-2749c225ee11	12_120229530_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	120229530	CT	C	360	PASS	CIT	Del	intronic	1	8	MSH6	child	12_120229530_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
28db174c-3274-11e6-a5d0-4fd14a47a305	2_157118333_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	157118333	TA	T	540	PASS	-	Del	-	1	9	MSH6	child	2_157118333_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
28e05414-3288-11e6-adaf-064690e2c2e6	7_100545947_GCAACCCAACCCACCTATACACCCACCAGCTGGATAAGAACATTTGTTTTACTTTATCTTGTTTTTGAAATGAAGTGTCGCTCTGTTGCCCAGGCTGGAGTGCAGAGGCACGATCTCAGCTCATTGCAACCTCTGCCTCTGGGGTTCAAGCAATTCTCCTGCCTCAGCCTCCCAAGTAGGTGGGATTACAGTTGCCCACCCCACGCCAGGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACTATGTTGGCCAGTCTAGTCTCGAACCCCTGACCTCAAGTGATCCTCAAATTACTCTTTTAAAAG	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	7	100545947	GCAACCCAACCCACCTATACACCCACCAGCTGGATAAGAACATTTGTTTTACTTTATCTTGTTTTTGAAATGAAGTGTCGCTCTGTTGCCCAGGCTGGAGTGCAGAGGCACGATCTCAGCTCATTGCAACCTCTGCCTCTGGGGTTCAAGCAATTCTCCTGCCTCAGCCTCCCAAGTAGGTGGGATTACAGTTGCCCACCCCACGCCAGGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACTATGTTGGCCAGTCTAGTCTCGAACCCCTGACCTCAAGTGATCCTCAAATTACTCTTTTAAAA	G	268	PASS	MUC3A	Del	upstream	308	1	POLE	child	7_100545947_GCAACCCAACCCACCTATACACCCACCAGCTGGATAAGAACATTTGTTTTACTTTATCTTGTTTTTGAAATGAAGTGTCGCTCTGTTGCCCAGGCTGGAGTGCAGAGGCACGATCTCAGCTCATTGCAACCTCTGCCTCTGGGGTTCAAGCAATTCTCCTGCCTCAGCCTCCCAAGTAGGTGGGATTACAGTTGCCCACCCCACGCCAGGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTCACTATGTTGGCCAGTCTAGTCTCGAACCCCTGACCTCAAGTGATCCTCAAATTACTCTTTTAAAAG_POLE	308	>=10	16	CAACCCAACCCACCTA	0	-	Microhomology-mediated
28e47a2a-3324-11e6-aad6-fc2b9a696edf	9_10105170_ATA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	9	10105170	AT	A	600	PASS	-	Del	-	1	8	EXO1	child	9_10105170_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
28e650da-326f-11e6-bfba-13bf4a47a305	9_78596477_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	78596477	CT	C	360	PASS	PCSK5	Del	intronic	1	8	MSH6	child	9_78596477_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
28efd298-328f-11e6-b6a6-1f1e0e01a414	4_168271858_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	168271858	AT	A	480	PASS	-	Del	-	1	6	MSH6	child	4_168271858_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
28efd622-328e-11e6-8c87-38240e01a414	22_43717986_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	22	43717986	AT	A	420	PASS	SCUBE1	Del	intronic	1	4	MSH6	child	22_43717986_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
28f4d43c-3276-11e6-acb5-bbf1bbe6aa09	7_116390829_CTTCTCAAAAGAAGACAC	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	7	116390829	CTTCTCAAAAGAAGACA	C	300	PASS	MET	Del	intronic	16	1	POLB	child	7_116390829_CTTCTCAAAAGAAGACAC_POLB	16	>=10	2	TT	0	-	Microhomology-mediated
28f85844-3278-11e6-a391-f6d67d6a9fc7	6_39595104_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	39595104	AT	A	420	PASS	KIF6	Del	intronic	1	8	MSH6	child	6_39595104_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
28f8af38-3278-11e6-ab97-84f471d7bc54	6_134543851_GAG	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	6	134543851	GA	G	600	PASS	SGK1	Del	intronic	1	6	NEIL1	child	6_134543851_GAG_NEIL1	1	1	1	A	5	A	Repeat-mediated
28f8b188-3258-11e6-91d3-a68412ae24cf	7_128244148_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	128244148	AT	A	468	PASS	-	Del	-	1	8	MSH6	child	7_128244148_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
2905a900-3286-11e6-b0bc-c7a46f39e758	5_3293174_CTCGGCCTCCCAAAGC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	5	3293174	CTCGGCCTCCCAAAG	C	360	PASS	-	Del	-	14	1	EXO1	child	5_3293174_CTCGGCCTCCCAAAGC_EXO1	14	>=10	1	T	0	-	Microhomology-mediated
290a3dde-328c-11e6-919e-92c36f39e758	2_42840471_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	42840471	GT	G	420	PASS	MTA3	Del	intronic	1	7	MSH6	child	2_42840471_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
29131e86-3273-11e6-9e18-3a69671699ea	10_56951707_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	56951707	TA	T	480	PASS	PCDH15	Del	intronic	1	8	MSH6	child	10_56951707_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
291324ae-3272-11e6-9850-b83e75253f64	12_90391907_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	12	90391907	AT	A	300	PASS	-	Del	-	1	9	FANCC	child	12_90391907_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
29151416-3273-11e6-93da-67a49b6d3b88	14_48053867_ATA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	14	48053867	AT	A	660	PASS	MDGA2	Del	intronic	1	5	EXO1	child	14_48053867_ATA_EXO1	1	1	1	T	4	T	Repeat-mediated
29151494-3290-11e6-b6a6-1f1e0e01a414	4_27759551_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	27759551	A	AT	300	PASS	-	Ins	-	1	1	MSH6	child	4_27759551_AAT_MSH6	1	1	-	-	-	-	Ins
291da094-3288-11e6-9317-6ba56f39e758	8_83258826_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	8	83258826	AT	A	360	PASS	-	Del	-	1	8	EXO1	child	8_83258826_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
292b3fa6-328d-11e6-a6be-80b6d7db33ec	1_77034584_ATA	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	1	77034584	AT	A	480	PASS	ST6GALNAC3	Del	intronic	1	9	POLE	child	1_77034584_ATA_POLE	1	1	1	T	8	T	Repeat-mediated
292cb72c-3324-11e6-aad6-fc2b9a696edf	9_10139326_TAT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	9	10139326	TA	T	660	PASS	-	Del	-	1	8	EXO1	child	9_10139326_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
293da3a0-3277-11e6-a2ca-20c1f7be831b	5_109558433_CCATAT	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	5	109558433	C	CATAT	300	PASS	-	Ins	-	4	0	CHK2	child	5_109558433_CCATAT_CHK2	4	4	-	-	-	-	Ins
2941d33a-328b-11e6-9c89-8d090e01a414	1_107433093_ACA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	107433093	AC	A	300	PASS	-	Del	-	1	7	MSH6	child	1_107433093_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
294a9148-3275-11e6-8f33-a6d9cde16804	11_111223667_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	111223667	C	CA	300	PASS	POU2AF1	Ins	3prime_UTR_variant	1	7	MSH6	child	11_111223667_CCA_MSH6	1	1	-	-	-	-	Ins
294f5cec-328d-11e6-a434-81ad12ae24cf	7_94069042_ATA	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	7	94069042	AT	A	540	PASS	-	Del	-	1	5	CHK2	child	7_94069042_ATA_CHK2	1	1	1	T	4	T	Repeat-mediated
295a6e02-3279-11e6-a391-f6d67d6a9fc7	6_114103339_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	114103339	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	6_114103339_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
2963eb92-3271-11e6-a66c-37f41da8ec0e	16_22300117_CCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGGATCACCTGAGGTCAAGAGTTCCAGACCAGCCTGGCCAACATGATGAAACCCTGTCTGTACTAAAAATACAAAAATTGGCCGGGCATGGTGGCGCACACCTGTAGTCCCATCTGCTCAGGAGGCTGAGACAGGAGAATTGCTTAAAGCCGGAAGATGGAGGTTGCAGTGAGCCCAGATCCTGTCATTGCACCCCAGCCTGGGCAACAAGAGCGAAACTCCATCTCAAAAAAAAAAGGTGGGGGATCGGGTGCGGTGGC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	16	22300117	CCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGGATCACCTGAGGTCAAGAGTTCCAGACCAGCCTGGCCAACATGATGAAACCCTGTCTGTACTAAAAATACAAAAATTGGCCGGGCATGGTGGCGCACACCTGTAGTCCCATCTGCTCAGGAGGCTGAGACAGGAGAATTGCTTAAAGCCGGAAGATGGAGGTTGCAGTGAGCCCAGATCCTGTCATTGCACCCCAGCCTGGGCAACAAGAGCGAAACTCCATCTCAAAAAAAAAAGGTGGGGGATCGGGTGCGGTGG	C	300	PASS	EEF2K	Del	downstream	301	1	FANCC	child	16_22300117_CCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGGATCACCTGAGGTCAAGAGTTCCAGACCAGCCTGGCCAACATGATGAAACCCTGTCTGTACTAAAAATACAAAAATTGGCCGGGCATGGTGGCGCACACCTGTAGTCCCATCTGCTCAGGAGGCTGAGACAGGAGAATTGCTTAAAGCCGGAAGATGGAGGTTGCAGTGAGCCCAGATCCTGTCATTGCACCCCAGCCTGGGCAACAAGAGCGAAACTCCATCTCAAAAAAAAAAGGTGGGGGATCGGGTGCGGTGGC_FANCC	301	>=10	32	CTCACGCCTGTAATCCCAGCACTTTGGGAGGC	0	-	Microhomology-mediated
296cef46-3279-11e6-b81c-d33a1daa6045	8_99246777_ATA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	8	99246777	AT	A	420	PASS	NIPAL2	Del	intronic	1	9	NEIL1	child	8_99246777_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
296ed0cc-3274-11e6-84df-cb0cebb8d062	14_66396238_TGT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	14	66396238	TG	T	480	PASS	-	Del	-	1	6	EXO1	child	14_66396238_TGT_EXO1	1	1	1	G	5	G	Repeat-mediated
296f6560-3273-11e6-9e18-3a69671699ea	10_57064109_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	57064109	GA	G	840	PASS	PCDH15	Del	intronic	1	7	MSH6	child	10_57064109_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
296fb6a6-3290-11e6-b52f-4eeb6f39e758	22_42582249_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	22	42582249	GA	G	600	PASS	TCF20	Del	intronic	1	7	MSH6	child	22_42582249_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
2970ca1a-3258-11e6-acc5-308412ae24cf	5_129504815_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	129504815	AT	A	480	PASS	CHSY3	Del	intronic	1	8	MSH6	child	5_129504815_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
297107ac-328d-11e6-ad89-6ebfcc638e3d	X_65589166_GTG	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	X	65589166	GT	G	540	PASS	-	Del	-	1	5	NUDT1	child	X_65589166_GTG_NUDT1	1	1	1	T	4	T	Repeat-mediated
2987f25e-3270-11e6-92dd-fda8977b3f23	10_130443217_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	130443217	T	TA	300	PASS	-	Ins	-	1	6	MSH6	child	10_130443217_TTA_MSH6	1	1	-	-	-	-	Ins
29887ce0-3277-11e6-a862-bc9becf1e924	1_51658555_CCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	51658555	C	CT	360	PASS	RP11-296A18.3	Ins	downstream	1	7	MSH6	child	1_51658555_CCT_MSH6	1	1	-	-	-	-	Ins
298a0ff6-3295-11e6-9985-7c540d016689	6_38230415_CTTC	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	6	38230415	CTT	C	360	PASS	BTBD9	Del	intronic	2	4	NUDT1	child	6_38230415_CTTC_NUDT1	2	2	2	TT	2	T	Repeat-mediated
298e41d8-3287-11e6-8b67-086ea2c71c31	1_246536406_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	246536406	TA	T	300	PASS	SMYD3	Del	intronic	1	8	MSH6	child	1_246536406_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
298e491c-3255-11e6-8ebc-3ef212ae24cf	15_76643040_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	76643040	GA	G	480	PASS	SCAPER	Del	intronic	1	9	MSH6	child	15_76643040_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
298f8e04-3277-11e6-8c34-46e27872c165	5_126491874_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	126491874	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	5_126491874_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
29953226-3279-11e6-909e-86e86de4ab00	3_134258534_TAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	3	134258534	TA	T	420	PASS	CEP63	Del	intronic	1	9	EXO1	child	3_134258534_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
299d3ac2-3286-11e6-9bc8-5079a178171f	15_43150266_CAC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	15	43150266	CA	C	540	PASS	TTBK2	Del	intronic	1	9	FANCC	child	15_43150266_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
299e92a6-3294-11e6-a2c5-65337a852e0e	5_143773690_ACTATA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	5	143773690	ACTAT	A	480	PASS	KCTD16	Del	intronic	4	1	CHK2	child	5_143773690_ACTATA_CHK2	4	4	2	CT	0	-	Microhomology-mediated
29ad019a-329b-11e6-b549-1e5325c9da85	10_77657746_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	77657746	AT	A	360	PASS	C10orf11	Del	intronic	1	9	MSH6	child	10_77657746_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
29b8e01e-328c-11e6-b805-77090e01a414	2_193670041_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	193670041	TA	T	420	PASS	-	Del	-	1	5	MSH6	child	2_193670041_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
29bdda40-3270-11e6-a0a7-943dc225ee11	1_81290396_CTC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	1	81290396	CT	C	840	PASS	-	Del	-	1	7	EXO1	parent	1_81290396_CTC_EXO1	1	1	1	T	6	T	Repeat-mediated
29cd5778-3292-11e6-9809-b7370d016689	13_81193880_CTC	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	13	81193880	CT	C	360	PASS	-	Del	-	1	7	NUDT1	child	13_81193880_CTC_NUDT1	1	1	1	T	6	T	Repeat-mediated
29d22084-3277-11e6-a71d-236235cec73b	X_89772296_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	89772296	TA	T	561	PASS	-	Del	-	1	7	MSH6	child	X_89772296_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
29dd21ea-3287-11e6-b32c-fd87a2c71c31	5_100156944_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	100156944	GA	G	660	PASS	ST8SIA4	Del	intronic	1	9	MSH6	child	5_100156944_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
29e303e6-3271-11e6-89e3-9dd52aaffa45	10_73950625_GGTGCC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	10	73950625	G	GTGCC	467	PASS	ASCC1	Ins	intronic	4	0	NEIL1	child	10_73950625_GGTGCC_NEIL1	4	4	-	-	-	-	Ins
29e52522-32a3-11e6-b970-398625c9da85	20_51545740_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	51545740	GT	G	600	PASS	-	Del	-	1	5	MSH6	child	20_51545740_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
29f2636a-3274-11e6-8418-1c5942c4520d	3_196147045_AAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	196147045	A	AG	540	PASS	UBXN7	Ins	intronic	1	6	MSH6	child	3_196147045_AAG_MSH6	1	1	-	-	-	-	Ins
29f57628-3287-11e6-b093-c9c7b0dab373	2_225040693_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	225040693	GA	G	360	PASS	-	Del	-	1	8	MSH6	child	2_225040693_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
2a00c480-328a-11e6-aa70-b0b3cc638e3d	19_47705331_TTGGAAT	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	19	47705331	TTGGAA	T	780	PASS	SAE1	Del	intronic	5	1	NUDT1	child	19_47705331_TTGGAAT_NUDT1	5	5	4	TGGA	0	-	Microhomology-mediated
2a03840e-328f-11e6-b81f-4ee66f39e758	8_27888775_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	27888775	AT	A	360	PASS	NUGGC	Del	frameshift	1	8	MSH6	child	8_27888775_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
2a0823b8-328c-11e6-b8e6-91c36f39e758	11_39790307_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	39790307	CA	C	300	PASS	-	Del	-	1	7	MSH6	child	11_39790307_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
2a133d56-3256-11e6-8ebc-3ef212ae24cf	15_22451186_CCG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	22451186	C	CG	420	PASS	-	Ins	-	1	3	MSH6	child	15_22451186_CCG_MSH6	1	1	-	-	-	-	Ins
2a13a1b2-328b-11e6-a7cf-80090e01a414	15_78721407_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	78721407	AT	A	360	PASS	-	Del	-	1	7	MSH6	child	15_78721407_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
2a19822e-3256-11e6-b4d0-327a7872c165	11_44047041_CCATACA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	44047041	C	CATACA	360	PASS	-	Ins	-	5	0	MSH6	child	11_44047041_CCATACA_MSH6	5	5	-	-	-	-	Ins
2a1e0da0-3272-11e6-bbeb-70bd19a91649	20_3856861_TCTCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	20	3856861	TCTC	T	300	PASS	-	Del	-	3	2	MSH6	child	20_3856861_TCTCT_MSH6	3	3	3	CTC	1	CTC	Repeat-mediated
2a1fe6b4-3288-11e6-a284-4b89a2c71c31	4_150618573_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	150618573	TA	T	420	PASS	RP11-526A4.1	Del	intronic	1	9	MSH6	child	4_150618573_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
2a226804-3273-11e6-aa3b-ca60a178171f	13_70873999_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	70873999	GA	G	480	PASS	-	Del	-	1	7	MSH6	child	13_70873999_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
2a23bef4-328a-11e6-b805-77090e01a414	2_59881485_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	59881485	GA	G	540	PASS	AC007131.2	Del	intronic	1	8	MSH6	child	2_59881485_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
2a2d48b8-329c-11e6-a5cf-205325c9da85	11_5842079_CCG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	5842079	C	CG	360	PASS	OR52N2	Ins	frameshift	1	4	MSH6	child	11_5842079_CCG_MSH6	1	1	-	-	-	-	Ins
2a2fc934-3270-11e6-b89d-b2d6b0dab373	4_44052907_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	44052907	TA	T	253	PASS	-	Del	-	1	8	MSH6	child	4_44052907_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
2a315a04-3295-11e6-98e0-70dad8b4fa2c	2_21083703_AACCCTTGC	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	2	21083703	A	ACCCTTGC	480	PASS	-	Ins	-	7	0	NUDT1	child	2_21083703_AACCCTTGC_NUDT1	7	7	-	-	-	-	Ins
2a35f150-3285-11e6-9daa-026ea2c71c31	14_96256333_GCG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	96256333	GC	G	660	PASS	-	Del	-	1	5	MSH6	child	14_96256333_GCG_MSH6	1	1	1	C	4	C	Repeat-mediated
2a3b54a0-3281-11e6-9066-1ba854de4fc4	14_95014628_AGA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	14	95014628	AG	A	360	PASS	-	Del	-	1	2	FANCC	child	14_95014628_AGA_FANCC	1	1	1	G	1	G	Repeat-mediated
2a3c73c8-3324-11e6-925b-cca72aaffa45	X_79773428_GAG	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	X	79773428	GA	G	420	PASS	-	Del	-	1	9	CHK2	child	X_79773428_GAG_CHK2	1	1	1	A	8	A	Repeat-mediated
2a40e5e0-3322-11e6-881c-c18230158702	10_121935782_AGACAGGCAGAATTTGCATAATTTTGATGGTCTAAAGTAATGTTTTGATTTCACTAATTTATTTCGTAAAGAATTTCTTTTTCTTTTATAACCCACAGTCAACTGCTGTTAGTGTTAAATTTCCATGATGTGGTAATTGGCAAACTCTTGCTAGTTATTTCGGATGGCTCACAATGGGAACTTTCTTCATCTCAGGTTCAAAGTTGTTTCTAGACTGTGTGCACTCGGCATATAGAGAAACGAAGTGCTGAATAGCTATCCAGTTGATTAGGTCATTGTAGGCAGCCAATGTGGGCAATCTGATCCGGTGCTGAGGAACAGTGGGGAAAGAATAATACGAGAAAGAGGCAGGAACCGCAAAGTAACCGAAAGGCCAGGCTTTGAATCTCCTGTATTCCTCCCCTTGGCAGGCTTATTTGCCTGCACATCAAGATCAGTCAACTGTAAGCAATAAAAGAAGTTTTTAGACCAGGCTGGGTTCCCTTAGAAGAGTCAGCCTCCTTGGTGCTGGTGGCTCATATTTGTTCTCTGAGTACCTGGCACTGGCCCCCTAGCCTGCGAGAGATTTAAACTA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	10	121935782	AGACAGGCAGAATTTGCATAATTTTGATGGTCTAAAGTAATGTTTTGATTTCACTAATTTATTTCGTAAAGAATTTCTTTTTCTTTTATAACCCACAGTCAACTGCTGTTAGTGTTAAATTTCCATGATGTGGTAATTGGCAAACTCTTGCTAGTTATTTCGGATGGCTCACAATGGGAACTTTCTTCATCTCAGGTTCAAAGTTGTTTCTAGACTGTGTGCACTCGGCATATAGAGAAACGAAGTGCTGAATAGCTATCCAGTTGATTAGGTCATTGTAGGCAGCCAATGTGGGCAATCTGATCCGGTGCTGAGGAACAGTGGGGAAAGAATAATACGAGAAAGAGGCAGGAACCGCAAAGTAACCGAAAGGCCAGGCTTTGAATCTCCTGTATTCCTCCCCTTGGCAGGCTTATTTGCCTGCACATCAAGATCAGTCAACTGTAAGCAATAAAAGAAGTTTTTAGACCAGGCTGGGTTCCCTTAGAAGAGTCAGCCTCCTTGGTGCTGGTGGCTCATATTTGTTCTCTGAGTACCTGGCACTGGCCCCCTAGCCTGCGAGAGATTTAAACT	A	720	PASS	-	Del	-	572	1	POLE	child	10_121935782_AGACAGGCAGAATTTGCATAATTTTGATGGTCTAAAGTAATGTTTTGATTTCACTAATTTATTTCGTAAAGAATTTCTTTTTCTTTTATAACCCACAGTCAACTGCTGTTAGTGTTAAATTTCCATGATGTGGTAATTGGCAAACTCTTGCTAGTTATTTCGGATGGCTCACAATGGGAACTTTCTTCATCTCAGGTTCAAAGTTGTTTCTAGACTGTGTGCACTCGGCATATAGAGAAACGAAGTGCTGAATAGCTATCCAGTTGATTAGGTCATTGTAGGCAGCCAATGTGGGCAATCTGATCCGGTGCTGAGGAACAGTGGGGAAAGAATAATACGAGAAAGAGGCAGGAACCGCAAAGTAACCGAAAGGCCAGGCTTTGAATCTCCTGTATTCCTCCCCTTGGCAGGCTTATTTGCCTGCACATCAAGATCAGTCAACTGTAAGCAATAAAAGAAGTTTTTAGACCAGGCTGGGTTCCCTTAGAAGAGTCAGCCTCCTTGGTGCTGGTGGCTCATATTTGTTCTCTGAGTACCTGGCACTGGCCCCCTAGCCTGCGAGAGATTTAAACTA_POLE	572	>=10	3	GAC	0	-	Microhomology-mediated
2a47b00e-3283-11e6-aa7b-37792aaffa45	5_11192127_CTGATAACAC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	5	11192127	CTGATAACA	C	600	PASS	CTNND2	Del	intronic	8	1	POLE	child	5_11192127_CTGATAACAC_POLE	8	8	0	-	0	-	None
2a4b10f8-3271-11e6-9c6e-9f402a2d4995	2_216505530_CTC	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	2	216505530	CT	C	420	PASS	LINC00607	Del	intronic	1	3	POLB	child	2_216505530_CTC_POLB	1	1	1	T	2	T	Repeat-mediated
2a50a608-329e-11e6-8c2e-3f6625c9da85	22_17868711_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	22	17868711	AT	A	480	PASS	CECR2	Del	intronic	1	9	MSH6	child	22_17868711_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
2a66a8bc-3277-11e6-998e-ba48fa52e078	8_112535317_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	112535317	CT	C	660	PASS	RP11-1101K5.1	Del	intronic	1	8	MSH6	child	8_112535317_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
2a66db84-3254-11e6-b4d0-327a7872c165	11_42391710_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	42391710	AT	A	480	PASS	-	Del	-	1	7	MSH6	child	11_42391710_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
2a6c1af0-3276-11e6-88b6-40832aaffa45	1_237518558_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	237518558	AT	A	660	PASS	RYR2	Del	intronic	1	6	EXO1	child	1_237518558_ATA_EXO1	1	1	1	T	5	T	Repeat-mediated
2a79382c-3274-11e6-b96a-e20a1ea8ec0e	7_10587563_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	7	10587563	AT	A	360	PASS	-	Del	-	1	2	FANCC	child	7_10587563_ATA_FANCC	1	1	1	T	1	T	Repeat-mediated
2a7a7620-3278-11e6-a391-f6d67d6a9fc7	6_40147653_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	40147653	GA	G	420	PASS	-	Del	-	1	1	MSH6	child	6_40147653_GAG_MSH6	1	1	0	-	0	A	None
2a80ef26-3257-11e6-aa0b-72f912ae24cf	8_101289548_CTC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	8	101289548	CT	C	900	PASS	RNF19A	Del	intronic	1	9	POLB	child	8_101289548_CTC_POLB	1	1	1	T	8	T	Repeat-mediated
2a8304da-328b-11e6-a80b-87090e01a414	11_118063975_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	118063975	AT	A	300	PASS	AMICA1	Del	downstream	1	8	MSH6	child	11_118063975_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
2a889b0a-328d-11e6-a7cf-80090e01a414	15_65798667_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	65798667	C	CA	300	PASS	DPP8	Ins	intronic	1	8	MSH6	child	15_65798667_CCA_MSH6	1	1	-	-	-	-	Ins
2a8b0446-3290-11e6-aefc-4976fc77b11e	22_19493720_CTGC	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	22	19493720	CTG	C	780	PASS	CDC45	Del	intronic	2	2	POLE	child	22_19493720_CTGC_POLE	2	2	2	TG	1	TG	Repeat-mediated
2a8b91a4-326d-11e6-b9f4-5d1d694da5d2	14_58553446_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	58553446	CA	C	1080	PASS	C14orf37	Del	intronic	1	7	MSH6	child	14_58553446_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
2a9cce6a-328b-11e6-807d-afc430158702	19_44799402_TAT	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	19	44799402	TA	T	360	PASS	ZNF235	Del	intronic	1	8	POLM	child	19_44799402_TAT_POLM	1	1	1	A	7	A	Repeat-mediated
2aa0b688-3277-11e6-92d2-c259c225ee11	3_58518090_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	58518090	CT	C	540	PASS	ACOX2	Del	intronic	1	9	MSH6	child	3_58518090_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
2aafffbe-329d-11e6-a5cf-e5abcc638e3d	9_76240023_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	76240023	GT	G	660	PASS	-	Del	-	1	6	MSH6	child	9_76240023_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
2ab29bda-3283-11e6-b8a8-aac02daed38e	8_35842218_GTG	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	8	35842218	GT	G	360	PASS	-	Del	-	1	6	POLB	child	8_35842218_GTG_POLB	1	1	1	T	5	T	Repeat-mediated
2ab2f63e-32a1-11e6-b696-dd6225c9da85	5_81241390_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	81241390	C	CA	480	PASS	-	Ins	-	1	6	MSH6	child	5_81241390_CCA_MSH6	1	1	-	-	-	-	Ins
2abf4fca-3273-11e6-a862-bc9becf1e924	1_45904158_ACTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	45904158	ACT	A	540	PASS	TESK2	Del	intronic	2	2	MSH6	child	1_45904158_ACTA_MSH6	2	2	2	CT	1	CT	Repeat-mediated
2ac06966-3271-11e6-8fc7-e8702aaffa45	9_89215884_GAGAG	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	9	89215884	GAGA	G	840	PASS	-	Del	-	3	2	POLM	child	9_89215884_GAGAG_POLM	3	3	3	AGA	1	AGA	Repeat-mediated
2ac82ea8-3258-11e6-91d3-a68412ae24cf	7_128624881_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	128624881	TA	T	600	PASS	TNPO3	Del	intronic	1	8	MSH6	child	7_128624881_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
2ad0c128-3346-11e6-a9cc-a0a270cce0de	2_14139360_GCAATCAGAGAATTCTATGCCTCTGGGTTTATCATTAAATTTGACCCCTTAATAAAAATGGTTATTAATTCTTAAATGAAAAAAAGAATATATAGTCATTATATATATACATGCACCTAACATAAGAGTAGCTAAGATATAAAGCAACTATAAACAAATCTGATGGGAGAAATAGACAAAAATACAATAATAATAGGGAAATTCAGTACCTCACTTTTAAAAATAGATTGATCACCCAGACCTCACTTTTAAAAATAGATTGATCACCCAGACAATATTACTAAGGAAATATTGGATTTGAACTACACTCTAGACG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	2	14139360	GCAATCAGAGAATTCTATGCCTCTGGGTTTATCATTAAATTTGACCCCTTAATAAAAATGGTTATTAATTCTTAAATGAAAAAAAGAATATATAGTCATTATATATATACATGCACCTAACATAAGAGTAGCTAAGATATAAAGCAACTATAAACAAATCTGATGGGAGAAATAGACAAAAATACAATAATAATAGGGAAATTCAGTACCTCACTTTTAAAAATAGATTGATCACCCAGACCTCACTTTTAAAAATAGATTGATCACCCAGACAATATTACTAAGGAAATATTGGATTTGAACTACACTCTAGAC	G	420	PASS	LINC00276	Del	intronic	314	1	FANCC	child	2_14139360_GCAATCAGAGAATTCTATGCCTCTGGGTTTATCATTAAATTTGACCCCTTAATAAAAATGGTTATTAATTCTTAAATGAAAAAAAGAATATATAGTCATTATATATATACATGCACCTAACATAAGAGTAGCTAAGATATAAAGCAACTATAAACAAATCTGATGGGAGAAATAGACAAAAATACAATAATAATAGGGAAATTCAGTACCTCACTTTTAAAAATAGATTGATCACCCAGACCTCACTTTTAAAAATAGATTGATCACCCAGACAATATTACTAAGGAAATATTGGATTTGAACTACACTCTAGACG_FANCC	314	>=10	3	CAA	0	-	Microhomology-mediated
2ad2020e-3323-11e6-a8ef-bb593dc9300a	2_231589990_GTG	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	2	231589990	GT	G	408	PASS	CAB39	Del	intronic	1	1	CHK2	child	2_231589990_GTG_CHK2	1	1	0	-	0	T	None
2ad49fe8-329f-11e6-b696-dd6225c9da85	5_136751441_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	136751441	GA	G	540	PASS	SPOCK1	Del	intronic	1	7	MSH6	child	5_136751441_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
2ade2bd4-32a0-11e6-a04f-c66a25c9da85	6_53160986_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	53160986	TA	T	480	PASS	ELOVL5	Del	intronic	1	9	MSH6	child	6_53160986_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
2ae77772-3271-11e6-aca7-e2b6dcd214c4	5_925852_TTCTCT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	5	925852	TTCTC	T	780	PASS	-	Del	-	4	2	POLM	child	5_925852_TTCTCT_POLM	4	4	1	T	0	-	Microhomology-mediated
2af28ab0-328d-11e6-9c89-8d090e01a414	1_229814072_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	229814072	AT	A	480	PASS	-	Del	-	1	7	MSH6	child	1_229814072_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
2af4157a-327d-11e6-8c6a-eb8590e2c2e6	10_74712340_CGTTC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	10	74712340	CGTT	C	420	PASS	PLA2G12B	Del	intronic	3	2	NUDT1	child	10_74712340_CGTTC_NUDT1	3	3	3	GTT	1	GTT	Repeat-mediated
2afb26fc-3256-11e6-9d5a-0c8112ae24cf	9_22333982_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	22333982	CA	C	600	PASS	-	Del	-	1	6	MSH6	child	9_22333982_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
2b09052e-328d-11e6-bd84-429305ad5bc4	1_220042165_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	220042165	GA	G	473	PASS	-	Del	-	1	6	MSH6	child	1_220042165_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
2b2420f4-329a-11e6-aca6-b39fcc638e3d	2_27767831_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	27767831	CA	C	780	PASS	-	Del	-	1	7	MSH6	child	2_27767831_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
2b26b1da-328f-11e6-9d24-ade56f39e758	7_39172418_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	39172418	AT	A	720	PASS	POU6F2	Del	intronic	1	9	MSH6	child	7_39172418_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
2b2808cc-326d-11e6-acc7-e55219a91649	1_62829347_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	62829347	CA	C	300	PASS	-	Del	-	1	7	MSH6	child	1_62829347_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
2b2c07c2-3274-11e6-a862-bc9becf1e924	1_115635600_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	115635600	AT	A	660	PASS	TSPAN2	Del	upstream	1	9	MSH6	child	1_115635600_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
2b3e08d8-3273-11e6-8053-90fc1da8ec0e	9_30423677_CTTC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	9	30423677	CTT	C	600	PASS	-	Del	-	2	3	POLB	child	9_30423677_CTTC_POLB	2	2	1	T	0	-	Microhomology-mediated
2b44db60-328f-11e6-bec1-ca1d0e01a414	X_153526265_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	153526265	AT	A	600	PASS	TKTL1	Del	intronic	1	9	MSH6	child	X_153526265_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
2b49c776-3274-11e6-bf90-64cd7872c165	6_29807978_ATA	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	6	29807978	AT	A	540	PASS	-	Del	-	1	9	POLM	child	6_29807978_ATA_POLM	1	1	1	T	8	T	Repeat-mediated
2b5b76fa-3289-11e6-a5b3-3f1ebce6aa09	7_100753195_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	100753195	T	TA	420	PASS	-	Ins	-	1	6	MSH6	child	7_100753195_TTA_MSH6	1	1	-	-	-	-	Ins
2b5f96ea-328e-11e6-bec1-ca1d0e01a414	X_72691642_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	72691642	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	X_72691642_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
2b666fd4-328d-11e6-b9c4-751d0e01a414	5_56723933_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	56723933	CT	C	300	PASS	-	Del	-	1	7	MSH6	child	5_56723933_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
2b6c2342-3324-11e6-be49-204207e9a829	1_236764876_CAGGC	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	1	236764876	CAGG	C	420	PASS	HEATR1	Del	intronic	3	2	POLE	child	1_236764876_CAGGC_POLE	3	3	3	AGG	1	AGG	Repeat-mediated
2b6d8aaa-3326-11e6-bd60-7fd335cec73b	8_103479675_GTG	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	8	103479675	GT	G	1440	PASS	-	Del	-	1	9	CHK2	child	8_103479675_GTG_CHK2	1	1	1	T	8	T	Repeat-mediated
2b712220-328e-11e6-bfa2-581f0e01a414	7_89695635_AGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	89695635	AG	A	420	PASS	-	Del	-	1	1	MSH6	child	7_89695635_AGA_MSH6	1	1	0	-	0	G	None
2b719114-3271-11e6-b89d-b2d6b0dab373	4_113615428_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	113615428	TA	T	540	PASS	RP11-148B6.2	Del	intronic	1	6	MSH6	child	4_113615428_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
2b71fb94-3295-11e6-a718-6f48a178171f	2_201041781_GAG	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	2	201041781	GA	G	540	PASS	-	Del	-	1	7	POLB	child	2_201041781_GAG_POLB	1	1	1	A	6	A	Repeat-mediated
2b782c5a-3257-11e6-aa0b-72f912ae24cf	8_101720534_ATTAGCTGGGCGTGGTGGCGTGTGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGGATCACCTGAACCCGGGAGGTGAAAGCTGCAGTAAGCCAAGACCATGCCACTGCACTCCAGACTAGAAGAAAGAGTGAGACTCTGTCTAAAAAAATAAACTCTAAGTGCTCTTGGAATATAACATACTGTTCCACAGGACAAGACATAAAATACCACGACTCTGATTCTCATACATGATTAAATGGAACGAGACCTTTAAAACTGTGGCCTGACAAAATATGAAATTGGCTGGGTGCCATGGCTCACGCCTGTACTCTCAACACTTTAGGAGGCTGAGGTGGGCAGATGACCTGAGATCAGGAGCTCAAGACAACCCTGGCCAACGTGGTCAAACCCCATCTCTACTAATAATGCGTAAGA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	8	101720534	ATTAGCTGGGCGTGGTGGCGTGTGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGGATCACCTGAACCCGGGAGGTGAAAGCTGCAGTAAGCCAAGACCATGCCACTGCACTCCAGACTAGAAGAAAGAGTGAGACTCTGTCTAAAAAAATAAACTCTAAGTGCTCTTGGAATATAACATACTGTTCCACAGGACAAGACATAAAATACCACGACTCTGATTCTCATACATGATTAAATGGAACGAGACCTTTAAAACTGTGGCCTGACAAAATATGAAATTGGCTGGGTGCCATGGCTCACGCCTGTACTCTCAACACTTTAGGAGGCTGAGGTGGGCAGATGACCTGAGATCAGGAGCTCAAGACAACCCTGGCCAACGTGGTCAAACCCCATCTCTACTAATAATGCGTAAG	A	255	PASS	PABPC1	Del	intronic	420	1	POLB	child	8_101720534_ATTAGCTGGGCGTGGTGGCGTGTGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGGATCACCTGAACCCGGGAGGTGAAAGCTGCAGTAAGCCAAGACCATGCCACTGCACTCCAGACTAGAAGAAAGAGTGAGACTCTGTCTAAAAAAATAAACTCTAAGTGCTCTTGGAATATAACATACTGTTCCACAGGACAAGACATAAAATACCACGACTCTGATTCTCATACATGATTAAATGGAACGAGACCTTTAAAACTGTGGCCTGACAAAATATGAAATTGGCTGGGTGCCATGGCTCACGCCTGTACTCTCAACACTTTAGGAGGCTGAGGTGGGCAGATGACCTGAGATCAGGAGCTCAAGACAACCCTGGCCAACGTGGTCAAACCCCATCTCTACTAATAATGCGTAAGA_POLB	420	>=10	19	TTAGCTGGGCGTGGTGGCG	0	-	Microhomology-mediated
2b78ec2a-3258-11e6-885f-d1947872c165	4_143457286_AGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	143457286	AG	A	420	PASS	INPP4B	Del	intronic	1	5	MSH6	child	4_143457286_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
2b82a6b6-326c-11e6-afba-5998cab49462	19_5893742_GAGAG	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	19	5893742	GAGA	G	540	PASS	NDUFA11	Del	intronic	3	1	POLM	parent	19_5893742_GAGAG_POLM	3	3	2	AG	0	-	Microhomology-mediated
2b844a98-3285-11e6-9162-c3af90e2c2e6	2_114659652_ATACTA	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	2	114659652	ATACT	A	480	PASS	ACTR3	Del	intronic	4	2	POLE	child	2_114659652_ATACTA_POLE	4	4	4	TACT	1	TACT	Repeat-mediated
2b84f852-3290-11e6-9d24-ade56f39e758	7_103042641_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	103042641	CT	C	360	PASS	SLC26A5	Del	intronic	1	8	MSH6	child	7_103042641_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
2b8ed712-328d-11e6-8eee-76090e01a414	10_121663055_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	121663055	T	TA	480	PASS	SEC23IP	Ins	intronic	1	7	MSH6	child	10_121663055_TTA_MSH6	1	1	-	-	-	-	Ins
2b90ca46-3278-11e6-a3f9-4821ead19ece	3_3266722_AAT	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	3	3266722	A	AT	360	PASS	-	Ins	-	1	9	NEIL1	child	3_3266722_AAT_NEIL1	1	1	-	-	-	-	Ins
2b92ca48-328d-11e6-bd84-429305ad5bc4	1_220478125_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	220478125	TA	T	480	PASS	-	Del	-	1	9	MSH6	child	1_220478125_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
2b96c36c-3299-11e6-90ba-2866a178171f	5_106612397_GGAGGC	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	5	106612397	G	GAGGC	360	PASS	-	Ins	-	4	0	NEIL1	child	5_106612397_GGAGGC_NEIL1	4	4	-	-	-	-	Ins
2b9a49aa-3281-11e6-b9fb-4420bce6aa09	9_31863043_CTTGC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	9	31863043	CTTG	C	420	PASS	-	Del	-	3	2	POLM	child	9_31863043_CTTGC_POLM	3	3	3	TTG	1	TTG	Repeat-mediated
2b9b8478-3295-11e6-8ff8-970ab51afd22	X_53643910_AAATA	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	X	53643910	AAAT	A	480	PASS	HUWE1	Del	intronic	3	1	NEIL1	child	X_53643910_AAATA_NEIL1	3	3	2	AA	0	-	Microhomology-mediated
2ba8704a-3275-11e6-998e-ba48fa52e078	8_10478116_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	10478116	CA	C	480	PASS	RP1L1	Del	intronic	1	9	MSH6	child	8_10478116_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
2bb4a3be-3276-11e6-a5d0-4fd14a47a305	2_67116288_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	67116288	C	CA	480	PASS	-	Ins	-	1	1	MSH6	child	2_67116288_CCA_MSH6	1	1	-	-	-	-	Ins
2bb7f1aa-3270-11e6-b6d2-cf4066a58581	10_80156650_AACA	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	10	80156650	AAC	A	420	PASS	-	Del	-	2	1	POLB	child	10_80156650_AACA_POLB	2	2	1	A	0	-	Microhomology-mediated
2bcafd8e-3259-11e6-9cd8-27f912ae24cf	7_143089913_TTA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	7	143089913	T	TA	780	PASS	EPHA1	Ins	intronic	1	1	POLB	child	7_143089913_TTA_POLB	1	1	-	-	-	-	Ins
2bcd6656-3258-11e6-91d3-a68412ae24cf	7_128810923_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	128810923	AT	A	840	PASS	TSPAN33	Del	downstream	1	3	MSH6	child	7_128810923_ATA_MSH6	1	1	1	T	2	T	Repeat-mediated
2bda2d00-3276-11e6-bf4d-b5224ec77248	8_10654189_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	8	10654189	AT	A	660	PASS	PINX1	Del	intronic	1	6	EXO1	child	8_10654189_ATA_EXO1	1	1	1	T	5	T	Repeat-mediated
2be5f8c2-3291-11e6-b3a9-d5afe7d0bdd7	4_102374470_TTGGCCAGGCTGGTCTTTCTTTTTTTTCTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCCGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAAGCTCCGCCTCCTGGGTTCATGCCATTCTCCTGCCTCAGCCTCTCGAGTAGCTGGGACTACAGGCGCCCGCCACCACGCCCGGCTAATTTTTTGTATTTTTAGTTAGAGATAGGGTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCGTGATCTGCCTGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCTGGCCT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	4	102374470	TTGGCCAGGCTGGTCTTTCTTTTTTTTCTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCCGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAAGCTCCGCCTCCTGGGTTCATGCCATTCTCCTGCCTCAGCCTCTCGAGTAGCTGGGACTACAGGCGCCCGCCACCACGCCCGGCTAATTTTTTGTATTTTTAGTTAGAGATAGGGTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCGTGATCTGCCTGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCTGGCC	T	300	PASS	BANK1	Del	intronic	315	1	FANCC	child	4_102374470_TTGGCCAGGCTGGTCTTTCTTTTTTTTCTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCCGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAAGCTCCGCCTCCTGGGTTCATGCCATTCTCCTGCCTCAGCCTCTCGAGTAGCTGGGACTACAGGCGCCCGCCACCACGCCCGGCTAATTTTTTGTATTTTTAGTTAGAGATAGGGTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCGTGATCTGCCTGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCTGGCCT_FANCC	315	>=10	16	TGGCCAGGCTGGTCTT	0	-	Microhomology-mediated
2beb3204-329d-11e6-ae71-0c5325c9da85	1_194015694_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	194015694	TA	T	660	PASS	-	Del	-	1	9	MSH6	child	1_194015694_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
2bfbc554-3295-11e6-9401-04ed6f39e758	3_170949118_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	170949118	G	GT	300	PASS	TNIK	Ins	intronic	1	6	MSH6	child	3_170949118_GGT_MSH6	1	1	-	-	-	-	Ins
2bfe60d8-3278-11e6-a1d0-c9e56de4ab00	4_133668772_ATA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	4	133668772	AT	A	480	PASS	-	Del	-	1	9	NEIL1	child	4_133668772_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
2c0470f0-329f-11e6-b696-dd6225c9da85	5_136999744_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	136999744	TA	T	480	PASS	KLHL3	Del	intronic	1	5	MSH6	child	5_136999744_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
2c08e63a-3272-11e6-bbeb-70bd19a91649	20_4399898_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	20	4399898	CT	C	295	PASS	-	Del	-	1	7	MSH6	child	20_4399898_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
2c0b9d52-3282-11e6-a363-a68d191589db	2_211242105_GAG	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	2	211242105	GA	G	480	PASS	-	Del	-	1	9	POLM	child	2_211242105_GAG_POLM	1	1	1	A	8	A	Repeat-mediated
2c0d040a-3258-11e6-acc5-308412ae24cf	5_130627185_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	130627185	CT	C	660	PASS	CDC42SE2	Del	intronic	1	8	MSH6	child	5_130627185_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
2c0d414e-3272-11e6-a623-9985cdacbbbf	17_33141408_TCT	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	17	33141408	TC	T	480	PASS	-	Del	-	1	2	NUDT1	child	17_33141408_TCT_NUDT1	1	1	1	C	1	C	Repeat-mediated
2c24c258-3324-11e6-a066-657f12ae24cf	X_72821586_CAC	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	X	72821586	CA	C	283	PASS	CHIC1	Del	intronic	1	6	POLE	child	X_72821586_CAC_POLE	1	1	1	A	5	A	Repeat-mediated
2c2b06fa-3256-11e6-bf41-357a7872c165	10_38296583_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	38296583	A	AT	540	PASS	ZNF33A	Ins	upstream	1	1	MSH6	child	10_38296583_AAT_MSH6	1	1	-	-	-	-	Ins
2c365212-3288-11e6-a284-4b89a2c71c31	4_151325183_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	151325183	CA	C	660	PASS	LRBA	Del	intronic	1	9	MSH6	child	4_151325183_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
2c3a8b90-326d-11e6-adc2-b7204b47a305	18_47876364_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	47876364	GT	G	320	PASS	-	Del	-	1	9	MSH6	child	18_47876364_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
2c40666e-326d-11e6-b9f4-5d1d694da5d2	14_58799157_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	58799157	CT	C	480	PASS	ARID4A	Del	intronic	1	5	MSH6	child	14_58799157_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
2c40d5ae-3286-11e6-afcf-0311bce6aa09	9_35561761_GCG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	35561761	GC	G	420	PASS	RUSC2	Del	3prime_UTR_variant	1	6	MSH6	child	9_35561761_GCG_MSH6	1	1	1	C	5	C	Repeat-mediated
2c419ae4-328a-11e6-a80b-87090e01a414	11_58621656_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	58621656	AT	A	300	PASS	-	Del	-	1	5	MSH6	child	11_58621656_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
2c5338b6-3277-11e6-9e0f-7959cab49462	7_112895580_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	112895580	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	7_112895580_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
2c57a026-326e-11e6-92dd-fda8977b3f23	10_114321769_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	114321769	CT	C	300	PASS	VTI1A	Del	intronic	1	8	MSH6	child	10_114321769_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
2c61134a-3287-11e6-8358-6179a178171f	17_78481102_ACCACTGCACTCCAGCCTGGGCAAGAGAGCAGGAAAACGCCTCCCCCAGCATACACAAAGGAAGGAAATTCTGACTCGTGCTACAACATGGATGAATCTCAAGACATGCTAAGTGAAATAAGCCAGTCGCTGGCCGGGGGTGGTAGCTCATACCTGTAATTCCAACACTCTGGGAGGCTGAGGCAGGCAGATCACTTGAGGTCAGGATTTCAAGACCAGCCTGGGCAACATGGTGAAACCCTGTCTCCACCAAAAAATACAAAAACAAACAAAACAAACAAAACAATTAGCCAGATTTGGTAGCACATGCCTGTAGTCCCAGCTACTCAGGAGGCTGATGCATGAGAATCACTTGAACCCTGGAGGCGGAGGCAACAGTGAACCGAGATTGTGA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	17	78481102	ACCACTGCACTCCAGCCTGGGCAAGAGAGCAGGAAAACGCCTCCCCCAGCATACACAAAGGAAGGAAATTCTGACTCGTGCTACAACATGGATGAATCTCAAGACATGCTAAGTGAAATAAGCCAGTCGCTGGCCGGGGGTGGTAGCTCATACCTGTAATTCCAACACTCTGGGAGGCTGAGGCAGGCAGATCACTTGAGGTCAGGATTTCAAGACCAGCCTGGGCAACATGGTGAAACCCTGTCTCCACCAAAAAATACAAAAACAAACAAAACAAACAAAACAATTAGCCAGATTTGGTAGCACATGCCTGTAGTCCCAGCTACTCAGGAGGCTGATGCATGAGAATCACTTGAACCCTGGAGGCGGAGGCAACAGTGAACCGAGATTGTG	A	360	PASS	-	Del	-	392	1	FANCC	child	17_78481102_ACCACTGCACTCCAGCCTGGGCAAGAGAGCAGGAAAACGCCTCCCCCAGCATACACAAAGGAAGGAAATTCTGACTCGTGCTACAACATGGATGAATCTCAAGACATGCTAAGTGAAATAAGCCAGTCGCTGGCCGGGGGTGGTAGCTCATACCTGTAATTCCAACACTCTGGGAGGCTGAGGCAGGCAGATCACTTGAGGTCAGGATTTCAAGACCAGCCTGGGCAACATGGTGAAACCCTGTCTCCACCAAAAAATACAAAAACAAACAAAACAAACAAAACAATTAGCCAGATTTGGTAGCACATGCCTGTAGTCCCAGCTACTCAGGAGGCTGATGCATGAGAATCACTTGAACCCTGGAGGCGGAGGCAACAGTGAACCGAGATTGTGA_FANCC	392	>=10	23	CCACTGCACTCCAGCCTGGGCAA	0	-	Microhomology-mediated
2c63ad26-325a-11e6-a304-347a7872c165	1_220830926_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	220830926	C	CA	1020	PASS	MARK1	Ins	intronic	1	4	MSH6	child	1_220830926_CCA_MSH6	1	1	-	-	-	-	Ins
2c64bbac-327e-11e6-8a95-4ae6b41afd22	X_30183940_GATACACCATAATGCATGTACACG	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	X	30183940	GATACACCATAATGCATGTACAC	G	720	PASS	-	Del	-	22	1	POLM	child	X_30183940_GATACACCATAATGCATGTACACG_POLM	22	>=10	3	ATA	0	-	Microhomology-mediated
2c67bf3e-3281-11e6-ab87-22bd9b6d3b88	10_55602794_TAT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	10	55602794	TA	T	780	PASS	PCDH15	Del	intronic	1	8	EXO1	child	10_55602794_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
2c725c90-328c-11e6-8952-77c36f39e758	10_35848333_GGAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	35848333	GGA	G	960	PASS	CCNY	Del	intronic	2	5	MSH6	child	10_35848333_GGAG_MSH6	2	2	2	GA	4	GA	Repeat-mediated
2c7f7e28-328e-11e6-9e88-ed4438e8a824	6_18559312_AAC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	6	18559312	A	AC	660	PASS	-	Ins	-	1	1	NUDT1	parent	6_18559312_AAC_NUDT1	1	1	-	-	-	-	Ins
2c8283a4-3255-11e6-a304-347a7872c165	1_105373269_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	105373269	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	1_105373269_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
2c877d3c-3278-11e6-a391-f6d67d6a9fc7	6_41072432_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	41072432	GA	G	540	PASS	NFYA	Del	downstream	1	8	MSH6	child	6_41072432_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
2c8ff7c4-3277-11e6-a71d-236235cec73b	X_91069458_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	91069458	GA	G	500	PASS	PCDH11X	Del	intronic	1	8	MSH6	child	X_91069458_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
2c9885d8-3281-11e6-afd6-7a186ee4ab00	7_103063096_TAT	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	7	103063096	TA	T	420	PASS	SLC26A5	Del	intronic	1	8	POLB	parent	7_103063096_TAT_POLB	1	1	1	A	7	A	Repeat-mediated
2c98c138-3277-11e6-90a5-ccdb6de4ab00	2_69203442_CCT	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	2	69203442	C	CT	360	PASS	GKN1	Ins	intronic	1	8	CHK2	child	2_69203442_CCT_CHK2	1	1	-	-	-	-	Ins
2c9bb8b4-328d-11e6-8952-77c36f39e758	10_105082269_ATTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	105082269	ATT	A	420	PASS	PCGF6	Del	intronic	2	4	MSH6	child	10_105082269_ATTA_MSH6	2	2	2	TT	2	T	Repeat-mediated
2cb597ee-328c-11e6-88c1-95c36f39e758	14_58734414_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	58734414	AT	A	540	PASS	PSMA3	Del	intronic	1	6	MSH6	child	14_58734414_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
2cb5df16-3286-11e6-a1ac-fd6da2c71c31	13_80682773_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	80682773	T	TA	780	PASS	-	Ins	-	1	6	MSH6	child	13_80682773_TTA_MSH6	1	1	-	-	-	-	Ins
2cbd4394-328d-11e6-bfa2-581f0e01a414	7_29356517_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	29356517	TA	T	360	PASS	CHN2	Del	intronic	1	9	MSH6	child	7_29356517_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
2cbdf290-328c-11e6-8256-94c36f39e758	17_32950005_TGAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	32950005	TGA	T	300	PASS	TMEM132E	Del	intronic	2	7	MSH6	child	17_32950005_TGAT_MSH6	2	2	2	GA	6	GA	Repeat-mediated
2cdc7394-328e-11e6-8353-a446fd44d094	1_246063113_CCA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	1	246063113	C	CA	660	PASS	SMYD3	Ins	intronic	1	3	FANCC	child	1_246063113_CCA_FANCC	1	1	-	-	-	-	Ins
2ce16620-3283-11e6-b933-8181c042253c	10_118833862_ATTCA	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	10	118833862	ATTC	A	540	PASS	KIAA1598	Del	intronic	3	2	FANCC	child	10_118833862_ATTCA_FANCC	3	3	3	TTC	1	TTC	Repeat-mediated
2ce602fc-3288-11e6-8d5e-ed19987b3f23	3_13380494_GGA	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	3	13380494	G	GA	480	PASS	NUP210	Ins	intronic	1	7	NEIL1	parent	3_13380494_GGA_NEIL1	1	1	-	-	-	-	Ins
2ceabdf0-3257-11e6-acc5-308412ae24cf	5_53305232_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	53305232	GT	G	300	PASS	ARL15	Del	intronic	1	7	MSH6	child	5_53305232_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
2cecc4a6-328e-11e6-94e1-63e1191589db	3_62321845_GTGCATATTTATTTG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	3	62321845	GTGCATATTTATTT	G	600	PASS	C3orf14	Del	3prime_UTR_variant	13	1	FANCC	child	3_62321845_GTGCATATTTATTTG_FANCC	13	>=10	2	TG	0	-	Microhomology-mediated
2cf2e77c-3271-11e6-9303-36f41da8ec0e	14_46699392_CATC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	14	46699392	CAT	C	300	PASS	LINC00871	Del	intronic	2	1	FANCC	child	14_46699392_CATC_FANCC	2	2	1	A	0	-	Microhomology-mediated
2cf4b398-32a0-11e6-bc66-17b4cc638e3d	8_87245874_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	87245874	CA	C	720	PASS	SLC7A13	Del	upstream	1	7	MSH6	child	8_87245874_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
2d0e9888-3275-11e6-bfd3-a6593dc9300a	X_9789906_ACTA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	X	9789906	ACT	A	300	PASS	SHROOM2	Del	intronic	2	2	EXO1	child	X_9789906_ACTA_EXO1	2	2	2	CT	1	CT	Repeat-mediated
2d0ea7ec-328e-11e6-bfa2-581f0e01a414	7_90001098_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	90001098	AT	A	420	PASS	GTPBP10	Del	intronic	1	9	MSH6	child	7_90001098_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
2d1dacb2-328c-11e6-ae4c-6bbfcc638e3d	7_47186859_AGA	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	7	47186859	AG	A	360	PASS	-	Del	-	1	7	NUDT1	child	7_47186859_AGA_NUDT1	1	1	1	G	6	G	Repeat-mediated
2d1e535c-328b-11e6-a70a-47793adbad45	3_151745721_TAT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	3	151745721	TA	T	600	PASS	-	Del	-	1	8	NUDT1	parent	3_151745721_TAT_NUDT1	1	1	1	A	7	A	Repeat-mediated
2d21fa24-3255-11e6-8ebc-3ef212ae24cf	15_76952793_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	76952793	GA	G	600	PASS	SCAPER	Del	intronic	1	7	MSH6	child	15_76952793_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
2d26eb10-3291-11e6-b77d-2eef6f39e758	6_42321348_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	42321348	GA	G	480	PASS	TRERF1	Del	intronic	1	9	MSH6	child	6_42321348_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
2d29b6fa-32a1-11e6-aea7-956725c9da85	3_181949713_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	181949713	GA	G	600	PASS	-	Del	-	1	5	MSH6	child	3_181949713_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
2d3247cc-3290-11e6-ae53-96c36f39e758	15_89396569_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	89396569	T	TA	660	PASS	ACAN	Ins	intronic	1	7	MSH6	child	15_89396569_TTA_MSH6	1	1	-	-	-	-	Ins
2d543dec-328f-11e6-bd90-978e3adbad45	12_76266804_CTC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	12	76266804	CT	C	660	PASS	RP11-114H23.1	Del	intronic	1	7	NEIL1	child	12_76266804_CTC_NEIL1	1	1	1	T	6	T	Repeat-mediated
2d5d452a-3255-11e6-b4d0-327a7872c165	11_111475132_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	111475132	AT	A	780	PASS	SIK2	Del	intronic	1	7	MSH6	child	11_111475132_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
2d5dbc94-3291-11e6-b77d-2eef6f39e758	6_42399469_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	42399469	CA	C	360	PASS	TRERF1	Del	intronic	1	2	MSH6	child	6_42399469_CAC_MSH6	1	1	1	A	1	A	Repeat-mediated
2d613c0e-3294-11e6-a488-425730158702	21_9890056_ATA	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	21	9890056	AT	A	283	PASS	-	Del	-	1	8	NUDT1	child	21_9890056_ATA_NUDT1	1	1	1	T	7	T	Repeat-mediated
2d681a7a-3270-11e6-92dd-fda8977b3f23	10_131966717_AAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	131966717	A	AT	360	PASS	GLRX3	Ins	intronic	1	8	MSH6	child	10_131966717_AAT_MSH6	1	1	-	-	-	-	Ins
2d726284-3291-11e6-9401-04ed6f39e758	3_80903206_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	80903206	TA	T	780	PASS	-	Del	-	1	9	MSH6	child	3_80903206_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
2d7eb07a-3287-11e6-b32c-fd87a2c71c31	5_102113239_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	102113239	GA	G	360	PASS	PAM	Del	intronic	1	8	MSH6	child	5_102113239_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
2d8006bc-328e-11e6-b6a6-1f1e0e01a414	4_107234048_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	107234048	TA	T	420	PASS	TBCK	Del	intronic	1	7	MSH6	child	4_107234048_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
2d800dd2-3285-11e6-a1ac-fd6da2c71c31	13_92714404_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	92714404	AT	A	540	PASS	GPC5	Del	intronic	1	7	MSH6	child	13_92714404_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
2d81b2da-3290-11e6-b10a-17a5e7d0bdd7	1_212611542_TTTCT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	1	212611542	TTTC	T	360	PASS	NENF	Del	intronic	3	2	FANCC	child	1_212611542_TTTCT_FANCC	3	3	3	TTC	1	TTC	Repeat-mediated
2d874984-329a-11e6-8d0f-075325c9da85	14_37732062_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	37732062	AC	A	420	PASS	MIPOL1	Del	intronic	1	7	MSH6	child	14_37732062_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
2d8e5df2-3293-11e6-b81f-4ee66f39e758	8_91582210_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	91582210	C	CA	300	PASS	LINC00534	Ins	downstream	1	9	MSH6	child	8_91582210_CCA_MSH6	1	1	-	-	-	-	Ins
2d9bfa4c-328a-11e6-a100-84090e01a414	18_61283765_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	61283765	CA	C	360	PASS	-	Del	-	1	5	MSH6	child	18_61283765_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
2da10886-329c-11e6-aca6-b39fcc638e3d	2_158339156_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	158339156	GA	G	660	PASS	CYTIP	Del	intronic	1	8	MSH6	child	2_158339156_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
2dbda026-329d-11e6-a5cf-e5abcc638e3d	9_77035879_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	77035879	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	9_77035879_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
2dbf1f26-3290-11e6-92cf-bf2a0e01a414	6_88829694_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	88829694	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	6_88829694_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
2dc18cc8-3274-11e6-a5d0-4fd14a47a305	2_158844031_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	158844031	CA	C	480	PASS	UPP2	Del	intronic	1	8	MSH6	child	2_158844031_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
2dc221e0-3320-11e6-ba61-18773adbad45	13_28038388_TAT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	13	28038388	TA	T	660	PASS	-	Del	-	1	8	CHK2	child	13_28038388_TAT_CHK2	1	1	1	A	7	A	Repeat-mediated
2dc533de-329a-11e6-b129-195325c9da85	16_17281648_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	17281648	TA	T	600	PASS	XYLT1	Del	intronic	1	9	MSH6	child	16_17281648_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
2dc8761c-3271-11e6-b5b8-e0c24a47a305	X_122274008_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	122274008	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	X_122274008_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
2dccf3a2-32a0-11e6-ae71-0c5325c9da85	1_106836774_TTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	106836774	T	TA	720	PASS	-	Ins	-	1	6	MSH6	child	1_106836774_TTA_MSH6	1	1	-	-	-	-	Ins
2ddd492c-328d-11e6-b8e6-91c36f39e758	11_108760129_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	108760129	CT	C	480	PASS	DDX10	Del	intronic	1	7	MSH6	child	11_108760129_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
2de53844-326f-11e6-9fba-41ebd8b4fa2c	11_94532231_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	94532231	AT	A	480	PASS	AMOTL1	Del	intronic	1	9	MSH6	child	11_94532231_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
2dea6e4c-3277-11e6-92d2-c259c225ee11	3_59777058_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	59777058	TG	T	480	PASS	FHIT	Del	intronic	1	5	MSH6	child	3_59777058_TGT_MSH6	1	1	1	G	4	G	Repeat-mediated
2ded3b2e-327a-11e6-8c34-46e27872c165	5_166324604_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	166324604	A	AT	540	PASS	-	Ins	-	1	5	MSH6	child	5_166324604_AAT_MSH6	1	1	-	-	-	-	Ins
2dfd73c6-3271-11e6-9309-bdc34a47a305	8_97126479_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	97126479	GA	G	537	PASS	-	Del	-	1	5	MSH6	child	8_97126479_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
2e00f572-3290-11e6-a83a-f948aa5f95ce	1_101118807_GGA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	1	101118807	G	GA	300	PASS	-	Ins	-	1	6	POLM	child	1_101118807_GGA_POLM	1	1	-	-	-	-	Ins
2e016dac-327e-11e6-aa5e-d58054de4fc4	18_42009341_TAT	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	18	42009341	TA	T	360	PASS	CTC-782O7.1	Del	intronic	1	8	NEIL1	child	18_42009341_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
2e029770-328f-11e6-8f31-bfe16f39e758	9_107235515_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	107235515	AT	A	420	PASS	-	Del	-	1	7	MSH6	child	9_107235515_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
2e076cf2-3274-11e6-9ef9-d85a25c9da85	3_121164150_GTG	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	3	121164150	GT	G	480	PASS	POLQ	Del	intronic	1	7	POLM	child	3_121164150_GTG_POLM	1	1	1	T	6	T	Repeat-mediated
2e07f77c-3291-11e6-8c3d-0ab4e7d0bdd7	3_13062171_CTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	3	13062171	CT	C	480	PASS	IQSEC1	Del	intronic	1	8	FANCC	child	3_13062171_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
2e0d6f1c-328d-11e6-bd84-429305ad5bc4	1_221931735_CAAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	221931735	CAA	C	780	PASS	-	Del	-	2	3	MSH6	child	1_221931735_CAAC_MSH6	2	2	1	A	0	-	Microhomology-mediated
2e124286-328c-11e6-ae53-96c36f39e758	15_52941479_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	52941479	GA	G	360	PASS	FAM214A	Del	intronic	1	7	MSH6	child	15_52941479_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
2e1c1070-327a-11e6-ab1d-16d9ecf1e924	20_23364317_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	23364317	TA	T	360	PASS	NAPB	Del	intronic	1	7	MSH6	child	20_23364317_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
2e214d48-325b-11e6-8b28-55ad7872c165	20_41313069_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	41313069	GA	G	960	PASS	PTPRT	Del	intronic	1	6	MSH6	child	20_41313069_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
2e23ec20-328c-11e6-88c1-95c36f39e758	14_58983126_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	58983126	GA	G	540	PASS	KIAA0586	Del	intronic	1	9	MSH6	child	14_58983126_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
2e3435ec-3275-11e6-a862-bc9becf1e924	1_188892089_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	188892089	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	1_188892089_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
2e394876-3256-11e6-a0fc-e737fa52e078	2_170378425_TAT	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	2	170378425	TA	T	480	PASS	KLHL41	Del	intronic	1	9	POLM	child	2_170378425_TAT_POLM	1	1	1	A	8	A	Repeat-mediated
2e3a1e06-328b-11e6-9c89-8d090e01a414	1_109055379_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	109055379	AT	A	300	PASS	-	Del	-	1	5	MSH6	child	1_109055379_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
2e3af030-32a2-11e6-bc2c-2a5e25c9da85	4_143753455_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	143753455	G	GA	540	PASS	INPP4B	Ins	intronic	1	8	MSH6	child	4_143753455_GGA_MSH6	1	1	-	-	-	-	Ins
2e3d3c28-328e-11e6-9230-fb250e01a414	3_18943282_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	18943282	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	3_18943282_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
2e509492-3286-11e6-b1ba-6def1da8ec0e	1_183399294_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	1	183399294	AT	A	420	PASS	-	Del	-	1	3	EXO1	child	1_183399294_ATA_EXO1	1	1	1	T	2	T	Repeat-mediated
2e53d0e6-3275-11e6-a5d0-4fd14a47a305	2_238696720_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	238696720	AT	A	660	PASS	-	Del	-	1	8	MSH6	child	2_238696720_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
2e5d139e-3285-11e6-9daa-026ea2c71c31	14_98144114_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	98144114	CA	C	292	PASS	RP11-76E12.1	Del	intronic	1	7	MSH6	child	14_98144114_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
2e640512-3287-11e6-8b67-086ea2c71c31	1_247925274_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	247925274	CA	C	300	PASS	OR1C1	Del	upstream	1	4	MSH6	child	1_247925274_CAC_MSH6	1	1	1	A	3	A	Repeat-mediated
2e6cad26-3254-11e6-a4a7-35f212ae24cf	14_60847366_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	60847366	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	14_60847366_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
2e729a50-3291-11e6-b81f-4ee66f39e758	8_99980723_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	99980723	GA	G	600	PASS	RP11-44N12.2	Del	downstream	1	8	MSH6	child	8_99980723_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
2e827f5a-328d-11e6-8621-65d8191589db	4_84398455_GAG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	4	84398455	GA	G	300	PASS	FAM175A	Del	intronic	1	8	FANCC	child	4_84398455_GAG_FANCC	1	1	1	A	7	A	Repeat-mediated
2e828d2a-328c-11e6-8106-81c36f39e758	19_35634961_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	35634961	GA	G	840	PASS	FXYD7	Del	intronic	1	9	MSH6	child	19_35634961_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
2e845534-326d-11e6-b2ac-b6204b47a305	17_34833483_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	34833483	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	17_34833483_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
2e93d3b8-3297-11e6-9a4d-bd1ec7271a47	17_62652063_TAT	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	17	62652063	TA	T	420	PASS	SMURF2	Del	intronic	1	8	CHK2	child	17_62652063_TAT_CHK2	1	1	1	A	7	A	Repeat-mediated
2e9e9a92-334a-11e6-be18-768ca20b69d5	3_97635732_TAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	3	97635732	TA	T	300	PASS	CRYBG3	Del	intronic	1	8	FANCC	child	3_97635732_TAT_FANCC	1	1	1	A	7	A	Repeat-mediated
2e9f7c10-328b-11e6-a8ac-a28ea2c71c31	3_170658337_CCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	170658337	C	CT	360	PASS	-	Ins	-	1	5	MSH6	child	3_170658337_CCT_MSH6	1	1	-	-	-	-	Ins
2ea72086-3273-11e6-a390-fc104530f757	1_163942431_CTC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	1	163942431	CT	C	660	PASS	-	Del	-	1	5	FANCC	child	1_163942431_CTC_FANCC	1	1	1	T	4	T	Repeat-mediated
2eb0f028-3324-11e6-925b-cca72aaffa45	X_81362179_TAT	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	X	81362179	TA	T	300	PASS	-	Del	-	1	7	CHK2	child	X_81362179_TAT_CHK2	1	1	1	A	6	A	Repeat-mediated
2eb48a6e-3287-11e6-b32c-fd87a2c71c31	5_102896833_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	102896833	AT	A	480	PASS	NUDT12	Del	intronic	1	9	MSH6	child	5_102896833_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
2ece8dc8-326f-11e6-a539-0e5542c4520d	7_8735055_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	8735055	GT	G	420	PASS	NXPH1	Del	intronic	1	8	MSH6	child	7_8735055_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
2ed89e90-3278-11e6-9972-dabcecf1e924	3_56350643_TACT	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	3	56350643	TAC	T	480	PASS	ERC2	Del	intronic	2	7	NEIL1	child	3_56350643_TACT_NEIL1	2	2	2	AC	6	AC	Repeat-mediated
2ed9a3de-326f-11e6-b306-b5204b47a305	2_227742692_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	227742692	TA	T	420	PASS	RHBDD1	Del	intronic	1	8	MSH6	child	2_227742692_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
2eeb5620-3291-11e6-92cf-bf2a0e01a414	6_152975173_AGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	152975173	AG	A	480	PASS	-	Del	-	1	2	MSH6	child	6_152975173_AGA_MSH6	1	1	1	G	1	G	Repeat-mediated
2eec21d0-3346-11e6-bb83-9c61147bb207	14_73020253_ATA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	14	73020253	AT	A	600	PASS	RGS6	Del	intronic	1	6	FANCC	child	14_73020253_ATA_FANCC	1	1	1	T	5	T	Repeat-mediated
2eedc31e-3292-11e6-b105-7659aa5f95ce	20_60135312_CTTTC	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	20	60135312	CTTT	C	480	PASS	CDH4	Del	intronic	3	5	POLM	child	20_60135312_CTTTC_POLM	3	3	2	TT	0	-	Microhomology-mediated
2ef249e8-328d-11e6-939b-845c694da5d2	18_68882422_AGA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	18	68882422	AG	A	600	PASS	RP11-47G4.2	Del	downstream	1	3	POLM	child	18_68882422_AGA_POLM	1	1	1	G	2	G	Repeat-mediated
2ef48800-328f-11e6-bec1-ca1d0e01a414	X_154807082_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	154807082	TA	T	480	PASS	TMLHE	Del	intronic	1	8	MSH6	child	X_154807082_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
2efc22c8-327a-11e6-b5ff-0de46de4ab00	5_153916319_AACT	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	5	153916319	A	ACT	360	PASS	-	Ins	-	2	4	POLB	child	5_153916319_AACT_POLB	2	2	-	-	-	-	Ins
2f04984e-3271-11e6-9309-bdc34a47a305	8_97484471_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	97484471	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	8_97484471_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
2f084b3c-3286-11e6-a1ac-fd6da2c71c31	13_81761138_CCA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	81761138	C	CA	900	PASS	-	Ins	-	1	7	MSH6	child	13_81761138_CCA_MSH6	1	1	-	-	-	-	Ins
2f09ae38-328f-11e6-9e01-8e5c694da5d2	12_60122317_TTGGTG	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	12	60122317	T	TGGTG	420	PASS	SLC16A7	Ins	intronic	4	0	POLM	child	12_60122317_TTGGTG_POLM	4	4	-	-	-	-	Ins
2f10fb2a-328a-11e6-b805-77090e01a414	2_61217297_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	61217297	GA	G	480	PASS	PUS10	Del	intronic	1	8	MSH6	child	2_61217297_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
2f135980-3288-11e6-b9eb-c78fa2c71c31	6_28990576_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	28990576	CT	C	660	PASS	-	Del	-	1	9	MSH6	child	6_28990576_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
2f1599de-327e-11e6-9390-53fe684da5d2	16_23917582_CATCTTAC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	16	23917582	CATCTTA	C	540	PASS	PRKCB	Del	intronic	6	1	NEIL1	child	16_23917582_CATCTTAC_NEIL1	6	6	2	AT	0	-	Microhomology-mediated
2f1aef44-3272-11e6-b636-ce0fead19ece	12_45175798_TCTCT	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	12	45175798	TCTC	T	420	PASS	NELL2	Del	intronic	3	2	NEIL1	child	12_45175798_TCTCT_NEIL1	3	3	3	CTC	1	CTC	Repeat-mediated
2f2268cc-3273-11e6-ad8b-494f3cfdbd24	7_94165125_CATC	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	7	94165125	CAT	C	1049	PASS	CASD1	Del	intronic	2	3	POLM	child	7_94165125_CATC_POLM	2	2	2	AT	2	AT	Repeat-mediated
2f25d916-3288-11e6-a7ff-5779a178171f	10_27737822_TTA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	10	27737822	T	TA	480	PASS	-	Ins	-	1	5	FANCC	child	10_27737822_TTA_FANCC	1	1	-	-	-	-	Ins
2f2d8db8-3275-11e6-8f33-a6d9cde16804	11_113457923_AAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	113457923	A	AG	660	PASS	-	Ins	-	1	4	MSH6	child	11_113457923_AAG_MSH6	1	1	-	-	-	-	Ins
2f31bf46-3289-11e6-a8ac-a28ea2c71c31	3_155120068_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	155120068	CA	C	780	PASS	PLCH1	Del	intronic	1	7	MSH6	child	3_155120068_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
2f34702c-3286-11e6-8b67-086ea2c71c31	1_157838641_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	157838641	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	1_157838641_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
2f367134-328f-11e6-94e1-63e1191589db	3_132687668_ATA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	3	132687668	AT	A	300	PASS	-	Del	-	1	9	FANCC	child	3_132687668_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
2f47dd40-326f-11e6-b4bf-85eb97ba1142	2_16645329_GAG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	2	16645329	GA	G	420	PASS	-	Del	-	1	7	EXO1	parent	2_16645329_GAG_EXO1	1	1	1	A	6	A	Repeat-mediated
2f4c885e-3288-11e6-9955-19979cdf095d	8_104541136_GGT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	8	104541136	G	GT	700	PASS	RIMS2	Ins	intronic	1	5	POLE	child	8_104541136_GGT_POLE	1	1	-	-	-	-	Ins
2f4ef892-3273-11e6-bfb2-2749c225ee11	12_57119519_TCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	57119519	TC	T	480	PASS	NACA	Del	5prime_UTR_variant	1	8	MSH6	child	12_57119519_TCT_MSH6	1	1	1	C	7	C	Repeat-mediated
2f61e62a-328f-11e6-bb1e-70e16f39e758	X_62692367_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	62692367	CA	C	300	PASS	-	Del	-	1	6	MSH6	child	X_62692367_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
2f6394ae-32a1-11e6-a04f-c66a25c9da85	6_121965824_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	121965824	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	6_121965824_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
2f64f9f8-328c-11e6-ae46-59cc977b3f23	12_56210483_CACAAC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	12	56210483	CACAA	C	840	PASS	DNAJC14	Del	downstream	4	1	NEIL1	child	12_56210483_CACAAC_NEIL1	4	4	3	ACA	0	-	Microhomology-mediated
2f68daa8-328e-11e6-a936-e7078b285ec1	17_62241806_AAC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	17	62241806	A	AC	300	PASS	TEX2	Ins	intronic	1	3	POLE	child	17_62241806_AAC_POLE	1	1	-	-	-	-	Ins
2f6d4a20-328e-11e6-bec1-ca1d0e01a414	X_73767114_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	73767114	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	X_73767114_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
2f6dbc1e-32a0-11e6-ae71-0c5325c9da85	1_107517891_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	107517891	C	CT	480	PASS	-	Ins	-	1	7	MSH6	child	1_107517891_CCT_MSH6	1	1	-	-	-	-	Ins
2f702dc2-326f-11e6-b5b8-e0c24a47a305	X_14639459_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	14639459	TA	T	420	PASS	GLRA2	Del	intronic	1	4	MSH6	child	X_14639459_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
2f73f6dc-3288-11e6-a21c-b819bce6aa09	X_13198262_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	13198262	T	TA	660	PASS	-	Ins	-	1	1	MSH6	child	X_13198262_TTA_MSH6	1	1	-	-	-	-	Ins
2f867d8a-328c-11e6-919e-92c36f39e758	2_44204227_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	44204227	CT	C	360	PASS	LRPPRC	Del	intronic	1	8	MSH6	child	2_44204227_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
2fa92e80-3290-11e6-92cf-bf2a0e01a414	6_89458484_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	89458484	GA	G	360	PASS	RNGTT	Del	intronic	1	8	MSH6	child	6_89458484_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
2faa1b90-326f-11e6-8141-e0f3eab8d062	16_15927929_CTC	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	16	15927929	CT	C	420	PASS	MYH11	Del	intronic	1	9	NUDT1	child	16_15927929_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
2fadb784-3286-11e6-afcf-0311bce6aa09	9_36349476_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	36349476	AT	A	540	PASS	RNF38	Del	intronic	1	8	MSH6	child	9_36349476_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
2fb11a4c-3258-11e6-8cd9-139b7872c165	3_48608234_GCG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	48608234	GC	G	540	PASS	COL7A1	Del	intronic	1	5	MSH6	child	3_48608234_GCG_MSH6	1	1	1	C	4	C	Repeat-mediated
2fb3d776-3255-11e6-a70f-7c832aaffa45	17_57686927_ATA	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	17	57686927	AT	A	660	PASS	DHX40	Del	downstream	1	9	POLM	child	17_57686927_ATA_POLM	1	1	1	T	8	T	Repeat-mediated
2fbe7142-3271-11e6-b5b8-e0c24a47a305	X_122861062_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	122861062	CA	C	300	PASS	THOC2	Del	intronic	1	8	MSH6	child	X_122861062_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
2fc719ce-3275-11e6-a5d0-4fd14a47a305	2_238999275_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	238999275	TA	T	300	PASS	SCLY	Del	intronic	1	9	MSH6	child	2_238999275_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
2fc7ad6e-328c-11e6-bd84-429305ad5bc4	1_83486196_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	83486196	CT	C	540	PASS	RP4-601K24.1	Del	intronic	1	8	MSH6	child	1_83486196_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
2fd12622-3256-11e6-a304-347a7872c165	1_182546821_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	182546821	GA	G	540	PASS	RNASEL	Del	intronic	1	9	MSH6	child	1_182546821_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
2fd5807a-3281-11e6-ae55-ef338e4678dd	14_74175961_AAAGA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	14	74175961	AAAG	A	480	PASS	PNMA1	Del	downstream	3	2	EXO1	child	14_74175961_AAAGA_EXO1	3	3	3	AAG	1	AAG	Repeat-mediated
2fddd032-3271-11e6-b89d-b2d6b0dab373	4_114948012_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	114948012	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	4_114948012_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
2fe129a4-3289-11e6-8909-3ebb38e8a824	9_28906080_TTAAATATGGAATCT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	9	28906080	TTAAATATGGAATC	T	540	PASS	-	Del	-	13	1	NUDT1	parent	9_28906080_TTAAATATGGAATCT_NUDT1	13	>=10	4	TAAA	0	-	Microhomology-mediated
2fe2ce74-3272-11e6-8418-1c5942c4520d	3_1032180_GGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	1032180	G	GT	360	PASS	-	Ins	-	1	5	MSH6	child	3_1032180_GGT_MSH6	1	1	-	-	-	-	Ins
2fe78e9c-3285-11e6-99f7-076ea2c71c31	12_68899881_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	68899881	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	12_68899881_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
2fe9d5ee-3294-11e6-8d91-0b8730158702	1_243481815_TAT	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	1	243481815	TA	T	300	PASS	SDCCAG8	Del	intronic	1	9	NUDT1	child	1_243481815_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
2ff43252-328d-11e6-9e88-ed4438e8a824	6_122495212_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	6	122495212	CT	C	420	PASS	-	Del	-	1	5	NUDT1	parent	6_122495212_CTC_NUDT1	1	1	1	T	4	T	Repeat-mediated
2ff4dd3e-329b-11e6-b723-b29fcc638e3d	19_48547836_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	48547836	GA	G	660	PASS	PLA2G4C	Del	downstream	1	8	MSH6	child	19_48547836_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
2ff8b75c-3277-11e6-99c3-088c3adbad45	6_50579159_GATG	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	6	50579159	GAT	G	480	PASS	RP1-28O17.1	Del	intronic	2	2	CHK2	child	6_50579159_GATG_CHK2	2	2	2	AT	1	AT	Repeat-mediated
2ff8bef2-328e-11e6-b6a6-1f1e0e01a414	4_108137027_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	108137027	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	4_108137027_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
2ff983a8-3295-11e6-a24b-ac3c7a852e0e	6_68013535_ATA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	6	68013535	AT	A	480	PASS	-	Del	-	1	9	CHK2	child	6_68013535_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
2fff9554-3321-11e6-be22-69745e975b79	1_92212175_CTC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	1	92212175	CT	C	660	PASS	TGFBR3	Del	intronic	1	9	CHK2	parent	1_92212175_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
300c26f4-3257-11e6-b04f-1ca12aaffa45	8_29637578_CAC	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	8	29637578	CA	C	480	PASS	AC145110.1	Del	intronic	1	9	POLM	child	8_29637578_CAC_POLM	1	1	1	A	8	A	Repeat-mediated
300f8180-326d-11e6-9003-ae204b47a305	19_28575560_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	28575560	GA	G	640	PASS	CTD-2043I16.1	Del	intronic	1	8	MSH6	child	19_28575560_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
301d24b2-3285-11e6-8b67-086ea2c71c31	1_62255014_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	62255014	CA	C	360	PASS	INADL	Del	intronic	1	9	MSH6	child	1_62255014_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
30264328-3274-11e6-a862-bc9becf1e924	1_117332472_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	117332472	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	1_117332472_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
3027608c-328d-11e6-b8e6-91c36f39e758	11_109572518_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	109572518	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	11_109572518_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
30286d8e-3287-11e6-a284-4b89a2c71c31	4_57354056_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	57354056	AT	A	660	PASS	SRP72	Del	intronic	1	9	MSH6	child	4_57354056_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
3031d60e-3277-11e6-a71d-236235cec73b	X_92328641_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	92328641	AT	A	489	PASS	-	Del	-	1	7	MSH6	child	X_92328641_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
3038fcec-329d-11e6-ae71-0c5325c9da85	1_194951005_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	194951005	CT	C	480	PASS	-	Del	-	1	7	MSH6	child	1_194951005_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
303dbf32-326d-11e6-b306-b5204b47a305	2_49255238_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	49255238	CA	C	360	PASS	FSHR	Del	intronic	1	8	MSH6	child	2_49255238_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
303eb970-329d-11e6-ae71-0c5325c9da85	1_194951739_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	194951739	AT	A	1020	PASS	-	Del	-	1	5	MSH6	child	1_194951739_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
303f62d4-3271-11e6-9eec-5017987b3f23	10_53148368_GAG	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	10	53148368	GA	G	360	PASS	PRKG1	Del	intronic	1	9	POLB	child	10_53148368_GAG_POLB	1	1	1	A	8	A	Repeat-mediated
3040abf2-328b-11e6-8459-82090e01a414	12_112715666_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	112715666	AT	A	360	PASS	HECTD4	Del	intronic	1	8	MSH6	child	12_112715666_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
304d546c-328e-11e6-b8c1-a64daa5f95ce	9_36340381_CTC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	9	36340381	CT	C	540	PASS	RNF38	Del	intronic	1	7	POLE	child	9_36340381_CTC_POLE	1	1	1	T	6	T	Repeat-mediated
30613e10-3279-11e6-8c34-46e27872c165	5_86174696_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	86174696	T	TA	420	PASS	-	Ins	-	1	8	MSH6	child	5_86174696_TTA_MSH6	1	1	-	-	-	-	Ins
306521b0-328d-11e6-b6a6-1f1e0e01a414	4_44414749_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	44414749	CA	C	360	PASS	KCTD8	Del	intronic	1	7	MSH6	child	4_44414749_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
3070f86a-3273-11e6-93e1-6451e7d0bdd7	10_24016093_ATA	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	10	24016093	AT	A	540	PASS	KIAA1217	Del	intronic	1	8	POLB	child	10_24016093_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
30714652-3297-11e6-9baf-ebf997ba1142	14_84908463_CTACAATTGCATTTC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	14	84908463	CTACAATTGCATTT	C	300	PASS	-	Del	-	13	1	CHK2	child	14_84908463_CTACAATTGCATTTC_CHK2	13	>=10	2	TA	0	-	Microhomology-mediated
3077d790-3294-11e6-b14c-5e337a852e0e	X_94151833_GTG	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	X	94151833	GT	G	522	PASS	-	Del	-	1	7	CHK2	child	X_94151833_GTG_CHK2	1	1	1	T	6	T	Repeat-mediated
307d3b40-328a-11e6-9c89-8d090e01a414	1_45796756_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	45796756	CA	C	600	PASS	MUTYH	Del	intronic	1	9	MSH6	child	1_45796756_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
3092979c-3271-11e6-acc7-e55219a91649	1_158122033_CCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	158122033	C	CT	360	PASS	-	Ins	-	1	9	MSH6	child	1_158122033_CCT_MSH6	1	1	-	-	-	-	Ins
3092ce64-326d-11e6-9793-9a8fb0dab373	13_58004400_AGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	58004400	AG	A	300	PASS	-	Del	-	1	8	MSH6	child	13_58004400_AGA_MSH6	1	1	1	G	7	G	Repeat-mediated
30a8dc7c-329a-11e6-8d0f-075325c9da85	14_38317067_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	38317067	CT	C	600	PASS	-	Del	-	1	9	MSH6	child	14_38317067_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
30acf350-3256-11e6-a304-347a7872c165	1_182822422_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	182822422	AT	A	960	PASS	DHX9	Del	intronic	1	8	MSH6	child	1_182822422_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
30b46da2-328c-11e6-b805-77090e01a414	2_195663500_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	195663500	GA	G	420	PASS	-	Del	-	1	8	MSH6	child	2_195663500_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
30b5ab94-329c-11e6-ae71-0c5325c9da85	1_144999581_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	144999581	TA	T	695	PASS	PDE4DIP	Del	upstream	1	5	MSH6	child	1_144999581_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
30c05abe-328b-11e6-b805-77090e01a414	2_128793922_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	128793922	GA	G	300	PASS	-	Del	-	1	8	MSH6	child	2_128793922_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
30c1c3b8-3254-11e6-8ebc-3ef212ae24cf	15_53394376_ATCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	53394376	ATC	A	360	PASS	-	Del	-	2	8	MSH6	child	15_53394376_ATCA_MSH6	2	2	2	TC	7	TC	Repeat-mediated
30c7981e-3255-11e6-9f9d-2c7a7872c165	12_110855482_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	110855482	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	12_110855482_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
30d76182-326d-11e6-acc7-e55219a91649	1_64468860_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	64468860	CT	C	300	PASS	ROR1	Del	intronic	1	8	MSH6	child	1_64468860_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
30d927c8-3278-11e6-a71d-236235cec73b	X_10963622_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	10963622	T	TA	480	PASS	RP11-120D5.1	Ins	intronic	1	7	MSH6	child	X_10963622_TTA_MSH6	1	1	-	-	-	-	Ins
30dcdeba-3285-11e6-9546-b5936f39e758	15_74440137_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	15	74440137	AT	A	300	PASS	-	Del	-	1	7	EXO1	child	15_74440137_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
30dd4d12-3291-11e6-b81f-4ee66f39e758	8_100711824_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	100711824	CT	C	840	PASS	VPS13B	Del	frameshift	1	7	MSH6	child	8_100711824_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
30ded90e-3294-11e6-98e0-70dad8b4fa2c	2_209735077_ATA	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	2	209735077	AT	A	660	PASS	-	Del	-	1	2	NUDT1	child	2_209735077_ATA_NUDT1	1	1	1	T	1	T	Repeat-mediated
30e27f64-328f-11e6-bb1e-70e16f39e758	X_63912481_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	63912481	CT	C	600	PASS	-	Del	-	1	7	MSH6	child	X_63912481_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
30ede872-3271-11e6-b5b8-e0c24a47a305	X_122966899_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	122966899	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	X_122966899_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
30f18bb8-3324-11e6-bca1-ddd45d753391	22_29107973_TCGAAAGCCAGT	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	22	29107973	TCGAAAGCCAG	T	1200	PASS	CHEK2	Del	frameshift	10	1	CHK2	parent	22_29107973_TCGAAAGCCAGT_CHK2	10	>=10	1	C	0	-	Microhomology-mediated
30fcfc1a-3274-11e6-a76d-26961565c797	1_106396853_ATA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	1	106396853	AT	A	840	PASS	-	Del	-	1	7	EXO1	child	1_106396853_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
3101a0cc-328c-11e6-bd84-429305ad5bc4	1_84251473_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	84251473	CT	C	600	PASS	RP11-475O6.1	Del	intronic	1	7	MSH6	child	1_84251473_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
3103cbe8-3275-11e6-afb6-12832aaffa45	8_91306921_CTC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	8	91306921	CT	C	480	PASS	LINC00534	Del	intronic	1	9	CHK2	child	8_91306921_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
310728ca-326f-11e6-acc7-e55219a91649	1_227890845_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	227890845	CA	C	1074	PASS	-	Del	-	1	7	MSH6	child	1_227890845_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
31087a4c-3286-11e6-b282-3612147bb207	6_33397190_GCTG	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	6	33397190	GCT	G	780	PASS	SYNGAP1	Del	intronic	2	2	FANCC	child	6_33397190_GCTG_FANCC	2	2	2	CT	1	CT	Repeat-mediated
310d0560-3288-11e6-8bf5-48a538e8a824	14_106129322_ACA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	14	106129322	AC	A	184	PASS	-	Del	-	1	2	NUDT1	parent	14_106129322_ACA_NUDT1	1	1	1	C	1	C	Repeat-mediated
310d793a-3271-11e6-b5b8-e0c24a47a305	X_122976626_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	122976626	CA	C	300	PASS	-	Del	-	1	7	MSH6	child	X_122976626_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
310d95fc-3292-11e6-a2c1-b9370d016689	12_57254685_CTC	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	12	57254685	CT	C	360	PASS	-	Del	-	1	9	NUDT1	child	12_57254685_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
310ec8b4-32a1-11e6-a04f-c66a25c9da85	6_122373110_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	122373110	AT	A	840	PASS	-	Del	-	1	7	MSH6	child	6_122373110_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
3110fd3e-3281-11e6-b263-76d64dc77248	8_8517475_AAAAG	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	8	8517475	A	AAAG	720	PASS	-	Ins	-	3	4	NUDT1	child	8_8517475_AAAAG_NUDT1	3	3	-	-	-	-	Ins
311af83c-3288-11e6-a284-4b89a2c71c31	4_152444658_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	152444658	GT	G	300	PASS	FAM160A1	Del	intronic	1	9	MSH6	child	4_152444658_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
31227114-328f-11e6-9230-fb250e01a414	3_81378026_ATCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	81378026	ATC	A	360	PASS	-	Del	-	2	4	MSH6	child	3_81378026_ATCA_MSH6	2	2	2	TC	3	TC	Repeat-mediated
31230a34-3271-11e6-9309-bdc34a47a305	8_98381945_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	98381945	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	8_98381945_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3129f224-3297-11e6-9411-bc1ec7271a47	19_50469688_CTC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	19	50469688	CT	C	300	PASS	-	Del	-	1	9	CHK2	child	19_50469688_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
3130ea76-329b-11e6-8069-175325c9da85	12_79109926_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	79109926	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	12_79109926_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
3131283a-3285-11e6-97d5-6cf1bbe6aa09	17_61633151_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	61633151	TA	T	660	PASS	DCAF7	Del	intronic	1	9	MSH6	child	17_61633151_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
313572c4-329d-11e6-94ca-0aaecc638e3d	X_23073642_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	23073642	CT	C	1063	PASS	RP11-40F8.2	Del	intronic	1	7	MSH6	child	X_23073642_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
314f1772-326d-11e6-b9f4-5d1d694da5d2	14_59751573_AAGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	59751573	AAG	A	480	PASS	DAAM1	Del	intronic	2	3	MSH6	child	14_59751573_AAGA_MSH6	2	2	2	AG	2	AG	Repeat-mediated
31548266-3295-11e6-a9b2-67393dc9300a	7_39954053_TAT	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	7	39954053	TA	T	480	PASS	-	Del	-	1	9	POLB	child	7_39954053_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
3155bc12-3281-11e6-b652-59be9b6d3b88	1_47700595_CAC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	1	47700595	CA	C	360	PASS	TAL1	Del	upstream	1	7	POLE	child	1_47700595_CAC_POLE	1	1	1	A	6	A	Repeat-mediated
315857ec-3281-11e6-b22d-b0e4cdacbbbf	13_84183270_CAC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	13	84183270	CA	C	360	PASS	-	Del	-	1	9	EXO1	child	13_84183270_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
315b2412-3296-11e6-9b8b-c9bbf530df36	20_24213100_GAG	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	20	24213100	GA	G	480	PASS	RNU1-23P	Del	upstream	1	7	POLB	child	20_24213100_GAG_POLB	1	1	1	A	6	A	Repeat-mediated
3176ddec-3287-11e6-9170-b6936f39e758	12_110030493_CCA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	12	110030493	C	CA	600	PASS	MVK	Ins	intronic	1	2	EXO1	child	12_110030493_CCA_EXO1	1	1	-	-	-	-	Ins
31777aee-3274-11e6-803d-c550e7d0bdd7	11_116641453_GCCCGCCTTGGCCTCCCAAAGTGCTGGGATTATAGGCGTGAGCCACCGCGCCCGGCCCTAGTCTTTTTCTTTTTTGAGACAGGGTCTCACACTGCTGCCCAGGCTGGAGTGCAGGGACACCATCATGGCTCCCTGCAGCCTTGACTTCCCGGGGTTAAGTTATTCTCCCTACTCAGTCTCCCAAGTAGCTGGGACTACAGGCATGTGCCACTGTGCCTGACTACTTTTTTGTATTTTTTGTAGAAACAGGGTTTCACCATGTTGCCCAGACTGGTCTCAAACTCCTAGATGCAAGCAATCCAG	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	11	116641453	GCCCGCCTTGGCCTCCCAAAGTGCTGGGATTATAGGCGTGAGCCACCGCGCCCGGCCCTAGTCTTTTTCTTTTTTGAGACAGGGTCTCACACTGCTGCCCAGGCTGGAGTGCAGGGACACCATCATGGCTCCCTGCAGCCTTGACTTCCCGGGGTTAAGTTATTCTCCCTACTCAGTCTCCCAAGTAGCTGGGACTACAGGCATGTGCCACTGTGCCTGACTACTTTTTTGTATTTTTTGTAGAAACAGGGTTTCACCATGTTGCCCAGACTGGTCTCAAACTCCTAGATGCAAGCAATCCA	G	287	PASS	BUD13	Del	intronic	301	1	EXO1	child	11_116641453_GCCCGCCTTGGCCTCCCAAAGTGCTGGGATTATAGGCGTGAGCCACCGCGCCCGGCCCTAGTCTTTTTCTTTTTTGAGACAGGGTCTCACACTGCTGCCCAGGCTGGAGTGCAGGGACACCATCATGGCTCCCTGCAGCCTTGACTTCCCGGGGTTAAGTTATTCTCCCTACTCAGTCTCCCAAGTAGCTGGGACTACAGGCATGTGCCACTGTGCCTGACTACTTTTTTGTATTTTTTGTAGAAACAGGGTTTCACCATGTTGCCCAGACTGGTCTCAAACTCCTAGATGCAAGCAATCCAG_EXO1	301	>=10	24	CCCGCCTTGGCCTCCCAAAGTGCT	0	-	Microhomology-mediated
31927484-326f-11e6-acc7-e55219a91649	1_228148917_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	228148917	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	1_228148917_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
31996b60-3277-11e6-8c34-46e27872c165	5_129146118_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	129146118	TA	T	420	PASS	-	Del	-	1	5	MSH6	child	5_129146118_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
319da1c0-3273-11e6-abaf-4642cab49462	6_111291471_CAGGC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	111291471	CAGG	C	300	PASS	GTF3C6	Del	downstream	3	1	MSH6	child	6_111291471_CAGGC_MSH6	3	3	2	AG	0	-	Microhomology-mediated
31a00354-328f-11e6-9230-fb250e01a414	3_81568847_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	81568847	GA	G	300	PASS	GBE1	Del	intronic	1	9	MSH6	child	3_81568847_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
31a4ac6c-3274-11e6-b09c-a7fe7146d362	10_107343401_TTA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	10	107343401	T	TA	300	PASS	-	Ins	-	1	1	CHK2	child	10_107343401_TTA_CHK2	1	1	-	-	-	-	Ins
31a70fa8-3282-11e6-9748-b96f2aaffa45	14_41967152_CCT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	14	41967152	C	CT	420	PASS	-	Ins	-	1	7	POLE	child	14_41967152_CCT_POLE	1	1	-	-	-	-	Ins
31b03be6-32a0-11e6-94ca-0aaecc638e3d	X_14492692_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	14492692	C	CT	660	PASS	-	Ins	-	1	1	MSH6	child	X_14492692_CCT_MSH6	1	1	-	-	-	-	Ins
31bd5870-3274-11e6-bfb2-2749c225ee11	12_121405194_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	121405194	AT	A	600	PASS	AC079602.1	Del	downstream	1	8	MSH6	child	12_121405194_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
31d666c0-3284-11e6-89eb-f2eacdacbbbf	4_174352619_CAC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	4	174352619	CA	C	720	PASS	-	Del	-	1	5	EXO1	child	4_174352619_CAC_EXO1	1	1	1	A	4	A	Repeat-mediated
31da6be6-32a0-11e6-a04f-c66a25c9da85	6_54857926_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	54857926	GA	G	840	PASS	-	Del	-	1	8	MSH6	child	6_54857926_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
31e11232-3270-11e6-8418-1c5942c4520d	3_23666189_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	23666189	GT	G	360	PASS	-	Del	-	1	6	MSH6	child	3_23666189_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
31e219b6-3257-11e6-acc5-308412ae24cf	5_54586842_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	54586842	CA	C	420	PASS	DHX29	Del	intronic	1	9	MSH6	child	5_54586842_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
31e68ed2-328a-11e6-b74f-549ba2c71c31	20_36632916_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	36632916	CT	C	720	PASS	TTI1	Del	intronic	1	4	MSH6	child	20_36632916_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
31e7435e-3271-11e6-a539-0e5542c4520d	7_131242689_GGAGACGCAGAGTCTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	131242689	GGAGACGCAGA	GTCTC	420	PASS	PODXL	Complex	upstream	10	0	MSH6	child	7_131242689_GGAGACGCAGAGTCTC_MSH6	6	6	-	-	-	-	Complex
32019d88-32a0-11e6-bc66-17b4cc638e3d	8_88828104_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	88828104	CT	C	720	PASS	-	Del	-	1	7	MSH6	child	8_88828104_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
320559e0-3323-11e6-ae98-b2b5fa52e078	2_225233874_GAG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	2	225233874	GA	G	840	PASS	-	Del	-	1	6	EXO1	child	2_225233874_GAG_EXO1	1	1	1	A	5	A	Repeat-mediated
32067dce-329d-11e6-aca6-b39fcc638e3d	2_219706425_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	219706425	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	2_219706425_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
32195596-3277-11e6-83cd-a472a178171f	4_154747747_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	154747747	CT	C	360	PASS	-	Del	-	1	6	MSH6	child	4_154747747_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
321a42f4-328f-11e6-b8e6-91c36f39e758	11_104956070_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	104956070	A	AT	360	PASS	CASP1	Ins	intronic	1	3	MSH6	child	11_104956070_AAT_MSH6	1	1	-	-	-	-	Ins
321c4076-328b-11e6-a7cf-80090e01a414	15_79151024_CTTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	79151024	CTT	C	960	PASS	-	Del	-	2	3	MSH6	child	15_79151024_CTTC_MSH6	2	2	1	T	0	-	Microhomology-mediated
321f380a-3293-11e6-9d97-efe56f39e758	4_132687803_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	132687803	T	TA	384	PASS	-	Ins	-	1	7	MSH6	child	4_132687803_TTA_MSH6	1	1	-	-	-	-	Ins
3220e4c4-328f-11e6-92cf-bf2a0e01a414	6_27672223_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	27672223	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	6_27672223_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
32214138-328c-11e6-b4fe-93c36f39e758	12_42133925_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	42133925	TA	T	600	PASS	-	Del	-	1	8	MSH6	child	12_42133925_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
32223a44-328b-11e6-bba4-c0bdcc638e3d	9_4844432_CAC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	9	4844432	CA	C	480	PASS	RCL1	Del	intronic	1	8	NUDT1	child	9_4844432_CAC_NUDT1	1	1	1	A	7	A	Repeat-mediated
32328d2c-3295-11e6-a9b2-67393dc9300a	7_40089422_AATGA	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	7	40089422	AATG	A	480	PASS	CDK13	Del	intronic	3	2	POLB	child	7_40089422_AATGA_POLB	3	3	3	ATG	1	ATG	Repeat-mediated
323b734c-3281-11e6-a1d1-b18df4b7c17d	1_114540894_ATA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	1	114540894	AT	A	540	PASS	-	Del	-	1	9	FANCC	child	1_114540894_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
323f4350-3286-11e6-a1ac-fd6da2c71c31	13_83197501_TTTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	83197501	T	TTA	600	PASS	-	Ins	-	2	4	MSH6	child	13_83197501_TTTA_MSH6	2	2	-	-	-	-	Ins
323f8fae-328b-11e6-8eee-76090e01a414	10_123944317_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	123944317	GT	G	360	PASS	TACC2	Del	intronic	1	8	MSH6	child	10_123944317_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
32413a42-328c-11e6-8106-81c36f39e758	19_36540151_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	36540151	CA	C	480	PASS	THAP8	Del	intronic	1	9	MSH6	child	19_36540151_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
324380b6-3270-11e6-a777-d57d9cdf095d	10_89454315_AGAATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	10	89454315	AGAAT	A	660	PASS	PAPSS2	Del	intronic	4	1	EXO1	parent	10_89454315_AGAATA_EXO1	4	4	2	GA	0	-	Microhomology-mediated
324c9ec0-328f-11e6-8952-77c36f39e758	10_118716422_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	118716422	G	GT	780	PASS	KIAA1598	Ins	intronic	1	7	MSH6	child	10_118716422_GGT_MSH6	1	1	-	-	-	-	Ins
3258e7a2-3258-11e6-9d15-298312ae24cf	X_110742001_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	110742001	CT	C	480	PASS	-	Del	-	1	6	MSH6	child	X_110742001_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
325b7182-3278-11e6-ab69-1c1607e9a829	9_133563225_GGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	133563225	G	GT	480	PASS	PRDM12	Ins	downstream	1	1	MSH6	child	9_133563225_GGT_MSH6	1	1	-	-	-	-	Ins
32619c7e-327d-11e6-8e5f-c9a0aa716c52	14_91888937_GAG	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	14	91888937	GA	G	420	PASS	CCDC88C	Del	upstream	1	9	POLB	parent	14_91888937_GAG_POLB	1	1	1	A	8	A	Repeat-mediated
32656226-3284-11e6-aa1d-e9782aaffa45	4_115064597_CTC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	4	115064597	CT	C	360	PASS	-	Del	-	1	9	POLE	child	4_115064597_CTC_POLE	1	1	1	T	8	T	Repeat-mediated
32694db2-3290-11e6-b52f-4eeb6f39e758	22_44614435_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	22	44614435	AC	A	480	PASS	-	Del	-	1	9	MSH6	child	22_44614435_ACA_MSH6	1	1	1	C	8	C	Repeat-mediated
3270504a-328a-11e6-a284-4b89a2c71c31	4_143753911_TTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	143753911	T	TC	420	PASS	INPP4B	Ins	intronic	1	7	MSH6	child	4_143753911_TTC_MSH6	1	1	-	-	-	-	Ins
327813c0-328a-11e6-a32d-75090e01a414	14_76147687_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	76147687	AT	A	360	PASS	TTLL5	Del	intronic	1	5	MSH6	child	14_76147687_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
32783d80-3291-11e6-b81f-4ee66f39e758	8_101348982_TCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	101348982	TC	T	360	PASS	RNF19A	Del	upstream	1	1	MSH6	child	8_101348982_TCT_MSH6	1	1	0	-	0	C	None
32787040-3271-11e6-9c6e-9f402a2d4995	2_219798846_GTG	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	2	219798846	GT	G	300	PASS	-	Del	-	1	6	POLB	child	2_219798846_GTG_POLB	1	1	1	T	5	T	Repeat-mediated
327f863c-328f-11e6-b81f-4ee66f39e758	8_29902152_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	29902152	AT	A	600	PASS	RNU6-1218P	Del	upstream	1	9	MSH6	child	8_29902152_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
327fd3be-3288-11e6-a284-4b89a2c71c31	4_152947949_ACA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	152947949	AC	A	540	PASS	-	Del	-	1	7	MSH6	child	4_152947949_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
32840388-3258-11e6-9d15-298312ae24cf	X_110823551_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	110823551	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	X_110823551_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
328a6b5c-3347-11e6-a9cc-a0a270cce0de	2_80742110_GTG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	2	80742110	GT	G	360	PASS	CTNNA2	Del	intronic	1	1	FANCC	child	2_80742110_GTG_FANCC	1	1	0	-	0	T	None
3290672a-3278-11e6-a391-f6d67d6a9fc7	6_42265875_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	42265875	GT	G	300	PASS	TRERF1	Del	intronic	1	9	MSH6	child	6_42265875_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
329fb3a8-328f-11e6-8e48-791e0e01a414	8_106503955_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	106503955	GT	G	300	PASS	ZFPM2	Del	intronic	1	7	MSH6	child	8_106503955_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
32a47eb8-328c-11e6-b2c7-5ecc977b3f23	2_59115216_ATA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	2	59115216	AT	A	540	PASS	LINC01122	Del	intronic	1	9	NEIL1	child	2_59115216_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
32af6002-3274-11e6-aafd-c7dee9d19ece	2_241267192_GGCAGGCCTGGGATG	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	2	241267192	GGCAGGCCTGGGAT	G	540	PASS	-	Del	-	13	1	CHK2	child	2_241267192_GGCAGGCCTGGGATG_CHK2	13	>=10	0	-	0	-	None
32b078aa-328a-11e6-8eee-76090e01a414	10_64231480_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	64231480	AT	A	300	PASS	ZNF365	Del	intronic	1	7	MSH6	child	10_64231480_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
32bf8740-328b-11e6-a7cf-80090e01a414	15_79168286_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	79168286	GT	G	300	PASS	MORF4L1	Del	intronic	1	7	MSH6	child	15_79168286_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
32c3878e-3329-11e6-a435-b8ae4430f757	20_62773491_CTGC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	20	62773491	CTG	C	600	PASS	-	Del	-	2	2	CHK2	child	20_62773491_CTGC_CHK2	2	2	2	TG	1	TG	Repeat-mediated
32c83e00-3270-11e6-a539-0e5542c4520d	7_86292929_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	86292929	CT	C	540	PASS	GRM3	Del	intronic	1	8	MSH6	child	7_86292929_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
32d70ffe-3273-11e6-a5d0-4fd14a47a305	2_68414767_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	68414767	TA	T	360	PASS	PPP3R1	Del	intronic	1	9	MSH6	child	2_68414767_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
32e5389a-329b-11e6-b549-1e5325c9da85	10_80424673_TTAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	80424673	TTA	T	540	PASS	LINC00856	Del	intronic	2	1	MSH6	child	10_80424673_TTAT_MSH6	2	2	1	T	0	-	Microhomology-mediated
32ebd782-3254-11e6-aedc-3df212ae24cf	19_30260725_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	19	30260725	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	19_30260725_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
32f0b32a-3276-11e6-ab69-1c1607e9a829	9_123855251_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	123855251	AT	A	431	PASS	CNTRL	Del	intronic	1	9	MSH6	child	9_123855251_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
32f59140-326e-11e6-92dd-fda8977b3f23	10_116171137_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	116171137	TA	T	480	PASS	-	Del	-	1	9	MSH6	child	10_116171137_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
32f5f542-3276-11e6-9241-55e60d01a414	8_86485485_TCT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	8	86485485	TC	T	300	PASS	-	Del	-	1	8	MSH6	parent	8_86485485_TCT_MSH6	1	1	1	C	7	C	Repeat-mediated
330386d2-334b-11e6-be18-768ca20b69d5	3_155693052_TAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	3	155693052	TA	T	360	PASS	-	Del	-	1	9	FANCC	child	3_155693052_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
3305d6be-3290-11e6-99d8-a1aee7d0bdd7	8_40816476_GAG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	8	40816476	GA	G	300	PASS	-	Del	-	1	8	FANCC	child	8_40816476_GAG_FANCC	1	1	1	A	7	A	Repeat-mediated
3308d548-32a0-11e6-aea7-956725c9da85	3_115775789_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	115775789	CA	C	660	PASS	LSAMP	Del	intronic	1	8	MSH6	child	3_115775789_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
331a866c-3255-11e6-9f9d-2c7a7872c165	12_111241775_TGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	111241775	TG	T	840	PASS	-	Del	-	1	7	MSH6	child	12_111241775_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
331f0062-3277-11e6-8cf1-8b341daa6045	16_71256896_CCA	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	16	71256896	C	CA	300	PASS	HYDIN	Ins	intronic	1	5	POLM	child	16_71256896_CCA_POLM	1	1	-	-	-	-	Ins
332fdb1c-3254-11e6-89d3-d29498816cf3	2_72834273_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	72834273	AT	A	360	PASS	EXOC6B	Del	intronic	1	7	MSH6	child	2_72834273_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
33308cb6-32a3-11e6-b970-398625c9da85	20_52826303_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	52826303	CT	C	780	PASS	PFDN4	Del	intronic	1	9	MSH6	child	20_52826303_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
333b2dc8-3277-11e6-92d2-c259c225ee11	3_60897922_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	60897922	GT	G	480	PASS	FHIT	Del	intronic	1	5	MSH6	child	3_60897922_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
33452c00-325a-11e6-acc5-308412ae24cf	5_97468700_TTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	97468700	T	TC	600	PASS	AC008834.1	Ins	intronic	1	3	MSH6	child	5_97468700_TTC_MSH6	1	1	-	-	-	-	Ins
334c0f50-3293-11e6-92cf-bf2a0e01a414	6_107064346_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	107064346	G	GT	600	PASS	RTN4IP1	Ins	intronic	1	8	MSH6	child	6_107064346_GGT_MSH6	1	1	-	-	-	-	Ins
334c3e5a-328c-11e6-9996-bebd38e8a824	X_150391616_GTG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	X	150391616	GT	G	340	PASS	-	Del	-	1	9	NUDT1	parent	X_150391616_GTG_NUDT1	1	1	1	T	8	T	Repeat-mediated
335418ca-3285-11e6-8dac-d9fc137bb207	5_94828340_CAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAC	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	5	94828340	CAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAA	C	300	PASS	TTC37	Del	intronic	34	1	FANCC	child	5_94828340_CAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAC_FANCC	34	>=10	15	AAAAAAAAAAAAAAA	0	-	Microhomology-mediated
33569d98-3271-11e6-8418-1c5942c4520d	3_119329925_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	119329925	TA	T	300	PASS	PLA1A	Del	intronic	1	7	MSH6	child	3_119329925_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
3357f2f8-327e-11e6-bd80-848ffc77b11e	15_79734735_TTATCT	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	15	79734735	TTATC	T	540	PASS	KIAA1024	Del	intronic	4	1	POLB	parent	15_79734735_TTATCT_POLB	4	4	3	TAT	0	-	Microhomology-mediated
33582b76-329a-11e6-a0ea-135325c9da85	15_34231035_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	34231035	CT	C	300	PASS	AVEN	Del	intronic	1	9	MSH6	child	15_34231035_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3359298c-3271-11e6-b89d-b2d6b0dab373	4_115763001_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	115763001	GT	G	420	PASS	NDST4	Del	intronic	1	8	MSH6	child	4_115763001_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
3359675a-328d-11e6-919e-92c36f39e758	2_114196108_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	114196108	CT	C	384	PASS	CBWD2	Del	intronic	1	9	MSH6	child	2_114196108_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
335c400c-3287-11e6-9a8e-d2b1f6dffcf6	1_34896199_AGA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	1	34896199	AG	A	720	PASS	-	Del	-	1	1	NUDT1	parent	1_34896199_AGA_NUDT1	1	1	0	-	0	G	None
335e804a-3257-11e6-99c2-78832aaffa45	1_240269155_CTC	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	1	240269155	CT	C	600	PASS	FMN2	Del	intronic	1	8	POLM	child	1_240269155_CTC_POLM	1	1	1	T	7	T	Repeat-mediated
33620c04-3272-11e6-b89d-b2d6b0dab373	4_180856025_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	180856025	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	4_180856025_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
336bbd70-3273-11e6-98e1-30573cfdbd24	9_6533916_TAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	9	6533916	TA	T	420	PASS	GLDC	Del	intronic	1	9	MSH6	parent	9_6533916_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
33768244-328e-11e6-8f31-bfe16f39e758	9_20174332_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	20174332	GA	G	300	PASS	-	Del	-	1	7	MSH6	child	9_20174332_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
337697de-328e-11e6-9230-fb250e01a414	3_20334341_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	20334341	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	3_20334341_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
33777c80-327f-11e6-a6bc-51fe684da5d2	15_72041048_GAG	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	15	72041048	GA	G	360	PASS	THSD4	Del	intronic	1	8	NEIL1	child	15_72041048_GAG_NEIL1	1	1	1	A	7	A	Repeat-mediated
337b8508-329a-11e6-8069-175325c9da85	12_19620034_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	19620034	CT	C	540	PASS	AEBP2	Del	intronic	1	8	MSH6	child	12_19620034_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
338e371e-328d-11e6-ac7a-a3c36f39e758	18_27817567_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	27817567	A	AT	480	PASS	-	Ins	-	1	8	MSH6	child	18_27817567_AAT_MSH6	1	1	-	-	-	-	Ins
338fe680-32a2-11e6-a04f-c66a25c9da85	6_7011518_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	7011518	C	CA	840	PASS	-	Ins	-	1	9	MSH6	child	6_7011518_CCA_MSH6	1	1	-	-	-	-	Ins
3391c350-3271-11e6-a814-531398ba1142	X_11496129_ATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	X	11496129	AT	A	1080	PASS	ARHGAP6	Del	intronic	1	8	EXO1	parent	X_11496129_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
3398b4fe-329d-11e6-b696-dd6225c9da85	5_9743011_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	9743011	CA	C	1020	PASS	CTD-2143L24.1	Del	intronic	1	9	MSH6	child	5_9743011_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
33a0dd52-329b-11e6-b129-195325c9da85	16_60858339_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	60858339	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	16_60858339_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
33a192d6-3284-11e6-a032-41f0137bb207	1_181369383_TTAT	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	1	181369383	TTA	T	600	PASS	-	Del	-	2	1	NEIL1	parent	1_181369383_TTAT_NEIL1	2	2	1	T	0	-	Microhomology-mediated
33a533ec-32a1-11e6-a04f-c66a25c9da85	6_122986306_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	122986306	CA	C	600	PASS	PKIB	Del	intronic	1	8	MSH6	child	6_122986306_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
33afa032-3276-11e6-afb6-12832aaffa45	8_18034102_TTTTTTTTTTG	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	8	18034102	T	TTTTTTTTTG	300	PASS	NAT1	Ins	intronic	9	0	CHK2	child	8_18034102_TTTTTTTTTTG_CHK2	9	9	-	-	-	-	Ins
33bb2d80-328f-11e6-9d24-ade56f39e758	7_41554847_TCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	41554847	TC	T	600	PASS	-	Del	-	1	7	MSH6	child	7_41554847_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
33c02ed4-3285-11e6-b093-c9c7b0dab373	2_62615717_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	62615717	GA	G	420	PASS	-	Del	-	1	8	MSH6	child	2_62615717_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
33c1e6ea-3288-11e6-a284-4b89a2c71c31	4_153617704_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	153617704	GA	G	660	PASS	-	Del	-	1	7	MSH6	child	4_153617704_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
33cd9ee6-3255-11e6-92eb-77832aaffa45	10_73926245_GTG	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	10	73926245	GT	G	360	PASS	ASCC1	Del	intronic	1	8	POLM	child	10_73926245_GTG_POLM	1	1	1	T	7	T	Repeat-mediated
33cdb3a2-3289-11e6-b30e-eb4590e2c2e6	8_105853561_GATG	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	8	105853561	GAT	G	360	PASS	-	Del	-	2	6	POLE	child	8_105853561_GATG_POLE	2	2	2	AT	5	AT	Repeat-mediated
33d7f4b4-3277-11e6-998e-ba48fa52e078	8_116870925_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	116870925	AT	A	420	PASS	-	Del	-	1	8	MSH6	child	8_116870925_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
33d8bf20-3286-11e6-a0a8-096ea2c71c31	11_32654861_AAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	32654861	A	AG	840	PASS	CCDC73	Ins	intronic	1	3	MSH6	child	11_32654861_AAG_MSH6	1	1	-	-	-	-	Ins
33e8adde-325b-11e6-8340-da9012ae24cf	6_6923957_CCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	6923957	C	CT	420	PASS	-	Ins	-	1	8	MSH6	child	6_6923957_CCT_MSH6	1	1	-	-	-	-	Ins
33f729d8-326d-11e6-adc2-b7204b47a305	18_50706029_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	50706029	GT	G	360	PASS	DCC	Del	intronic	1	9	MSH6	child	18_50706029_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
33f7772c-3276-11e6-a3f9-4821ead19ece	3_44659250_ATA	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	3	44659250	AT	A	660	PASS	ZNF197	Del	intronic	1	1	NEIL1	child	3_44659250_ATA_NEIL1	1	1	0	-	0	T	None
33f8d94c-328e-11e6-9230-fb250e01a414	3_20468035_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	20468035	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	3_20468035_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
33ff3b02-3275-11e6-83bd-65e871d7bc54	15_97893772_GAG	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	15	97893772	GA	G	540	PASS	CTD-2147F2.1	Del	intronic	1	9	NEIL1	child	15_97893772_GAG_NEIL1	1	1	1	A	8	A	Repeat-mediated
3408f58e-3257-11e6-885f-d1947872c165	4_74126940_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	74126940	CT	C	780	PASS	ANKRD17	Del	upstream	1	7	MSH6	child	4_74126940_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
340cd0fe-328f-11e6-bfa2-581f0e01a414	7_149795503_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	149795503	TA	T	537	PASS	-	Del	-	1	6	MSH6	child	7_149795503_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
340d9b28-327c-11e6-a391-f6d67d6a9fc7	6_153802797_TTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	153802797	T	TG	960	PASS	-	Ins	-	1	5	MSH6	child	6_153802797_TTG_MSH6	1	1	-	-	-	-	Ins
340e1976-3282-11e6-8e02-69393dc9300a	19_39987740_CTC	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	19	39987740	CT	C	360	PASS	DLL3	Del	upstream	1	9	FANCC	child	19_39987740_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
34108356-3290-11e6-a4f7-2c67694da5d2	4_78441701_ATA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	4	78441701	AT	A	408	PASS	CXCL13	Del	intronic	1	5	POLM	child	4_78441701_ATA_POLM	1	1	1	T	4	T	Repeat-mediated
3416f1c8-3290-11e6-9d97-efe56f39e758	4_107908949_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	107908949	TA	T	660	PASS	DKK2	Del	intronic	1	8	MSH6	child	4_107908949_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
341810a4-329e-11e6-91d0-016425c9da85	7_45641132_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	45641132	GT	G	420	PASS	ADCY1	Del	intronic	1	9	MSH6	child	7_45641132_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
341c4fce-3254-11e6-bf41-357a7872c165	10_45902850_TCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	45902850	TC	T	480	PASS	ALOX5	Del	intronic	1	7	MSH6	child	10_45902850_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
341dea2e-328f-11e6-92cf-bf2a0e01a414	6_28041034_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	28041034	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	6_28041034_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
3421db04-328d-11e6-bd84-429305ad5bc4	1_224776518_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	224776518	TA	T	360	PASS	-	Del	-	1	8	MSH6	child	1_224776518_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
342e0368-3286-11e6-b093-c9c7b0dab373	2_148038852_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	148038852	CA	C	360	PASS	-	Del	-	1	9	MSH6	child	2_148038852_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
3431eefe-3279-11e6-a05d-037890e2c2e6	12_31044601_CTC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	12	31044601	CT	C	660	PASS	-	Del	-	1	8	FANCC	parent	12_31044601_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
3435ac32-328e-11e6-bb1e-70e16f39e758	X_32386443_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	32386443	AT	A	600	PASS	DMD	Del	intronic	1	9	MSH6	child	X_32386443_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
343b6622-329d-11e6-b696-dd6225c9da85	5_9973981_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	9973981	CA	C	420	PASS	-	Del	-	1	4	MSH6	child	5_9973981_CAC_MSH6	1	1	1	A	3	A	Repeat-mediated
343ce32e-326d-11e6-acc7-e55219a91649	1_65269991_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	65269991	GT	G	480	PASS	RAVER2	Del	intronic	1	8	MSH6	child	1_65269991_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
343e3a6a-3292-11e6-9070-b1a39b6d3b88	6_101195437_TGAACTATTAATACATGT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	6	101195437	TGAACTATTAATACATG	T	300	PASS	ASCC3	Del	intronic	16	1	POLB	child	6_101195437_TGAACTATTAATACATGT_POLB	16	>=10	0	-	0	-	None
34515032-326f-11e6-acc7-e55219a91649	1_228826531_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	228826531	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	1_228826531_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
3452b882-3274-11e6-85c1-8b573cfdbd24	13_81174625_GTG	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	13	81174625	GT	G	300	PASS	-	Del	-	1	5	CHK2	child	13_81174625_GTG_CHK2	1	1	1	T	4	T	Repeat-mediated
345bb3b8-3276-11e6-ab69-1c1607e9a829	9_124197127_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	124197127	AG	A	540	PASS	-	Del	-	1	4	MSH6	child	9_124197127_AGA_MSH6	1	1	1	G	3	G	Repeat-mediated
345c9f8c-329c-11e6-aca6-b39fcc638e3d	2_159862320_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	159862320	GA	G	420	PASS	TANC1	Del	intronic	1	9	MSH6	child	2_159862320_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
34617d48-3285-11e6-97d5-6cf1bbe6aa09	17_62707639_CTGC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	62707639	CTG	C	612	PASS	-	Del	-	2	2	MSH6	child	17_62707639_CTGC_MSH6	2	2	2	TG	1	TG	Repeat-mediated
34636774-3290-11e6-9230-fb250e01a414	3_150705022_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	150705022	GT	G	420	PASS	-	Del	-	1	8	MSH6	child	3_150705022_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
346769ba-328f-11e6-8e48-791e0e01a414	8_107666180_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	107666180	TA	T	960	PASS	OXR1	Del	intronic	1	8	MSH6	child	8_107666180_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
3468f3c4-326d-11e6-acc7-e55219a91649	1_65317120_AGAGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	65317120	AGAG	A	420	PASS	JAK1	Del	intronic	3	3	MSH6	child	1_65317120_AGAGA_MSH6	3	3	3	GAG	2	GAG	Repeat-mediated
3469c494-3271-11e6-bfba-13bf4a47a305	9_124750636_AAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	124750636	A	AC	360	PASS	TTLL11	Ins	intronic	1	6	MSH6	child	9_124750636_AAC_MSH6	1	1	-	-	-	-	Ins
3477d722-3272-11e6-abaf-4642cab49462	6_39849496_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	39849496	GA	G	480	PASS	DAAM2	Del	intronic	1	9	MSH6	child	6_39849496_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
347b02f0-3289-11e6-b9eb-c78fa2c71c31	6_136907476_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	136907476	CT	C	420	PASS	MAP3K5	Del	intronic	1	8	MSH6	child	6_136907476_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
3484a1fc-327a-11e6-8de8-fc8b5d753391	10_119563477_TCT	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	10	119563477	TC	T	480	PASS	-	Del	-	1	8	FANCC	parent	10_119563477_TCT_FANCC	1	1	1	C	7	C	Repeat-mediated
34991fa6-3289-11e6-b9eb-c78fa2c71c31	6_136945335_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	136945335	GA	G	840	PASS	MAP3K5	Del	intronic	1	9	MSH6	child	6_136945335_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
349a9948-3258-11e6-ad95-79832aaffa45	15_99291663_CCAAAGTGCTGGGATTACAGGCGTGAGCCACCACATGCAGTCCGTGTACACTTT	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	15	99291663	C	CAAAGTGCTGGGATTACAGGCGTGAGCCACCACATGCAGTCCGTGTACACTTT	300	PASS	IGF1R	Ins	intronic	52	0	POLM	child	15_99291663_CCAAAGTGCTGGGATTACAGGCGTGAGCCACCACATGCAGTCCGTGTACACTTT_POLM	52	>=10	-	-	-	-	Ins
349dcfc8-328a-11e6-8580-eccd191589db	16_75278305_TGT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	16	75278305	TG	T	600	PASS	BCAR1	Del	intronic	1	5	FANCC	child	16_75278305_TGT_FANCC	1	1	1	G	4	G	Repeat-mediated
34a1cf08-3292-11e6-b77d-2eef6f39e758	6_115920394_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	115920394	CA	C	360	PASS	-	Del	-	1	4	MSH6	child	6_115920394_CAC_MSH6	1	1	1	A	3	A	Repeat-mediated
34a761ae-329a-11e6-8069-175325c9da85	12_19752146_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	19752146	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	12_19752146_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
34aab3de-326f-11e6-bfba-13bf4a47a305	9_83348036_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	83348036	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	9_83348036_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
34ab9f38-3283-11e6-b857-6115038949d4	5_56733407_ATA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	5	56733407	AT	A	480	PASS	-	Del	-	1	9	POLM	child	5_56733407_ATA_POLM	1	1	1	T	8	T	Repeat-mediated
34c9f664-3273-11e6-aa3b-ca60a178171f	13_73386114_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	73386114	CT	C	660	PASS	PIBF1	Del	intronic	1	8	MSH6	child	13_73386114_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
34d8f86c-3273-11e6-8418-1c5942c4520d	3_105387365_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	105387365	T	TA	420	PASS	CBLB	Ins	intronic	1	7	MSH6	child	3_105387365_TTA_MSH6	1	1	-	-	-	-	Ins
34dd892e-3258-11e6-b4fa-e69a7872c165	21_44516509_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	21	44516509	CT	C	420	PASS	U2AF1	Del	intronic	1	4	MSH6	child	21_44516509_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
34e053bc-328e-11e6-bfa2-581f0e01a414	7_92071322_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	92071322	TA	T	720	PASS	-	Del	-	1	9	MSH6	child	7_92071322_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
34e2f5e4-329e-11e6-bc2c-2a5e25c9da85	4_83579512_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	83579512	GT	G	840	PASS	SCD5	Del	intronic	1	5	MSH6	child	4_83579512_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
34e7b842-3274-11e6-a5d0-4fd14a47a305	2_160637746_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	160637746	AT	A	600	PASS	LY75-CD302	Del	intronic	1	8	MSH6	child	2_160637746_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
34ec4ed2-3285-11e6-821e-69f1bbe6aa09	16_73116509_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	73116509	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	16_73116509_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
34f27ab6-328d-11e6-b4fe-93c36f39e758	12_101774154_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	101774154	CA	C	420	PASS	UTP20	Del	intronic	1	7	MSH6	child	12_101774154_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
34f5f364-3290-11e6-850b-ec0b9c6d3b88	4_67488146_GAGCG	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	4	67488146	GAGC	G	300	PASS	-	Del	-	3	1	POLB	child	4_67488146_GAGCG_POLB	3	3	2	AG	0	-	Microhomology-mediated
34f5f404-3290-11e6-b52f-4eeb6f39e758	22_45209135_TACT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	22	45209135	TAC	T	360	PASS	ARHGAP8	Del	intronic	2	8	MSH6	child	22_45209135_TACT_MSH6	2	2	2	AC	7	AC	Repeat-mediated
34f7ca92-3324-11e6-9907-b3021a1589db	5_68320062_CAC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	5	68320062	CA	C	780	PASS	7SK	Del	downstream	1	9	CHK2	parent	5_68320062_CAC_CHK2	1	1	1	A	8	A	Repeat-mediated
34fa463a-3272-11e6-be0b-bed2cde16804	14_105378986_CAAC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	14	105378986	CAA	C	480	PASS	-	Del	-	2	6	MSH6	parent	14_105378986_CAAC_MSH6	2	2	2	AA	4	A	Repeat-mediated
350c3a38-3273-11e6-bea5-e783a20b69d5	13_47982241_CAC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	13	47982241	CA	C	360	PASS	-	Del	-	1	1	EXO1	child	13_47982241_CAC_EXO1	1	1	0	-	0	A	None
35127a80-328a-11e6-a32d-75090e01a414	14_76757236_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	76757236	TA	T	300	PASS	RP11-516J2.1	Del	intronic	1	9	MSH6	child	14_76757236_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
3512a452-3289-11e6-a8ff-fbcd191589db	11_15734527_CTC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	11	15734527	CT	C	420	PASS	RP11-396O20.2	Del	intronic	1	9	FANCC	child	11_15734527_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
3514cbe8-328d-11e6-a2cb-f3ac12ae24cf	5_125673728_CAC	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	5	125673728	CA	C	540	PASS	-	Del	-	1	7	CHK2	child	5_125673728_CAC_CHK2	1	1	1	A	6	A	Repeat-mediated
35195588-3255-11e6-9cd8-27f912ae24cf	7_37534621_GAG	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	7	37534621	GA	G	480	PASS	-	Del	-	1	9	POLB	child	7_37534621_GAG_POLB	1	1	1	A	8	A	Repeat-mediated
351e4702-328a-11e6-a100-84090e01a414	18_63103494_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	63103494	TA	T	360	PASS	RP11-453M23.1	Del	intronic	1	9	MSH6	child	18_63103494_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
351ec0d2-328b-11e6-9539-3490a178171f	3_131847403_TAT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	3	131847403	TA	T	888	PASS	CPNE4	Del	intronic	1	7	FANCC	child	3_131847403_TAT_FANCC	1	1	1	A	6	A	Repeat-mediated
35200286-3320-11e6-b73c-6a3781635058	1_11570910_GAG	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	1	11570910	GA	G	420	PASS	PTCHD2	Del	intronic	1	9	CHK2	child	1_11570910_GAG_CHK2	1	1	1	A	8	A	Repeat-mediated
352adb34-328f-11e6-8952-77c36f39e758	10_119563477_TTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	119563477	T	TC	720	PASS	-	Ins	-	1	7	MSH6	child	10_119563477_TTC_MSH6	1	1	-	-	-	-	Ins
352d634e-326d-11e6-92dd-fda8977b3f23	10_56843223_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	56843223	TA	T	660	PASS	PCDH15	Del	intronic	1	7	MSH6	child	10_56843223_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
3537447e-329d-11e6-94ca-0aaecc638e3d	X_23900358_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	23900358	CT	C	720	PASS	APOO	Del	intronic	1	8	MSH6	child	X_23900358_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
353b55b6-3287-11e6-86e9-d4770d016689	X_144747149_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	X	144747149	TA	T	420	PASS	-	Del	-	1	8	EXO1	child	X_144747149_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
353efd5c-3286-11e6-95c7-6dfa4430f757	11_47652982_CCA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	11	47652982	C	CA	420	PASS	MTCH2	Ins	intronic	1	8	EXO1	child	11_47652982_CCA_EXO1	1	1	-	-	-	-	Ins
353f05b0-328e-11e6-b797-0ba0e7d0bdd7	7_126661396_ATA	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	7	126661396	AT	A	600	PASS	GRM8	Del	intronic	1	8	POLM	child	7_126661396_ATA_POLM	1	1	1	T	7	T	Repeat-mediated
354180ac-326f-11e6-b5b8-e0c24a47a305	X_16414576_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	16414576	AT	A	600	PASS	-	Del	-	1	6	MSH6	child	X_16414576_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
35450a5c-329b-11e6-bda6-065325c9da85	13_106585314_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	106585314	CT	C	840	PASS	-	Del	-	1	8	MSH6	child	13_106585314_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
3548222c-328d-11e6-b9c4-751d0e01a414	5_60103496_GTTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	60103496	GTT	G	360	PASS	ELOVL7	Del	intronic	2	4	MSH6	child	5_60103496_GTTG_MSH6	2	2	2	TT	2	T	Repeat-mediated
354cfdfe-3299-11e6-8f27-3d588cd8cd69	21_23982510_ATA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	21	23982510	AT	A	480	PASS	-	Del	-	1	9	CHK2	child	21_23982510_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
355a7d3e-328b-11e6-8eee-76090e01a414	10_125130439_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	125130439	AT	A	420	PASS	RP11-282I1.1	Del	intronic	1	4	MSH6	child	10_125130439_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
35687940-3270-11e6-acc7-e55219a91649	1_49281205_GGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	49281205	G	GT	360	PASS	AGBL4	Ins	intronic	1	2	MSH6	child	1_49281205_GGT_MSH6	1	1	-	-	-	-	Ins
356b1186-328a-11e6-b74f-549ba2c71c31	20_38525069_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	38525069	GA	G	660	PASS	-	Del	-	1	9	MSH6	child	20_38525069_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
356d1344-328c-11e6-ac7a-a3c36f39e758	18_46352651_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	46352651	GA	G	900	PASS	CTIF	Del	intronic	1	8	MSH6	child	18_46352651_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
357951ca-3275-11e6-998e-ba48fa52e078	8_12949127_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	12949127	CA	C	480	PASS	DLC1	Del	intronic	1	7	MSH6	child	8_12949127_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
357b1ce8-3271-11e6-b5b8-e0c24a47a305	X_124385497_ATCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	124385497	ATC	A	420	PASS	-	Del	-	2	6	MSH6	child	X_124385497_ATCA_MSH6	2	2	2	TC	5	TC	Repeat-mediated
357bd43a-3294-11e6-8371-bc370d016689	15_76486363_CCT	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	15	76486363	C	CT	360	PASS	C15orf27	Ins	intronic	1	9	NUDT1	child	15_76486363_CCT_NUDT1	1	1	-	-	-	-	Ins
35825166-3271-11e6-9fba-41ebd8b4fa2c	11_40865790_AAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	40865790	A	AT	300	PASS	LRRC4C	Ins	intronic	1	1	MSH6	child	11_40865790_AAT_MSH6	1	1	-	-	-	-	Ins
35830b66-3284-11e6-ae72-519738e8a824	5_40851137_TAAT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	5	40851137	TAA	T	300	PASS	CARD6	Del	intronic	2	9	POLE	parent	5_40851137_TAAT_POLE	2	2	2	AA	7	A	Repeat-mediated
3584092e-328b-11e6-8459-82090e01a414	12_113972163_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	113972163	AT	A	420	PASS	-	Del	-	1	8	MSH6	child	12_113972163_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
358cfe72-3271-11e6-9309-bdc34a47a305	8_99125669_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	99125669	GT	G	360	PASS	POP1	Del	upstream	1	8	MSH6	child	8_99125669_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
3599c434-3282-11e6-9b68-79e41da8ec0e	2_139048864_GACAAG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	2	139048864	GACAA	G	872	PASS	-	Del	-	4	1	EXO1	child	2_139048864_GACAAG_EXO1	4	4	3	ACA	0	-	Microhomology-mediated
359f7e50-3328-11e6-81bd-c0e680635058	20_12232916_ATA	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	20	12232916	AT	A	360	PASS	-	Del	-	1	7	CHK2	child	20_12232916_ATA_CHK2	1	1	1	T	6	T	Repeat-mediated
35a76678-3275-11e6-975f-8246cab49462	16_78609874_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	78609874	A	AT	480	PASS	WWOX	Ins	intronic	1	6	MSH6	child	16_78609874_AAT_MSH6	1	1	-	-	-	-	Ins
35ad842a-3286-11e6-b093-c9c7b0dab373	2_148563676_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	148563676	CA	C	720	PASS	-	Del	-	1	8	MSH6	child	2_148563676_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
35b829de-327c-11e6-b5e3-cd90e7d0bdd7	X_106876242_ATA	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	X	106876242	AT	A	720	PASS	PRPS1	Del	intronic	1	5	FANCC	parent	X_106876242_ATA_FANCC	1	1	1	T	4	T	Repeat-mediated
35bb81b6-328a-11e6-9c89-8d090e01a414	1_46449330_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	46449330	AT	A	420	PASS	MAST2	Del	intronic	1	8	MSH6	child	1_46449330_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
35bd1b6e-3273-11e6-975f-8246cab49462	16_48021057_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	48021057	GA	G	720	PASS	-	Del	-	1	7	MSH6	child	16_48021057_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
35bf7ee6-3254-11e6-89d3-d29498816cf3	2_74038840_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	74038840	GT	G	540	PASS	C2orf78	Del	intronic	1	9	MSH6	child	2_74038840_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
35c62e48-3291-11e6-b1b9-2968694da5d2	8_60045029_CTC	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	8	60045029	CT	C	720	PASS	-	Del	-	1	5	POLM	child	8_60045029_CTC_POLM	1	1	1	T	4	T	Repeat-mediated
35c923be-329b-11e6-a5cf-205325c9da85	11_83919003_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	83919003	GA	G	660	PASS	DLG2	Del	intronic	1	6	MSH6	child	11_83919003_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
35cbb270-3276-11e6-be3d-b594a20b69d5	4_82784745_TAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	4	82784745	TA	T	660	PASS	RP11-689K5.3	Del	intronic	1	9	EXO1	child	4_82784745_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
35d5cd5e-328b-11e6-b242-94e95d753391	1_92960125_CATAAACCTTAT	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	1	92960125	CATAAAC	CTTAT	360	PASS	-	Complex	-	6	0	POLE	child	1_92960125_CATAAACCTTAT_POLE	2	2	-	-	-	-	Complex
35d78306-3286-11e6-9a94-1d822aaffa45	6_122149021_AGA	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	6	122149021	AG	A	660	PASS	-	Del	-	1	6	POLE	child	6_122149021_AGA_POLE	1	1	1	G	5	G	Repeat-mediated
35d7f9a6-326f-11e6-acc7-e55219a91649	1_229482150_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	229482150	CT	C	300	PASS	CCSAP	Del	upstream	1	9	MSH6	child	1_229482150_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
35e3727a-3276-11e6-b582-0da1cc638e3d	4_171440348_CAC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	4	171440348	CA	C	540	PASS	-	Del	-	1	7	CHK2	child	4_171440348_CAC_CHK2	1	1	1	A	6	A	Repeat-mediated
35ef3104-3277-11e6-a5d0-4fd14a47a305	2_164599077_TTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	164599077	T	TC	360	PASS	-	Ins	-	1	1	MSH6	child	2_164599077_TTC_MSH6	1	1	-	-	-	-	Ins
35f7981c-3286-11e6-81fd-f903987b3f23	2_155856094_CCA	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	2	155856094	C	CA	420	PASS	-	Ins	-	1	6	NEIL1	parent	2_155856094_CCA_NEIL1	1	1	-	-	-	-	Ins
361ad952-328c-11e6-bd84-429305ad5bc4	1_86595132_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	86595132	AT	A	540	PASS	COL24A1	Del	intronic	1	9	MSH6	child	1_86595132_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
36214b80-328b-11e6-a80b-87090e01a414	11_119824258_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	119824258	GT	G	600	PASS	-	Del	-	1	8	MSH6	child	11_119824258_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
36230434-3277-11e6-b7b5-ce91a78019ab	5_43784526_GAG	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	5	43784526	GA	G	540	PASS	-	Del	-	1	8	NEIL1	child	5_43784526_GAG_NEIL1	1	1	1	A	7	A	Repeat-mediated
362fc77e-3276-11e6-b4af-f7b420e7b7a8	7_90461807_GTG	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	7	90461807	GT	G	840	PASS	CDK14	Del	intronic	1	9	NUDT1	child	7_90461807_GTG_NUDT1	1	1	1	T	8	T	Repeat-mediated
363b6724-3324-11e6-9432-0b923cfdbd24	9_112965468_CTC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	9	112965468	CT	C	540	PASS	C9orf152	Del	intronic	1	8	EXO1	child	9_112965468_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
363c66fa-328a-11e6-8909-3ebb38e8a824	9_128684317_GCG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	9	128684317	GC	G	720	PASS	PBX3	Del	intronic	1	1	NUDT1	parent	9_128684317_GCG_NUDT1	1	1	0	-	0	C	None
3642ee72-3289-11e6-997d-e46e3adbad45	12_84015275_CCT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	12	84015275	C	CT	480	PASS	-	Ins	-	1	8	NUDT1	parent	12_84015275_CCT_NUDT1	1	1	-	-	-	-	Ins
3643e238-3297-11e6-bfe3-c11ec7271a47	2_77608935_TAT	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	2	77608935	TA	T	420	PASS	LRRTM4	Del	intronic	1	5	CHK2	child	2_77608935_TAT_CHK2	1	1	1	A	4	A	Repeat-mediated
36480e5e-329b-11e6-a5cf-205325c9da85	11_84080253_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	84080253	GA	G	540	PASS	DLG2	Del	intronic	1	9	MSH6	child	11_84080253_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
364d7e3e-328c-11e6-bb2d-24a320e7b7a8	X_122758765_GAG	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	X	122758765	GA	G	420	PASS	THOC2	Del	intronic	1	9	POLE	child	X_122758765_GAG_POLE	1	1	1	A	8	A	Repeat-mediated
36512a7c-3271-11e6-90d3-9639fc77b11e	13_29333342_TGT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	13	29333342	TG	T	420	PASS	-	Del	-	1	2	MSH6	parent	13_29333342_TGT_MSH6	1	1	1	G	1	G	Repeat-mediated
36546dca-328c-11e6-9c89-8d090e01a414	1_174258092_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	174258092	AT	A	660	PASS	RABGAP1L	Del	intronic	1	6	MSH6	child	1_174258092_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
365c7aca-3281-11e6-a744-d08f38e8a824	16_13258037_GTG	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	16	13258037	GT	G	540	PASS	SHISA9	Del	intronic	1	7	POLE	parent	16_13258037_GTG_POLE	1	1	1	T	6	T	Repeat-mediated
36678140-32a4-11e6-b970-398625c9da85	20_55290762_GGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	55290762	G	GT	1080	PASS	-	Ins	-	1	4	MSH6	child	20_55290762_GGT_MSH6	1	1	-	-	-	-	Ins
3675155e-3258-11e6-9d15-298312ae24cf	X_112358720_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	112358720	AT	A	420	PASS	-	Del	-	1	8	MSH6	child	X_112358720_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
3675ace4-3285-11e6-9f05-70ef1da8ec0e	10_130231636_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	10	130231636	TA	T	360	PASS	-	Del	-	1	8	EXO1	child	10_130231636_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
367df8d2-3275-11e6-a862-bc9becf1e924	1_191418158_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	191418158	TA	T	360	PASS	-	Del	-	1	8	MSH6	child	1_191418158_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
367f7bb2-3284-11e6-89eb-f2eacdacbbbf	4_176192436_ATA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	4	176192436	AT	A	600	PASS	-	Del	-	1	9	EXO1	child	4_176192436_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
3687163e-328d-11e6-b8e6-91c36f39e758	11_111197359_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	111197359	AC	A	480	PASS	-	Del	-	1	6	MSH6	child	11_111197359_ACA_MSH6	1	1	1	C	5	C	Repeat-mediated
36a37310-3288-11e6-9955-19979cdf095d	8_107589446_GGT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	8	107589446	G	GT	400	PASS	OXR1	Ins	intronic	1	9	POLE	child	8_107589446_GGT_POLE	1	1	-	-	-	-	Ins
36a479c4-328b-11e6-b9eb-c78fa2c71c31	6_170792930_CCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	170792930	C	CT	420	PASS	-	Ins	-	1	8	MSH6	child	6_170792930_CCT_MSH6	1	1	-	-	-	-	Ins
36a7dbf0-3290-11e6-9483-bc0c9c6d3b88	5_53041636_ATA	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	5	53041636	AT	A	600	PASS	-	Del	-	1	8	POLB	child	5_53041636_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
36b96c22-3258-11e6-885f-d1947872c165	4_146789316_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	146789316	TA	T	840	PASS	ZNF827	Del	intronic	1	6	MSH6	child	4_146789316_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
36bca25a-328c-11e6-b8e6-91c36f39e758	11_43462958_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	43462958	TA	T	360	PASS	TTC17	Del	intronic	1	9	MSH6	child	11_43462958_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
36bec294-3276-11e6-bb72-cbe0f6d33ce3	1_181561931_GCAG	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	1	181561931	GCA	G	420	PASS	CACNA1E	Del	intronic	2	8	POLM	child	1_181561931_GCAG_POLM	2	2	2	CA	7	CA	Repeat-mediated
36c9ab40-3290-11e6-8e48-791e0e01a414	8_17578420_AAAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	17578420	A	AAC	600	PASS	MTUS1	Ins	intronic	2	3	MSH6	child	8_17578420_AAAC_MSH6	2	2	-	-	-	-	Ins
36ca6f8c-3275-11e6-a5d0-4fd14a47a305	2_242099109_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	242099109	CT	C	420	PASS	PPP1R7	Del	intronic	1	8	MSH6	child	2_242099109_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
36cd8adc-328e-11e6-81d1-7ea5e7d0bdd7	3_52579978_TTTTTAAAAAAAACTTAATTAGGGCCT	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	3	52579978	TTTTTAAAAAAAACTTAATTAGGGCC	T	600	PASS	PBRM1	Del	downstream	25	1	POLM	child	3_52579978_TTTTTAAAAAAAACTTAATTAGGGCCT_POLM	25	>=10	1	T	0	-	Microhomology-mediated
36da5f36-3280-11e6-87e4-1c233dc9300a	2_201585709_GAG	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	2	201585709	GA	G	600	PASS	AC007163.3	Del	intronic	1	7	NEIL1	child	2_201585709_GAG_NEIL1	1	1	1	A	6	A	Repeat-mediated
36e52896-327e-11e6-8a95-4ae6b41afd22	X_35078498_GAG	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	X	35078498	GA	G	420	PASS	-	Del	-	1	9	POLM	child	X_35078498_GAG_POLM	1	1	1	A	8	A	Repeat-mediated
36e5d4d6-3287-11e6-9766-8c8ca2c71c31	22_17576485_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	22	17576485	CT	C	900	PASS	IL17RA	Del	intronic	1	9	MSH6	child	22_17576485_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
36eb9a0c-3295-11e6-9993-7f46fa52e078	8_99053936_AATA	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	8	99053936	AAT	A	600	PASS	RPL30	Del	downstream	2	1	NUDT1	child	8_99053936_AATA_NUDT1	2	2	1	A	0	-	Microhomology-mediated
36f88fa2-3270-11e6-89e3-9dd52aaffa45	10_132962725_TAT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	10	132962725	TA	T	291	PASS	TCERG1L	Del	intronic	1	7	NEIL1	child	10_132962725_TAT_NEIL1	1	1	1	A	6	A	Repeat-mediated
36ffc4c2-328c-11e6-919e-92c36f39e758	2_46468856_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	46468856	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	2_46468856_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
370773a0-3293-11e6-a1c8-fb347a852e0e	7_42816213_ATA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	7	42816213	AT	A	600	PASS	-	Del	-	1	4	CHK2	child	7_42816213_ATA_CHK2	1	1	1	T	3	T	Repeat-mediated
370e5388-3274-11e6-a06f-b3ac8a20d9eb	17_74229951_TACCACAGAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	17	74229951	TACCACAGA	T	360	PASS	RNF157	Del	intronic	8	1	EXO1	child	17_74229951_TACCACAGAT_EXO1	8	8	1	A	0	-	Microhomology-mediated
370efd44-3277-11e6-9019-27a01da8ec0e	6_84139867_CAC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	6	84139867	CA	C	780	PASS	ME1	Del	intronic	1	4	FANCC	child	6_84139867_CAC_FANCC	1	1	1	A	3	A	Repeat-mediated
37124392-328f-11e6-92cf-bf2a0e01a414	6_28813247_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	28813247	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	6_28813247_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
3728b010-3324-11e6-a5dc-75b8cde16804	1_224112113_CAC	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	1	224112113	CA	C	260	PASS	-	Del	-	1	5	EXO1	child	1_224112113_CAC_EXO1	1	1	1	A	4	A	Repeat-mediated
373053de-328d-11e6-b9c4-751d0e01a414	5_60489196_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	60489196	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	5_60489196_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
373a4296-3273-11e6-a5d0-4fd14a47a305	2_69982742_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	69982742	CA	C	360	PASS	ANXA4	Del	intronic	1	7	MSH6	child	2_69982742_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
373a97a0-328c-11e6-b805-77090e01a414	2_197158813_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	197158813	TA	T	420	PASS	HECW2	Del	intronic	1	7	MSH6	child	2_197158813_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
373c67e8-329a-11e6-b74d-b59fcc638e3d	18_25147039_TAAAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	25147039	TAAA	T	720	PASS	RP11-739N10.1	Del	intronic	3	9	MSH6	child	18_25147039_TAAAT_MSH6	3	3	3	AAA	6	A	Repeat-mediated
37449f60-3274-11e6-be8c-25f524864c47	12_90840295_AAT	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	12	90840295	A	AT	540	PASS	-	Ins	-	1	5	CHK2	child	12_90840295_AAT_CHK2	1	1	-	-	-	-	Ins
3748d7c0-3255-11e6-89d3-d29498816cf3	2_183395899_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	183395899	TA	T	600	PASS	-	Del	-	1	9	MSH6	child	2_183395899_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
374a461c-3275-11e6-ab69-1c1607e9a829	9_37872049_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	37872049	CA	C	780	PASS	DCAF10	Del	downstream	1	8	MSH6	child	9_37872049_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
37590066-3271-11e6-b5b8-e0c24a47a305	X_125264150_TTAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	125264150	TTA	T	300	PASS	-	Del	-	2	7	MSH6	child	X_125264150_TTAT_MSH6	2	2	2	TA	6	TA	Repeat-mediated
3763a624-328a-11e6-b74f-549ba2c71c31	20_39790394_GCG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	39790394	GC	G	300	PASS	PLCG1	Del	intronic	1	8	MSH6	child	20_39790394_GCG_MSH6	1	1	1	C	7	C	Repeat-mediated
3765d71a-3257-11e6-b4d0-327a7872c165	11_123450515_TTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	123450515	T	TG	480	PASS	GRAMD1B	Ins	intronic	1	3	MSH6	child	11_123450515_TTG_MSH6	1	1	-	-	-	-	Ins
376976b2-329e-11e6-a0ea-135325c9da85	15_74852372_TTAAAAAAAAAAAAAAAAAAAAAA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	74852372	T	TAAAAAAAAAAAAAAAAAAAAAA	300	PASS	ARID3B	Ins	intronic	22	9	MSH6	child	15_74852372_TTAAAAAAAAAAAAAAAAAAAAAA_MSH6	22	>=10	-	-	-	-	Ins
376eaa40-334a-11e6-a997-309d38e8a824	4_142173892_CAC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	4	142173892	CA	C	420	PASS	RP11-586L23.1	Del	intronic	1	9	FANCC	child	4_142173892_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
377b98ee-3292-11e6-9d97-efe56f39e758	4_45292056_CCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	45292056	C	CT	600	PASS	-	Ins	-	1	7	MSH6	child	4_45292056_CCT_MSH6	1	1	-	-	-	-	Ins
377bac9c-328a-11e6-b805-77090e01a414	2_62666391_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	62666391	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	2_62666391_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
37874248-326f-11e6-acc7-e55219a91649	1_229814072_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	229814072	AT	A	360	PASS	-	Del	-	1	7	MSH6	child	1_229814072_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
37966e8c-3254-11e6-9f9d-2c7a7872c165	12_47321284_ACA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	47321284	AC	A	360	PASS	-	Del	-	1	2	MSH6	child	12_47321284_ACA_MSH6	1	1	1	C	1	C	Repeat-mediated
379b96f6-3258-11e6-b04f-1ca12aaffa45	8_50775757_CAC	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	8	50775757	CA	C	480	PASS	-	Del	-	1	8	POLM	child	8_50775757_CAC_POLM	1	1	1	A	7	A	Repeat-mediated
379c50a8-3273-11e6-a529-d95c66a58581	9_37541096_CAC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	9	37541096	CA	C	300	PASS	FBXO10	Del	intronic	1	7	FANCC	child	9_37541096_CAC_FANCC	1	1	1	A	6	A	Repeat-mediated
37a608de-3276-11e6-88b6-40832aaffa45	1_241594424_CAC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	241594424	CA	C	600	PASS	RP11-527D7.1	Del	intronic	1	4	EXO1	child	1_241594424_CAC_EXO1	1	1	1	A	3	A	Repeat-mediated
37b4908e-328a-11e6-9b74-edcd191589db	10_84100647_CAC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	10	84100647	CA	C	300	PASS	NRG3	Del	intronic	1	9	FANCC	child	10_84100647_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
37b6a90e-327c-11e6-8723-889be7d0bdd7	2_13784626_CTC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	2	13784626	CT	C	600	PASS	-	Del	-	1	6	NUDT1	child	2_13784626_CTC_NUDT1	1	1	1	T	5	T	Repeat-mediated
37b75048-328b-11e6-9f90-12d335cec73b	20_33573904_TCTCT	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	20	33573904	TCTC	T	420	PASS	MYH7B	Del	inframe	3	1	POLE	child	20_33573904_TCTCT_POLE	3	3	2	CT	0	-	Microhomology-mediated
37bc4cfa-3273-11e6-b923-6726694da5d2	5_90643650_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	90643650	C	CA	660	PASS	-	Ins	-	1	1	MSH6	child	5_90643650_CCA_MSH6	1	1	-	-	-	-	Ins
37bf91e0-3272-11e6-841e-3c0fc7271a47	12_93805459_GTG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	12	93805459	GT	G	480	PASS	UBE2N	Del	intronic	1	8	MSH6	parent	12_93805459_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
37ce954a-3273-11e6-923c-a6d5ed3c4f5d	4_132265480_CAAC	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	4	132265480	CAA	C	540	PASS	-	Del	-	2	3	POLB	child	4_132265480_CAAC_POLB	2	2	1	A	0	-	Microhomology-mediated
37d112f4-3276-11e6-b439-e34b3cfdbd24	2_122099596_GGA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	2	122099596	G	GA	480	PASS	CLASP1	Ins	intronic	1	7	MSH6	parent	2_122099596_GGA_MSH6	1	1	-	-	-	-	Ins
37d26990-326e-11e6-acc7-e55219a91649	1_153728339_ACA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	153728339	AC	A	480	PASS	INTS3	Del	intronic	1	4	MSH6	child	1_153728339_ACA_MSH6	1	1	1	C	3	C	Repeat-mediated
37d82504-3270-11e6-acc7-e55219a91649	1_50971044_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	50971044	C	CA	720	PASS	FAF1	Ins	intronic	1	3	MSH6	child	1_50971044_CCA_MSH6	1	1	-	-	-	-	Ins
37d8cf52-3272-11e6-b4bf-85eb97ba1142	2_34661523_CCA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	2	34661523	C	CA	540	PASS	AC073218.1	Ins	intronic	1	5	EXO1	parent	2_34661523_CCA_EXO1	1	1	-	-	-	-	Ins
37dbec68-3322-11e6-9b79-b58f0cfb5812	1_232131071_CTC	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	1	232131071	CT	C	434	PASS	DISC1	Del	intronic	1	7	POLE	child	1_232131071_CTC_POLE	1	1	1	T	6	T	Repeat-mediated
37dcd646-32a0-11e6-a04f-c66a25c9da85	6_56221774_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	56221774	AT	A	720	PASS	COL21A1	Del	intronic	1	8	MSH6	child	6_56221774_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
37de417e-325b-11e6-a39a-dc8512ae24cf	8_83150108_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	83150108	C	CA	600	PASS	-	Ins	-	1	6	MSH6	child	8_83150108_CCA_MSH6	1	1	-	-	-	-	Ins
37e14b2a-329d-11e6-ae71-0c5325c9da85	1_197114791_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	197114791	TA	T	780	PASS	ASPM	Del	intronic	1	6	MSH6	child	1_197114791_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
37e4bb70-3289-11e6-bae2-7096cdacbbbf	18_31776013_CAC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	18	31776013	CA	C	420	PASS	NOL4	Del	intronic	1	9	FANCC	child	18_31776013_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
37e52c86-3289-11e6-a7cf-80090e01a414	15_20416000_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	20416000	CA	C	420	PASS	-	Del	-	1	7	MSH6	child	15_20416000_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
37e5da98-3287-11e6-9bb4-ea6e3adbad45	13_46600647_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	13	46600647	CT	C	480	PASS	ZC3H13	Del	intronic	1	8	NUDT1	parent	13_46600647_CTC_NUDT1	1	1	1	T	7	T	Repeat-mediated
37eaf690-328c-11e6-88c1-95c36f39e758	14_61283710_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	61283710	CT	C	420	PASS	MNAT1	Del	intronic	1	9	MSH6	child	14_61283710_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3803869e-3285-11e6-9f05-70ef1da8ec0e	10_131035246_CAC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	10	131035246	CA	C	300	PASS	-	Del	-	1	8	EXO1	child	10_131035246_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
38176c94-326d-11e6-acc7-e55219a91649	1_66376617_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	66376617	CT	C	420	PASS	PDE4B	Del	intronic	1	9	MSH6	child	1_66376617_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
381947ee-329a-11e6-8d0f-075325c9da85	14_39967880_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	39967880	CA	C	480	PASS	RP11-111A21.1	Del	intronic	1	9	MSH6	child	14_39967880_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
38270884-3277-11e6-a8d8-3e6075253f64	3_130091286_TTAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	3	130091286	TTA	T	900	PASS	COL6A5	Del	intronic	2	7	FANCC	child	3_130091286_TTAT_FANCC	2	2	2	TA	6	TA	Repeat-mediated
383f5952-3281-11e6-97a4-78cfaa716c52	5_126166559_GGATAGCTTGAACGGTGGTTGA	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	5	126166559	G	GATAGCTTGAACGGTGGTTGA	660	PASS	LMNB1	Ins	intronic	20	0	POLB	parent	5_126166559_GGATAGCTTGAACGGTGGTTGA_POLB	20	>=10	-	-	-	-	Ins
3844aeb0-3291-11e6-906c-71dad8b4fa2c	15_23903530_TTTCAGCCTGAAAAACTTTCCTTAGCATTTCTCATAGTGTAGATCTGCATGAAACAAATCCCCTCAGTCTTTGTCTGATGATGACTTTATTTCACTTTCATTTTGTAAAGAAATTTTGTTGGATATAGAATTATAAACAGACAATCCTATTTTTCCTTAAACCAGACACATAGACCAATGGAACAGAATGAATAACACACAAATTAACCCACTCATTTAGAGCCAACTGATATTCAACAAAGGTACCAAAATATACAATGAGGAATGGGCAGTCTCTTCAATAAAGGTTGTCGGAAGAACTGGATATCCTTGTGCAAATAAATGAAATTAGACCCTTATCATTCACCAAATACAAAAATTGACTTAATATGGATGAAATACTTAAACGTAAGACCTGGAAATATAAAACTACTAGAAGAAATCATAGGGGAAAAGCTCTATGACATTGGTTTGGGCACTGATTTTTTGGATAAGCCTCAAAAGCACAAGCAACAAAAGCAAAAATAGATAAATGGGATTATATCAAACTAACAAGCTTCTGCACAGCAAAGGAAAGAATCCACAAACTGAAGAGACAACCTACAGAACAGGAGAAAATATCTGCAAATTATATATCTGACAAGAGGTTAATATCCAGAACTTATAAGAACCTCAAAGAGGCTGGTGTGGTGGCTCATGCTTGTAATCCCAGCACTTTGGGAGGCCAAGGTGGGCAGATCACTTGAGGCCAGGAGT	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	15	23903530	TTTCAGCCTGAAAAACTTTCCTTAGCATTTCTCATAGTGTAGATCTGCATGAAACAAATCCCCTCAGTCTTTGTCTGATGATGACTTTATTTCACTTTCATTTTGTAAAGAAATTTTGTTGGATATAGAATTATAAACAGACAATCCTATTTTTCCTTAAACCAGACACATAGACCAATGGAACAGAATGAATAACACACAAATTAACCCACTCATTTAGAGCCAACTGATATTCAACAAAGGTACCAAAATATACAATGAGGAATGGGCAGTCTCTTCAATAAAGGTTGTCGGAAGAACTGGATATCCTTGTGCAAATAAATGAAATTAGACCCTTATCATTCACCAAATACAAAAATTGACTTAATATGGATGAAATACTTAAACGTAAGACCTGGAAATATAAAACTACTAGAAGAAATCATAGGGGAAAAGCTCTATGACATTGGTTTGGGCACTGATTTTTTGGATAAGCCTCAAAAGCACAAGCAACAAAAGCAAAAATAGATAAATGGGATTATATCAAACTAACAAGCTTCTGCACAGCAAAGGAAAGAATCCACAAACTGAAGAGACAACCTACAGAACAGGAGAAAATATCTGCAAATTATATATCTGACAAGAGGTTAATATCCAGAACTTATAAGAACCTCAAAGAGGCTGGTGTGGTGGCTCATGCTTGTAATCCCAGCACTTTGGGAGGCCAAGGTGGGCAGATCACTTGAGGCCAGGAG	T	420	PASS	-	Del	-	733	1	NUDT1	child	15_23903530_TTTCAGCCTGAAAAACTTTCCTTAGCATTTCTCATAGTGTAGATCTGCATGAAACAAATCCCCTCAGTCTTTGTCTGATGATGACTTTATTTCACTTTCATTTTGTAAAGAAATTTTGTTGGATATAGAATTATAAACAGACAATCCTATTTTTCCTTAAACCAGACACATAGACCAATGGAACAGAATGAATAACACACAAATTAACCCACTCATTTAGAGCCAACTGATATTCAACAAAGGTACCAAAATATACAATGAGGAATGGGCAGTCTCTTCAATAAAGGTTGTCGGAAGAACTGGATATCCTTGTGCAAATAAATGAAATTAGACCCTTATCATTCACCAAATACAAAAATTGACTTAATATGGATGAAATACTTAAACGTAAGACCTGGAAATATAAAACTACTAGAAGAAATCATAGGGGAAAAGCTCTATGACATTGGTTTGGGCACTGATTTTTTGGATAAGCCTCAAAAGCACAAGCAACAAAAGCAAAAATAGATAAATGGGATTATATCAAACTAACAAGCTTCTGCACAGCAAAGGAAAGAATCCACAAACTGAAGAGACAACCTACAGAACAGGAGAAAATATCTGCAAATTATATATCTGACAAGAGGTTAATATCCAGAACTTATAAGAACCTCAAAGAGGCTGGTGTGGTGGCTCATGCTTGTAATCCCAGCACTTTGGGAGGCCAAGGTGGGCAGATCACTTGAGGCCAGGAGT_NUDT1	733	>=10	3	TTC	0	-	Microhomology-mediated
384ba71c-328a-11e6-a100-84090e01a414	18_63808081_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	63808081	GA	G	540	PASS	-	Del	-	1	9	MSH6	child	18_63808081_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
384c5b78-328d-11e6-bd84-429305ad5bc4	1_226701720_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	226701720	CA	C	360	PASS	-	Del	-	1	7	MSH6	child	1_226701720_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
38579f2e-328d-11e6-a878-4bab4430f757	18_61218530_CAC	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	18	61218530	CA	C	300	PASS	SERPINB12	Del	upstream	1	8	POLE	child	18_61218530_CAC_POLE	1	1	1	A	7	A	Repeat-mediated
38617226-329f-11e6-a04f-c66a25c9da85	6_3072168_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	3072168	AT	A	540	PASS	RIPK1	Del	intronic	1	5	MSH6	child	6_3072168_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
3862b512-3274-11e6-9241-55e60d01a414	8_17181527_CCTTC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	8	17181527	CCTT	C	660	PASS	MTMR7	Del	intronic	3	2	MSH6	parent	8_17181527_CCTTC_MSH6	3	3	3	CTT	1	CTT	Repeat-mediated
38691854-3327-11e6-95a6-476ac042253c	3_156795808_GGTGAAAAAAAATAGCCCCTAAGGGGAGAAAAAGGGCAAAGTGGTGAAATGCTGTATAATTTAAATGCATTTGCAAGACTCTCCTCTCCCAACTGTCAGAGCAGAACACCATGCTGCTTTCATTTTTAAAAAAACAAAACAAAAACCTCCAAAGAGAAGAAGAACACCTAGTTATGACTATCATTTCCTTTCCTCCATGGCTTCCCTCTTCCACCTTTATCCCTTAAAGCAGTAGCTCTCAACCAGGGGCTTTGCTCCCCCAGCACACCCTAGCGACTTCTGGCAATGTCTAAAAATGGTGGGGCATGCTACTGGCATCTATGGGTAGAGACCAGAAATGCTGCAAAATGTCCAGCAACGCTCACGACAGCCCCCACGACAGAATTATCCAACCCAAGATGTCAACATGCTGCTGTTGAGAAACCTGGCCTTTAGAAGCAGTCTTCTAATCTTATTTTCTAAGAATAAGAAAATATTATTCTTAGTTTATCCTGCAGCTAAACAAAATGCATAGGAAAAGATTCATCATGAGGAAGGGGGCAATGGTGACTAAGAACTTCACAAAGTCCTGAACCATTCAACCTTCATTCTGAGAGGATGGACGATCAGATTTAGTGATTCACTTCTCTGATTGTAAGTATCATCTTCTGAAGTCCATTAAGTGTTTAGTCATGCCCTGTGTTTTTGTCAAGTGGTAGGCAAAGGGAGTTAAGTGGAACCTCAGTCCCCTAAGAGTTTATCATCTAAGATGGGTAACAATGACTAGGCAGAGATATAAAGGTGAGATGGACAAATAACCAAACTACAGAGTAAGGCCAAACCAATTGCAGAAGCTGGGAGCTGAGCATAGTGTGAGGAATGCGGAGGGCAAGTTATCCAAGTGAGTAGGTGGCATTAAAGAGAAGAACTAGGGACGGCATCACTCTGCACCTCCATTTATCCATTTGCTTTCACTAAAATATGTACCACATGCTTCTGGGCATGCAGAAGTACATTTCACACTCCAAGCACTTGCAATCAAGCCAGTGTGATAAGATTCATACACAAATAAGCAAAACACAAAAATTCCATTCTGAGAGGTATAGCAAGTACATGTCACAGTGCTTAGAGAAAGAACTGATGCCTGCATGTGGTGGAACTGGCATTTGGCTGGGCCTTGGAGTGTGGGGGCTACTGGGGAGCAGAGCCTGCCTGAGAATCTAGGGCAGGGTGGCAGCAGGGGTGTTCGCTGTCCTACAGACAAGAATCTCCAAAAATGGAGTTCTGGCTTAAGGTGTTTGTCCTGGCTTATCTTTTGGCCACTCAACAAAACTTTCTGTGCCTCATTTTCTCTCTTCTTCCCATTTCCAAGCAACAAAACCATGTCCATCTACTCTTATTAAAAATCTCCAAGAGTGGTGTCTCATGCCTGTAATCGTAGCACTTTGGGAGGCCGAGGCTGGAAGATTGCTTGAGGCTAAGAGTTCAAGACCAGCCTGGACAACATAAGGAAACCCTTTTTCCGAACAAATAAAAATAAAAATTATTTTTTTTGTAGGTATGGCAGCACGCGCCCATAGTCCCAGTTGCTCAGGAGCCCAGGAGTTCAAGGCTGCAGTGAACCATGATTGTGCCACTGCACTCCAGCCTGGGCGACAGAGCAAGACTCCAGCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAGAACCACAACATACCAAG	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	3	156795808	GGTGAAAAAAAATAGCCCCTAAGGGGAGAAAAAGGGCAAAGTGGTGAAATGCTGTATAATTTAAATGCATTTGCAAGACTCTCCTCTCCCAACTGTCAGAGCAGAACACCATGCTGCTTTCATTTTTAAAAAAACAAAACAAAAACCTCCAAAGAGAAGAAGAACACCTAGTTATGACTATCATTTCCTTTCCTCCATGGCTTCCCTCTTCCACCTTTATCCCTTAAAGCAGTAGCTCTCAACCAGGGGCTTTGCTCCCCCAGCACACCCTAGCGACTTCTGGCAATGTCTAAAAATGGTGGGGCATGCTACTGGCATCTATGGGTAGAGACCAGAAATGCTGCAAAATGTCCAGCAACGCTCACGACAGCCCCCACGACAGAATTATCCAACCCAAGATGTCAACATGCTGCTGTTGAGAAACCTGGCCTTTAGAAGCAGTCTTCTAATCTTATTTTCTAAGAATAAGAAAATATTATTCTTAGTTTATCCTGCAGCTAAACAAAATGCATAGGAAAAGATTCATCATGAGGAAGGGGGCAATGGTGACTAAGAACTTCACAAAGTCCTGAACCATTCAACCTTCATTCTGAGAGGATGGACGATCAGATTTAGTGATTCACTTCTCTGATTGTAAGTATCATCTTCTGAAGTCCATTAAGTGTTTAGTCATGCCCTGTGTTTTTGTCAAGTGGTAGGCAAAGGGAGTTAAGTGGAACCTCAGTCCCCTAAGAGTTTATCATCTAAGATGGGTAACAATGACTAGGCAGAGATATAAAGGTGAGATGGACAAATAACCAAACTACAGAGTAAGGCCAAACCAATTGCAGAAGCTGGGAGCTGAGCATAGTGTGAGGAATGCGGAGGGCAAGTTATCCAAGTGAGTAGGTGGCATTAAAGAGAAGAACTAGGGACGGCATCACTCTGCACCTCCATTTATCCATTTGCTTTCACTAAAATATGTACCACATGCTTCTGGGCATGCAGAAGTACATTTCACACTCCAAGCACTTGCAATCAAGCCAGTGTGATAAGATTCATACACAAATAAGCAAAACACAAAAATTCCATTCTGAGAGGTATAGCAAGTACATGTCACAGTGCTTAGAGAAAGAACTGATGCCTGCATGTGGTGGAACTGGCATTTGGCTGGGCCTTGGAGTGTGGGGGCTACTGGGGAGCAGAGCCTGCCTGAGAATCTAGGGCAGGGTGGCAGCAGGGGTGTTCGCTGTCCTACAGACAAGAATCTCCAAAAATGGAGTTCTGGCTTAAGGTGTTTGTCCTGGCTTATCTTTTGGCCACTCAACAAAACTTTCTGTGCCTCATTTTCTCTCTTCTTCCCATTTCCAAGCAACAAAACCATGTCCATCTACTCTTATTAAAAATCTCCAAGAGTGGTGTCTCATGCCTGTAATCGTAGCACTTTGGGAGGCCGAGGCTGGAAGATTGCTTGAGGCTAAGAGTTCAAGACCAGCCTGGACAACATAAGGAAACCCTTTTTCCGAACAAATAAAAATAAAAATTATTTTTTTTGTAGGTATGGCAGCACGCGCCCATAGTCCCAGTTGCTCAGGAGCCCAGGAGTTCAAGGCTGCAGTGAACCATGATTGTGCCACTGCACTCCAGCCTGGGCGACAGAGCAAGACTCCAGCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAGAACCACAACATACCAA	G	660	PASS	LINC00880	Del	downstream	1697	1	CHK2	child	3_156795808_GGTGAAAAAAAATAGCCCCTAAGGGGAGAAAAAGGGCAAAGTGGTGAAATGCTGTATAATTTAAATGCATTTGCAAGACTCTCCTCTCCCAACTGTCAGAGCAGAACACCATGCTGCTTTCATTTTTAAAAAAACAAAACAAAAACCTCCAAAGAGAAGAAGAACACCTAGTTATGACTATCATTTCCTTTCCTCCATGGCTTCCCTCTTCCACCTTTATCCCTTAAAGCAGTAGCTCTCAACCAGGGGCTTTGCTCCCCCAGCACACCCTAGCGACTTCTGGCAATGTCTAAAAATGGTGGGGCATGCTACTGGCATCTATGGGTAGAGACCAGAAATGCTGCAAAATGTCCAGCAACGCTCACGACAGCCCCCACGACAGAATTATCCAACCCAAGATGTCAACATGCTGCTGTTGAGAAACCTGGCCTTTAGAAGCAGTCTTCTAATCTTATTTTCTAAGAATAAGAAAATATTATTCTTAGTTTATCCTGCAGCTAAACAAAATGCATAGGAAAAGATTCATCATGAGGAAGGGGGCAATGGTGACTAAGAACTTCACAAAGTCCTGAACCATTCAACCTTCATTCTGAGAGGATGGACGATCAGATTTAGTGATTCACTTCTCTGATTGTAAGTATCATCTTCTGAAGTCCATTAAGTGTTTAGTCATGCCCTGTGTTTTTGTCAAGTGGTAGGCAAAGGGAGTTAAGTGGAACCTCAGTCCCCTAAGAGTTTATCATCTAAGATGGGTAACAATGACTAGGCAGAGATATAAAGGTGAGATGGACAAATAACCAAACTACAGAGTAAGGCCAAACCAATTGCAGAAGCTGGGAGCTGAGCATAGTGTGAGGAATGCGGAGGGCAAGTTATCCAAGTGAGTAGGTGGCATTAAAGAGAAGAACTAGGGACGGCATCACTCTGCACCTCCATTTATCCATTTGCTTTCACTAAAATATGTACCACATGCTTCTGGGCATGCAGAAGTACATTTCACACTCCAAGCACTTGCAATCAAGCCAGTGTGATAAGATTCATACACAAATAAGCAAAACACAAAAATTCCATTCTGAGAGGTATAGCAAGTACATGTCACAGTGCTTAGAGAAAGAACTGATGCCTGCATGTGGTGGAACTGGCATTTGGCTGGGCCTTGGAGTGTGGGGGCTACTGGGGAGCAGAGCCTGCCTGAGAATCTAGGGCAGGGTGGCAGCAGGGGTGTTCGCTGTCCTACAGACAAGAATCTCCAAAAATGGAGTTCTGGCTTAAGGTGTTTGTCCTGGCTTATCTTTTGGCCACTCAACAAAACTTTCTGTGCCTCATTTTCTCTCTTCTTCCCATTTCCAAGCAACAAAACCATGTCCATCTACTCTTATTAAAAATCTCCAAGAGTGGTGTCTCATGCCTGTAATCGTAGCACTTTGGGAGGCCGAGGCTGGAAGATTGCTTGAGGCTAAGAGTTCAAGACCAGCCTGGACAACATAAGGAAACCCTTTTTCCGAACAAATAAAAATAAAAATTATTTTTTTTGTAGGTATGGCAGCACGCGCCCATAGTCCCAGTTGCTCAGGAGCCCAGGAGTTCAAGGCTGCAGTGAACCATGATTGTGCCACTGCACTCCAGCCTGGGCGACAGAGCAAGACTCCAGCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAGAACCACAACATACCAAG_CHK2	1697	>=10	5	GTGAA	0	-	Microhomology-mediated
3869e888-328c-11e6-bd84-429305ad5bc4	1_88173527_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	88173527	AT	A	360	PASS	-	Del	-	1	7	MSH6	child	1_88173527_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
38753582-334d-11e6-840b-09aab0dab373	1_246063113_CCA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	1	246063113	C	CA	540	PASS	SMYD3	Ins	intronic	1	3	FANCC	child	1_246063113_CCA_FANCC	1	1	-	-	-	-	Ins
3879bbf6-3254-11e6-aedc-3df212ae24cf	19_31627763_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	19	31627763	GA	G	360	PASS	-	Del	-	1	8	MSH6	child	19_31627763_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
388a5366-3273-11e6-9e18-3a69671699ea	10_60530095_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	60530095	AT	A	540	PASS	BICC1	Del	intronic	1	6	MSH6	child	10_60530095_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
388ae5c6-3285-11e6-9daa-026ea2c71c31	14_101610011_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	101610011	GT	G	540	PASS	-	Del	-	1	6	MSH6	child	14_101610011_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
3897b242-327b-11e6-a05d-037890e2c2e6	12_14564479_TTA	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	12	14564479	T	TA	420	PASS	ATF7IP	Ins	intronic	1	7	FANCC	parent	12_14564479_TTA_FANCC	1	1	-	-	-	-	Ins
389e9794-328d-11e6-9c89-8d090e01a414	1_233489076_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	233489076	TA	T	540	PASS	MLK4	Del	intronic	1	5	MSH6	child	1_233489076_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
38ad5bda-3288-11e6-9317-6ba56f39e758	8_88756293_CTC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	8	88756293	CT	C	540	PASS	-	Del	-	1	4	EXO1	child	8_88756293_CTC_EXO1	1	1	1	T	3	T	Repeat-mediated
38b34720-328d-11e6-b4fe-93c36f39e758	12_102522735_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	102522735	AT	A	660	PASS	PARPBP	Del	intronic	1	9	MSH6	child	12_102522735_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
38b528d2-3275-11e6-83cd-a472a178171f	4_7097030_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	7097030	CA	C	660	PASS	RP11-367J11.3	Del	downstream	1	8	MSH6	child	4_7097030_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
38b68ff2-328d-11e6-919e-92c36f39e758	2_115473169_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	115473169	TA	T	720	PASS	DPP10	Del	intronic	1	9	MSH6	child	2_115473169_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
38c96090-328e-11e6-a83a-f948aa5f95ce	1_177023503_TGT	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	1	177023503	TG	T	480	PASS	ASTN1	Del	intronic	1	1	POLM	child	1_177023503_TGT_POLM	1	1	0	-	0	G	None
38d09a46-3256-11e6-9cd8-27f912ae24cf	7_103185360_GTCTG	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	7	103185360	GTCT	G	1200	PASS	RELN	Del	intronic	3	1	POLB	child	7_103185360_GTCTG_POLB	3	3	1	T	0	-	Microhomology-mediated
38d5ea8e-3290-11e6-b805-77090e01a414	2_206138829_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	206138829	T	TA	300	PASS	PARD3B	Ins	intronic	1	6	MSH6	child	2_206138829_TTA_MSH6	1	1	-	-	-	-	Ins
38d9a35c-327e-11e6-b157-c982996ede67	22_42227640_TTCT	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	22	42227640	TTC	T	540	PASS	SREBF2	Del	upstream	2	3	POLM	child	22_42227640_TTCT_POLM	2	2	2	TC	2	TC	Repeat-mediated
38e23b98-3279-11e6-a391-f6d67d6a9fc7	6_118630361_TGTGTGCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	118630361	TGTGTGC	T	360	PASS	SLC35F1	Del	intronic	6	1	MSH6	child	6_118630361_TGTGTGCT_MSH6	6	6	5	GTGTG	0	-	Microhomology-mediated
38e89afe-3285-11e6-90da-f3a469062303	6_68553376_AAGGGAGA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	6	68553376	AAGGGAG	A	300	PASS	-	Del	-	6	1	FANCC	child	6_68553376_AAGGGAGA_FANCC	6	6	3	AGG	0	-	Microhomology-mediated
38ee459a-3289-11e6-a7cf-80090e01a414	15_20453909_GACG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	20453909	GAC	G	335	PASS	-	Del	-	2	4	MSH6	child	15_20453909_GACG_MSH6	2	2	2	AC	3	AC	Repeat-mediated
38f3ee3a-3272-11e6-b337-78fbd8b4fa2c	2_124265651_CAC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	2	124265651	CA	C	480	PASS	-	Del	-	1	8	POLB	child	2_124265651_CAC_POLB	1	1	1	A	7	A	Repeat-mediated
390131bc-329a-11e6-b723-b29fcc638e3d	19_14060287_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	14060287	GA	G	540	PASS	PODNL1	Del	intronic	1	9	MSH6	child	19_14060287_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
39051cf4-3287-11e6-86fa-e88f1da8ec0e	21_34142537_GAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	21	34142537	GA	G	420	PASS	PAXBP1	Del	intronic	1	6	EXO1	child	21_34142537_GAG_EXO1	1	1	1	A	5	A	Repeat-mediated
39065a7e-3273-11e6-975f-8246cab49462	16_49025265_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	49025265	CT	C	660	PASS	-	Del	-	1	9	MSH6	child	16_49025265_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
390a9dda-3270-11e6-8418-1c5942c4520d	3_26053088_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	26053088	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	3_26053088_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
39102ba8-328c-11e6-8952-77c36f39e758	10_39076545_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	39076545	GT	G	408	PASS	-	Del	-	1	9	MSH6	child	10_39076545_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
391a90ca-3322-11e6-9ab5-b30c2eaed38e	10_132038814_ATA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	10	132038814	AT	A	300	PASS	-	Del	-	1	4	EXO1	child	10_132038814_ATA_EXO1	1	1	1	T	3	T	Repeat-mediated
3928515e-3289-11e6-bae2-7096cdacbbbf	18_32653371_TTAT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	18	32653371	TTA	T	480	PASS	MAPRE2	Del	intronic	2	2	FANCC	child	18_32653371_TTAT_FANCC	2	2	2	TA	1	TA	Repeat-mediated
393e4092-3291-11e6-b78c-8cb4e7d0bdd7	6_6548499_GAG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	6	6548499	GA	G	300	PASS	-	Del	-	1	9	FANCC	child	6_6548499_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
393f69ea-3255-11e6-b4d0-327a7872c165	11_115436169_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	115436169	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	11_115436169_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
3940ada8-328e-11e6-919e-92c36f39e758	2_183896946_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	183896946	TA	T	480	PASS	NCKAP1	Del	intronic	1	9	MSH6	child	2_183896946_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
394178ee-3321-11e6-923f-078b3cfdbd24	18_44016174_GAG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	18	44016174	GA	G	360	PASS	RNF165	Del	intronic	1	7	EXO1	child	18_44016174_GAG_EXO1	1	1	1	A	6	A	Repeat-mediated
3942fb96-3287-11e6-b093-c9c7b0dab373	2_229796031_TGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	229796031	TG	T	480	PASS	-	Del	-	1	1	MSH6	child	2_229796031_TGT_MSH6	1	1	0	-	0	G	None
39500eb2-3273-11e6-b636-ce0fead19ece	12_115451487_ATA	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	12	115451487	AT	A	480	PASS	-	Del	-	1	9	NEIL1	child	12_115451487_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
39627314-326d-11e6-b306-b5204b47a305	2_52256513_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	52256513	CT	C	420	PASS	AC007682.1	Del	intronic	1	9	MSH6	child	2_52256513_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3969f5d2-3289-11e6-85b3-df4bcf376b51	15_25872965_AGA	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	15	25872965	AG	A	780	PASS	-	Del	-	1	4	NUDT1	child	15_25872965_AGA_NUDT1	1	1	1	G	3	G	Repeat-mediated
3971a044-3256-11e6-89d3-d29498816cf3	2_34054124_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	34054124	C	CA	420	PASS	AC009499.1	Ins	intronic	1	5	MSH6	child	2_34054124_CCA_MSH6	1	1	-	-	-	-	Ins
397d028c-32a0-11e6-aea7-956725c9da85	3_117500038_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	117500038	GT	G	370	PASS	LSAMP	Del	intronic	1	8	MSH6	child	3_117500038_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
397f69be-329b-11e6-a5cf-205325c9da85	11_85299732_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	85299732	AT	A	540	PASS	DLG2	Del	intronic	1	9	MSH6	child	11_85299732_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
39818e18-327a-11e6-8c34-46e27872c165	5_169185944_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	169185944	T	TA	600	PASS	DOCK2	Ins	intronic	1	5	MSH6	child	5_169185944_TTA_MSH6	1	1	-	-	-	-	Ins
398e481c-3291-11e6-9070-b1a39b6d3b88	6_9880300_TAT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	6	9880300	TA	T	360	PASS	-	Del	-	1	6	POLB	child	6_9880300_TAT_POLB	1	1	1	A	5	A	Repeat-mediated
39959a88-3325-11e6-bbbe-ecb20cfb5812	20_18863184_TCTCT	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	20	18863184	TCTC	T	480	PASS	-	Del	-	3	1	POLE	child	20_18863184_TCTCT_POLE	3	3	2	CT	0	-	Microhomology-mediated
3999da88-3282-11e6-9b68-79e41da8ec0e	2_140262874_TAT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	2	140262874	TA	T	480	PASS	-	Del	-	1	9	EXO1	child	2_140262874_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
399f1cee-327f-11e6-831c-60fe684da5d2	12_109329364_CTC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	12	109329364	CT	C	780	PASS	SVOP	Del	intronic	1	6	NEIL1	child	12_109329364_CTC_NEIL1	1	1	1	T	5	T	Repeat-mediated
39a32d58-32a1-11e6-a04f-c66a25c9da85	6_124585810_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	124585810	AC	A	480	PASS	NKAIN2	Del	intronic	1	5	MSH6	child	6_124585810_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
39a3662a-328c-11e6-a653-2591e7d0bdd7	1_187383034_GAATG	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	1	187383034	GAAT	G	720	PASS	-	Del	-	3	1	POLM	child	1_187383034_GAATG_POLM	3	3	0	-	0	-	None
39abc966-3285-11e6-baa3-81ed1da8ec0e	X_110217118_CAC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	X	110217118	CA	C	540	PASS	PAK3	Del	intronic	1	8	EXO1	child	X_110217118_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
39ac962c-32a1-11e6-b696-dd6225c9da85	5_86085418_TTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	86085418	T	TA	360	PASS	-	Ins	-	1	4	MSH6	child	5_86085418_TTA_MSH6	1	1	-	-	-	-	Ins
39afbeca-329b-11e6-a0ea-135325c9da85	15_69798262_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	69798262	GT	G	780	PASS	RP11-279F6.1	Del	intronic	1	9	MSH6	child	15_69798262_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
39bd510c-328c-11e6-a80b-87090e01a414	11_45881321_CCCTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	45881321	C	CCTG	480	PASS	CRY2	Ins	intronic	3	5	MSH6	child	11_45881321_CCCTG_MSH6	3	3	-	-	-	-	Ins
39c8d0f8-3292-11e6-a1ea-b9b6e7d0bdd7	11_72301027_TGAT	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	11	72301027	TGA	T	300	PASS	PDE2A	Del	splice_region	2	3	NUDT1	child	11_72301027_TGAT_NUDT1	2	2	2	GA	2	GA	Repeat-mediated
39cf3b82-3323-11e6-bda0-2f6519a91649	12_69031702_CCT	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	12	69031702	C	CT	780	PASS	RAP1B	Ins	intronic	1	7	CHK2	child	12_69031702_CCT_CHK2	1	1	-	-	-	-	Ins
39d9cc10-3273-11e6-a721-59c27872c165	5_169557250_GAG	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	5	169557250	GA	G	660	PASS	-	Del	-	1	8	NEIL1	child	5_169557250_GAG_NEIL1	1	1	1	A	7	A	Repeat-mediated
39da8494-329f-11e6-bc2c-2a5e25c9da85	4_150185284_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	150185284	CA	C	660	PASS	RP11-24I21.1	Del	intronic	1	9	MSH6	child	4_150185284_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
39e5709e-328a-11e6-b74f-549ba2c71c31	20_41313069_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	41313069	GA	G	420	PASS	PTPRT	Del	intronic	1	6	MSH6	child	20_41313069_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
39e63d62-3276-11e6-9608-84e46de4ab00	7_26155781_ATATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	7	26155781	ATAT	A	840	PASS	-	Del	-	3	2	EXO1	child	7_26155781_ATATA_EXO1	3	3	3	TAT	1	TAT	Repeat-mediated
39ec9e08-3291-11e6-b78c-8cb4e7d0bdd7	6_6921630_GCAAAG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	6	6921630	GCAAA	G	540	PASS	RP3-429O6.1	Del	upstream	4	1	FANCC	child	6_6921630_GCAAAG_FANCC	4	4	2	CA	0	-	Microhomology-mediated
39f5ee06-328f-11e6-8e48-791e0e01a414	8_109562348_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	109562348	CT	C	420	PASS	-	Del	-	1	8	MSH6	child	8_109562348_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
39f75a4c-3281-11e6-b652-59be9b6d3b88	1_52360561_TAT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	1	52360561	TA	T	900	PASS	-	Del	-	1	8	POLE	child	1_52360561_TAT_POLE	1	1	1	A	7	A	Repeat-mediated
39ff5af8-329f-11e6-aca6-b39fcc638e3d	2_97311361_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	97311361	C	CA	540	PASS	-	Ins	-	1	5	MSH6	child	2_97311361_CCA_MSH6	1	1	-	-	-	-	Ins
3a03c49a-328f-11e6-bfa2-581f0e01a414	7_151170794_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	151170794	GA	G	840	PASS	RHEB	Del	intronic	1	8	MSH6	child	7_151170794_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
3a04b00e-3293-11e6-8d18-13cc0d01a414	20_36456789_CCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	20	36456789	C	CT	300	PASS	CTNNBL1	Ins	intronic	1	9	MSH6	child	20_36456789_CCT_MSH6	1	1	-	-	-	-	Ins
3a04d69c-329d-11e6-bc2c-2a5e25c9da85	4_22014471_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	22014471	AT	A	420	PASS	-	Del	-	1	8	MSH6	child	4_22014471_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
3a163a0c-3321-11e6-a8ea-b30f630e6611	13_82551803_CTAAC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	13	82551803	CTAA	C	540	PASS	-	Del	-	3	2	CHK2	child	13_82551803_CTAAC_CHK2	3	3	3	TAA	1	TAA	Repeat-mediated
3a179578-3272-11e6-bbeb-70bd19a91649	20_9381400_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	20	9381400	CT	C	300	PASS	PLCB4	Del	intronic	1	8	MSH6	child	20_9381400_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
3a1b6666-3273-11e6-9e18-3a69671699ea	10_61219591_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	61219591	GT	G	600	PASS	-	Del	-	1	7	MSH6	child	10_61219591_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
3a22655a-3292-11e6-919e-92c36f39e758	2_212054798_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	212054798	T	TA	300	PASS	-	Ins	-	1	9	MSH6	child	2_212054798_TTA_MSH6	1	1	-	-	-	-	Ins
3a289e5a-3271-11e6-9309-bdc34a47a305	8_100770058_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	100770058	AT	A	360	PASS	VPS13B	Del	intronic	1	6	MSH6	child	8_100770058_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
3a2cbbf8-329d-11e6-aca6-b39fcc638e3d	2_221448642_AGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	221448642	AG	A	600	PASS	AC067956.1	Del	intronic	1	5	MSH6	child	2_221448642_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
3a30304c-3277-11e6-998e-ba48fa52e078	8_119788903_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	119788903	TA	T	600	PASS	-	Del	-	1	7	MSH6	child	8_119788903_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
3a30ee3a-3275-11e6-b776-ad832aaffa45	13_92275878_TTA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	13	92275878	T	TA	360	PASS	GPC5	Ins	intronic	1	4	EXO1	child	13_92275878_TTA_EXO1	1	1	-	-	-	-	Ins
3a31394e-3293-11e6-9d24-ade56f39e758	7_143628813_TTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	143628813	T	TC	480	PASS	OR2F2	Ins	upstream	1	2	MSH6	child	7_143628813_TTC_MSH6	1	1	-	-	-	-	Ins
3a318c14-3289-11e6-ba61-6079a178171f	2_234643983_CTC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	2	234643983	CT	C	360	PASS	UGT1A6	Del	intronic	1	9	FANCC	child	2_234643983_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
3a35f08a-3287-11e6-9170-b6936f39e758	12_111966380_TTA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	12	111966380	T	TA	540	PASS	ATXN2	Ins	intronic	1	7	EXO1	child	12_111966380_TTA_EXO1	1	1	-	-	-	-	Ins
3a37011c-3275-11e6-a279-106e671699ea	3_170648202_TAT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	3	170648202	TA	T	660	PASS	-	Del	-	1	7	EXO1	parent	3_170648202_TAT_EXO1	1	1	1	A	6	A	Repeat-mediated
3a4ee57e-3271-11e6-9309-bdc34a47a305	8_100899976_AGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	100899976	AG	A	540	PASS	COX6C	Del	intronic	1	4	MSH6	child	8_100899976_AGA_MSH6	1	1	1	G	3	G	Repeat-mediated
3a4f000e-3294-11e6-9524-ab4c0d016689	5_82886428_AAAAAAAACTAACA	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	5	82886428	AAAAAAAACTAAC	A	300	PASS	-	Del	-	12	1	NUDT1	child	5_82886428_AAAAAAAACTAACA_NUDT1	12	>=10	7	AAAAAAA	0	-	Microhomology-mediated
3a60568c-3277-11e6-83cd-a472a178171f	4_157381684_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	157381684	TA	T	960	PASS	-	Del	-	1	6	MSH6	child	4_157381684_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
3a61c48c-328f-11e6-9230-fb250e01a414	3_84820033_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	84820033	GT	G	480	PASS	LINC00971	Del	intronic	1	5	MSH6	child	3_84820033_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
3a61dae2-3287-11e6-bc08-5710147bb207	3_173136369_CTTC	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	3	173136369	CTT	C	300	PASS	NLGN1	Del	intronic	2	3	FANCC	child	3_173136369_CTTC_FANCC	2	2	1	T	0	-	Microhomology-mediated
3a67e0e0-3291-11e6-9c89-8d090e01a414	1_224413269_CCAA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	224413269	C	CAA	420	PASS	NVL	Ins	downstream	2	6	MSH6	child	1_224413269_CCAA_MSH6	2	2	-	-	-	-	Ins
3a6c17ac-3285-11e6-8b2d-79a669062303	3_38211981_GTG	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	3	38211981	GT	G	300	PASS	OXSR1	Del	intronic	1	9	POLE	parent	3_38211981_GTG_POLE	1	1	1	T	8	T	Repeat-mediated
3a6e923e-3271-11e6-9309-bdc34a47a305	8_100940822_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	100940822	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	8_100940822_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
3a733838-3290-11e6-92cf-bf2a0e01a414	6_91743158_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	91743158	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	6_91743158_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
3a734ab6-3287-11e6-9766-8c8ca2c71c31	22_18217968_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	22	18217968	AT	A	600	PASS	BID	Del	3prime_UTR_variant	1	9	MSH6	child	22_18217968_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
3a7d0d1e-3294-11e6-b38a-97f8d8b4fa2c	4_2333245_CAC	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	4	2333245	CA	C	360	PASS	ZFYVE28	Del	intronic	1	8	NUDT1	child	4_2333245_CAC_NUDT1	1	1	1	A	7	A	Repeat-mediated
3a7e5e38-3291-11e6-b77d-2eef6f39e758	6_45489452_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	45489452	GT	G	540	PASS	RUNX2	Del	intronic	1	8	MSH6	child	6_45489452_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
3a89269c-328c-11e6-927f-cebe38e8a824	7_144886723_GTG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	7	144886723	GT	G	540	PASS	-	Del	-	1	4	NUDT1	parent	7_144886723_GTG_NUDT1	1	1	1	T	3	T	Repeat-mediated
3a893ea6-32a1-11e6-94ca-0aaecc638e3d	X_107367691_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	107367691	C	CT	420	PASS	ATG4A	Ins	intronic	1	8	MSH6	child	X_107367691_CCT_MSH6	1	1	-	-	-	-	Ins
3a8b1fb0-3291-11e6-99d8-a1aee7d0bdd7	8_88114834_CTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	8	88114834	CT	C	360	PASS	CNBD1	Del	intronic	1	8	FANCC	child	8_88114834_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
3a95ac3e-328a-11e6-a7cf-80090e01a414	15_63229728_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	63229728	GT	G	600	PASS	-	Del	-	1	7	MSH6	child	15_63229728_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
3a9c61e0-3254-11e6-89d3-d29498816cf3	2_76078432_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	76078432	TA	T	720	PASS	-	Del	-	1	8	MSH6	child	2_76078432_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
3a9f642a-329b-11e6-bda6-065325c9da85	13_108165490_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	108165490	AT	A	540	PASS	FAM155A	Del	intronic	1	7	MSH6	child	13_108165490_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
3aac85d6-3284-11e6-b835-607f2aaffa45	22_46033357_TTCTTTTTTTTTTCT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	22	46033357	TTCTTTTTTTTTTC	T	300	PASS	-	Del	-	13	1	POLE	child	22_46033357_TTCTTTTTTTTTTCT_POLE	13	>=10	1	T	0	-	Microhomology-mediated
3ab97eac-3276-11e6-aefa-bd46694da5d2	7_142415715_AGTTA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	7	142415715	AGTT	A	480	PASS	-	Del	-	3	3	CHK2	child	7_142415715_AGTTA_CHK2	3	3	3	GTT	2	GTT	Repeat-mediated
3ab99cc2-3288-11e6-8064-0e1e987b3f23	6_159539467_CTGC	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	6	159539467	CTG	C	300	PASS	RP11-13P5.1	Del	downstream	2	2	NEIL1	parent	6_159539467_CTGC_NEIL1	2	2	2	TG	1	TG	Repeat-mediated
3abbbc3c-3323-11e6-ae98-b2b5fa52e078	2_228248525_GAG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	2	228248525	GA	G	540	PASS	TM4SF20	Del	upstream	1	4	EXO1	child	2_228248525_GAG_EXO1	1	1	1	A	3	A	Repeat-mediated
3ac037e0-32a0-11e6-bc66-17b4cc638e3d	8_91535081_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	91535081	AT	A	600	PASS	LINC00534	Del	intronic	1	8	MSH6	child	8_91535081_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
3ac3518e-3258-11e6-885f-d1947872c165	4_148393507_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	148393507	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	4_148393507_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
3ac493e8-3274-11e6-a5d0-4fd14a47a305	2_162214645_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	162214645	AT	A	420	PASS	PSMD14	Del	intronic	1	7	MSH6	child	2_162214645_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
3acb5f88-3284-11e6-becf-9aabf4b7c17d	20_12546643_GAG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	20	12546643	GA	G	360	PASS	-	Del	-	1	9	FANCC	child	20_12546643_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
3acde7a6-329a-11e6-b129-195325c9da85	16_19747218_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	19747218	TA	T	300	PASS	IQCK	Del	intronic	1	8	MSH6	child	16_19747218_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
3ace33ae-328c-11e6-bd84-429305ad5bc4	1_88790954_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	88790954	CT	C	300	PASS	-	Del	-	1	7	MSH6	child	1_88790954_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
3acee560-3282-11e6-a5e9-0107694da5d2	7_147364903_TAT	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	7	147364903	TA	T	480	PASS	CNTNAP2	Del	intronic	1	8	NEIL1	child	7_147364903_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
3ad4bd56-329a-11e6-b129-195325c9da85	16_19749730_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	19749730	AC	A	660	PASS	IQCK	Del	intronic	1	8	MSH6	child	16_19749730_ACA_MSH6	1	1	1	C	7	C	Repeat-mediated
3ad4c444-3273-11e6-a5d0-4fd14a47a305	2_70975189_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	70975189	GT	G	660	PASS	ADD2	Del	intronic	1	7	MSH6	child	2_70975189_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
3ad66442-3256-11e6-a304-347a7872c165	1_186385148_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	186385148	CT	C	480	PASS	C1orf27	Del	intronic	1	8	MSH6	child	1_186385148_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
3ae4841e-329c-11e6-b549-1e5325c9da85	10_4550470_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	4550470	C	CA	420	PASS	-	Ins	-	1	9	MSH6	child	10_4550470_CCA_MSH6	1	1	-	-	-	-	Ins
3af93f46-3272-11e6-be56-9cdfd7fd0a58	4_41669281_ATA	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	4	41669281	AT	A	780	PASS	LIMCH1	Del	intronic	1	9	NUDT1	child	4_41669281_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
3b028e6a-3296-11e6-9985-7c540d016689	6_163809298_CGGCCCCACACCCAGCCCAGAGAGACAAAGGCCAGAGCAAATGGATTCCAGTCCCTGGACCCCAATTTCCAGTGAGGTCAGGGACCCAGGTGGGAAGTGAGCAGCGGGATGAAGTTGCAAGGGTGTCTCTGCTGCGCATCCCACTTTTACCATGATGTCCTGCATGCTTTTCTTCTGGAAGCACCAAAGGTCACTACCCACTCCTCCTGCAGAGAAAGCTGGCACTCACTCAGGTTTTAATCCTTTGGAGGGACAAACATACACATGTAGCAATTTGAGAAGATGCACAAAGCTATGTGTGAGAAGTGCCTGTGAATGCAGTCAGATCACACAGTCACACAAAACACAAAAAGGCTTCACAAAGGAACAGGGCCAGAGGAACTGATGTCCTACAGCAGTGGGCTTCAACCAGTCTTGAAGGGTACAATGGACCTGGATGGACAGTAAGATAAATGGAGACGCATTGCATGTAGGTGGTACCCACATGAACCAGCGCAGAGCAGCTGGATCTAGCTGACACACTGAAGTAACCAAGTACAGAATGGAAGTCCCCCATGATAGGGCCACAAAGAACTCTGCACAATGC	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	6	163809298	CGGCCCCACACCCAGCCCAGAGAGACAAAGGCCAGAGCAAATGGATTCCAGTCCCTGGACCCCAATTTCCAGTGAGGTCAGGGACCCAGGTGGGAAGTGAGCAGCGGGATGAAGTTGCAAGGGTGTCTCTGCTGCGCATCCCACTTTTACCATGATGTCCTGCATGCTTTTCTTCTGGAAGCACCAAAGGTCACTACCCACTCCTCCTGCAGAGAAAGCTGGCACTCACTCAGGTTTTAATCCTTTGGAGGGACAAACATACACATGTAGCAATTTGAGAAGATGCACAAAGCTATGTGTGAGAAGTGCCTGTGAATGCAGTCAGATCACACAGTCACACAAAACACAAAAAGGCTTCACAAAGGAACAGGGCCAGAGGAACTGATGTCCTACAGCAGTGGGCTTCAACCAGTCTTGAAGGGTACAATGGACCTGGATGGACAGTAAGATAAATGGAGACGCATTGCATGTAGGTGGTACCCACATGAACCAGCGCAGAGCAGCTGGATCTAGCTGACACACTGAAGTAACCAAGTACAGAATGGAAGTCCCCCATGATAGGGCCACAAAGAACTCTGCACAATG	C	360	PASS	-	Del	-	584	1	NUDT1	child	6_163809298_CGGCCCCACACCCAGCCCAGAGAGACAAAGGCCAGAGCAAATGGATTCCAGTCCCTGGACCCCAATTTCCAGTGAGGTCAGGGACCCAGGTGGGAAGTGAGCAGCGGGATGAAGTTGCAAGGGTGTCTCTGCTGCGCATCCCACTTTTACCATGATGTCCTGCATGCTTTTCTTCTGGAAGCACCAAAGGTCACTACCCACTCCTCCTGCAGAGAAAGCTGGCACTCACTCAGGTTTTAATCCTTTGGAGGGACAAACATACACATGTAGCAATTTGAGAAGATGCACAAAGCTATGTGTGAGAAGTGCCTGTGAATGCAGTCAGATCACACAGTCACACAAAACACAAAAAGGCTTCACAAAGGAACAGGGCCAGAGGAACTGATGTCCTACAGCAGTGGGCTTCAACCAGTCTTGAAGGGTACAATGGACCTGGATGGACAGTAAGATAAATGGAGACGCATTGCATGTAGGTGGTACCCACATGAACCAGCGCAGAGCAGCTGGATCTAGCTGACACACTGAAGTAACCAAGTACAGAATGGAAGTCCCCCATGATAGGGCCACAAAGAACTCTGCACAATGC_NUDT1	584	>=10	3	GGC	0	-	Microhomology-mediated
3b03fe30-328c-11e6-84c5-62cc977b3f23	13_74584852_CAC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	13	74584852	CA	C	600	PASS	KLF12	Del	intronic	1	7	NEIL1	child	13_74584852_CAC_NEIL1	1	1	1	A	6	A	Repeat-mediated
3b216824-3275-11e6-998e-ba48fa52e078	8_14277712_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	14277712	AT	A	480	PASS	SGCZ	Del	intronic	1	6	MSH6	child	8_14277712_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
3b21d072-3291-11e6-b81f-4ee66f39e758	8_103532478_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	103532478	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	8_103532478_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
3b23c2ec-328c-11e6-919e-92c36f39e758	2_47446257_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	47446257	TA	T	540	PASS	AC073283.4	Del	intronic	1	9	MSH6	child	2_47446257_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
3b37a750-332a-11e6-95a6-476ac042253c	3_117700886_AAAT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	3	117700886	A	AAT	360	PASS	LSAMP	Ins	intronic	2	6	CHK2	child	3_117700886_AAAT_CHK2	2	2	-	-	-	-	Ins
3b3e2302-328d-11e6-8566-7f5c694da5d2	11_61402665_TGCTGAAAGCCTCCAGAGAGTCACATATCTAAAT	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	11	61402665	TGCTGAAAGCCTCCAGAGAGTCACATATCTAAA	T	660	PASS	-	Del	-	32	1	POLM	child	11_61402665_TGCTGAAAGCCTCCAGAGAGTCACATATCTAAAT_POLM	32	>=10	1	G	0	-	Microhomology-mediated
3b4f60de-3285-11e6-be43-0a6ea2c71c31	10_73006287_CCAAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	73006287	CCAA	C	720	PASS	UNC5B	Del	intronic	3	2	MSH6	child	10_73006287_CCAAC_MSH6	3	3	3	CAA	1	CAA	Repeat-mediated
3b63905e-328a-11e6-8eee-76090e01a414	10_66049586_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	66049586	GT	G	360	PASS	-	Del	-	1	8	MSH6	child	10_66049586_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
3b67fae0-3299-11e6-ad17-c026c7271a47	9_114397150_CAC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	9	114397150	CA	C	780	PASS	DNAJC25	Del	intronic	1	9	CHK2	child	9_114397150_CAC_CHK2	1	1	1	A	8	A	Repeat-mediated
3b757eac-329b-11e6-8d0f-075325c9da85	14_97177665_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	97177665	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	14_97177665_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
3b79d824-328e-11e6-b9c4-751d0e01a414	5_133812907_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	133812907	GT	G	480	PASS	AC005355.1	Del	intronic	1	7	MSH6	child	5_133812907_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
3b7a96e2-3289-11e6-a8ac-a28ea2c71c31	3_161347282_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	161347282	GT	G	600	PASS	-	Del	-	1	8	MSH6	child	3_161347282_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
3b7bac54-3274-11e6-a2a4-305390e2c2e6	3_96895707_ATA	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	3	96895707	AT	A	300	PASS	EPHA6	Del	intronic	1	9	POLB	child	3_96895707_ATA_POLB	1	1	1	T	8	T	Repeat-mediated
3b8a41d8-3283-11e6-aa1d-e9782aaffa45	4_25358993_CTTGC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	4	25358993	CTTG	C	1020	PASS	ZCCHC4	Del	intronic	3	2	POLE	child	4_25358993_CTTGC_POLE	3	3	3	TTG	1	TTG	Repeat-mediated
3b8a798e-3277-11e6-a71d-236235cec73b	X_96491527_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	96491527	CT	C	300	PASS	DIAPH2	Del	intronic	1	9	MSH6	child	X_96491527_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3b92e02a-3276-11e6-9bb2-e658c225ee11	20_12600159_TAT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	20	12600159	TA	T	480	PASS	-	Del	-	1	7	EXO1	parent	20_12600159_TAT_EXO1	1	1	1	A	6	A	Repeat-mediated
3b99e38a-3270-11e6-8418-1c5942c4520d	3_27244766_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	27244766	GA	G	300	PASS	NEK10	Del	intronic	1	7	MSH6	child	3_27244766_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
3ba73bdc-326d-11e6-9003-ae204b47a305	19_32265841_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	32265841	GA	G	660	PASS	-	Del	-	1	6	MSH6	child	19_32265841_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
3bb1b624-3287-11e6-b093-c9c7b0dab373	2_230741775_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	230741775	TA	T	540	PASS	TRIP12	Del	intronic	1	8	MSH6	child	2_230741775_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
3bb39cf8-328e-11e6-bec1-ca1d0e01a414	X_78038933_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	78038933	GT	G	300	PASS	-	Del	-	1	3	MSH6	child	X_78038933_GTG_MSH6	1	1	1	T	2	T	Repeat-mediated
3bbd49ba-3289-11e6-b9eb-c78fa2c71c31	6_139535309_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	139535309	CA	C	552	PASS	-	Del	-	1	7	MSH6	child	6_139535309_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
3bbedfa8-329a-11e6-b129-195325c9da85	16_20009129_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	20009129	TA	T	1260	PASS	-	Del	-	1	8	MSH6	child	16_20009129_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
3bbf0690-329f-11e6-94ca-0aaecc638e3d	X_105139187_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	105139187	CT	C	360	PASS	NRK	Del	intronic	1	8	MSH6	child	X_105139187_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
3bbf0e4c-3286-11e6-8b67-086ea2c71c31	1_162142487_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	162142487	GT	G	540	PASS	NOS1AP	Del	intronic	1	8	MSH6	child	1_162142487_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
3bc3f4e8-326d-11e6-b9f4-5d1d694da5d2	14_62450234_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	62450234	GT	G	300	PASS	SYT16	Del	upstream	1	8	MSH6	child	14_62450234_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
3bc7ed6e-3259-11e6-a39a-dc8512ae24cf	8_101113419_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	101113419	TA	T	720	PASS	RGS22	Del	intronic	1	7	MSH6	child	8_101113419_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
3bdf8d8e-3290-11e6-b9c4-751d0e01a414	5_90643650_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	90643650	C	CA	660	PASS	-	Ins	-	1	1	MSH6	child	5_90643650_CCA_MSH6	1	1	-	-	-	-	Ins
3be4257c-3288-11e6-bb85-03a66f39e758	4_140310006_CTGC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	4	140310006	CTG	C	300	PASS	NAA15	Del	3prime_UTR_variant	2	1	EXO1	child	4_140310006_CTGC_EXO1	2	2	1	T	0	-	Microhomology-mediated
3be4b954-328a-11e6-8859-46b47098ee92	12_98174635_CTTC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	12	98174635	CTT	C	420	PASS	-	Del	-	2	4	NUDT1	child	12_98174635_CTTC_NUDT1	2	2	2	TT	2	T	Repeat-mediated
3be7cf12-329f-11e6-94ca-0aaecc638e3d	X_105224373_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	105224373	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	X_105224373_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3be972e0-328b-11e6-a80b-87090e01a414	11_121599531_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	121599531	TA	T	540	PASS	-	Del	-	1	8	MSH6	child	11_121599531_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
3beb79a2-3347-11e6-840b-09aab0dab373	1_118401247_TAAGCCAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	1	118401247	TAAGCCA	T	420	PASS	GDAP2	Del	downstream	6	1	FANCC	child	1_118401247_TAAGCCAT_FANCC	6	6	4	AAGC	0	-	Microhomology-mediated
3bef32c2-3289-11e6-bbaf-7c090e01a414	19_1154001_TGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	1154001	TG	T	360	PASS	SBNO2	Del	intronic	1	4	MSH6	child	19_1154001_TGT_MSH6	1	1	1	G	3	G	Repeat-mediated
3bf390c4-3289-11e6-b9eb-c78fa2c71c31	6_139640735_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	139640735	CA	C	600	PASS	-	Del	-	1	9	MSH6	child	6_139640735_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
3c03f0e2-3278-11e6-b068-16d27d6a9fc7	6_131324604_CCAATC	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	6	131324604	CCAAT	C	540	PASS	EPB41L2	Del	intronic	4	1	NEIL1	child	6_131324604_CCAATC_NEIL1	4	4	2	CA	0	-	Microhomology-mediated
3c065e7c-3273-11e6-aa3b-ca60a178171f	13_74859045_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	74859045	GT	G	660	PASS	-	Del	-	1	8	MSH6	child	13_74859045_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
3c2fb604-3288-11e6-8404-8e1fbce6aa09	8_102362482_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	102362482	TA	T	660	PASS	-	Del	-	1	8	MSH6	child	8_102362482_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
3c3b3d52-328e-11e6-9230-fb250e01a414	3_22953189_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	22953189	CA	C	420	PASS	-	Del	-	1	6	MSH6	child	3_22953189_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
3c3cb498-3275-11e6-998e-ba48fa52e078	8_14603416_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	14603416	AT	A	600	PASS	SGCZ	Del	intronic	1	9	MSH6	child	8_14603416_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
3c3dad10-3286-11e6-a8ad-04770d016689	9_128244969_GAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	9	128244969	GA	G	300	PASS	MAPKAP1	Del	intronic	1	6	EXO1	child	9_128244969_GAG_EXO1	1	1	1	A	5	A	Repeat-mediated
3c46e1be-3254-11e6-bf41-357a7872c165	10_50075956_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	50075956	TA	T	540	PASS	WDFY4	Del	intronic	1	7	MSH6	child	10_50075956_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
3c54d062-328b-11e6-938d-bbbd38e8a824	5_120809995_GAG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	5	120809995	GA	G	480	PASS	-	Del	-	1	3	NUDT1	parent	5_120809995_GAG_NUDT1	1	1	1	A	2	A	Repeat-mediated
3c54d5c6-3272-11e6-b80c-52782aaffa45	21_23739826_GAG	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	21	23739826	GA	G	300	PASS	AP000705.7	Del	intronic	1	1	NEIL1	child	21_23739826_GAG_NEIL1	1	1	0	-	0	A	None
3c58adda-3273-11e6-b332-88ba7d6a9fc7	15_62375726_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	62375726	GA	G	480	PASS	-	Del	-	1	7	MSH6	child	15_62375726_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
3c5b5ca4-3275-11e6-94a5-6c01ebb8d062	8_14461273_CCA	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	8	14461273	C	CA	300	PASS	SGCZ	Ins	intronic	1	5	NUDT1	child	8_14461273_CCA_NUDT1	1	1	-	-	-	-	Ins
3c67adf6-328e-11e6-919e-92c36f39e758	2_184675695_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	184675695	AT	A	660	PASS	-	Del	-	1	9	MSH6	child	2_184675695_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
3c6eba9e-325a-11e6-8340-da9012ae24cf	6_120865425_CCTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	120865425	CCT	C	540	PASS	-	Del	-	2	4	MSH6	child	6_120865425_CCTC_MSH6	2	2	2	CT	3	CT	Repeat-mediated
3c72089e-3272-11e6-abaf-4642cab49462	6_41719659_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	41719659	CT	C	600	PASS	PGC	Del	upstream	1	9	MSH6	child	6_41719659_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3c72bc80-3286-11e6-b093-c9c7b0dab373	2_151040208_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	151040208	AT	A	660	PASS	AC016682.1	Del	intronic	1	5	MSH6	child	2_151040208_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
3c743b96-328b-11e6-a7cf-80090e01a414	15_79979853_ATTGGTCACCATAAAAAGTATGTTGCCCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	79979853	ATTGGTCACCATAAAAAGTATGTTGCCC	A	480	PASS	-	Del	-	27	1	MSH6	child	15_79979853_ATTGGTCACCATAAAAAGTATGTTGCCCA_MSH6	27	>=10	4	TTGG	0	-	Microhomology-mediated
3c8a4184-3272-11e6-bbeb-70bd19a91649	20_10871581_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	20	10871581	CT	C	300	PASS	RP4-697P8.3	Del	intronic	1	9	MSH6	child	20_10871581_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3c8ca19e-3322-11e6-bda0-2f6519a91649	12_100133250_AGCTTTGACCTCC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	12	100133250	AGCTTTG	ACCTCC	300	PASS	ANKS1B	Complex	intronic	6	0	CHK2	child	12_100133250_AGCTTTGACCTCC_CHK2	1	1	-	-	-	-	Complex
3c901b02-326f-11e6-acc7-e55219a91649	1_231503935_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	231503935	TA	T	540	PASS	EGLN1	Del	intronic	1	9	MSH6	child	1_231503935_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
3c982dc2-3276-11e6-8c34-46e27872c165	5_57183235_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	57183235	CT	C	660	PASS	RP11-478P10.1	Del	downstream	1	7	MSH6	child	5_57183235_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
3c9b0120-326f-11e6-bfba-13bf4a47a305	9_86271876_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	86271876	TA	T	480	PASS	UBQLN1	Del	downstream	1	9	MSH6	child	9_86271876_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
3ca94eec-326f-11e6-b5b8-e0c24a47a305	X_18778458_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	18778458	AT	A	420	PASS	PPEF1	Del	intronic	1	8	MSH6	child	X_18778458_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
3caa0cf2-3291-11e6-835c-61b3e7d0bdd7	21_31624862_CTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	21	31624862	CT	C	420	PASS	-	Del	-	1	9	FANCC	child	21_31624862_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
3cab3422-3293-11e6-a645-5148a178171f	14_70302131_GTG	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	14	70302131	GT	G	360	PASS	-	Del	-	1	8	NEIL1	child	14_70302131_GTG_NEIL1	1	1	1	T	7	T	Repeat-mediated
3cac9b28-3284-11e6-93a7-4e498e4678dd	22_41558882_TTGGGCTAAATCTACATAACATACATCTAATGGATAGTAAAACCATGGAAAACACTGAAGTACTAAGGAACATTATTTCTTAATGTTAATTTTAATGTTCTTAATGTTGAATGTGAAACATTAAAGATCTAAACTTCTAGTTTGCAGTGAGGCCTTTTAGATCATGGAGGACTGACATGTATGTCTTCTAGATGTTCCTAAAATGGATGGGATGGTATTTGGATTTATTTGGAATTTTCAGCACCAGGAATCTGTCTTAAAAATTAGCCAGGTTTTGGCCGGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCCGGCTAAAACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTAGTGGCGGGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAACCTGGGAGGCGGAGCTTGCAGTGAGCCGAGATCCCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTTTGGCCGGGCACAGTGGCCCACATCTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGATCACCCAAGGTCAAGAGTTCGAGACCAGCCTGGCCAACATGGCAAAATCCCGTCTCTACTACAAATATATAAATTAGCTGTGCGTGGTGGTGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTGGAACCCGGGAGGCAGGGGTTGAAGTGAGCTGATATGACGCCACTGCACTCCAGCCTGGGCGACACAGAGAGACTCCATCTCAGAAAACAAAACAAAAAACAGCCAGGCATGATAGTATGTGCCTATCCTAGCCAGGTAGCTGAGAGGCCAAGGCAGGAAAATGGCTTGAGCCCAGGAGTTTAAGGTTGTAGTGAGCTGTGATCATGCCACCCACTCCAGCCTGTACAACAGAGACCCTATCTCTAAAAAAATAGAAACTTTATTAAAACTATTTTCAGTTCTTTGGTCATGACCTTGGCTGTCTTTGTCAGAAGTCATGGGAAATATTGCAAGTTTTCATTTGGTTAAGGTTTGGGGTTAATTTTGGAATTGGCTCTGCTCTTCCAGGTTTGTTGAATGTACAGAGTGCGGAAGAAAGATGCATCAGATCTGTGTCCTTCACCATGAGATCATCTGGCCTGCTGGGTAAGTCTTAACGTTGTTACTTTCTCTGGAATTTTTCTTTATCGTGAATATTAACAAGTTTTTTATTCTATGCAATTGACTGTATTATATCTTCAAAGTTACTATCTTTAAATTGTTTTCTTTGGGTTTGGCCACGATAATTATAGTTCGCTTTTTAAAAATTAAGTAACCTAGTATCCAAAAATAGATTTTTATCTTATTTTTATGCATTCTTCTTAGCCATATAAATATATTTTATTCTGCTGGATTGTTTATTAAAATTATATTGTAGTTATTACACATCAAAAGTAAATATTTATGGCCAGGCGAGGTGGCTCACGCCTGTAATCCCAGCACTTTGGTTAAAAATAGATAATTAT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	22	41558882	TTGGGCTAAATCTACATAACATACATCTAATGGATAGTAAAACCATGGAAAACACTGAAGTACTAAGGAACATTATTTCTTAATGTTAATTTTAATGTTCTTAATGTTGAATGTGAAACATTAAAGATCTAAACTTCTAGTTTGCAGTGAGGCCTTTTAGATCATGGAGGACTGACATGTATGTCTTCTAGATGTTCCTAAAATGGATGGGATGGTATTTGGATTTATTTGGAATTTTCAGCACCAGGAATCTGTCTTAAAAATTAGCCAGGTTTTGGCCGGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCCGGCTAAAACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTAGTGGCGGGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAACCTGGGAGGCGGAGCTTGCAGTGAGCCGAGATCCCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTTTGGCCGGGCACAGTGGCCCACATCTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGATCACCCAAGGTCAAGAGTTCGAGACCAGCCTGGCCAACATGGCAAAATCCCGTCTCTACTACAAATATATAAATTAGCTGTGCGTGGTGGTGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTGGAACCCGGGAGGCAGGGGTTGAAGTGAGCTGATATGACGCCACTGCACTCCAGCCTGGGCGACACAGAGAGACTCCATCTCAGAAAACAAAACAAAAAACAGCCAGGCATGATAGTATGTGCCTATCCTAGCCAGGTAGCTGAGAGGCCAAGGCAGGAAAATGGCTTGAGCCCAGGAGTTTAAGGTTGTAGTGAGCTGTGATCATGCCACCCACTCCAGCCTGTACAACAGAGACCCTATCTCTAAAAAAATAGAAACTTTATTAAAACTATTTTCAGTTCTTTGGTCATGACCTTGGCTGTCTTTGTCAGAAGTCATGGGAAATATTGCAAGTTTTCATTTGGTTAAGGTTTGGGGTTAATTTTGGAATTGGCTCTGCTCTTCCAGGTTTGTTGAATGTACAGAGTGCGGAAGAAAGATGCATCAGATCTGTGTCCTTCACCATGAGATCATCTGGCCTGCTGGGTAAGTCTTAACGTTGTTACTTTCTCTGGAATTTTTCTTTATCGTGAATATTAACAAGTTTTTTATTCTATGCAATTGACTGTATTATATCTTCAAAGTTACTATCTTTAAATTGTTTTCTTTGGGTTTGGCCACGATAATTATAGTTCGCTTTTTAAAAATTAAGTAACCTAGTATCCAAAAATAGATTTTTATCTTATTTTTATGCATTCTTCTTAGCCATATAAATATATTTTATTCTGCTGGATTGTTTATTAAAATTATATTGTAGTTATTACACATCAAAAGTAAATATTTATGGCCAGGCGAGGTGGCTCACGCCTGTAATCCCAGCACTTTGG	TTAAAAATAGATAATTAT	360	PASS	EP300	Complex	ess_splice	1593	0	FANCC	child	22_41558882_TTGGGCTAAATCTACATAACATACATCTAATGGATAGTAAAACCATGGAAAACACTGAAGTACTAAGGAACATTATTTCTTAATGTTAATTTTAATGTTCTTAATGTTGAATGTGAAACATTAAAGATCTAAACTTCTAGTTTGCAGTGAGGCCTTTTAGATCATGGAGGACTGACATGTATGTCTTCTAGATGTTCCTAAAATGGATGGGATGGTATTTGGATTTATTTGGAATTTTCAGCACCAGGAATCTGTCTTAAAAATTAGCCAGGTTTTGGCCGGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCCGGCTAAAACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTAGTGGCGGGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAACCTGGGAGGCGGAGCTTGCAGTGAGCCGAGATCCCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTTTGGCCGGGCACAGTGGCCCACATCTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGATCACCCAAGGTCAAGAGTTCGAGACCAGCCTGGCCAACATGGCAAAATCCCGTCTCTACTACAAATATATAAATTAGCTGTGCGTGGTGGTGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTGGAACCCGGGAGGCAGGGGTTGAAGTGAGCTGATATGACGCCACTGCACTCCAGCCTGGGCGACACAGAGAGACTCCATCTCAGAAAACAAAACAAAAAACAGCCAGGCATGATAGTATGTGCCTATCCTAGCCAGGTAGCTGAGAGGCCAAGGCAGGAAAATGGCTTGAGCCCAGGAGTTTAAGGTTGTAGTGAGCTGTGATCATGCCACCCACTCCAGCCTGTACAACAGAGACCCTATCTCTAAAAAAATAGAAACTTTATTAAAACTATTTTCAGTTCTTTGGTCATGACCTTGGCTGTCTTTGTCAGAAGTCATGGGAAATATTGCAAGTTTTCATTTGGTTAAGGTTTGGGGTTAATTTTGGAATTGGCTCTGCTCTTCCAGGTTTGTTGAATGTACAGAGTGCGGAAGAAAGATGCATCAGATCTGTGTCCTTCACCATGAGATCATCTGGCCTGCTGGGTAAGTCTTAACGTTGTTACTTTCTCTGGAATTTTTCTTTATCGTGAATATTAACAAGTTTTTTATTCTATGCAATTGACTGTATTATATCTTCAAAGTTACTATCTTTAAATTGTTTTCTTTGGGTTTGGCCACGATAATTATAGTTCGCTTTTTAAAAATTAAGTAACCTAGTATCCAAAAATAGATTTTTATCTTATTTTTATGCATTCTTCTTAGCCATATAAATATATTTTATTCTGCTGGATTGTTTATTAAAATTATATTGTAGTTATTACACATCAAAAGTAAATATTTATGGCCAGGCGAGGTGGCTCACGCCTGTAATCCCAGCACTTTGGTTAAAAATAGATAATTAT_FANCC	1576	>=10	-	-	-	-	Complex
3cad11b0-3280-11e6-8cd8-82e7b41afd22	7_134378301_CAAC	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	7	134378301	CAA	C	480	PASS	-	Del	-	2	3	POLM	child	7_134378301_CAAC_POLM	2	2	1	A	0	-	Microhomology-mediated
3caf4eda-3276-11e6-b89c-b448aea0a4d2	2_140733640_GATG	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	2	140733640	GAT	G	300	PASS	-	Del	-	2	5	POLM	child	2_140733640_GATG_POLM	2	2	2	AT	4	AT	Repeat-mediated
3cb83146-3274-11e6-9e18-3a69671699ea	10_123632025_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	123632025	AT	A	540	PASS	ATE1	Del	intronic	1	9	MSH6	child	10_123632025_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
3cc2b1d2-3258-11e6-9d15-298312ae24cf	X_113902517_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	113902517	CA	C	420	PASS	HTR2C	Del	intronic	1	7	MSH6	child	X_113902517_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
3cc30b5a-3276-11e6-a26e-5d0c25864c47	3_94149923_ACA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	3	94149923	AC	A	480	PASS	-	Del	-	1	4	CHK2	child	3_94149923_ACA_CHK2	1	1	1	C	3	C	Repeat-mediated
3cc409e6-3286-11e6-a673-6279a178171f	19_21360002_ATA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	19	21360002	AT	A	300	PASS	ZNF431	Del	intronic	1	6	FANCC	child	19_21360002_ATA_FANCC	1	1	1	T	5	T	Repeat-mediated
3cce584a-3256-11e6-a304-347a7872c165	1_187037306_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	187037306	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	1_187037306_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
3cd26ef0-328b-11e6-a70a-47793adbad45	3_158786511_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	3	158786511	AT	A	720	PASS	IQCJ-SCHIP1	Del	upstream	1	9	NUDT1	parent	3_158786511_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
3cd41f08-328a-11e6-aff5-85090e01a414	16_52941679_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	52941679	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	16_52941679_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3cd50772-3255-11e6-bf41-357a7872c165	10_116340454_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	116340454	AT	A	420	PASS	ABLIM1	Del	intronic	1	9	MSH6	child	10_116340454_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
3cdde45c-329e-11e6-8c2e-3f6625c9da85	22_21286731_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	22	21286731	CT	C	420	PASS	CRKL	Del	intronic	1	8	MSH6	child	22_21286731_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
3cde47ec-3273-11e6-be0b-bed2cde16804	14_88095995_GGT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	14	88095995	G	GT	480	PASS	CTD-2007A10.1	Ins	downstream	1	6	MSH6	parent	14_88095995_GGT_MSH6	1	1	-	-	-	-	Ins
3ce173f2-3284-11e6-83b0-2c6e0d016689	2_54804191_GTG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	2	54804191	GT	G	720	PASS	SPTBN1	Del	intronic	1	8	EXO1	child	2_54804191_GTG_EXO1	1	1	1	T	7	T	Repeat-mediated
3ce564e0-3274-11e6-90a5-ccdb6de4ab00	2_68981008_GTG	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	2	68981008	GT	G	360	PASS	ARHGAP25	Del	intronic	1	5	CHK2	child	2_68981008_GTG_CHK2	1	1	1	T	4	T	Repeat-mediated
3cee09ce-328d-11e6-9c89-8d090e01a414	1_234611772_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	234611772	TA	T	480	PASS	TARBP1	Del	intronic	1	8	MSH6	child	1_234611772_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
3cef9f92-3273-11e6-8f33-a6d9cde16804	11_75805536_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	75805536	CT	C	730	PASS	UVRAG	Del	intronic	1	7	MSH6	child	11_75805536_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
3cf0b960-3271-11e6-b439-e34b3cfdbd24	2_13636149_TAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	2	13636149	TA	T	720	PASS	-	Del	-	1	8	MSH6	parent	2_13636149_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
3cf1a6c6-3272-11e6-bbeb-70bd19a91649	20_11046552_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	20	11046552	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	20_11046552_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
3cf38030-3278-11e6-92d2-c259c225ee11	3_138886584_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	138886584	CT	C	505	PASS	MRPS22	Del	intronic	1	8	MSH6	child	3_138886584_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
3cf880ca-328d-11e6-9f18-f1d1996ede67	3_140771732_TCTGAT	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	3	140771732	TCTGA	T	300	PASS	SPSB4	Del	intronic	4	1	CHK2	child	3_140771732_TCTGAT_CHK2	4	4	3	CTG	0	-	Microhomology-mediated
3cf9d00a-329d-11e6-bc2c-2a5e25c9da85	4_22922141_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	22922141	CT	C	543	PASS	-	Del	-	1	9	MSH6	child	4_22922141_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3cfa2ffe-328f-11e6-88c8-e0035e753391	19_21177193_AAG	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	19	21177193	A	AG	600	PASS	-	Ins	-	1	0	POLB	child	19_21177193_AAG_POLB	1	1	-	-	-	-	Ins
3cfaea5a-3273-11e6-83ef-69fb06e9a829	18_59982061_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	59982061	TA	T	600	PASS	-	Del	-	1	2	MSH6	child	18_59982061_TAT_MSH6	1	1	1	A	1	A	Repeat-mediated
3d00e3ca-329f-11e6-b696-dd6225c9da85	5_139703526_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	139703526	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	5_139703526_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
3d050db8-328d-11e6-b9c4-751d0e01a414	5_62236928_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	62236928	GT	G	600	PASS	-	Del	-	1	8	MSH6	child	5_62236928_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
3d0afe02-3275-11e6-bf33-43b638e8a824	4_55474756_CCT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	4	55474756	C	CT	360	PASS	AC006552.1	Ins	upstream	1	6	NEIL1	child	4_55474756_CCT_NEIL1	1	1	-	-	-	-	Ins
3d10af6c-3321-11e6-9963-fc8c38e8a824	11_91990231_TAT	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	11	91990231	TA	T	420	PASS	-	Del	-	1	9	POLE	child	11_91990231_TAT_POLE	1	1	1	A	8	A	Repeat-mediated
3d1473ec-3289-11e6-a100-84090e01a414	18_880071_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	880071	AT	A	480	PASS	-	Del	-	1	7	MSH6	child	18_880071_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
3d1ad2cc-328f-11e6-8e48-791e0e01a414	8_110900841_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	110900841	CT	C	660	PASS	-	Del	-	1	9	MSH6	child	8_110900841_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3d1af85a-329a-11e6-ae71-0c5325c9da85	1_19852001_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	19852001	AT	A	420	PASS	-	Del	-	1	8	MSH6	child	1_19852001_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
3d1baae6-3279-11e6-9484-e5b5cc638e3d	6_104883954_CTC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	6	104883954	CT	C	360	PASS	-	Del	-	1	7	EXO1	child	6_104883954_CTC_EXO1	1	1	1	T	6	T	Repeat-mediated
3d1cf566-329e-11e6-91d0-016425c9da85	7_48356727_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	48356727	CT	C	840	PASS	ABCA13	Del	intronic	1	9	MSH6	child	7_48356727_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3d228660-326d-11e6-bc62-6d4742c4520d	16_47442534_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	47442534	CA	C	300	PASS	ITFG1	Del	intronic	1	9	MSH6	child	16_47442534_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
3d23068a-328b-11e6-9c89-8d090e01a414	1_112195908_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	112195908	GT	G	420	PASS	RAP1A	Del	intronic	1	9	MSH6	child	1_112195908_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
3d291c20-3275-11e6-acf7-070eebb8d062	6_114811229_GTTTTTAAACTG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	6	114811229	GTTTTTAAACT	G	600	PASS	RP3-399L15.1	Del	upstream	10	1	NUDT1	child	6_114811229_GTTTTTAAACTG_NUDT1	10	>=10	4	TTTT	0	-	Microhomology-mediated
3d2a5586-329d-11e6-b696-dd6225c9da85	5_12243817_TGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	12243817	TG	T	600	PASS	-	Del	-	1	5	MSH6	child	5_12243817_TGT_MSH6	1	1	1	G	4	G	Repeat-mediated
3d305882-328e-11e6-919e-92c36f39e758	2_184975257_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	184975257	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	2_184975257_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
3d38b508-3276-11e6-a924-afbd7d6a9fc7	2_231026678_ATA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	2	231026678	AT	A	300	PASS	-	Del	-	1	6	EXO1	child	2_231026678_ATA_EXO1	1	1	1	T	5	T	Repeat-mediated
3d3c5254-3289-11e6-9f78-a18aa178171f	7_34389683_GTG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	7	34389683	GT	G	1020	PASS	-	Del	-	1	5	FANCC	child	7_34389683_GTG_FANCC	1	1	1	T	4	T	Repeat-mediated
3d3cde64-3297-11e6-8876-266aa178171f	3_48829819_TGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCGTGACTGGCCCACTAAAGGTTTAATCTTTTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTCACTCTGTCACCCAGGCTGGAGTGCAGTGGCGTGATCTCAGCTCACCACAACCTCGGCCTCCCAGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGATTACAGGCGCCTGCCACCACACCCAGCTAATTTTTGTATTTTAGTAGAGACAAGGTTTCGCCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCCACCCT	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	3	48829819	TGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCGTGACTGGCCCACTAAAGGTTTAATCTTTTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTCACTCTGTCACCCAGGCTGGAGTGCAGTGGCGTGATCTCAGCTCACCACAACCTCGGCCTCCCAGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGATTACAGGCGCCTGCCACCACACCCAGCTAATTTTTGTATTTTAGTAGAGACAAGGTTTCGCCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCCACCC	T	300	PASS	PRKAR2A	Del	intronic	321	1	NEIL1	child	3_48829819_TGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCGTGACTGGCCCACTAAAGGTTTAATCTTTTTTTTTTTTTTTTTTTTTTTTGAGATGGAGTCTCACTCTGTCACCCAGGCTGGAGTGCAGTGGCGTGATCTCAGCTCACCACAACCTCGGCCTCCCAGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGATTACAGGCGCCTGCCACCACACCCAGCTAATTTTTGTATTTTAGTAGAGACAAGGTTTCGCCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCCACCCT_NEIL1	321	>=10	32	GCCTCGGCCTCCCAAAGTGCTGGGATTACAGG	0	-	Microhomology-mediated
3d59fdee-328f-11e6-8954-6972fc77b11e	4_44864953_GTTCG	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	4	44864953	GTTC	G	480	PASS	-	Del	-	3	3	POLE	child	4_44864953_GTTCG_POLE	3	3	3	TTC	2	TTC	Repeat-mediated
3d5da538-3277-11e6-92d2-c259c225ee11	3_63454568_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	63454568	AT	A	720	PASS	SYNPR	Del	intronic	1	9	MSH6	child	3_63454568_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
3d6797f0-326d-11e6-9fba-41ebd8b4fa2c	11_25584473_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	25584473	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	11_25584473_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3d6ab896-328f-11e6-8952-77c36f39e758	10_121659747_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	121659747	A	AT	1140	PASS	SEC23IP	Ins	intronic	1	5	MSH6	child	10_121659747_AAT_MSH6	1	1	-	-	-	-	Ins
3d7128c8-3287-11e6-b093-c9c7b0dab373	2_231335078_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	231335078	CT	C	300	PASS	SP100	Del	3prime_UTR_variant	1	8	MSH6	child	2_231335078_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
3d7b6338-329b-11e6-bbf7-b00798ba1142	3_127788703_CTGC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	3	127788703	CTG	C	780	PASS	SEC61A1	Del	3prime_UTR_variant	2	2	CHK2	child	3_127788703_CTGC_CHK2	2	2	2	TG	1	TG	Repeat-mediated
3d7cf2a4-3294-11e6-b574-0154e7d0bdd7	20_48545818_AGGGATA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	20	48545818	AGGGAT	A	360	PASS	-	Del	-	5	2	FANCC	child	20_48545818_AGGGATA_FANCC	5	5	5	GGGAT	1	GGGAT	Repeat-mediated
3d80adbe-328e-11e6-b9c4-751d0e01a414	5_134176805_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	134176805	AT	A	480	PASS	C5orf24	Del	upstream	1	6	MSH6	child	5_134176805_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
3d8547b6-328e-11e6-9777-62d8191589db	5_167677745_GTCCG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	5	167677745	GTCC	G	360	PASS	TENM2	Del	intronic	3	3	FANCC	child	5_167677745_GTCCG_FANCC	3	3	3	TCC	2	TCC	Repeat-mediated
3d8b135c-328a-11e6-af7e-81c435cec73b	4_63196901_TTA	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	4	63196901	T	TA	600	PASS	-	Ins	-	1	3	POLE	child	4_63196901_TTA_POLE	1	1	-	-	-	-	Ins
3d90ac14-328e-11e6-8f31-bfe16f39e758	9_23734820_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	23734820	CA	C	420	PASS	ELAVL2	Del	intronic	1	9	MSH6	child	9_23734820_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
3d9248b8-3256-11e6-a304-347a7872c165	1_187337152_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	187337152	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	1_187337152_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3d93fd10-3289-11e6-997d-e46e3adbad45	12_87257812_GGCCTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	12	87257812	G	GCCTC	540	PASS	-	Ins	-	4	0	NUDT1	parent	12_87257812_GGCCTC_NUDT1	4	4	-	-	-	-	Ins
3d960b72-328f-11e6-a1a1-958e3adbad45	11_86687467_TAT	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	11	86687467	TA	T	360	PASS	RP11-736K20.6	Del	intronic	1	6	NEIL1	child	11_86687467_TAT_NEIL1	1	1	1	A	5	A	Repeat-mediated
3d9cecf4-328e-11e6-8f31-bfe16f39e758	9_23764604_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	23764604	CT	C	600	PASS	ELAVL2	Del	intronic	1	9	MSH6	child	9_23764604_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3d9fa63c-328a-11e6-94b1-74090e01a414	17_47064668_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	47064668	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	17_47064668_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3da21a70-328f-11e6-b6a6-1f1e0e01a414	4_173339358_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	173339358	CT	C	300	PASS	GALNTL6	Del	intronic	1	8	MSH6	child	4_173339358_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
3dabfaa0-3289-11e6-ad64-7189a178171f	5_50430852_ACTTA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	5	50430852	ACTT	A	300	PASS	-	Del	-	3	2	FANCC	child	5_50430852_ACTTA_FANCC	3	3	3	CTT	1	CTT	Repeat-mediated
3dad21c8-327f-11e6-ba36-88d64dc77248	7_57625971_ATA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	7	57625971	AT	A	720	PASS	-	Del	-	1	7	NUDT1	child	7_57625971_ATA_NUDT1	1	1	1	T	6	T	Repeat-mediated
3db033b2-328a-11e6-bf15-aeb06f39e758	6_152187471_CTC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	6	152187471	CT	C	360	PASS	ESR1	Del	intronic	1	9	EXO1	child	6_152187471_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
3db03604-327c-11e6-8723-889be7d0bdd7	2_16273064_GAG	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	2	16273064	GA	G	480	PASS	-	Del	-	1	7	NUDT1	child	2_16273064_GAG_NUDT1	1	1	1	A	6	A	Repeat-mediated
3db19404-3277-11e6-92d2-c259c225ee11	3_63713924_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	63713924	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	3_63713924_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
3db3ae26-328e-11e6-bec1-ca1d0e01a414	X_78808680_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	78808680	AT	A	780	PASS	-	Del	-	1	7	MSH6	child	X_78808680_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
3dc507be-3281-11e6-924c-3208694da5d2	5_41964410_ATA	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	5	41964410	AT	A	480	PASS	-	Del	-	1	9	NEIL1	child	5_41964410_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
3dc84b28-3258-11e6-971b-98a02aaffa45	5_140224614_ATA	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	5	140224614	AT	A	540	PASS	PCDHA9	Del	upstream	1	4	POLM	child	5_140224614_ATA_POLM	1	1	1	T	3	T	Repeat-mediated
3dd6c3fa-326d-11e6-acc7-e55219a91649	1_68545485_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	68545485	CT	C	600	PASS	-	Del	-	1	9	MSH6	child	1_68545485_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3dd7db74-329e-11e6-8c2e-3f6625c9da85	22_21429401_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	22	21429401	TA	T	900	PASS	-	Del	-	1	9	MSH6	child	22_21429401_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
3dd93d10-329a-11e6-8d0f-075325c9da85	14_41846511_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	41846511	TA	T	540	PASS	-	Del	-	1	7	MSH6	child	14_41846511_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
3ddd3762-3254-11e6-a03d-40f212ae24cf	18_48692078_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	18	48692078	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	18_48692078_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
3de96d08-3276-11e6-8e2a-7f03630e6611	X_83190406_TTC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	X	83190406	T	TC	300	PASS	-	Ins	-	1	1	FANCC	child	X_83190406_TTC_FANCC	1	1	-	-	-	-	Ins
3dea62d2-3274-11e6-83ef-69fb06e9a829	18_50209493_GGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	50209493	G	GA	420	PASS	DCC	Ins	intronic	1	6	MSH6	child	18_50209493_GGA_MSH6	1	1	-	-	-	-	Ins
3df648d8-329a-11e6-8d0f-075325c9da85	14_41915977_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	41915977	AT	A	540	PASS	-	Del	-	1	6	MSH6	child	14_41915977_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
3dfc5874-329d-11e6-ae71-0c5325c9da85	1_198673581_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	198673581	AT	A	600	PASS	PTPRC	Del	intronic	1	8	MSH6	child	1_198673581_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
3dfcf35a-328f-11e6-9c89-8d090e01a414	1_87473645_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	87473645	A	AT	300	PASS	HS2ST1	Ins	intronic	1	6	MSH6	child	1_87473645_AAT_MSH6	1	1	-	-	-	-	Ins
3e077a30-328c-11e6-8770-3e160e01a414	9_37626325_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	37626325	GA	G	360	PASS	-	Del	-	1	7	MSH6	child	9_37626325_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
3e158c42-3287-11e6-a284-4b89a2c71c31	4_62365877_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	62365877	TA	T	600	PASS	LPHN3	Del	intronic	1	7	MSH6	child	4_62365877_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
3e35f67c-3290-11e6-903e-aa6919a91649	16_47506961_TTG	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	16	47506961	T	TG	360	PASS	PHKB	Ins	intronic	1	1	NEIL1	child	16_47506961_TTG_NEIL1	1	1	-	-	-	-	Ins
3e3ef98c-3328-11e6-868e-d16670cce0de	6_90331677_AAGA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	6	90331677	AAG	A	1140	PASS	ANKRD6	Del	frameshift	2	5	EXO1	child	6_90331677_AAGA_EXO1	2	2	2	AG	4	AG	Repeat-mediated
3e4f4b3a-3273-11e6-a5d0-4fd14a47a305	2_72279666_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	72279666	CA	C	360	PASS	-	Del	-	1	7	MSH6	child	2_72279666_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
3e55d944-3324-11e6-9c20-925172d7bc54	3_54877911_GGAAG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	3	54877911	GGAA	G	840	PASS	CACNA2D3	Del	intronic	3	3	EXO1	child	3_54877911_GGAAG_EXO1	3	3	3	GAA	2	GAA	Repeat-mediated
3e567170-3288-11e6-a284-4b89a2c71c31	4_157592355_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	157592355	AT	A	780	PASS	-	Del	-	1	6	MSH6	child	4_157592355_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
3e5b134a-3276-11e6-b89c-b448aea0a4d2	2_141315904_CAC	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	2	141315904	CA	C	420	PASS	LRP1B	Del	intronic	1	5	POLM	child	2_141315904_CAC_POLM	1	1	1	A	4	A	Repeat-mediated
3e5b223a-329a-11e6-bda6-065325c9da85	13_42122692_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	42122692	GA	G	480	PASS	-	Del	-	1	7	MSH6	child	13_42122692_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
3e5c71fc-328c-11e6-b90a-464ed5dcf142	5_123548369_GAG	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	5	123548369	GA	G	660	PASS	-	Del	-	1	8	NUDT1	child	5_123548369_GAG_NUDT1	1	1	1	A	7	A	Repeat-mediated
3e6150f0-3322-11e6-8b61-fad5c042253c	12_128865208_ATA	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	12	128865208	AT	A	540	PASS	TMEM132C	Del	intronic	1	4	CHK2	child	12_128865208_ATA_CHK2	1	1	1	T	3	T	Repeat-mediated
3e622174-328c-11e6-bd84-429305ad5bc4	1_90748651_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	90748651	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	1_90748651_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
3e66de3a-3255-11e6-89d3-d29498816cf3	2_186772173_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	186772173	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	2_186772173_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3e6976d4-3275-11e6-a924-afbd7d6a9fc7	2_166735896_TAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	2	166735896	TA	T	300	PASS	TTC21B	Del	intronic	1	5	EXO1	child	2_166735896_TAT_EXO1	1	1	1	A	4	A	Repeat-mediated
3e78c3f0-328e-11e6-b9c4-751d0e01a414	5_134539506_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	134539506	CT	C	540	PASS	C5orf66	Del	intronic	1	8	MSH6	child	5_134539506_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
3e7b54be-329b-11e6-b129-195325c9da85	16_64565242_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	64565242	GA	G	960	PASS	RP11-467L24.1	Del	intronic	1	9	MSH6	child	16_64565242_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
3e7ebdfa-3275-11e6-88b6-40832aaffa45	1_157810823_TAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	157810823	TA	T	540	PASS	CD5L	Del	intronic	1	9	EXO1	child	1_157810823_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
3e8ca79c-326d-11e6-9f48-94df41c4520d	12_52588158_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	52588158	CA	C	600	PASS	KRT80	Del	upstream	1	6	MSH6	child	12_52588158_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
3e8f07ea-3285-11e6-a8ad-04770d016689	9_5443118_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	9	5443118	AT	A	420	PASS	-	Del	-	1	8	EXO1	child	9_5443118_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
3e93e3c2-3254-11e6-89d3-d29498816cf3	2_77731333_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	77731333	AT	A	600	PASS	LRRTM4	Del	intronic	1	8	MSH6	child	2_77731333_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
3e97c542-328a-11e6-821d-8c090e01a414	13_77570909_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	77570909	AT	A	300	PASS	CLN5	Del	intronic	1	6	MSH6	child	13_77570909_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
3e99496c-3285-11e6-97d5-6cf1bbe6aa09	17_65463475_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	65463475	CT	C	540	PASS	PITPNC1	Del	intronic	1	9	MSH6	child	17_65463475_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3eb07c5c-3255-11e6-a349-7f23ee3c4f5d	3_18655663_TAT	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	3	18655663	TA	T	600	PASS	-	Del	-	1	9	POLB	child	3_18655663_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
3eb60ed8-3287-11e6-ba61-6079a178171f	2_104099122_ATA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	2	104099122	AT	A	480	PASS	-	Del	-	1	6	FANCC	child	2_104099122_ATA_FANCC	1	1	1	T	5	T	Repeat-mediated
3ec7b3ee-3323-11e6-a632-bec270cce0de	15_76793226_CAC	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	15	76793226	CA	C	600	PASS	SCAPER	Del	intronic	1	9	EXO1	child	15_76793226_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
3ec9c8d2-3288-11e6-a5b3-3f1ebce6aa09	7_3811873_AAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	3811873	A	AT	300	PASS	SDK1	Ins	intronic	1	6	MSH6	child	7_3811873_AAT_MSH6	1	1	-	-	-	-	Ins
3ec9d18e-3287-11e6-9c2b-e85751c54cdd	9_94818523_CTC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	9	94818523	CT	C	300	PASS	SPTLC1	Del	intronic	1	8	EXO1	child	9_94818523_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
3ed3eb5a-3274-11e6-a5d0-4fd14a47a305	2_164667115_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	164667115	TA	T	420	PASS	AC092684.1	Del	intronic	1	5	MSH6	child	2_164667115_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
3ed841e0-3293-11e6-b0a2-5048a178171f	10_56127133_GTG	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	10	56127133	GT	G	300	PASS	PCDH15	Del	intronic	1	3	NEIL1	child	10_56127133_GTG_NEIL1	1	1	1	T	2	T	Repeat-mediated
3ee2d2f8-3285-11e6-a0a8-096ea2c71c31	11_78379520_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	78379520	AT	A	480	PASS	TENM4	Del	intronic	1	9	MSH6	child	11_78379520_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
3ee38300-3272-11e6-9210-65fa620e6611	5_26625698_AACTGCATCTAATTTTTTACA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	5	26625698	AACTGCATCTAATTTTTTAC	A	360	PASS	-	Del	-	19	1	EXO1	parent	5_26625698_AACTGCATCTAATTTTTTACA_EXO1	19	>=10	2	AC	0	-	Microhomology-mediated
3ee66522-328e-11e6-bb1e-70e16f39e758	X_37297463_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	37297463	CA	C	480	PASS	PRRG1	Del	intronic	1	7	MSH6	child	X_37297463_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
3ee693b4-325a-11e6-8340-da9012ae24cf	6_121560804_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	121560804	AT	A	540	PASS	TBC1D32	Del	intronic	1	9	MSH6	child	6_121560804_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
3eeba690-3293-11e6-8d91-0b8730158702	1_155653639_TAAT	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	1	155653639	TAA	T	360	PASS	YY1AP1	Del	intronic	2	5	NUDT1	child	1_155653639_TAAT_NUDT1	2	2	2	AA	3	A	Repeat-mediated
3eec5c90-3282-11e6-b2ac-df03987b3f23	12_47651132_TAT	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	12	47651132	TA	T	420	PASS	RP11-493L12.4	Del	intronic	1	8	NEIL1	parent	12_47651132_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
3ef40e3c-329f-11e6-bc2c-2a5e25c9da85	4_151597269_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	151597269	AT	A	720	PASS	LRBA	Del	intronic	1	9	MSH6	child	4_151597269_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
3ef6a8ca-3346-11e6-994a-5ae3e9d19ece	11_63348137_CAC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	11	63348137	CA	C	300	PASS	PLA2G16	Del	intronic	1	8	FANCC	child	11_63348137_CAC_FANCC	1	1	1	A	7	A	Repeat-mediated
3ef7288a-3275-11e6-83cd-a472a178171f	4_8821854_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	8821854	TG	T	480	PASS	-	Del	-	1	8	MSH6	child	4_8821854_TGT_MSH6	1	1	1	G	7	G	Repeat-mediated
3efbeb18-3284-11e6-8362-ce9a69062303	9_28306271_ATGAAGAAGGTGAAAAGGAAAGGAAAGGAAAG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	9	28306271	ATGAAGAAGGTGAAAAGGA	AAGGAAAGGAAAG	275	PASS	LINGO2	Complex	intronic	18	0	FANCC	child	9_28306271_ATGAAGAAGGTGAAAAGGAAAGGAAAGGAAAG_FANCC	6	6	-	-	-	-	Complex
3f136580-328a-11e6-aff5-85090e01a414	16_53408119_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	53408119	CT	C	300	PASS	RP11-44F14.2	Del	upstream	1	9	MSH6	child	16_53408119_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3f16e778-3276-11e6-9e0f-7959cab49462	7_55890922_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	55890922	GT	G	960	PASS	SEPT14	Del	intronic	1	7	MSH6	child	7_55890922_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
3f1fc982-3254-11e6-89d3-d29498816cf3	2_78026031_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	78026031	CA	C	540	PASS	-	Del	-	1	6	MSH6	child	2_78026031_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
3f256dd2-328c-11e6-bd84-429305ad5bc4	1_91222269_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	91222269	CT	C	660	PASS	-	Del	-	1	9	MSH6	child	1_91222269_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
3f291b18-3272-11e6-94a5-6c01ebb8d062	8_27273606_TAT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	8	27273606	TA	T	660	PASS	PTK2B	Del	intronic	1	9	NUDT1	child	8_27273606_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
3f29650c-325c-11e6-8cd9-139b7872c165	3_148563748_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	148563748	A	AT	300	PASS	CPB1	Ins	intronic	1	8	MSH6	child	3_148563748_AAT_MSH6	1	1	-	-	-	-	Ins
3f3788fe-328d-11e6-bd84-429305ad5bc4	1_230799778_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	230799778	CA	C	300	PASS	COG2	Del	intronic	1	7	MSH6	child	1_230799778_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
3f3d7b7a-3282-11e6-86cf-8f288e4678dd	10_9062346_AAT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	10	9062346	A	AT	300	PASS	-	Ins	-	1	0	FANCC	child	10_9062346_AAT_FANCC	1	1	-	-	-	-	Ins
3f3e7e2e-3275-11e6-88b6-40832aaffa45	1_158106935_CAGC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	158106935	CAG	C	400	PASS	RP11-404O13.1	Del	intronic	2	6	EXO1	child	1_158106935_CAGC_EXO1	2	2	2	AG	5	AG	Repeat-mediated
3f3ecf4a-3285-11e6-a0a8-096ea2c71c31	11_78571766_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	78571766	AT	A	840	PASS	TENM4	Del	intronic	1	8	MSH6	child	11_78571766_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
3f428372-3273-11e6-9e18-3a69671699ea	10_62303276_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	62303276	GA	G	600	PASS	ANK3	Del	intronic	1	8	MSH6	child	10_62303276_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
3f50a7a0-3281-11e6-8857-3d859cdf095d	18_45521747_CAC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	18	45521747	CA	C	600	PASS	-	Del	-	1	7	POLE	child	18_45521747_CAC_POLE	1	1	1	A	6	A	Repeat-mediated
3f5c0678-3258-11e6-acc5-308412ae24cf	5_136578497_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	136578497	CA	C	780	PASS	SPOCK1	Del	intronic	1	8	MSH6	child	5_136578497_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
3f5dc09a-3275-11e6-acf7-070eebb8d062	6_115413289_TAT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	6	115413289	TA	T	420	PASS	-	Del	-	1	8	NUDT1	child	6_115413289_TAT_NUDT1	1	1	1	A	7	A	Repeat-mediated
3f609136-3279-11e6-8c34-46e27872c165	5_90643650_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	90643650	C	CA	660	PASS	-	Ins	-	1	1	MSH6	child	5_90643650_CCA_MSH6	1	1	-	-	-	-	Ins
3f751d10-326d-11e6-9fba-41ebd8b4fa2c	11_25985426_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	25985426	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	11_25985426_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
3f7f4938-325a-11e6-9d15-298312ae24cf	X_144739352_TTA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	144739352	T	TA	420	PASS	-	Ins	-	1	5	MSH6	child	X_144739352_TTA_MSH6	1	1	-	-	-	-	Ins
3f9b625e-3272-11e6-9b10-3e7da20b69d5	15_52123944_CTC	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	15	52123944	CT	C	300	PASS	TMOD3	Del	intronic	1	9	NUDT1	child	15_52123944_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
3f9cf92c-3324-11e6-9c20-925172d7bc54	3_55279987_TCT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	3	55279987	TC	T	600	PASS	-	Del	-	1	5	EXO1	child	3_55279987_TCT_EXO1	1	1	1	C	4	C	Repeat-mediated
3fa25742-3288-11e6-9317-6ba56f39e758	8_91365320_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	8	91365320	TA	T	360	PASS	LINC00534	Del	intronic	1	7	EXO1	child	8_91365320_TAT_EXO1	1	1	1	A	6	A	Repeat-mediated
3fa6705c-328d-11e6-a80b-87090e01a414	11_114989202_CCACAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	114989202	C	CACAT	300	PASS	-	Ins	-	4	0	MSH6	child	11_114989202_CCACAT_MSH6	4	4	-	-	-	-	Ins
3fb34fce-3257-11e6-9d5a-0c8112ae24cf	9_114198476_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	114198476	CA	C	360	PASS	KIAA0368	Del	intronic	1	9	MSH6	child	9_114198476_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
3fb8b882-3285-11e6-be43-0a6ea2c71c31	10_74198345_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	74198345	CA	C	696	PASS	MICU1	Del	intronic	1	8	MSH6	child	10_74198345_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
3fc21ea8-3295-11e6-b4c5-47357a852e0e	8_96547005_TAT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	8	96547005	TA	T	420	PASS	KB-1047C11.2	Del	intronic	1	7	CHK2	child	8_96547005_TAT_CHK2	1	1	1	A	6	A	Repeat-mediated
3fc34d3e-3347-11e6-8e2c-2279a20b69d5	12_13479701_GTGAGGT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	12	13479701	GTGA	GGT	300	PASS	-	Complex	-	3	0	FANCC	child	12_13479701_GTGAGGT_FANCC	1	1	-	-	-	-	Complex
3fc67d2e-3275-11e6-bfd3-a6593dc9300a	X_17486327_TAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	X	17486327	TA	T	480	PASS	NHS	Del	intronic	1	9	EXO1	child	X_17486327_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
3fc7e482-3259-11e6-a39a-dc8512ae24cf	8_102362482_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	102362482	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	8_102362482_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
3fd4052a-3293-11e6-8b9f-eea73adbad45	3_195809542_GAG	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	3	195809542	GA	G	660	PASS	TFRC	Del	upstream	1	4	NEIL1	child	3_195809542_GAG_NEIL1	1	1	1	A	3	A	Repeat-mediated
3fda1c5a-3291-11e6-92cf-bf2a0e01a414	6_156508530_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	156508530	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	6_156508530_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
3fe3c526-328b-11e6-8eee-76090e01a414	10_127643500_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	127643500	TA	T	360	PASS	FANK1	Del	intronic	1	7	MSH6	child	10_127643500_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
3feb0a2a-3254-11e6-8831-5505ee3c4f5d	1_213353505_TAT	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	1	213353505	TA	T	840	PASS	RPS6KC1	Del	intronic	1	9	POLB	child	1_213353505_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
3ffd8874-3274-11e6-8607-751ad9b4fa2c	22_34145110_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	22	34145110	CT	C	420	PASS	LARGE	Del	intronic	1	8	MSH6	child	22_34145110_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
3ffe2c96-3320-11e6-852e-0bcb24864c47	18_26421091_CAC	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	18	26421091	CA	C	780	PASS	-	Del	-	1	8	POLE	child	18_26421091_CAC_POLE	1	1	1	A	7	A	Repeat-mediated
3fffca26-328d-11e6-919e-92c36f39e758	2_116736519_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	116736519	AT	A	360	PASS	-	Del	-	1	5	MSH6	child	2_116736519_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
40129498-3289-11e6-a8ff-fbcd191589db	11_18134578_AGAGA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	11	18134578	AGAG	A	600	PASS	-	Del	-	3	3	FANCC	child	11_18134578_AGAGA_FANCC	3	3	3	GAG	2	GAG	Repeat-mediated
4023656e-3286-11e6-821e-69f1bbe6aa09	16_74987743_CCA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	74987743	C	CA	360	PASS	WDR59	Ins	intronic	1	6	MSH6	child	16_74987743_CCA_MSH6	1	1	-	-	-	-	Ins
40263dd2-328d-11e6-bfa2-581f0e01a414	7_34589867_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	34589867	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	7_34589867_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
403d1d54-3279-11e6-8c34-46e27872c165	5_90757999_GGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	90757999	G	GT	262	PASS	-	Ins	-	1	8	MSH6	child	5_90757999_GGT_MSH6	1	1	-	-	-	-	Ins
40466568-3273-11e6-b747-d9deed3c4f5d	X_2754999_CCTTC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	X	2754999	CCTT	C	509	PASS	GYG2	Del	intronic	3	1	MSH6	parent	X_2754999_CCTTC_MSH6	3	3	2	CT	0	-	Microhomology-mediated
40482b22-3274-11e6-b8ae-92c57872c165	14_41564029_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	41564029	C	CA	400	PASS	-	Ins	-	1	8	MSH6	child	14_41564029_CCA_MSH6	1	1	-	-	-	-	Ins
404db8c4-328f-11e6-8954-6972fc77b11e	4_46263899_TAT	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	4	46263899	TA	T	660	PASS	GABRA2	Del	intronic	1	1	POLE	child	4_46263899_TAT_POLE	1	1	0	-	0	A	None
4058e7fc-3272-11e6-abaf-4642cab49462	6_42389535_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	42389535	TA	T	360	PASS	TRERF1	Del	intronic	1	3	MSH6	child	6_42389535_TAT_MSH6	1	1	1	A	2	A	Repeat-mediated
405a2c80-328f-11e6-bb1e-70e16f39e758	X_70605324_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	70605324	CT	C	1080	PASS	TAF1	Del	intronic	1	9	MSH6	child	X_70605324_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
40640fc0-329e-11e6-91d0-016425c9da85	7_49180965_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	49180965	GT	G	360	PASS	-	Del	-	1	8	MSH6	child	7_49180965_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
406e2268-3270-11e6-8ed8-0863a78019ab	5_106794569_CTC	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	5	106794569	CT	C	660	PASS	EFNA5	Del	intronic	1	7	POLM	parent	5_106794569_CTC_POLM	1	1	1	T	6	T	Repeat-mediated
40731f12-3279-11e6-909e-86e86de4ab00	3_141262049_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	3	141262049	AT	A	480	PASS	RASA2	Del	intronic	1	9	EXO1	child	3_141262049_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
407495ec-329a-11e6-8d0f-075325c9da85	14_42801464_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	42801464	CA	C	840	PASS	-	Del	-	1	4	MSH6	child	14_42801464_CAC_MSH6	1	1	1	A	3	A	Repeat-mediated
4074ded6-3258-11e6-b4fa-e69a7872c165	21_47663396_CGC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	21	47663396	CG	C	540	PASS	MCM3AP	Del	frameshift	1	7	MSH6	child	21_47663396_CGC_MSH6	1	1	1	G	6	G	Repeat-mediated
407ec248-329e-11e6-bc2c-2a5e25c9da85	4_85597372_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	85597372	GA	G	660	PASS	WDFY3	Del	intronic	1	9	MSH6	child	4_85597372_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
407fbf28-328e-11e6-919e-92c36f39e758	2_186245765_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	186245765	CA	C	360	PASS	-	Del	-	1	9	MSH6	child	2_186245765_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
40877e9a-3273-11e6-975f-8246cab49462	16_50467226_GTCG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	50467226	GTC	G	420	PASS	-	Del	-	2	2	MSH6	child	16_50467226_GTCG_MSH6	2	2	2	TC	1	TC	Repeat-mediated
408f52ba-3277-11e6-9e0f-7959cab49462	7_120075534_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	120075534	AT	A	300	PASS	KCND2	Del	intronic	1	9	MSH6	child	7_120075534_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
40978988-3283-11e6-9881-48b254de4fc4	5_91937147_AAGTGA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	5	91937147	AAGTG	A	600	PASS	RP11-133F8.2	Del	intronic	4	1	FANCC	child	5_91937147_AAGTGA_FANCC	4	4	0	-	0	-	None
409c8d62-3273-11e6-9d14-07ddcde16804	18_31799544_ACA	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	18	31799544	AC	A	420	PASS	NOL4	Del	intronic	1	1	POLB	child	18_31799544_ACA_POLB	1	1	0	-	0	C	None
40a3cd36-3276-11e6-bfb2-2749c225ee11	12_128355646_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	128355646	C	CA	447	PASS	-	Ins	-	1	5	MSH6	child	12_128355646_CCA_MSH6	1	1	-	-	-	-	Ins
40a64f40-3274-11e6-aa3b-ca60a178171f	13_43322355_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	43322355	A	AT	480	PASS	-	Ins	-	1	8	MSH6	child	13_43322355_AAT_MSH6	1	1	-	-	-	-	Ins
40ac945c-3294-11e6-84ea-9945fa52e078	7_70033522_GAG	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	7	70033522	GA	G	300	PASS	AUTS2	Del	intronic	1	9	NUDT1	child	7_70033522_GAG_NUDT1	1	1	1	A	8	A	Repeat-mediated
40bb244e-328b-11e6-b90a-464ed5dcf142	5_22244255_CAATTC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	5	22244255	CAATT	C	420	PASS	CDH12	Del	intronic	4	1	NUDT1	child	5_22244255_CAATTC_NUDT1	4	4	3	AAT	0	-	Microhomology-mediated
40c2f72e-3276-11e6-b96a-e20a1ea8ec0e	7_136886561_CTC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	7	136886561	CT	C	300	PASS	-	Del	-	1	8	FANCC	child	7_136886561_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
40cab4bc-3282-11e6-906b-a52236fc2f7d	15_83892303_CAC	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	15	83892303	CA	C	495	PASS	-	Del	-	1	5	NUDT1	child	15_83892303_CAC_NUDT1	1	1	1	A	4	A	Repeat-mediated
40d5846a-3277-11e6-a2b7-2d8b671699ea	21_9987171_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	21	9987171	C	CA	357	PASS	-	Ins	-	1	3	MSH6	child	21_9987171_CCA_MSH6	1	1	-	-	-	-	Ins
40e4bd4a-326d-11e6-9003-ae204b47a305	19_33452561_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	33452561	CT	C	300	PASS	CEP89	Del	intronic	1	8	MSH6	child	19_33452561_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
40e6664c-328e-11e6-a471-36059c6d3b88	12_77714499_GTATTTTG	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	12	77714499	GTATTTT	G	540	PASS	RP1-34H18.1	Del	upstream	6	1	POLB	child	12_77714499_GTATTTTG_POLB	6	6	2	TA	0	-	Microhomology-mediated
40eb583e-328c-11e6-8770-3e160e01a414	9_38301345_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	38301345	CT	C	840	PASS	-	Del	-	1	7	MSH6	child	9_38301345_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
40f2081c-3257-11e6-acc5-308412ae24cf	5_58396623_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	58396623	GT	G	600	PASS	PDE4D	Del	intronic	1	5	MSH6	child	5_58396623_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
40fedf66-328d-11e6-b8e6-91c36f39e758	11_114522812_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	114522812	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	11_114522812_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
4104bc48-3327-11e6-95a6-476ac042253c	3_157355508_TAT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	3	157355508	TA	T	300	PASS	-	Del	-	1	8	CHK2	child	3_157355508_TAT_CHK2	1	1	1	A	7	A	Repeat-mediated
411413e0-3256-11e6-9d5a-0c8112ae24cf	9_29832963_TGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	29832963	TG	T	660	PASS	-	Del	-	1	6	MSH6	child	9_29832963_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
411c35ae-3326-11e6-9c15-89c8cde16804	6_106462629_ATA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	6	106462629	AT	A	480	PASS	-	Del	-	1	9	POLE	child	6_106462629_ATA_POLE	1	1	1	T	8	T	Repeat-mediated
411da2c6-3273-11e6-9e18-3a69671699ea	10_62838611_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	62838611	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	10_62838611_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
4125a41a-3275-11e6-8b60-4700d9b4fa2c	10_99846618_TTA	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	10	99846618	T	TA	480	PASS	-	Ins	-	1	6	NUDT1	child	10_99846618_TTA_NUDT1	1	1	-	-	-	-	Ins
4128918e-3257-11e6-9d5a-0c8112ae24cf	9_114486629_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	114486629	CT	C	600	PASS	C9orf84	Del	intronic	1	8	MSH6	child	9_114486629_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
4131c950-3321-11e6-a947-acb5cde16804	15_55202654_CAC	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	15	55202654	CA	C	480	PASS	-	Del	-	1	5	POLE	child	15_55202654_CAC_POLE	1	1	1	A	4	A	Repeat-mediated
4131d34a-328c-11e6-9c89-8d090e01a414	1_177828586_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	177828586	GT	G	420	PASS	-	Del	-	1	9	MSH6	child	1_177828586_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
4133b52e-3274-11e6-bfb2-2749c225ee11	12_123793061_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	123793061	CA	C	600	PASS	SBNO1	Del	intronic	1	8	MSH6	child	12_123793061_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
414603f4-3275-11e6-bf90-64cd7872c165	6_107889882_TGTGT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	6	107889882	TGTG	T	600	PASS	SOBP	Del	intronic	3	2	POLM	child	6_107889882_TGTGT_POLM	3	3	3	GTG	1	GTG	Repeat-mediated
41525340-3273-11e6-a5d0-4fd14a47a305	2_73585842_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	73585842	CT	C	540	PASS	-	Del	-	1	7	MSH6	child	2_73585842_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
4156b23c-325a-11e6-885f-d1947872c165	4_95615106_AATC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	95615106	A	ATC	360	PASS	RP11-554D13.1	Ins	intronic	2	6	MSH6	child	4_95615106_AATC_MSH6	2	2	-	-	-	-	Ins
4162ad32-3285-11e6-b093-c9c7b0dab373	2_66120923_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	66120923	CA	C	360	PASS	AC074391.1	Del	intronic	1	8	MSH6	child	2_66120923_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
416c7220-3291-11e6-b81f-4ee66f39e758	8_104974067_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	104974067	AT	A	720	PASS	RIMS2	Del	intronic	1	7	MSH6	child	8_104974067_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
417344d0-3325-11e6-ac04-f58619a91649	3_102340887_CAC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	3	102340887	CA	C	280	PASS	-	Del	-	1	9	CHK2	child	3_102340887_CAC_CHK2	1	1	1	A	8	A	Repeat-mediated
417b850c-328d-11e6-919e-92c36f39e758	2_117306562_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	117306562	GT	G	660	PASS	-	Del	-	1	9	MSH6	child	2_117306562_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
417db488-328f-11e6-b6a6-1f1e0e01a414	4_174344510_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	174344510	CA	C	360	PASS	-	Del	-	1	6	MSH6	child	4_174344510_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
417dd47e-3292-11e6-a1ea-b9b6e7d0bdd7	11_75396569_TGT	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	11	75396569	TG	T	360	PASS	-	Del	-	1	1	NUDT1	child	11_75396569_TGT_NUDT1	1	1	0	-	0	G	None
418c0024-3258-11e6-8cd9-139b7872c165	3_52402598_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	52402598	CA	C	360	PASS	DNAH1	Del	intronic	1	7	MSH6	child	3_52402598_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
418fb328-3289-11e6-821d-8c090e01a414	13_20786569_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	20786569	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	13_20786569_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
41950734-3288-11e6-a8ac-a28ea2c71c31	3_57452483_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	57452483	AT	A	420	PASS	DNAH12	Del	intronic	1	9	MSH6	child	3_57452483_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
41a2243a-329e-11e6-b696-dd6225c9da85	5_73966011_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	73966011	GT	G	540	PASS	-	Del	-	1	8	MSH6	child	5_73966011_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
41a93cc8-3287-11e6-a5b3-3f1ebce6aa09	7_75352073_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	75352073	AT	A	540	PASS	HIP1	Del	intronic	1	8	MSH6	child	7_75352073_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
41aab47a-327a-11e6-b5ff-0de46de4ab00	5_160274668_AAT	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	5	160274668	A	AT	360	PASS	ATP10B	Ins	intronic	1	4	POLB	child	5_160274668_AAT_POLB	1	1	-	-	-	-	Ins
41b161be-3291-11e6-b9c4-751d0e01a414	5_173598075_CCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	173598075	C	CT	300	PASS	-	Ins	-	1	6	MSH6	child	5_173598075_CCT_MSH6	1	1	-	-	-	-	Ins
41b4d756-3271-11e6-9309-bdc34a47a305	8_103426366_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	103426366	GT	G	300	PASS	UBR5	Del	upstream	1	9	MSH6	child	8_103426366_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
41b8b9ca-3276-11e6-81cf-37408a20d9eb	8_16693848_TCT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	8	16693848	TC	T	300	PASS	RP11-13N12.1	Del	intronic	1	2	EXO1	child	8_16693848_TCT_EXO1	1	1	1	C	1	C	Repeat-mediated
41bcc978-3278-11e6-a391-f6d67d6a9fc7	6_46333252_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	46333252	GA	G	300	PASS	RCAN2	Del	intronic	1	7	MSH6	child	6_46333252_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
41c7c948-3270-11e6-8a6f-43b190e2c2e6	11_89401689_ATA	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	11	89401689	AT	A	674	PASS	-	Del	-	1	3	POLB	child	11_89401689_ATA_POLB	1	1	1	T	2	T	Repeat-mediated
41cbb402-329a-11e6-8069-175325c9da85	12_22965431_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	22965431	AT	A	480	PASS	RP11-114G22.1	Del	intronic	1	2	MSH6	child	12_22965431_ATA_MSH6	1	1	1	T	1	T	Repeat-mediated
41d372e2-328f-11e6-84a5-b1e2977b3f23	7_45936869_TAT	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	7	45936869	TA	T	660	PASS	IGFBP1	Del	downstream	1	8	NEIL1	child	7_45936869_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
41d3bf6e-328e-11e6-8f31-bfe16f39e758	9_25312096_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	25312096	GT	G	480	PASS	-	Del	-	1	6	MSH6	child	9_25312096_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
41dd8e94-3271-11e6-9309-bdc34a47a305	8_103453230_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	103453230	GA	G	360	PASS	-	Del	-	1	9	MSH6	child	8_103453230_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
41e33c82-3293-11e6-a9cd-ea307a852e0e	9_123861775_TCTCT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	9	123861775	TCTC	T	420	PASS	CNTRL	Del	intronic	3	2	CHK2	child	9_123861775_TCTCT_CHK2	3	3	3	CTC	1	CTC	Repeat-mediated
41e60c9a-3285-11e6-987c-0aa669062303	22_50232381_TCT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	22	50232381	TC	T	360	PASS	RP3-522J7.6	Del	upstream	1	1	POLE	parent	22_50232381_TCT_POLE	1	1	0	-	0	C	None
41fefaae-3274-11e6-9e18-3a69671699ea	10_125100791_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	125100791	GA	G	393	PASS	-	Del	-	1	7	MSH6	child	10_125100791_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
42026d7c-3285-11e6-821e-69f1bbe6aa09	16_75762972_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	75762972	AT	A	600	PASS	-	Del	-	1	6	MSH6	child	16_75762972_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
42117494-328e-11e6-8f31-bfe16f39e758	9_25382574_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	25382574	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	9_25382574_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
4215f2ba-329f-11e6-b696-dd6225c9da85	5_140584079_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	140584079	CT	C	660	PASS	PCDHB12	Del	upstream	1	5	MSH6	child	5_140584079_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
42196a74-334b-11e6-be18-768ca20b69d5	3_160891820_CTC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	3	160891820	CT	C	300	PASS	NMD3	Del	intronic	1	7	FANCC	child	3_160891820_CTC_FANCC	1	1	1	T	6	T	Repeat-mediated
421b61f0-329f-11e6-8c2e-3f6625c9da85	22_34389481_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	22	34389481	G	GA	420	PASS	-	Ins	-	1	8	MSH6	child	22_34389481_GGA_MSH6	1	1	-	-	-	-	Ins
421fde64-3287-11e6-b7eb-5479a178171f	12_107700281_ATCTTGATGTCTAATGA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	12	107700281	ATCTTGATGTCTAATG	A	540	PASS	-	Del	-	15	1	FANCC	child	12_107700281_ATCTTGATGTCTAATGA_FANCC	15	>=10	1	T	0	-	Microhomology-mediated
422557c0-3284-11e6-83b0-2c6e0d016689	2_56721299_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	2	56721299	AT	A	360	PASS	-	Del	-	1	9	EXO1	child	2_56721299_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
422b6f62-326f-11e6-acc7-e55219a91649	1_233489076_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	233489076	TA	T	360	PASS	MLK4	Del	intronic	1	5	MSH6	child	1_233489076_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
422bdc44-3252-11e6-b4a3-5805ee3c4f5d	13_79308236_GTCG	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	13	79308236	GTC	G	660	PASS	-	Del	-	2	2	POLB	child	13_79308236_GTCG_POLB	2	2	2	TC	1	TC	Repeat-mediated
422faaec-328c-11e6-9c89-8d090e01a414	1_178100220_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	178100220	CA	C	300	PASS	RASAL2	Del	intronic	1	9	MSH6	child	1_178100220_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
4230f040-328d-11e6-bfa2-581f0e01a414	7_35442363_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	35442363	TA	T	600	PASS	-	Del	-	1	8	MSH6	child	7_35442363_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
4239cdca-3290-11e6-9401-04ed6f39e758	3_18718512_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	18718512	CT	C	415	PASS	-	Del	-	1	9	MSH6	child	3_18718512_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
423bf078-3277-11e6-a71d-236235cec73b	X_98740465_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	98740465	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	X_98740465_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
423dd888-325a-11e6-8340-da9012ae24cf	6_122344582_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	122344582	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	6_122344582_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
424a1726-3253-11e6-b4a3-5805ee3c4f5d	13_71492734_TTA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	13	71492734	T	TA	480	PASS	-	Ins	-	1	7	POLB	child	13_71492734_TTA_POLB	1	1	-	-	-	-	Ins
424ea898-328c-11e6-aa75-90c36f39e758	13_65424028_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	65424028	AT	A	420	PASS	-	Del	-	1	7	MSH6	child	13_65424028_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
424f07fc-3273-11e6-911e-695d66a58581	21_23889621_TAT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	21	23889621	TA	T	300	PASS	AP000959.2	Del	intronic	1	6	POLB	child	21_23889621_TAT_POLB	1	1	1	A	5	A	Repeat-mediated
42530d32-328e-11e6-b6a6-1f1e0e01a414	4_113021101_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	113021101	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	4_113021101_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
425531e8-3275-11e6-86e1-8d021ea8ec0e	X_100896918_CTC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	X	100896918	CT	C	420	PASS	-	Del	-	1	9	POLB	child	X_100896918_CTC_POLB	1	1	1	T	8	T	Repeat-mediated
4258a6a4-3322-11e6-bc94-01ed0322d171	16_83203132_CTC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	16	83203132	CT	C	300	PASS	CDH13	Del	intronic	1	9	EXO1	child	16_83203132_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
4261f6ee-3324-11e6-a3ad-101f42c4520d	22_26753604_AAAT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	22	26753604	A	AAT	600	PASS	SEZ6L	Ins	intronic	2	4	CHK2	child	22_26753604_AAAT_CHK2	2	2	-	-	-	-	Ins
4263d0fc-3272-11e6-b89d-b2d6b0dab373	4_183987318_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	183987318	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	4_183987318_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
42687058-328b-11e6-b805-77090e01a414	2_133169914_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	133169914	TA	T	420	PASS	GPR39	Del	upstream	1	9	MSH6	child	2_133169914_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
426882e6-326d-11e6-b2ac-b6204b47a305	17_38408408_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	38408408	TA	T	300	PASS	WIPF2	Del	intronic	1	8	MSH6	child	17_38408408_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
426c1264-3270-11e6-8418-1c5942c4520d	3_30073945_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	30073945	GT	G	360	PASS	-	Del	-	1	7	MSH6	child	3_30073945_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
426d1ce2-328c-11e6-ac7a-a3c36f39e758	18_49352100_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	49352100	CA	C	360	PASS	-	Del	-	1	4	MSH6	child	18_49352100_CAC_MSH6	1	1	1	A	3	A	Repeat-mediated
4271e888-3293-11e6-8fe7-6c0fb968caf4	13_102726304_CCTC	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	13	102726304	CCT	C	360	PASS	FGF14	Del	intronic	2	5	POLB	child	13_102726304_CCTC_POLB	2	2	2	CT	4	CT	Repeat-mediated
4273bf06-3274-11e6-84df-cb0cebb8d062	14_73536922_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	14	73536922	AT	A	360	PASS	RBM25	Del	intronic	1	9	EXO1	child	14_73536922_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
427f3ffe-329a-11e6-a0ea-135325c9da85	15_37453232_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	37453232	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	15_37453232_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
4294421e-329a-11e6-bda6-065325c9da85	13_43051548_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	43051548	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	13_43051548_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
42947db0-3349-11e6-a9cc-a0a270cce0de	2_219716603_GTTCAAGCGATTCG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	2	219716603	GTTCAAGCGATTC	G	480	PASS	-	Del	-	12	1	FANCC	child	2_219716603_GTTCAAGCGATTCG_FANCC	12	>=10	1	T	0	-	Microhomology-mediated
42966d96-329a-11e6-8d0f-075325c9da85	14_43280866_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	43280866	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	14_43280866_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
429a1884-3276-11e6-83cd-a472a178171f	4_86826427_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	86826427	AT	A	660	PASS	ARHGAP24	Del	intronic	1	7	MSH6	child	4_86826427_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
429af2aa-3257-11e6-91d3-a68412ae24cf	7_56711072_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	56711072	AT	A	360	PASS	-	Del	-	1	6	MSH6	child	7_56711072_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
429d2442-329a-11e6-9048-b49fcc638e3d	17_17989415_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	17989415	CA	C	420	PASS	DRG2	Del	upstream	1	9	MSH6	child	17_17989415_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
42a0a6b8-328f-11e6-81d1-7ea5e7d0bdd7	3_164417398_ATA	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	3	164417398	AT	A	540	PASS	-	Del	-	1	7	POLM	child	3_164417398_ATA_POLM	1	1	1	T	6	T	Repeat-mediated
42a5a454-328c-11e6-bd84-429305ad5bc4	1_92692615_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	92692615	CT	C	600	PASS	C1orf146	Del	intronic	1	8	MSH6	child	1_92692615_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
42a71a2a-3325-11e6-95a6-476ac042253c	3_35055755_TAT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	3	35055755	TA	T	285	PASS	-	Del	-	1	7	CHK2	child	3_35055755_TAT_CHK2	1	1	1	A	6	A	Repeat-mediated
42aa1ef2-326f-11e6-819e-9d1aa20b69d5	11_29022009_ACCATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	11	29022009	ACCAT	A	660	PASS	RP11-115J23.1	Del	intronic	4	1	EXO1	parent	11_29022009_ACCATA_EXO1	4	4	0	-	0	-	None
42c54e98-3274-11e6-8f33-a6d9cde16804	11_26991907_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	26991907	C	CA	261	PASS	-	Ins	-	1	5	MSH6	child	11_26991907_CCA_MSH6	1	1	-	-	-	-	Ins
42cfc8c2-3257-11e6-89d3-d29498816cf3	2_157128113_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	157128113	C	CA	600	PASS	-	Ins	-	1	7	MSH6	child	2_157128113_CCA_MSH6	1	1	-	-	-	-	Ins
42d83d24-329b-11e6-aca6-b39fcc638e3d	2_96735513_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	96735513	CT	C	315	PASS	-	Del	-	1	7	MSH6	child	2_96735513_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
42ea2ad4-328c-11e6-bbaf-7c090e01a414	19_57384508_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	57384508	C	CA	360	PASS	-	Ins	-	1	6	MSH6	child	19_57384508_CCA_MSH6	1	1	-	-	-	-	Ins
42eba7fc-3321-11e6-86a6-3f737098ee92	14_54828522_ACAAAAATTAGCCAGGA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	14	54828522	ACAAAAATTAGCCAGG	A	420	PASS	-	Del	-	15	1	POLE	child	14_54828522_ACAAAAATTAGCCAGGA_POLE	15	>=10	1	C	0	-	Microhomology-mediated
42fa90d6-32a0-11e6-bc66-17b4cc638e3d	8_94183870_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	94183870	GA	G	480	PASS	C8orf87	Del	upstream	1	8	MSH6	child	8_94183870_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
4305f180-3271-11e6-a15b-aa11cd638e3d	13_60029172_CTC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	13	60029172	CT	C	540	PASS	-	Del	-	1	6	CHK2	child	13_60029172_CTC_CHK2	1	1	1	T	5	T	Repeat-mediated
43081820-3285-11e6-ac69-110e987b3f23	X_87940746_TAT	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	X	87940746	TA	T	360	PASS	-	Del	-	1	4	NEIL1	parent	X_87940746_TAT_NEIL1	1	1	1	A	3	A	Repeat-mediated
431051a6-329f-11e6-b696-dd6225c9da85	5_140881906_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	140881906	AT	A	900	PASS	PCDHGA12	Del	intronic	1	7	MSH6	child	5_140881906_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
431697ee-326f-11e6-b5b8-e0c24a47a305	X_21638938_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	21638938	GA	G	480	PASS	CNKSR2	Del	intronic	1	8	MSH6	child	X_21638938_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
4320a042-3254-11e6-8ebc-3ef212ae24cf	15_57532489_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	57532489	TA	T	480	PASS	TCF12	Del	intronic	1	7	MSH6	child	15_57532489_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
43268c56-32a3-11e6-b970-398625c9da85	20_57048292_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	57048292	CT	C	300	PASS	APCDD1L	Del	intronic	1	9	MSH6	child	20_57048292_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
432b6ab4-3271-11e6-b630-aeceb41afd22	17_26107835_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	17	26107835	AT	A	780	PASS	NOS2	Del	frameshift	1	3	FANCC	child	17_26107835_ATA_FANCC	1	1	1	T	2	T	Repeat-mediated
432c7c52-3298-11e6-8879-9b3e8cd8cd69	1_184540272_CAC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	1	184540272	CA	C	360	PASS	C1orf21	Del	intronic	1	9	CHK2	child	1_184540272_CAC_CHK2	1	1	1	A	8	A	Repeat-mediated
433fa576-3288-11e6-bb85-03a66f39e758	4_142510452_GAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	4	142510452	GA	G	300	PASS	-	Del	-	1	8	EXO1	child	4_142510452_GAG_EXO1	1	1	1	A	7	A	Repeat-mediated
4353bfa4-329a-11e6-a5cf-205325c9da85	11_24899002_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	24899002	AT	A	300	PASS	LUZP2	Del	intronic	1	5	MSH6	child	11_24899002_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
4355308e-3284-11e6-9b81-af532a2d4995	3_100320093_TGT	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	3	100320093	TG	T	300	PASS	-	Del	-	1	5	NUDT1	child	3_100320093_TGT_NUDT1	1	1	1	G	4	G	Repeat-mediated
43561b6a-329e-11e6-91d0-016425c9da85	7_49750498_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	49750498	CA	C	840	PASS	-	Del	-	1	7	MSH6	child	7_49750498_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
43581aa8-3278-11e6-92d2-c259c225ee11	3_141418029_GCG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	141418029	GC	G	300	PASS	RP11-340E6.1	Del	intronic	1	6	MSH6	child	3_141418029_GCG_MSH6	1	1	1	C	5	C	Repeat-mediated
435e55d2-328a-11e6-821d-8c090e01a414	13_79013004_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	79013004	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	13_79013004_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
4363198e-3292-11e6-9401-04ed6f39e758	3_161715647_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	161715647	GT	G	720	PASS	-	Del	-	1	9	MSH6	child	3_161715647_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
4367fdf2-329a-11e6-aca6-b39fcc638e3d	2_33577548_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	33577548	CT	C	480	PASS	LTBP1	Del	intronic	1	8	MSH6	child	2_33577548_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
43695236-329c-11e6-a5cf-e5abcc638e3d	9_1680485_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	1680485	TA	T	420	PASS	-	Del	-	1	7	MSH6	child	9_1680485_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
436c90a6-3254-11e6-bc65-c9667872c165	13_73367814_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	73367814	TA	T	480	PASS	PIBF1	Del	intronic	1	6	MSH6	child	13_73367814_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
43725d88-3281-11e6-9a8a-d755f7d33ce3	11_57204713_CATAC	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	11	57204713	CATA	C	360	PASS	-	Del	-	3	2	NUDT1	child	11_57204713_CATAC_NUDT1	3	3	3	ATA	1	ATA	Repeat-mediated
4379c956-3290-11e6-b837-bf257a852e0e	13_78271064_GGCACAGAGTAGGTGCTCAAAGATCTTTTG	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	13	78271064	GGCACAGAGTAGGTGCTCAAAGATCTTTT	G	600	PASS	SLAIN1	Del	upstream	28	1	CHK2	child	13_78271064_GGCACAGAGTAGGTGCTCAAAGATCTTTTG_CHK2	28	>=10	1	G	0	-	Microhomology-mediated
437cf8e8-3285-11e6-a8ad-04770d016689	9_7296226_CAC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	9	7296226	CA	C	360	PASS	-	Del	-	1	8	EXO1	child	9_7296226_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
43816e54-3272-11e6-8e5c-87d3d7fd0a58	1_234822605_GAG	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	1	234822605	GA	G	660	PASS	RP4-781K5.6	Del	intronic	1	9	POLB	child	1_234822605_GAG_POLB	1	1	1	A	8	A	Repeat-mediated
438fad8e-3277-11e6-a71d-236235cec73b	X_99288883_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	99288883	AT	A	360	PASS	-	Del	-	1	6	MSH6	child	X_99288883_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
4390782e-3289-11e6-a100-84090e01a414	18_2311873_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	2311873	AT	A	300	PASS	-	Del	-	1	6	MSH6	child	18_2311873_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
4395094e-3288-11e6-997d-e46e3adbad45	12_131031766_TAT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	12	131031766	TA	T	600	PASS	RIMBP2	Del	intronic	1	9	NUDT1	parent	12_131031766_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
4398c530-328c-11e6-ac7a-a3c36f39e758	18_49648684_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	49648684	TA	T	540	PASS	-	Del	-	1	8	MSH6	child	18_49648684_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
439e2112-328f-11e6-bb1e-70e16f39e758	X_71624293_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	71624293	CT	C	360	PASS	HDAC8	Del	intronic	1	7	MSH6	child	X_71624293_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
439eb49a-3273-11e6-bfb2-2749c225ee11	12_62612524_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	62612524	CT	C	780	PASS	FAM19A2	Del	intronic	1	9	MSH6	child	12_62612524_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
43a26db6-3290-11e6-8e48-791e0e01a414	8_21299276_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	21299276	C	CA	540	PASS	-	Ins	-	1	7	MSH6	child	8_21299276_CCA_MSH6	1	1	-	-	-	-	Ins
43ae019e-329a-11e6-8d0f-075325c9da85	14_43637276_CTGC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	43637276	CTG	C	480	PASS	-	Del	-	2	7	MSH6	child	14_43637276_CTGC_MSH6	2	2	2	TG	6	TG	Repeat-mediated
43b03a2e-327f-11e6-ac5a-c6aa3adbad45	X_124368454_TCT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	X	124368454	TC	T	1020	PASS	-	Del	-	1	1	NUDT1	child	X_124368454_TCT_NUDT1	1	1	0	-	0	C	None
43b28968-3276-11e6-8295-ecba9b6d3b88	5_95096037_TTAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	5	95096037	TTA	T	300	PASS	RHOBTB3	Del	intronic	2	2	EXO1	child	5_95096037_TTAT_EXO1	2	2	2	TA	1	TA	Repeat-mediated
43bcc8d8-328a-11e6-ad64-7189a178171f	5_138774090_CAGTTC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	5	138774090	CAGTT	C	300	PASS	DNAJC18	Del	intronic	4	1	FANCC	child	5_138774090_CAGTTC_FANCC	4	4	3	AGT	0	-	Microhomology-mediated
43be2812-328b-11e6-a2c2-fa8aa178171f	8_102544574_TCT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	8	102544574	TC	T	480	PASS	GRHL2	Del	intronic	1	1	FANCC	child	8_102544574_TCT_FANCC	1	1	0	-	0	C	None
43c6b49c-3276-11e6-8717-f13d8a20d9eb	6_66814462_CAC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	6	66814462	CA	C	480	PASS	-	Del	-	1	8	CHK2	child	6_66814462_CAC_CHK2	1	1	1	A	7	A	Repeat-mediated
43e11c0a-3272-11e6-8418-1c5942c4520d	3_9015648_CCTAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	9015648	C	CTAT	300	PASS	-	Ins	-	3	4	MSH6	child	3_9015648_CCTAT_MSH6	3	3	-	-	-	-	Ins
43f1350a-3258-11e6-acc5-308412ae24cf	5_137553053_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	137553053	AT	A	900	PASS	CDC23	Del	upstream	1	9	MSH6	child	5_137553053_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
43fb0d6e-328f-11e6-8954-6972fc77b11e	4_47844766_GTG	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	4	47844766	GT	G	480	PASS	CORIN	Del	upstream	1	3	POLE	child	4_47844766_GTG_POLE	1	1	1	T	2	T	Repeat-mediated
4400a71e-3290-11e6-9230-fb250e01a414	3_153899825_GGTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	153899825	GGT	G	300	PASS	ARHGEF26	Del	intronic	2	7	MSH6	child	3_153899825_GGTG_MSH6	2	2	2	GT	6	GT	Repeat-mediated
440fec1c-3324-11e6-9271-15989d7ad846	5_60183585_AACA	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	5	60183585	AAC	A	300	PASS	ERCC8	Del	intronic	2	3	CHK2	child	5_60183585_AACA_CHK2	2	2	2	AC	2	AC	Repeat-mediated
44144940-329a-11e6-b129-195325c9da85	16_21664490_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	21664490	GA	G	840	PASS	METTL9	Del	intronic	1	2	MSH6	child	16_21664490_GAG_MSH6	1	1	1	A	1	A	Repeat-mediated
44154df4-3290-11e6-8d00-b1b0e7d0bdd7	5_5219224_ACA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	5	5219224	AC	A	420	PASS	ADAMTS16	Del	intronic	1	7	FANCC	child	5_5219224_ACA_FANCC	1	1	1	C	6	C	Repeat-mediated
4417e302-3254-11e6-bc65-c9667872c165	13_73496806_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	73496806	TA	T	1020	PASS	PIBF1	Del	intronic	1	9	MSH6	child	13_73496806_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
4423cb10-3270-11e6-a539-0e5542c4520d	7_92071322_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	92071322	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	7_92071322_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
4424a346-3275-11e6-b7b8-aca7ecf1e924	12_115848535_TAT	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	12	115848535	TA	T	300	PASS	-	Del	-	1	7	NEIL1	child	12_115848535_TAT_NEIL1	1	1	1	A	6	A	Repeat-mediated
442d9c6c-3270-11e6-a6cd-d6ad4dc77248	2_117156416_GAG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	2	117156416	GA	G	720	PASS	-	Del	-	1	8	NUDT1	child	2_117156416_GAG_NUDT1	1	1	1	A	7	A	Repeat-mediated
4432caee-3274-11e6-b762-5bdc6de4ab00	16_61206244_CAC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	16	61206244	CA	C	420	PASS	-	Del	-	1	9	EXO1	child	16_61206244_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
4438c516-3283-11e6-be6a-5ebd2daed38e	9_124269308_GAG	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	9	124269308	GA	G	480	PASS	-	Del	-	1	9	POLB	child	9_124269308_GAG_POLB	1	1	1	A	8	A	Repeat-mediated
443c5bd0-3275-11e6-b2b6-6589a20b69d5	8_107645490_CAC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	8	107645490	CA	C	600	PASS	OXR1	Del	intronic	1	9	POLB	child	8_107645490_CAC_POLB	1	1	1	A	8	A	Repeat-mediated
443ce10e-3275-11e6-8caa-7235b51afd22	9_15011074_GTG	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	9	15011074	GT	G	360	PASS	-	Del	-	1	5	EXO1	child	9_15011074_GTG_EXO1	1	1	1	T	4	T	Repeat-mediated
443e01ac-3274-11e6-b89d-b2d6b0dab373	4_128052386_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	128052386	C	CA	300	PASS	RP11-125O18.1	Ins	intronic	1	8	MSH6	child	4_128052386_CCA_MSH6	1	1	-	-	-	-	Ins
44475a64-328c-11e6-bd84-429305ad5bc4	1_93554131_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	93554131	AT	A	660	PASS	MTF2	Del	intronic	1	9	MSH6	child	1_93554131_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
4448ae4c-3272-11e6-8e5c-87d3d7fd0a58	1_234991012_ATA	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	1	234991012	AT	A	720	PASS	-	Del	-	1	8	POLB	child	1_234991012_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
444acfdc-32a0-11e6-bc66-17b4cc638e3d	8_94476228_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	94476228	AT	A	600	PASS	-	Del	-	1	4	MSH6	child	8_94476228_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
444b42e0-328d-11e6-9777-62d8191589db	5_94828340_CAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	5	94828340	CAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAA	C	300	PASS	TTC37	Del	intronic	34	1	FANCC	child	5_94828340_CAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAC_FANCC	34	>=10	15	AAAAAAAAAAAAAAA	0	-	Microhomology-mediated
44613566-329a-11e6-b723-b29fcc638e3d	19_16079000_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	16079000	CA	C	1012	PASS	-	Del	-	1	8	MSH6	child	19_16079000_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
4462eea0-3287-11e6-b84c-a2a0fc1f1540	1_231045324_GCCGAGATCGCTCCAG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	1	231045324	GCCGAGATCGCTCCA	G	360	PASS	TTC13	Del	intronic	14	1	FANCC	child	1_231045324_GCCGAGATCGCTCCAG_FANCC	14	>=10	3	CCG	0	-	Microhomology-mediated
44647114-328f-11e6-bfa2-581f0e01a414	7_153225906_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	153225906	CT	C	720	PASS	-	Del	-	1	7	MSH6	child	7_153225906_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
44683a04-329b-11e6-a0ea-135325c9da85	15_71006058_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	71006058	AT	A	780	PASS	UACA	Del	intronic	1	8	MSH6	child	15_71006058_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
4469f200-3254-11e6-b4d0-327a7872c165	11_48243064_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	48243064	GT	G	540	PASS	OR4B1	Del	downstream	1	9	MSH6	child	11_48243064_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
446bbe1a-3294-11e6-b77d-2eef6f39e758	6_78682135_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	78682135	A	AT	720	PASS	-	Ins	-	1	6	MSH6	child	6_78682135_AAT_MSH6	1	1	-	-	-	-	Ins
446cc968-328f-11e6-88c7-2ba6e7d0bdd7	6_139547451_AAAAAAAAAAAAAAGA	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	6	139547451	AAAAAAAAAAAAAAG	A	290	PASS	-	Del	-	14	1	POLM	child	6_139547451_AAAAAAAAAAAAAAGA_POLM	14	>=10	1	A	0	-	Microhomology-mediated
4472748e-326d-11e6-b2ac-b6204b47a305	17_38985169_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	38985169	AT	A	300	PASS	TMEM99	Del	intronic	1	7	MSH6	child	17_38985169_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
4484bf9c-329d-11e6-8069-175325c9da85	12_57750734_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	57750734	C	CA	300	PASS	R3HDM2	Ins	intronic	1	4	MSH6	child	12_57750734_CCA_MSH6	1	1	-	-	-	-	Ins
448b7cf8-3291-11e6-bb1e-70e16f39e758	X_98371174_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	98371174	T	TA	360	PASS	-	Ins	-	1	7	MSH6	child	X_98371174_TTA_MSH6	1	1	-	-	-	-	Ins
448d9a26-3285-11e6-8ebc-68f1bbe6aa09	18_13041560_CCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	13041560	C	CT	300	PASS	CEP192	Ins	intronic	1	8	MSH6	child	18_13041560_CCT_MSH6	1	1	-	-	-	-	Ins
448dc734-3277-11e6-b337-78fbd8b4fa2c	2_231618875_AAC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	2	231618875	A	AC	840	PASS	CAB39	Ins	intronic	1	3	POLB	child	2_231618875_AAC_POLB	1	1	-	-	-	-	Ins
44904582-3285-11e6-a0a8-096ea2c71c31	11_81218363_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	81218363	CT	C	600	PASS	-	Del	-	1	9	MSH6	child	11_81218363_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
449b2634-3274-11e6-9ef9-d85a25c9da85	3_125427512_CGAC	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	3	125427512	CGA	C	540	PASS	-	Del	-	2	5	POLM	child	3_125427512_CGAC_POLM	2	2	2	GA	4	GA	Repeat-mediated
44a1759c-328e-11e6-be52-ac74fd44d094	20_3994910_GAG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	20	3994910	GA	G	540	PASS	RNF24	Del	intronic	1	8	FANCC	child	20_3994910_GAG_FANCC	1	1	1	A	7	A	Repeat-mediated
44a90a12-329f-11e6-bc2c-2a5e25c9da85	4_152270834_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	152270834	TA	T	660	PASS	RP11-731D1.4	Del	intronic	1	8	MSH6	child	4_152270834_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
44b1ae34-328f-11e6-aaa2-31b34430f757	4_15479586_GAG	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	4	15479586	GA	G	780	PASS	CC2D2A	Del	intronic	1	9	POLE	child	4_15479586_GAG_POLE	1	1	1	A	8	A	Repeat-mediated
44b3af2e-3288-11e6-b32c-fd87a2c71c31	5_35373056_TTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	35373056	T	TC	420	PASS	-	Ins	-	1	1	MSH6	child	5_35373056_TTC_MSH6	1	1	-	-	-	-	Ins
44bcc988-3292-11e6-b0cf-8b7219a91649	7_125407963_CAAGTAC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	7	125407963	CAAGTA	C	600	PASS	-	Del	-	5	2	NEIL1	child	7_125407963_CAAGTAC_NEIL1	5	5	5	AAGTA	1	AAGTA	Repeat-mediated
44c26232-3290-11e6-9d24-ade56f39e758	7_107759886_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	107759886	CA	C	900	PASS	LAMB4	Del	intronic	1	8	MSH6	child	7_107759886_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
44d42724-326d-11e6-9fba-41ebd8b4fa2c	11_26821611_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	26821611	CA	C	420	PASS	-	Del	-	1	6	MSH6	child	11_26821611_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
44d741a2-3290-11e6-9432-c0e56f39e758	5_118904696_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	118904696	CT	C	540	PASS	-	Del	-	1	7	MSH6	child	5_118904696_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
44d974e0-329f-11e6-8c2e-3f6625c9da85	22_35323627_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	22	35323627	C	CA	360	PASS	-	Ins	-	1	8	MSH6	child	22_35323627_CCA_MSH6	1	1	-	-	-	-	Ins
44eb6fe0-32a1-11e6-a04f-c66a25c9da85	6_128291225_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	128291225	TA	T	660	PASS	PTPRK	Del	3prime_UTR_variant	1	8	MSH6	child	6_128291225_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
44f13540-3325-11e6-aa06-7ca120e7b7a8	7_109115136_CAC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	7	109115136	CA	C	420	PASS	-	Del	-	1	7	CHK2	child	7_109115136_CAC_CHK2	1	1	1	A	6	A	Repeat-mediated
44fb324e-329d-11e6-b129-195325c9da85	16_82959451_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	82959451	C	CT	360	PASS	CDH13	Ins	intronic	1	8	MSH6	child	16_82959451_CCT_MSH6	1	1	-	-	-	-	Ins
44fe9ed4-327a-11e6-9e07-80d27d6a9fc7	X_126906444_CCT	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	X	126906444	C	CT	600	PASS	-	Ins	-	1	5	NEIL1	child	X_126906444_CCT_NEIL1	1	1	-	-	-	-	Ins
45084fa4-328b-11e6-9035-7296cdacbbbf	2_64746354_TGAGGTTTGAA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	2	64746354	TGAGGT	TTGAA	480	PASS	RP11-568N6.1	Complex	downstream	5	0	FANCC	child	2_64746354_TGAGGTTTGAA_FANCC	1	1	-	-	-	-	Complex
451400e0-326f-11e6-b5b8-e0c24a47a305	X_22162331_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	22162331	AT	A	720	PASS	PHEX	Del	intronic	1	9	MSH6	child	X_22162331_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
451c0350-3321-11e6-a14e-43a02aaffa45	19_48044263_GCTCAAATTACG	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	19	48044263	GCTCAAATTAC	G	540	PASS	ZNF541	Del	intronic	10	1	CHK2	child	19_48044263_GCTCAAATTACG_CHK2	10	>=10	0	-	0	-	None
45231af8-3283-11e6-baa3-81ed1da8ec0e	X_7755156_TAT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	X	7755156	TA	T	600	PASS	-	Del	-	1	5	EXO1	child	X_7755156_TAT_EXO1	1	1	1	A	4	A	Repeat-mediated
45256a28-329d-11e6-a5cf-e5abcc638e3d	9_83894371_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	83894371	AT	A	360	PASS	-	Del	-	1	6	MSH6	child	9_83894371_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
452a9c9e-3290-11e6-b52f-4eeb6f39e758	22_49494664_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	22	49494664	CT	C	360	PASS	-	Del	-	1	7	MSH6	child	22_49494664_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
452f06e2-334b-11e6-8b31-52813cfdbd24	7_150205023_ATATTGTTTTCTAGACATAATGCA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	7	150205023	ATATTGTTTTCTAGACATAATGC	A	540	PASS	-	Del	-	22	1	FANCC	child	7_150205023_ATATTGTTTTCTAGACATAATGCA_FANCC	22	>=10	5	TATTG	0	-	Microhomology-mediated
4530add6-3255-11e6-89d3-d29498816cf3	2_188953259_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	188953259	CA	C	360	PASS	LINC01090	Del	intronic	1	8	MSH6	child	2_188953259_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
453182f8-3325-11e6-b456-3b4d07e9a829	8_61690721_GTG	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	8	61690721	GT	G	480	PASS	CHD7	Del	intronic	1	7	POLE	child	8_61690721_GTG_POLE	1	1	1	T	6	T	Repeat-mediated
453dcb6a-3255-11e6-bf41-357a7872c165	10_118890665_AAGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	118890665	AAG	A	420	PASS	VAX1	Del	3prime_UTR_variant	2	6	MSH6	child	10_118890665_AAGA_MSH6	2	2	2	AG	5	AG	Repeat-mediated
453e6466-329c-11e6-a0ea-135325c9da85	15_91319552_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	91319552	TA	T	600	PASS	BLM	Del	intronic	1	8	MSH6	child	15_91319552_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
453e8f22-328d-11e6-919e-92c36f39e758	2_118628848_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	118628848	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	2_118628848_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
45444c92-3273-11e6-b332-88ba7d6a9fc7	15_62927495_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	62927495	CA	C	420	PASS	TLN2	Del	intronic	1	9	MSH6	child	15_62927495_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
4544d098-328e-11e6-bd84-429305ad5bc4	1_53349449_CCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	53349449	C	CT	600	PASS	ZYG11A	Ins	intronic	1	6	MSH6	child	1_53349449_CCT_MSH6	1	1	-	-	-	-	Ins
4544e07e-3289-11e6-b805-77090e01a414	2_4726972_TACT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	4726972	TAC	T	300	PASS	-	Del	-	2	5	MSH6	child	2_4726972_TACT_MSH6	2	2	2	AC	4	AC	Repeat-mediated
45476904-3273-11e6-975f-8246cab49462	16_52103370_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	52103370	TA	T	480	PASS	C16orf97	Del	intronic	1	8	MSH6	child	16_52103370_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
454cbbb0-3283-11e6-aae3-0112f221c733	X_74443877_ATA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	X	74443877	AT	A	420	PASS	-	Del	-	1	8	FANCC	child	X_74443877_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
45514540-326f-11e6-b5b8-e0c24a47a305	X_22364471_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	22364471	AT	A	420	PASS	RP11-40F8.2	Del	intronic	1	9	MSH6	child	X_22364471_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
456dd5fc-3292-11e6-ba4d-956e694da5d2	6_73107106_ATA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	6	73107106	AT	A	540	PASS	RIMS1	Del	intronic	1	7	POLM	child	6_73107106_ATA_POLM	1	1	1	T	6	T	Repeat-mediated
45779cec-3286-11e6-a21c-b819bce6aa09	X_4628138_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	4628138	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	X_4628138_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
457a9ed6-3288-11e6-b421-691b147bb207	20_16894383_CAC	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	20	16894383	CA	C	420	PASS	-	Del	-	1	8	NEIL1	parent	20_16894383_CAC_NEIL1	1	1	1	A	7	A	Repeat-mediated
457c1514-3255-11e6-89d3-d29498816cf3	2_189061290_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	189061290	GT	G	420	PASS	LINC01090	Del	intronic	1	7	MSH6	child	2_189061290_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
4587add2-3284-11e6-9d58-b7936f39e758	17_33837977_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	17	33837977	AT	A	540	PASS	SLFN12L	Del	intronic	1	7	EXO1	child	17_33837977_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
458d831c-3291-11e6-98e0-70dad8b4fa2c	2_18973020_ACTA	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	2	18973020	ACT	A	600	PASS	AC106053.1	Del	downstream	2	1	NUDT1	child	2_18973020_ACTA_NUDT1	2	2	1	C	0	-	Microhomology-mediated
45969686-3274-11e6-b8ae-92c57872c165	14_43482956_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	43482956	A	AT	540	PASS	-	Ins	-	1	9	MSH6	child	14_43482956_AAT_MSH6	1	1	-	-	-	-	Ins
45971680-3286-11e6-90da-f3a469062303	6_164738404_GTGGAGTGCTGCCTCATCAGCCATG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	6	164738404	GTGGAGTGCTGCCTCATCAGCCAT	G	960	PASS	-	Del	-	23	1	FANCC	child	6_164738404_GTGGAGTGCTGCCTCATCAGCCATG_FANCC	23	>=10	6	TGGAGT	0	-	Microhomology-mediated
45983062-3257-11e6-885f-d1947872c165	4_78932770_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	78932770	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	4_78932770_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
45993134-3288-11e6-9e78-7d3e51c54cdd	2_47649861_TTCAGCTGTATGCAATTTAATGCAATATTA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	2	47649861	T	TCAGCTGTATGCAATTTAATGCAATATTA	300	PASS	MSH2	Ins	intronic	28	0	EXO1	child	2_47649861_TTCAGCTGTATGCAATTTAATGCAATATTA_EXO1	28	>=10	-	-	-	-	Ins
459e91ce-3292-11e6-9413-6a7219a91649	5_134538925_ATA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	5	134538925	AT	A	540	PASS	C5orf66	Del	intronic	1	8	NEIL1	child	5_134538925_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
45a74bfa-3294-11e6-9401-04ed6f39e758	3_103264755_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	103264755	C	CA	540	PASS	-	Ins	-	1	9	MSH6	child	3_103264755_CCA_MSH6	1	1	-	-	-	-	Ins
45b6bdc4-3294-11e6-92f4-38f3d8b4fa2c	9_73528627_ATA	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	9	73528627	AT	A	360	PASS	TRPM3	Del	intronic	1	9	NUDT1	child	9_73528627_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
45bd1b82-329a-11e6-bbf7-b00798ba1142	3_44540650_CTC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	3	44540650	CT	C	300	PASS	ZNF852	Del	frameshift	1	1	CHK2	child	3_44540650_CTC_CHK2	1	1	0	-	0	T	None
45c10d6a-3294-11e6-babe-a3ac9b6d3b88	21_9576816_TAT	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	21	9576816	TA	T	292	PASS	-	Del	-	1	7	NUDT1	child	21_9576816_TAT_NUDT1	1	1	1	A	6	A	Repeat-mediated
45c1fcb6-328f-11e6-8e48-791e0e01a414	8_113709960_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	113709960	TA	T	391	PASS	CSMD3	Del	intronic	1	9	MSH6	child	8_113709960_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
45c3a282-3276-11e6-8fe4-214938e8a824	20_40639082_CTTATGCAAATC	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	20	40639082	CTTATGCAAAT	C	720	PASS	RP5-1121H13.3	Del	downstream	10	1	POLM	child	20_40639082_CTTATGCAAATC_POLM	10	>=10	2	TT	0	-	Microhomology-mediated
45d3e616-3270-11e6-8a6f-43b190e2c2e6	11_91298497_GAG	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	11	91298497	GA	G	480	PASS	-	Del	-	1	8	POLB	child	11_91298497_GAG_POLB	1	1	1	A	7	A	Repeat-mediated
45d46304-3278-11e6-a5d7-eb6be7d0bdd7	6_133865087_ACA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	6	133865087	AC	A	540	PASS	RP11-704J17.5	Del	downstream	1	5	EXO1	child	6_133865087_ACA_EXO1	1	1	1	C	4	C	Repeat-mediated
45d4b94c-328e-11e6-bfa2-581f0e01a414	7_96447898_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	96447898	AT	A	420	PASS	-	Del	-	1	8	MSH6	child	7_96447898_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
45d566e2-3286-11e6-a21c-b819bce6aa09	X_4713805_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	4713805	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	X_4713805_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
45d5f5a6-3288-11e6-8404-8e1fbce6aa09	8_105766090_GTTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	105766090	GTT	G	540	PASS	-	Del	-	2	9	MSH6	child	8_105766090_GTTG_MSH6	2	2	2	TT	7	T	Repeat-mediated
45dbb948-326d-11e6-92dd-fda8977b3f23	10_60530095_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	60530095	AT	A	780	PASS	BICC1	Del	intronic	1	6	MSH6	child	10_60530095_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
45ddc94c-328e-11e6-8770-3e160e01a414	9_32063131_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	32063131	C	CA	360	PASS	-	Ins	-	1	7	MSH6	child	9_32063131_CCA_MSH6	1	1	-	-	-	-	Ins
45e2e54a-328d-11e6-919e-92c36f39e758	2_118881315_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	118881315	AT	A	540	PASS	-	Del	-	1	5	MSH6	child	2_118881315_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
45e308e8-328f-11e6-b8a7-a46919a91649	17_57671486_GAGAACAATCTTCTG	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	17	57671486	GAGAACAATCTTCT	G	527	PASS	DHX40	Del	intronic	13	1	NEIL1	child	17_57671486_GAGAACAATCTTCTG_NEIL1	13	>=10	6	AGAACA	0	-	Microhomology-mediated
45e8deba-328c-11e6-bc12-79ae12ae24cf	8_13539971_TTTAGACTTCTTCACAACTCAT	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	8	13539971	TTTAGACTTCTTCACAACTCA	T	360	PASS	-	Del	-	20	1	CHK2	child	8_13539971_TTTAGACTTCTTCACAACTCAT_CHK2	20	>=10	1	T	0	-	Microhomology-mediated
45f0e978-3284-11e6-b835-607f2aaffa45	22_50139822_GTG	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	22	50139822	GT	G	360	PASS	-	Del	-	1	9	POLE	child	22_50139822_GTG_POLE	1	1	1	T	8	T	Repeat-mediated
45f90968-3285-11e6-97d5-6cf1bbe6aa09	17_67295850_AGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	67295850	AG	A	480	PASS	ABCA5	Del	intronic	1	6	MSH6	child	17_67295850_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
46068990-328e-11e6-88c1-95c36f39e758	14_90128505_GGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	90128505	G	GA	540	PASS	-	Ins	-	1	4	MSH6	child	14_90128505_GGA_MSH6	1	1	-	-	-	-	Ins
460ff352-3277-11e6-9e0f-7959cab49462	7_121560031_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	121560031	GA	G	900	PASS	PTPRZ1	Del	intronic	1	9	MSH6	child	7_121560031_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
461e724e-3275-11e6-b89c-b448aea0a4d2	2_43056614_CAC	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	2	43056614	CA	C	540	PASS	-	Del	-	1	8	POLM	child	2_43056614_CAC_POLM	1	1	1	A	7	A	Repeat-mediated
461f842e-3287-11e6-b093-c9c7b0dab373	2_233668818_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	233668818	AT	A	480	PASS	GIGYF2	Del	intronic	1	9	MSH6	child	2_233668818_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
461fcf30-326c-11e6-97dc-a13fee3c4f5d	10_23201335_CCTC	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	10	23201335	CCT	C	660	PASS	-	Del	-	2	2	POLM	parent	10_23201335_CCTC_POLM	2	2	2	CT	1	CT	Repeat-mediated
4632cb48-3286-11e6-8b67-086ea2c71c31	1_165833604_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	165833604	GT	G	480	PASS	UCK2	Del	intronic	1	9	MSH6	child	1_165833604_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
4636c2f6-328c-11e6-ae53-96c36f39e758	15_58372324_TTTTGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	58372324	TTTTG	T	600	PASS	ALDH1A2	Del	intronic	4	4	MSH6	child	15_58372324_TTTTGT_MSH6	4	4	4	TTTG	3	TTTG	Repeat-mediated
463904dc-3271-11e6-8cac-d8617098ee92	10_45010084_TGATTTTTCCCTAAGGCCATGGATTTTCACTGTGCTCATTCATGGAAGAATAGAAAGGGGGAAATTCGGCTTGGTCGGTCCCCATAACTTGGAGTATTAGATGGTTGTAGAGAGCTCGGTTTGATATATAACAGCTGTGACATTGCTGTTACAACTCCACCCATCACCTCAAAATTGCATTAACAAAGTGATGGGATTCAGGACAGAGGAGGCGATAGCTCAAATCATGCACTTGAGGAGGATACGGATCCACTGGAATGTTATCTAAGAGAGTGGCCAGGATTGGTCAAGGGACTAAACATCATGTCAAATGAGTTCTGAGTGACAAACTGACAGATGGAACCAACCAACCAACAAACCAACCCCCGAAACTAGAGATCCATGAAAGTGGTGGTGGGAGTTTACTTATATAATTTTGTTTTAACTTGGCTAGGGAATGTGGGATCCTGGTAGCTGCATGAATGTGGAAGAGAGAGGAGACGTCTGCGGTGAGGACTGATTGTGTGGAATTAGGATCACTGAGTGGAGGCTACAGAGAAACTGCTGAACACGAAGAGCATTCCAAGGACATCACTGCCTGTGGGCGGCATCATCAGCTTAGATAAGTGGTAGGCCCCCGGCACTGCAAGTATTGGAGGGTAAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	10	45010084	TGATTTTTCCCTAAGGCCATGGATTTTCACTGTGCTCATTCATGGAAGAATAGAAAGGGGGAAATTCGGCTTGGTCGGTCCCCATAACTTGGAGTATTAGATGGTTGTAGAGAGCTCGGTTTGATATATAACAGCTGTGACATTGCTGTTACAACTCCACCCATCACCTCAAAATTGCATTAACAAAGTGATGGGATTCAGGACAGAGGAGGCGATAGCTCAAATCATGCACTTGAGGAGGATACGGATCCACTGGAATGTTATCTAAGAGAGTGGCCAGGATTGGTCAAGGGACTAAACATCATGTCAAATGAGTTCTGAGTGACAAACTGACAGATGGAACCAACCAACCAACAAACCAACCCCCGAAACTAGAGATCCATGAAAGTGGTGGTGGGAGTTTACTTATATAATTTTGTTTTAACTTGGCTAGGGAATGTGGGATCCTGGTAGCTGCATGAATGTGGAAGAGAGAGGAGACGTCTGCGGTGAGGACTGATTGTGTGGAATTAGGATCACTGAGTGGAGGCTACAGAGAAACTGCTGAACACGAAGAGCATTCCAAGGACATCACTGCCTGTGGGCGGCATCATCAGCTTAGATAAGTGGTAGGCCCCCGGCACTGCAAGTATTGGAGGGTAA	T	300	PASS	-	Del	-	641	1	FANCC	child	10_45010084_TGATTTTTCCCTAAGGCCATGGATTTTCACTGTGCTCATTCATGGAAGAATAGAAAGGGGGAAATTCGGCTTGGTCGGTCCCCATAACTTGGAGTATTAGATGGTTGTAGAGAGCTCGGTTTGATATATAACAGCTGTGACATTGCTGTTACAACTCCACCCATCACCTCAAAATTGCATTAACAAAGTGATGGGATTCAGGACAGAGGAGGCGATAGCTCAAATCATGCACTTGAGGAGGATACGGATCCACTGGAATGTTATCTAAGAGAGTGGCCAGGATTGGTCAAGGGACTAAACATCATGTCAAATGAGTTCTGAGTGACAAACTGACAGATGGAACCAACCAACCAACAAACCAACCCCCGAAACTAGAGATCCATGAAAGTGGTGGTGGGAGTTTACTTATATAATTTTGTTTTAACTTGGCTAGGGAATGTGGGATCCTGGTAGCTGCATGAATGTGGAAGAGAGAGGAGACGTCTGCGGTGAGGACTGATTGTGTGGAATTAGGATCACTGAGTGGAGGCTACAGAGAAACTGCTGAACACGAAGAGCATTCCAAGGACATCACTGCCTGTGGGCGGCATCATCAGCTTAGATAAGTGGTAGGCCCCCGGCACTGCAAGTATTGGAGGGTAAT_FANCC	641	>=10	1	G	0	-	Microhomology-mediated
4645d4b2-3278-11e6-b7b5-ce91a78019ab	5_124062596_CAC	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	5	124062596	CA	C	780	PASS	ZNF608	Del	intronic	1	9	NEIL1	child	5_124062596_CAC_NEIL1	1	1	1	A	8	A	Repeat-mediated
4653177a-328d-11e6-a2cb-f3ac12ae24cf	5_132257084_ACTA	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	5	132257084	ACT	A	300	PASS	AFF4	Del	intronic	2	2	CHK2	child	5_132257084_ACTA_CHK2	2	2	2	CT	1	CT	Repeat-mediated
46587290-3271-11e6-b446-b5c7c6271a47	13_103612510_ATA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	13	103612510	AT	A	480	PASS	-	Del	-	1	9	POLB	child	13_103612510_ATA_POLB	1	1	1	T	8	T	Repeat-mediated
46605f70-328d-11e6-b9c4-751d0e01a414	5_65338141_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	65338141	AT	A	420	PASS	ERBB2IP	Del	intronic	1	6	MSH6	child	5_65338141_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
46619062-3273-11e6-975f-8246cab49462	16_52466498_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	52466498	GA	G	840	PASS	-	Del	-	1	6	MSH6	child	16_52466498_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
4673a8e2-328c-11e6-8952-77c36f39e758	10_45694204_GTTCCCGCCCTCCTGCAGCTGGGGACCCACCCCTGACTTAGAATCCCTGGACGCTTCTGGCCCAGGGATCCGCGCTGCTGGTGGCGCTGACAGGGTCCGGGTTGGAGCCCCTGCTGCCGCGTGCCATGTTCAGATGAGAGCTGCACCTGAGTCCACGGTGGAGGCTGCAGGGCTGGGCCCAGACCGCTGAGGGTCGTCGAGTGAACCGCCCTACCACCCTGGGCTCTGCTCTTTCTTGGCCGGCGCTGGCAGCTCAGGCTCACGACCTCTGAGCCCCGTACAGCTGCCGAGATGAGGCACTGAGGCAGAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	45694204	GTTCCCGCCCTCCTGCAGCTGGGGACCCACCCCTGACTTAGAATCCCTGGACGCTTCTGGCCCAGGGATCCGCGCTGCTGGTGGCGCTGACAGGGTCCGGGTTGGAGCCCCTGCTGCCGCGTGCCATGTTCAGATGAGAGCTGCACCTGAGTCCACGGTGGAGGCTGCAGGGCTGGGCCCAGACCGCTGAGGGTCGTCGAGTGAACCGCCCTACCACCCTGGGCTCTGCTCTTTCTTGGCCGGCGCTGGCAGCTCAGGCTCACGACCTCTGAGCCCCGTACAGCTGCCGAGATGAGGCACTGAGGCAGA	G	360	PASS	-	Del	-	308	1	MSH6	child	10_45694204_GTTCCCGCCCTCCTGCAGCTGGGGACCCACCCCTGACTTAGAATCCCTGGACGCTTCTGGCCCAGGGATCCGCGCTGCTGGTGGCGCTGACAGGGTCCGGGTTGGAGCCCCTGCTGCCGCGTGCCATGTTCAGATGAGAGCTGCACCTGAGTCCACGGTGGAGGCTGCAGGGCTGGGCCCAGACCGCTGAGGGTCGTCGAGTGAACCGCCCTACCACCCTGGGCTCTGCTCTTTCTTGGCCGGCGCTGGCAGCTCAGGCTCACGACCTCTGAGCCCCGTACAGCTGCCGAGATGAGGCACTGAGGCAGAG_MSH6	308	>=10	20	TTCCCGCCCTCCTGCAGCTG	0	-	Microhomology-mediated
468bedf4-326d-11e6-92dd-fda8977b3f23	10_60770252_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	60770252	CT	C	660	PASS	-	Del	-	1	9	MSH6	child	10_60770252_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
469c6e74-328e-11e6-bec1-ca1d0e01a414	X_82641761_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	82641761	GA	G	360	PASS	-	Del	-	1	9	MSH6	child	X_82641761_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
469fbdcc-3289-11e6-b805-77090e01a414	2_4950870_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	4950870	TA	T	300	PASS	-	Del	-	1	6	MSH6	child	2_4950870_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
46a031d8-3281-11e6-86cf-8f288e4678dd	10_72053745_TAGT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	10	72053745	TAG	T	300	PASS	LRRC20	Del	downstream	2	2	FANCC	child	10_72053745_TAGT_FANCC	2	2	2	AG	1	AG	Repeat-mediated
46a04858-329a-11e6-8d0f-075325c9da85	14_44423217_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	44423217	CT	C	720	PASS	-	Del	-	1	8	MSH6	child	14_44423217_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
46a989e2-3257-11e6-885f-d1947872c165	4_79222667_TGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	79222667	TG	T	414	PASS	FRAS1	Del	intronic	1	6	MSH6	child	4_79222667_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
46b1f39a-329b-11e6-8d0f-075325c9da85	14_100393529_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	100393529	CA	C	600	PASS	EML1	Del	intronic	1	8	MSH6	child	14_100393529_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
46b95804-3270-11e6-9c6e-9f402a2d4995	2_120352986_ATA	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	2	120352986	AT	A	360	PASS	PCDP1	Del	intronic	1	8	POLB	child	2_120352986_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
46be9d12-326d-11e6-9003-ae204b47a305	19_34721782_TGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	34721782	TG	T	360	PASS	LSM14A	Del	downstream	1	5	MSH6	child	19_34721782_TGT_MSH6	1	1	1	G	4	G	Repeat-mediated
46bf1d00-329a-11e6-9ac0-f00198ba1142	5_141337337_ACCTA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	5	141337337	ACCT	A	300	PASS	PCDH12	Del	inframe	3	2	CHK2	child	5_141337337_ACCTA_CHK2	3	3	3	CCT	1	CCT	Repeat-mediated
46c9c5de-3286-11e6-a0a8-096ea2c71c31	11_40533596_GGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	40533596	G	GA	300	PASS	LRRC4C	Ins	intronic	1	7	MSH6	child	11_40533596_GGA_MSH6	1	1	-	-	-	-	Ins
46cce456-328d-11e6-bd84-429305ad5bc4	1_234603701_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	234603701	AT	A	420	PASS	TARBP1	Del	intronic	1	6	MSH6	child	1_234603701_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
46ce8f1a-3281-11e6-b258-8ade028949d4	10_121221085_CAGGC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	10	121221085	CAGG	C	300	PASS	-	Del	-	3	1	POLM	child	10_121221085_CAGGC_POLM	3	3	2	AG	0	-	Microhomology-mediated
46d4c076-3293-11e6-94ac-06337a852e0e	4_75082103_AAGTA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	4	75082103	AAGT	A	540	PASS	MTHFD2L	Del	intronic	3	1	CHK2	child	4_75082103_AAGTA_CHK2	3	3	2	AG	0	-	Microhomology-mediated
46e1e790-3286-11e6-b1ba-6def1da8ec0e	1_193133777_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	1	193133777	TA	T	960	PASS	CDC73	Del	intronic	1	8	EXO1	child	1_193133777_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
46e7582c-328d-11e6-8952-77c36f39e758	10_113945089_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	113945089	GA	G	780	PASS	GPAM	Del	upstream	1	9	MSH6	child	10_113945089_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
46eeec1e-3278-11e6-a9f5-080542c4520d	15_99291663_CCAAAGTGCTGGGATTACAGGCGTGAGCCACCACATGCAGTCCGTGTACACTTT	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	15	99291663	C	CAAAGTGCTGGGATTACAGGCGTGAGCCACCACATGCAGTCCGTGTACACTTT	420	PASS	IGF1R	Ins	intronic	52	0	POLM	child	15_99291663_CCAAAGTGCTGGGATTACAGGCGTGAGCCACCACATGCAGTCCGTGTACACTTT_POLM	52	>=10	-	-	-	-	Ins
46f35ab2-328a-11e6-8ab8-e6b2cc638e3d	16_82232340_GAG	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	16	82232340	GA	G	540	PASS	-	Del	-	1	2	NUDT1	child	16_82232340_GAG_NUDT1	1	1	1	A	1	A	Repeat-mediated
46fc8892-329b-11e6-b129-195325c9da85	16_67454385_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	67454385	GT	G	300	PASS	ZDHHC1	Del	upstream	1	8	MSH6	child	16_67454385_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
47085fc0-328f-11e6-8f31-bfe16f39e758	9_113801020_TGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	113801020	TG	T	300	PASS	LPAR1	Del	upstream	1	6	MSH6	child	9_113801020_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
47099240-3272-11e6-8b9c-cffdd8b4fa2c	11_83597205_TAAAGT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	11	83597205	TAAAG	T	532	PASS	DLG2	Del	intronic	4	1	MSH6	parent	11_83597205_TAAAGT_MSH6	4	4	1	A	0	-	Microhomology-mediated
47215792-3275-11e6-998e-ba48fa52e078	8_17753940_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	17753940	GA	G	720	PASS	FGL1	Del	intronic	1	9	MSH6	child	8_17753940_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
4722a784-328c-11e6-bd84-429305ad5bc4	1_95296182_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	95296182	TA	T	900	PASS	SLC44A3	Del	intronic	1	9	MSH6	child	1_95296182_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
4724c074-329f-11e6-94ca-0aaecc638e3d	X_109945145_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	109945145	TA	T	420	PASS	CHRDL1	Del	intronic	1	5	MSH6	child	X_109945145_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
4749ec74-3285-11e6-94be-6cfa4430f757	12_109802569_ATA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	12	109802569	AT	A	780	PASS	MYO1H	Del	intronic	1	9	EXO1	child	12_109802569_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
474a3462-327c-11e6-9c48-f7da5d753391	21_14417551_CAC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	21	14417551	CA	C	410	PASS	RNU6-614P	Del	upstream	1	7	FANCC	parent	21_14417551_CAC_FANCC	1	1	1	A	6	A	Repeat-mediated
47551b6e-328d-11e6-b8e6-91c36f39e758	11_116378268_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	116378268	CA	C	540	PASS	-	Del	-	1	7	MSH6	child	11_116378268_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
475a8a92-3295-11e6-9985-7c540d016689	6_52445446_ATA	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	6	52445446	AT	A	360	PASS	TRAM2	Del	upstream	1	6	NUDT1	child	6_52445446_ATA_NUDT1	1	1	1	T	5	T	Repeat-mediated
476330b4-326f-11e6-93e2-b755671699ea	12_18119622_TCT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	12	18119622	TC	T	480	PASS	-	Del	-	1	1	EXO1	parent	12_18119622_TCT_EXO1	1	1	0	-	0	C	None
476a3794-3295-11e6-b04a-0c16b968caf4	4_100416459_CAC	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	4	100416459	CA	C	511	PASS	-	Del	-	1	6	POLB	child	4_100416459_CAC_POLB	1	1	1	A	5	A	Repeat-mediated
47709e74-3324-11e6-ad87-aefe97ba1142	10_74579500_TTG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	10	74579500	T	TG	300	PASS	MCU	Ins	intronic	1	1	EXO1	child	10_74579500_TTG_EXO1	1	1	-	-	-	-	Ins
47768ebc-3291-11e6-98e0-70dad8b4fa2c	2_19583050_ATGA	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	2	19583050	ATG	A	300	PASS	-	Del	-	2	1	NUDT1	child	2_19583050_ATGA_NUDT1	2	2	1	T	0	-	Microhomology-mediated
477838b0-3279-11e6-9dfe-7ec135761512	1_47590716_TAT	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	1	47590716	TA	T	440	PASS	CYP4A22-AS1	Del	intronic	1	8	FANCC	parent	1_47590716_TAT_FANCC	1	1	1	A	7	A	Repeat-mediated
477b5f98-328f-11e6-bfa2-581f0e01a414	7_153938654_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	153938654	CA	C	720	PASS	DPP6	Del	intronic	1	8	MSH6	child	7_153938654_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
477f30c6-3282-11e6-b933-8181c042253c	10_54554429_ATA	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	10	54554429	AT	A	600	PASS	-	Del	-	1	9	FANCC	child	10_54554429_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
4784ad8e-326f-11e6-b306-b5204b47a305	2_234273676_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	234273676	GA	G	420	PASS	DGKD	Del	intronic	1	5	MSH6	child	2_234273676_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
478cac8e-3254-11e6-a4a7-35f212ae24cf	14_66514947_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	66514947	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	14_66514947_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
478ce508-3283-11e6-bc59-aceb1f4bbf9c	8_38486295_CTCTGGCTTCTGC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	8	38486295	CTCTGGCTTCTG	C	300	PASS	-	Del	-	11	1	EXO1	child	8_38486295_CTCTGGCTTCTGC_EXO1	11	>=10	3	TCT	0	-	Microhomology-mediated
4794f0b2-3275-11e6-998e-ba48fa52e078	8_17885384_TCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	17885384	TC	T	420	PASS	PCM1	Del	3prime_UTR_variant	1	5	MSH6	child	8_17885384_TCT_MSH6	1	1	1	C	4	C	Repeat-mediated
47957d82-3286-11e6-b0bc-c7a46f39e758	5_15007931_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	5	15007931	AT	A	300	PASS	-	Del	-	1	7	EXO1	child	5_15007931_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
4795bdd4-328a-11e6-b9eb-c78fa2c71c31	6_57917903_CCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	57917903	C	CT	528	PASS	-	Ins	-	1	1	MSH6	child	6_57917903_CCT_MSH6	1	1	-	-	-	-	Ins
47a0b61a-3273-11e6-81c8-19f506e9a829	2_172905516_TACT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	2	172905516	TAC	T	300	PASS	METAP1D	Del	intronic	2	1	FANCC	child	2_172905516_TACT_FANCC	2	2	1	A	0	-	Microhomology-mediated
47a2b416-3286-11e6-b32c-fd87a2c71c31	5_3153910_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	3153910	AT	A	420	PASS	-	Del	-	1	5	MSH6	child	5_3153910_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
47ac59ca-328c-11e6-b8ba-0ad9191589db	8_13157610_CAC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	8	13157610	CA	C	360	PASS	DLC1	Del	intronic	1	7	FANCC	child	8_13157610_CAC_FANCC	1	1	1	A	6	A	Repeat-mediated
47ac6e14-329c-11e6-a5cf-e5abcc638e3d	9_3159811_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	3159811	CT	C	960	PASS	-	Del	-	1	5	MSH6	child	9_3159811_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
47ae2452-3292-11e6-ba8c-277819a91649	6_24755364_TAT	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	6	24755364	TA	T	300	PASS	RP3-369A17.4	Del	downstream	1	9	NEIL1	child	6_24755364_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
47be9bfe-327c-11e6-8fd7-46dab41afd22	15_65282558_TTGTATACTCT	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	15	65282558	TTGTATACTC	T	600	PASS	SPG21	Del	upstream	9	1	POLM	child	15_65282558_TTGTATACTCT_POLM	9	9	1	T	0	-	Microhomology-mediated
47c77a80-329a-11e6-a5cf-205325c9da85	11_25869548_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	25869548	TA	T	600	PASS	-	Del	-	1	8	MSH6	child	11_25869548_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
47e31074-3272-11e6-be56-9cdfd7fd0a58	4_45515389_ATA	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	4	45515389	AT	A	420	PASS	-	Del	-	1	9	NUDT1	child	4_45515389_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
47f5833a-3290-11e6-9483-bc0c9c6d3b88	5_59412500_GAG	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	5	59412500	GA	G	420	PASS	PDE4D	Del	intronic	1	9	POLB	child	5_59412500_GAG_POLB	1	1	1	A	8	A	Repeat-mediated
47fd8f98-326e-11e6-acc7-e55219a91649	1_156693334_TCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	156693334	TC	T	420	PASS	ISG20L2	Del	intronic	1	5	MSH6	child	1_156693334_TCT_MSH6	1	1	1	C	4	C	Repeat-mediated
47febee0-328c-11e6-bd84-429305ad5bc4	1_95632463_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	95632463	AT	A	720	PASS	TMEM56	Del	intronic	1	8	MSH6	child	1_95632463_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
480178d8-3282-11e6-a00d-62c6cde16804	13_63595811_GGA	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	13	63595811	G	GA	300	PASS	-	Ins	-	1	8	NUDT1	child	13_63595811_GGA_NUDT1	1	1	-	-	-	-	Ins
4801e352-328e-11e6-bec1-ca1d0e01a414	X_83205316_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	83205316	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	X_83205316_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
480ec20a-328b-11e6-9c89-8d090e01a414	1_114160655_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	114160655	CT	C	480	PASS	MAGI3	Del	intronic	1	7	MSH6	child	1_114160655_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
48153832-32a0-11e6-a04f-c66a25c9da85	6_62759227_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	62759227	CA	C	660	PASS	KHDRBS2	Del	intronic	1	9	MSH6	child	6_62759227_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
4821133c-326e-11e6-9f48-94df41c4520d	12_128229336_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	128229336	GT	G	300	PASS	-	Del	-	1	9	MSH6	child	12_128229336_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
48298cca-3272-11e6-9850-b83e75253f64	12_96224663_GAG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	12	96224663	GA	G	540	PASS	-	Del	-	1	9	FANCC	child	12_96224663_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
4829a84e-328c-11e6-9c89-8d090e01a414	1_179252934_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	179252934	GA	G	360	PASS	-	Del	-	1	8	MSH6	child	1_179252934_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
482c7b00-3287-11e6-9766-8c8ca2c71c31	22_22142399_AGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	22	22142399	AG	A	540	PASS	MAPK1	Del	intronic	1	5	MSH6	child	22_22142399_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
4832c080-329d-11e6-a5cf-e5abcc638e3d	9_84472520_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	84472520	AT	A	900	PASS	-	Del	-	1	9	MSH6	child	9_84472520_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
48372884-328c-11e6-8256-94c36f39e758	17_37767679_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	37767679	CT	C	720	PASS	NEUROD2	Del	upstream	1	8	MSH6	child	17_37767679_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
483b20a8-3285-11e6-a1ac-fd6da2c71c31	13_100279851_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	100279851	AT	A	480	PASS	CLYBL	Del	intronic	1	8	MSH6	child	13_100279851_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
4844d550-328d-11e6-bd84-429305ad5bc4	1_235338129_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	235338129	CA	C	420	PASS	ARID4B	Del	intronic	1	9	MSH6	child	1_235338129_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
484776b6-326f-11e6-8f14-87641565c797	19_37426827_CTC	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	19	37426827	CT	C	300	PASS	ZNF568	Del	intronic	1	8	POLM	child	19_37426827_CTC_POLM	1	1	1	T	7	T	Repeat-mediated
48497dbc-3283-11e6-8a7a-74ed1f4bbf9c	7_46292086_CTGAC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	7	46292086	CTGA	C	540	PASS	-	Del	-	3	2	EXO1	child	7_46292086_CTGAC_EXO1	3	3	3	TGA	1	TGA	Repeat-mediated
484cdaf6-327f-11e6-9176-77c54dc77248	5_137898717_CAGGC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	5	137898717	CAGG	C	720	PASS	HSPA9	Del	intronic	3	1	NUDT1	child	5_137898717_CAGGC_NUDT1	3	3	2	AG	0	-	Microhomology-mediated
484d284e-3289-11e6-8404-8e1fbce6aa09	8_48817759_AAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	48817759	A	AT	420	PASS	PRKDC	Ins	intronic	1	9	MSH6	child	8_48817759_AAT_MSH6	1	1	-	-	-	-	Ins
485b6318-3285-11e6-a0a8-096ea2c71c31	11_82670487_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	82670487	TA	T	540	PASS	C11orf82	Del	downstream	1	8	MSH6	child	11_82670487_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
4864d8fe-3289-11e6-9c89-8d090e01a414	1_4675715_CGC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	4675715	CG	C	420	PASS	-	Del	-	1	6	MSH6	child	1_4675715_CGC_MSH6	1	1	1	G	5	G	Repeat-mediated
486717ea-3284-11e6-8312-b09438e8a824	9_10856366_TTA	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	9	10856366	T	TA	300	PASS	-	Ins	-	1	6	POLE	parent	9_10856366_TTA_POLE	1	1	-	-	-	-	Ins
48696542-3273-11e6-8f33-a6d9cde16804	11_79457143_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	79457143	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	11_79457143_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
48698958-328e-11e6-9230-fb250e01a414	3_26053088_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	26053088	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	3_26053088_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
486ff232-3254-11e6-b4d0-327a7872c165	11_49238180_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	49238180	TA	T	526	PASS	-	Del	-	1	7	MSH6	child	11_49238180_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
48719310-3274-11e6-8c58-fa31b51afd22	8_17013841_AGCCCGCGAGGTGA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	8	17013841	AGCCCGCGAGGTG	A	420	PASS	ZDHHC2	Del	5prime_UTR_variant	12	1	FANCC	child	8_17013841_AGCCCGCGAGGTGA_FANCC	12	>=10	5	GCCCG	0	-	Microhomology-mediated
4873ac7e-3277-11e6-92d2-c259c225ee11	3_66923654_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	66923654	AG	A	660	PASS	-	Del	-	1	1	MSH6	child	3_66923654_AGA_MSH6	1	1	0	-	0	G	None
4886536c-328e-11e6-bec1-ca1d0e01a414	X_83462693_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	83462693	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	X_83462693_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
4886ff32-3258-11e6-91d3-a68412ae24cf	7_136383340_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	136383340	CT	C	420	PASS	-	Del	-	1	7	MSH6	child	7_136383340_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
488cc9b8-3284-11e6-b1ba-6def1da8ec0e	1_33788299_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	1	33788299	AT	A	288	PASS	PHC2	Del	downstream	1	6	EXO1	child	1_33788299_ATA_EXO1	1	1	1	T	5	T	Repeat-mediated
488d8ffc-3256-11e6-99c2-78832aaffa45	1_163452992_TATCT	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	1	163452992	TATC	T	780	PASS	-	Del	-	3	1	POLM	child	1_163452992_TATCT_POLM	3	3	2	AT	0	-	Microhomology-mediated
488e2360-3277-11e6-8b89-96b6ecf1e924	5_63190898_ATA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	5	63190898	AT	A	600	PASS	-	Del	-	1	9	CHK2	child	5_63190898_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
48908bca-3270-11e6-b306-b5204b47a305	2_63250437_AAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	63250437	A	AT	360	PASS	EHBP1	Ins	intronic	1	5	MSH6	child	2_63250437_AAT_MSH6	1	1	-	-	-	-	Ins
4895c24a-32a0-11e6-aea7-956725c9da85	3_121733614_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	121733614	AT	A	480	PASS	ILDR1	Del	intronic	1	9	MSH6	child	3_121733614_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
48ba9cb6-3258-11e6-9d15-298312ae24cf	X_117878253_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	117878253	TA	T	480	PASS	IL13RA1	Del	intronic	1	9	MSH6	child	X_117878253_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
48c812c8-328b-11e6-b805-77090e01a414	2_135414139_TCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	135414139	TC	T	300	PASS	TMEM163	Del	intronic	1	6	MSH6	child	2_135414139_TCT_MSH6	1	1	1	C	5	C	Repeat-mediated
48cb3852-3274-11e6-b332-88ba7d6a9fc7	15_81933060_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	81933060	CA	C	420	PASS	CTD-2034I4.1	Del	intronic	1	8	MSH6	child	15_81933060_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
48d0a786-3285-11e6-99f7-076ea2c71c31	12_77563139_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	77563139	AT	A	540	PASS	-	Del	-	1	8	MSH6	child	12_77563139_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
48d26290-327d-11e6-bd4a-308890e2c2e6	3_32692167_TACT	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	3	32692167	TAC	T	900	PASS	-	Del	-	2	1	FANCC	parent	3_32692167_TACT_FANCC	2	2	1	A	0	-	Microhomology-mediated
48d81822-328f-11e6-9d24-ade56f39e758	7_48213899_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	48213899	CT	C	360	PASS	ABCA13	Del	intronic	1	9	MSH6	child	7_48213899_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
48e02b98-3271-11e6-a721-59c27872c165	5_45813_CCAC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	5	45813	CCA	C	780	PASS	-	Del	-	2	6	NEIL1	child	5_45813_CCAC_NEIL1	2	2	2	CA	5	CA	Repeat-mediated
48e075b6-3259-11e6-aa0b-72f912ae24cf	8_111545663_TTA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	8	111545663	T	TA	360	PASS	-	Ins	-	1	5	POLB	child	8_111545663_TTA_POLB	1	1	-	-	-	-	Ins
48ed3ab8-3285-11e6-a1ac-fd6da2c71c31	13_100482361_ATCA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	100482361	ATC	A	600	PASS	CLYBL	Del	intronic	2	5	MSH6	child	13_100482361_ATCA_MSH6	2	2	2	TC	4	TC	Repeat-mediated
48f415d0-3321-11e6-be49-204207e9a829	1_32817783_CCTC	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	1	32817783	CCT	C	300	PASS	RP4-811H24.9	Del	upstream	2	3	POLE	child	1_32817783_CCTC_POLE	2	2	2	CT	2	CT	Repeat-mediated
48f7b0ca-3275-11e6-998e-ba48fa52e078	8_18346724_GGAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	18346724	GGA	G	360	PASS	-	Del	-	2	4	MSH6	child	8_18346724_GGAG_MSH6	2	2	2	GA	3	GA	Repeat-mediated
48f9fdb8-3292-11e6-9432-c0e56f39e758	5_81363167_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	81363167	T	TA	720	PASS	ATG10	Ins	intronic	1	2	MSH6	child	5_81363167_TTA_MSH6	1	1	-	-	-	-	Ins
48fda3ee-3271-11e6-b89d-b2d6b0dab373	4_122267946_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	122267946	AT	A	300	PASS	QRFPR	Del	intronic	1	7	MSH6	child	4_122267946_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
4904e870-328f-11e6-9d24-ade56f39e758	7_48297998_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	48297998	TA	T	480	PASS	ABCA13	Del	intronic	1	9	MSH6	child	7_48297998_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
49081bf6-3291-11e6-b81f-4ee66f39e758	8_107927893_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	107927893	CT	C	480	PASS	-	Del	-	1	6	MSH6	child	8_107927893_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
490b8afc-328c-11e6-bd84-429305ad5bc4	1_96340141_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	96340141	TA	T	720	PASS	-	Del	-	1	9	MSH6	child	1_96340141_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
490d4c76-3272-11e6-9065-cc4890e2c2e6	1_81945171_TAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	1	81945171	TA	T	660	PASS	LPHN2	Del	intronic	1	9	MSH6	parent	1_81945171_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
49136a4a-3270-11e6-a539-0e5542c4520d	7_94064053_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	94064053	GA	G	360	PASS	COL1A2	Del	downstream	1	8	MSH6	child	7_94064053_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
4922b8f2-329c-11e6-ae71-0c5325c9da85	1_145633535_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	145633535	CT	C	951	PASS	RNF115	Del	intronic	1	9	MSH6	child	1_145633535_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
49271588-3287-11e6-a284-4b89a2c71c31	4_66433646_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	66433646	AT	A	600	PASS	EPHA5	Del	intronic	1	9	MSH6	child	4_66433646_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
492c7690-329b-11e6-b129-195325c9da85	16_67838479_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	67838479	AT	A	540	PASS	RANBP10	Del	intronic	1	9	MSH6	child	16_67838479_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
4932ab30-328e-11e6-bc33-715238e8a824	2_50125239_AAAGA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	2	50125239	AAAG	A	300	PASS	-	Del	-	3	2	FANCC	child	2_50125239_AAAGA_FANCC	3	3	3	AAG	1	AAG	Repeat-mediated
49336e4e-3289-11e6-821d-8c090e01a414	13_22025974_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	22025974	CA	C	660	PASS	ZDHHC20	Del	intronic	1	9	MSH6	child	13_22025974_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
49343962-326d-11e6-b306-b5204b47a305	2_57752027_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	57752027	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	2_57752027_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
493b301a-3271-11e6-9260-549ffa52e078	11_65878707_TAT	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	11	65878707	TA	T	1320	PASS	PACS1	Del	intronic	1	6	POLB	child	11_65878707_TAT_POLB	1	1	1	A	5	A	Repeat-mediated
493bfda4-3255-11e6-89d3-d29498816cf3	2_190878417_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	190878417	AT	A	420	PASS	-	Del	-	1	8	MSH6	child	2_190878417_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
49411330-329f-11e6-94ca-0aaecc638e3d	X_110993836_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	110993836	AT	A	660	PASS	ALG13	Del	intronic	1	7	MSH6	child	X_110993836_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
49432aa2-3291-11e6-9a6c-80dad8b4fa2c	18_14702378_GAG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	18	14702378	GA	G	540	PASS	-	Del	-	1	8	NUDT1	child	18_14702378_GAG_NUDT1	1	1	1	A	7	A	Repeat-mediated
494630ee-32a0-11e6-aea7-956725c9da85	3_121886221_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	121886221	GT	G	840	PASS	-	Del	-	1	1	MSH6	child	3_121886221_GTG_MSH6	1	1	0	-	0	T	None
494affd0-329a-11e6-b74d-b59fcc638e3d	18_30353166_GCG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	30353166	GC	G	540	PASS	KLHL14	Del	upstream	1	7	MSH6	child	18_30353166_GCG_MSH6	1	1	1	C	6	C	Repeat-mediated
49558390-3283-11e6-9f9b-29bd9b6d3b88	11_82983289_TTA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	11	82983289	T	TA	720	PASS	CCDC90B	Ins	intronic	1	7	EXO1	child	11_82983289_TTA_EXO1	1	1	-	-	-	-	Ins
495f817c-3276-11e6-8fe4-214938e8a824	20_42152127_CAGTGATCCCTCCAGC	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	20	42152127	CAGTGATCCCTCCAG	C	480	PASS	L3MBTL1	Del	intronic	14	1	POLM	child	20_42152127_CAGTGATCCCTCCAGC_POLM	14	>=10	2	AG	0	-	Microhomology-mediated
496477e0-3271-11e6-b89d-b2d6b0dab373	4_122391736_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	122391736	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	4_122391736_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
4965ec3c-329a-11e6-aca6-b39fcc638e3d	2_35432443_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	35432443	GA	G	780	PASS	-	Del	-	1	8	MSH6	child	2_35432443_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
49680396-328b-11e6-b1ec-44eaf6dffcf6	20_8598475_GGA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	20	8598475	G	GA	900	PASS	PLCB1	Ins	intronic	1	6	NUDT1	parent	20_8598475_GGA_NUDT1	1	1	-	-	-	-	Ins
496a94fe-328a-11e6-b74f-549ba2c71c31	20_46817387_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	46817387	GT	G	360	PASS	-	Del	-	1	4	MSH6	child	20_46817387_GTG_MSH6	1	1	1	T	3	T	Repeat-mediated
497521ce-327d-11e6-b1df-d11c0e01a414	7_78874555_GAG	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	7	78874555	GA	G	600	PASS	MAGI2	Del	intronic	1	7	FANCC	parent	7_78874555_GAG_FANCC	1	1	1	A	6	A	Repeat-mediated
498811aa-3285-11e6-821e-69f1bbe6aa09	16_78900867_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	78900867	CA	C	300	PASS	WWOX	Del	intronic	1	3	MSH6	child	16_78900867_CAC_MSH6	1	1	1	A	2	A	Repeat-mediated
498fbf90-328f-11e6-8e48-791e0e01a414	8_115053108_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	115053108	GA	G	540	PASS	-	Del	-	1	9	MSH6	child	8_115053108_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
49905ab8-3276-11e6-b96a-e20a1ea8ec0e	7_138532893_GAATG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	7	138532893	GAAT	G	420	PASS	KIAA1549	Del	intronic	3	2	FANCC	child	7_138532893_GAATG_FANCC	3	3	3	AAT	1	AAT	Repeat-mediated
49a30a9a-3290-11e6-8e48-791e0e01a414	8_22765537_AAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	22765537	A	AG	300	PASS	PEBP4	Ins	intronic	1	1	MSH6	child	8_22765537_AAG_MSH6	1	1	-	-	-	-	Ins
49a96400-328e-11e6-b3cd-1ca5e7d0bdd7	17_50403715_CAGCAAGTCTCTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	17	50403715	CAGCAAGTCTCT	C	600	PASS	-	Del	-	11	1	FANCC	child	17_50403715_CAGCAAGTCTCTC_FANCC	11	>=10	4	AGCA	0	-	Microhomology-mediated
49b3782c-3276-11e6-9e0f-7959cab49462	7_57020288_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	57020288	TG	T	295	PASS	MIR4283-2	Del	downstream	1	1	MSH6	child	7_57020288_TGT_MSH6	1	1	0	-	0	G	None
49b804ba-328e-11e6-b6a6-1f1e0e01a414	4_114948012_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	114948012	AT	A	600	PASS	-	Del	-	1	9	MSH6	child	4_114948012_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
49c30476-3272-11e6-9fba-41ebd8b4fa2c	11_80765551_AAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	80765551	A	AT	300	PASS	-	Ins	-	1	7	MSH6	child	11_80765551_AAT_MSH6	1	1	-	-	-	-	Ins
49cb56e8-328c-11e6-b4fe-93c36f39e758	12_48657443_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	48657443	TA	T	420	PASS	RP11-370I10.2	Del	intronic	1	7	MSH6	child	12_48657443_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
49cf9e3c-326f-11e6-a539-0e5542c4520d	7_17899455_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	17899455	CT	C	300	PASS	SNX13	Del	intronic	1	8	MSH6	child	7_17899455_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
49dd732c-325b-11e6-a39a-dc8512ae24cf	8_88887269_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	88887269	A	AT	300	PASS	DCAF4L2	Ins	upstream	1	5	MSH6	child	8_88887269_AAT_MSH6	1	1	-	-	-	-	Ins
49e2767c-3320-11e6-9320-f78420e7b7a8	16_1737318_GTCG	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	16	1737318	GTC	G	360	PASS	HN1L	Del	intronic	2	1	CHK2	child	16_1737318_GTCG_CHK2	2	2	1	T	0	-	Microhomology-mediated
49e6f24a-3287-11e6-a284-4b89a2c71c31	4_66725930_GTAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	66725930	GTA	G	420	PASS	RP11-51P8.1	Del	downstream	2	5	MSH6	child	4_66725930_GTAG_MSH6	2	2	2	TA	4	TA	Repeat-mediated
49f2c02c-3285-11e6-99eb-713e51c54cdd	16_82705465_AAAGA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	16	82705465	AAAG	A	480	PASS	CDH13	Del	intronic	3	1	EXO1	child	16_82705465_AAAGA_EXO1	3	3	2	AA	0	-	Microhomology-mediated
49f435f4-3273-11e6-89f6-200f6323ba5a	7_101266121_TCT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	7	101266121	TC	T	360	PASS	MYL10	Del	intronic	1	7	POLB	child	7_101266121_TCT_POLB	1	1	1	C	6	C	Repeat-mediated
49f5c8d2-3323-11e6-9b94-35fee9d19ece	9_32893894_TGT	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	9	32893894	TG	T	460	PASS	-	Del	-	1	4	POLE	child	9_32893894_TGT_POLE	1	1	1	G	3	G	Repeat-mediated
4a014878-327a-11e6-92d2-c259c225ee11	3_81083305_GGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	81083305	G	GT	300	PASS	RP11-6B4.1	Ins	intronic	1	6	MSH6	child	3_81083305_GGT_MSH6	1	1	-	-	-	-	Ins
4a0c0486-3291-11e6-9401-04ed6f39e758	3_89217535_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	89217535	AT	A	360	PASS	EPHA3	Del	intronic	1	6	MSH6	child	3_89217535_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
4a130430-3286-11e6-b32c-fd87a2c71c31	5_4364579_ATGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	4364579	ATG	A	720	PASS	-	Del	-	2	6	MSH6	child	5_4364579_ATGA_MSH6	2	2	2	TG	5	TG	Repeat-mediated
4a20d970-3277-11e6-a71d-236235cec73b	X_100827921_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	100827921	AT	A	420	PASS	-	Del	-	1	5	MSH6	child	X_100827921_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
4a2de8da-3273-11e6-975f-8246cab49462	16_53308377_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	53308377	AT	A	360	PASS	CHD9	Del	intronic	1	9	MSH6	child	16_53308377_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
4a37b6c0-328d-11e6-8770-3e160e01a414	9_121578403_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	121578403	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	9_121578403_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
4a41fdba-329c-11e6-aca6-b39fcc638e3d	2_166239793_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	166239793	TA	T	480	PASS	SCN2A	Del	intronic	1	7	MSH6	child	2_166239793_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
4a4bc624-32a1-11e6-aea7-956725c9da85	3_187616742_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	187616742	CT	C	420	PASS	-	Del	-	1	7	MSH6	child	3_187616742_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
4a4e396c-3289-11e6-ba61-6079a178171f	2_239070925_CCTTC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	2	239070925	CCTT	C	420	PASS	-	Del	-	3	1	FANCC	child	2_239070925_CCTTC_FANCC	3	3	2	CT	0	-	Microhomology-mediated
4a580130-3276-11e6-8caa-7235b51afd22	9_107488084_CAC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	9	107488084	CA	C	360	PASS	-	Del	-	1	8	EXO1	child	9_107488084_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
4a59dfda-3273-11e6-abaf-4642cab49462	6_117348457_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	117348457	GA	G	300	PASS	-	Del	-	1	7	MSH6	child	6_117348457_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
4a5c1cb6-3285-11e6-821e-69f1bbe6aa09	16_79189686_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	79189686	GT	G	420	PASS	WWOX	Del	intronic	1	9	MSH6	child	16_79189686_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
4a6224d4-3321-11e6-aa07-9916d8fd0a58	19_58955523_TAT	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	19	58955523	TA	T	900	PASS	ZNF132	Del	upstream	1	8	CHK2	parent	19_58955523_TAT_CHK2	1	1	1	A	7	A	Repeat-mediated
4a636860-3283-11e6-9e76-639d69062303	8_4247666_CATTGTCATCCCATTGTGTTTTAC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	8	4247666	CATTGTCATCCCATTGTGTTTTA	C	300	PASS	CSMD1	Del	intronic	22	1	FANCC	child	8_4247666_CATTGTCATCCCATTGTGTTTTAC_FANCC	22	>=10	3	ATT	0	-	Microhomology-mediated
4a648e18-3290-11e6-92cf-bf2a0e01a414	6_96780193_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	96780193	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	6_96780193_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
4a68f168-329c-11e6-9048-b49fcc638e3d	17_29297736_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	29297736	A	AT	780	PASS	RNF135	Ins	5prime_UTR_variant	1	8	MSH6	child	17_29297736_AAT_MSH6	1	1	-	-	-	-	Ins
4a6c5896-3259-11e6-8cd9-139b7872c165	3_138364711_GAGAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	138364711	GAGA	G	300	PASS	-	Del	-	3	2	MSH6	child	3_138364711_GAGAG_MSH6	3	3	3	AGA	1	AGA	Repeat-mediated
4a6f8de2-3284-11e6-aa1d-e9782aaffa45	4_124312381_TAT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	4	124312381	TA	T	480	PASS	-	Del	-	1	6	POLE	child	4_124312381_TAT_POLE	1	1	1	A	5	A	Repeat-mediated
4a7c30fe-328b-11e6-8eee-76090e01a414	10_130960942_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	130960942	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	10_130960942_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
4a8fdf5e-3273-11e6-8f50-b45335cec73b	19_53336014_TTTC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	19	53336014	T	TTC	420	PASS	-	Ins	-	2	6	CHK2	child	19_53336014_TTTC_CHK2	2	2	-	-	-	-	Ins
4a905cfc-32a2-11e6-bc2c-2a5e25c9da85	4_151660252_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	151660252	C	CT	600	PASS	LRBA	Ins	intronic	1	6	MSH6	child	4_151660252_CCT_MSH6	1	1	-	-	-	-	Ins
4a96ea98-328b-11e6-9c89-8d090e01a414	1_114707086_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	114707086	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	1_114707086_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
4a9bae0e-328e-11e6-b9c4-751d0e01a414	5_137911843_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	137911843	GA	G	420	PASS	HSPA9	Del	upstream	1	9	MSH6	child	5_137911843_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
4a9eb5e8-3254-11e6-89d3-d29498816cf3	2_83741281_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	83741281	TA	T	360	PASS	-	Del	-	1	8	MSH6	child	2_83741281_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
4aa4b0ac-328a-11e6-a32d-75090e01a414	14_80720124_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	80720124	AT	A	420	PASS	DIO2	Del	intronic	1	8	MSH6	child	14_80720124_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
4aac07f8-3294-11e6-a82e-cff0eff7a29c	20_47376853_GTG	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	20	47376853	GT	G	840	PASS	PREX1	Del	intronic	1	6	NEIL1	child	20_47376853_GTG_NEIL1	1	1	1	T	5	T	Repeat-mediated
4ab73a06-328f-11e6-b8e6-91c36f39e758	11_110623621_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	110623621	G	GT	720	PASS	-	Ins	-	1	7	MSH6	child	11_110623621_GGT_MSH6	1	1	-	-	-	-	Ins
4ab93ca2-3285-11e6-a1ac-fd6da2c71c31	13_100854897_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	100854897	CT	C	720	PASS	PCCA	Del	intronic	1	8	MSH6	child	13_100854897_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
4abba748-3277-11e6-ae53-82ab977b3f23	3_157626986_ACA	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	3	157626986	AC	A	540	PASS	-	Del	-	1	4	NUDT1	child	3_157626986_ACA_NUDT1	1	1	1	C	3	C	Repeat-mediated
4abc489e-3257-11e6-acc5-308412ae24cf	5_61698483_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	61698483	CT	C	540	PASS	DIMT1	Del	intronic	1	7	MSH6	child	5_61698483_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
4ad5e040-329a-11e6-8d0f-075325c9da85	14_45597549_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	45597549	CA	C	480	PASS	FKBP3	Del	intronic	1	7	MSH6	child	14_45597549_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
4ad78372-3273-11e6-abaf-4642cab49462	6_117438388_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	117438388	GA	G	660	PASS	-	Del	-	1	8	MSH6	child	6_117438388_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
4ad7d5ca-3291-11e6-90b7-60a39b6d3b88	12_22725156_GTATTACCTCATCTTAACTAATG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	12	22725156	GTATTACCTCATCTTAACTAAT	G	780	PASS	-	Del	-	21	1	NUDT1	child	12_22725156_GTATTACCTCATCTTAACTAATG_NUDT1	21	>=10	2	TA	0	-	Microhomology-mediated
4adc7760-3278-11e6-a391-f6d67d6a9fc7	6_49075010_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	49075010	TA	T	540	PASS	-	Del	-	1	8	MSH6	child	6_49075010_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
4ae3c5c2-328e-11e6-94e1-63e1191589db	3_71751611_GAG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	3	71751611	GA	G	420	PASS	EIF4E3	Del	intronic	1	6	FANCC	child	3_71751611_GAG_FANCC	1	1	1	A	5	A	Repeat-mediated
4aeb8eca-3274-11e6-9e18-3a69671699ea	10_127390570_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	127390570	CT	C	420	PASS	RP11-383C5.3	Del	intronic	1	8	MSH6	child	10_127390570_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
4aed649e-329b-11e6-8d0f-075325c9da85	14_101223078_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	101223078	CA	C	780	PASS	-	Del	-	1	8	MSH6	child	14_101223078_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
4aedcf14-3283-11e6-9e76-639d69062303	8_4441401_ATAAATCTTGCA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	8	4441401	ATAAATCTTGC	A	360	PASS	CSMD1	Del	intronic	10	1	FANCC	child	8_4441401_ATAAATCTTGCA_FANCC	10	>=10	1	T	0	-	Microhomology-mediated
4b056d26-3275-11e6-8889-c85efc77b11e	4_92876400_CTC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	4	92876400	CT	C	540	PASS	-	Del	-	1	7	MSH6	parent	4_92876400_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
4b0a2d90-3322-11e6-9611-6b5266a58581	9_13867771_ATA	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	9	13867771	AT	A	540	PASS	-	Del	-	1	9	CHK2	parent	9_13867771_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
4b0affc8-3277-11e6-92d2-c259c225ee11	3_67905842_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	67905842	CT	C	360	PASS	RP11-81N13.1	Del	intronic	1	8	MSH6	child	3_67905842_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
4b0eb322-3275-11e6-bfb2-2749c225ee11	12_54090806_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	54090806	C	CA	300	PASS	-	Ins	-	1	6	MSH6	child	12_54090806_CCA_MSH6	1	1	-	-	-	-	Ins
4b0ede66-3256-11e6-89d3-d29498816cf3	2_40601984_CCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	40601984	C	CT	480	PASS	SLC8A1	Ins	intronic	1	6	MSH6	child	2_40601984_CCT_MSH6	1	1	-	-	-	-	Ins
4b1483c6-3255-11e6-b4d0-327a7872c165	11_119199388_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	119199388	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	11_119199388_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
4b21128a-3273-11e6-a862-bc9becf1e924	1_53902025_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	53902025	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	1_53902025_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
4b27cb52-3255-11e6-a304-347a7872c165	1_113628792_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	113628792	AT	A	660	PASS	LRIG2	Del	intronic	1	6	MSH6	child	1_113628792_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
4b311aba-328a-11e6-b74f-549ba2c71c31	20_47437738_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	47437738	TA	T	660	PASS	PREX1	Del	intronic	1	9	MSH6	child	20_47437738_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
4b38e62c-3277-11e6-998e-ba48fa52e078	8_125739914_ACA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	125739914	AC	A	780	PASS	MTSS1	Del	intronic	1	6	MSH6	child	8_125739914_ACA_MSH6	1	1	1	C	5	C	Repeat-mediated
4b3a0be4-3275-11e6-ad99-592f98ba1142	1_146791945_GAG	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	1	146791945	GA	G	720	PASS	-	Del	-	1	8	NEIL1	child	1_146791945_GAG_NEIL1	1	1	1	A	7	A	Repeat-mediated
4b463246-326d-11e6-bc62-6d4742c4520d	16_52287266_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	52287266	CT	C	300	PASS	RP11-142G1.1	Del	intronic	1	8	MSH6	child	16_52287266_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
4b4fcdce-3321-11e6-98d8-e3f9cf737e61	17_35546592_TAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	17	35546592	TA	T	420	PASS	ACACA	Del	intronic	1	9	EXO1	child	17_35546592_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
4b52cf98-3285-11e6-99f7-076ea2c71c31	12_78519400_GTGCCG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	78519400	GTGCC	G	420	PASS	NAV3	Del	intronic	4	1	MSH6	child	12_78519400_GTGCCG_MSH6	4	4	2	TG	0	-	Microhomology-mediated
4b5691a0-3285-11e6-870e-6af1bbe6aa09	19_53251855_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	53251855	CT	C	600	PASS	-	Del	-	1	5	MSH6	child	19_53251855_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
4b6afebc-3274-11e6-b776-ad832aaffa45	13_99047827_CGTCCCGATCCCGC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	13	99047827	CGTCCCGATCCCG	C	420	PASS	FARP1	Del	intronic	12	2	EXO1	child	13_99047827_CGTCCCGATCCCGC_EXO1	12	>=10	12	GTCCCGATCCCG	1	GTCCCGATCCCG	Repeat-mediated
4b6c4798-3285-11e6-97d5-6cf1bbe6aa09	17_69644221_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	69644221	GA	G	540	PASS	-	Del	-	1	9	MSH6	child	17_69644221_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
4b6f6e2a-3274-11e6-90a5-ccdb6de4ab00	2_74107047_CCTCCACTC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	2	74107047	CCTCCACT	C	300	PASS	-	Del	-	7	1	CHK2	child	2_74107047_CCTCCACTC_CHK2	7	7	6	CTCCAC	0	-	Microhomology-mediated
4b78d8ec-327a-11e6-92d2-c259c225ee11	3_81429643_TTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	81429643	T	TG	840	PASS	-	Ins	-	1	2	MSH6	child	3_81429643_TTG_MSH6	1	1	-	-	-	-	Ins
4b7d9716-3256-11e6-a349-7f23ee3c4f5d	3_113371504_TAT	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	3	113371504	TA	T	300	PASS	KIAA2018	Del	3prime_UTR_variant	1	9	POLB	child	3_113371504_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
4b7ef98e-329d-11e6-bc2c-2a5e25c9da85	4_26221385_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	26221385	GT	G	420	PASS	RBPJ	Del	intronic	1	8	MSH6	child	4_26221385_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
4b80275e-329e-11e6-8c2e-3f6625c9da85	22_23616488_TCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	22	23616488	TC	T	480	PASS	BCR	Del	intronic	1	7	MSH6	child	22_23616488_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
4b9103fa-326f-11e6-b77c-ce5aceda8250	11_46624560_ATA	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	11	46624560	AT	A	480	PASS	HARBI1	Del	3prime_UTR_variant	1	7	POLM	child	11_46624560_ATA_POLM	1	1	1	T	6	T	Repeat-mediated
4b971bc4-329b-11e6-ae71-0c5325c9da85	1_74667250_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	74667250	CT	C	420	PASS	FPGT	Del	intronic	1	7	MSH6	child	1_74667250_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
4b992a94-3283-11e6-aa1d-e9782aaffa45	4_30683865_TAACT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	4	30683865	TAAC	T	660	PASS	-	Del	-	3	2	POLE	child	4_30683865_TAACT_POLE	3	3	3	AAC	1	AAC	Repeat-mediated
4b9aab46-328b-11e6-b805-77090e01a414	2_136266740_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	136266740	GA	G	300	PASS	ZRANB3	Del	intronic	1	9	MSH6	child	2_136266740_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
4b9deed0-328d-11e6-919e-92c36f39e758	2_120715755_AATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	120715755	AAT	A	540	PASS	PTPN4	Del	intronic	2	2	MSH6	child	2_120715755_AATA_MSH6	2	2	2	AT	1	AT	Repeat-mediated
4b9fd840-3287-11e6-86e9-d4770d016689	X_155021338_CAC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	X	155021338	CA	C	480	PASS	-	Del	-	1	7	EXO1	child	X_155021338_CAC_EXO1	1	1	1	A	6	A	Repeat-mediated
4ba865b0-329f-11e6-b696-dd6225c9da85	5_143634074_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	143634074	TA	T	600	PASS	KCTD16	Del	intronic	1	7	MSH6	child	5_143634074_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
4ba97c4a-3289-11e6-a8ac-a28ea2c71c31	3_168578161_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	168578161	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	3_168578161_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
4bb59c4a-3258-11e6-acc5-308412ae24cf	5_138837886_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	138837886	TA	T	300	PASS	ECSCR	Del	intronic	1	9	MSH6	child	5_138837886_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
4bb6a622-327a-11e6-92d2-c259c225ee11	3_81481088_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	81481088	A	AT	540	PASS	-	Ins	-	1	8	MSH6	child	3_81481088_AAT_MSH6	1	1	-	-	-	-	Ins
4bbf0e28-3286-11e6-aa13-78428e4678dd	5_143196132_GGTA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	5	143196132	G	GTA	480	PASS	HMHB1	Ins	intronic	2	4	EXO1	child	5_143196132_GGTA_EXO1	2	2	-	-	-	-	Ins
4bc1380a-328c-11e6-aa75-90c36f39e758	13_67462623_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	67462623	GA	G	420	PASS	PCDH9	Del	intronic	1	7	MSH6	child	13_67462623_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
4bc76b5a-327b-11e6-b10f-b842a20b69d5	9_106050363_CAC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	9	106050363	CA	C	540	PASS	RP11-341A22.2	Del	intronic	1	7	FANCC	parent	9_106050363_CAC_FANCC	1	1	1	A	6	A	Repeat-mediated
4be46272-3254-11e6-81f9-42f212ae24cf	17_37889853_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	17	37889853	GT	G	360	PASS	ERBB2	Del	downstream	1	8	MSH6	child	17_37889853_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
4be613ee-3284-11e6-a673-cc9b38e8a824	7_31069913_TGT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	7	31069913	TG	T	720	PASS	-	Del	-	1	6	POLE	parent	7_31069913_TGT_POLE	1	1	1	G	5	G	Repeat-mediated
4be6b4fa-3277-11e6-ad99-592f98ba1142	1_42896258_GGA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	1	42896258	G	GA	540	PASS	ZMYND12	Ins	3prime_UTR_variant	1	6	NEIL1	child	1_42896258_GGA_NEIL1	1	1	-	-	-	-	Ins
4bfaeabe-329b-11e6-a5cf-205325c9da85	11_90214197_CCTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	90214197	CCT	C	900	PASS	DISC1FP1	Del	intronic	2	5	MSH6	child	11_90214197_CCTC_MSH6	2	2	2	CT	4	CT	Repeat-mediated
4bfc527a-328a-11e6-821d-8c090e01a414	13_81168852_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	81168852	GA	G	360	PASS	-	Del	-	1	6	MSH6	child	13_81168852_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
4c0044e6-3273-11e6-826a-adb6fa52e078	17_50823791_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	17	50823791	AT	A	420	PASS	-	Del	-	1	7	MSH6	child	17_50823791_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
4c0147ba-3291-11e6-b81f-4ee66f39e758	8_108701938_TAAAAAATAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	108701938	TAAAAAATA	T	480	PASS	-	Del	-	8	1	MSH6	child	8_108701938_TAAAAAATAT_MSH6	8	8	1	A	0	-	Microhomology-mediated
4c0fb2aa-32a0-11e6-a04f-c66a25c9da85	6_64077992_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	64077992	TA	T	360	PASS	-	Del	-	1	7	MSH6	child	6_64077992_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
4c11f722-3322-11e6-9ef4-36112eaed38e	9_13863162_TCTAGT	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	9	13863162	TCTAG	T	480	PASS	-	Del	-	4	1	CHK2	child	9_13863162_TCTAGT_CHK2	4	4	3	CTA	0	-	Microhomology-mediated
4c14adbe-3287-11e6-b32c-fd87a2c71c31	5_116383174_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	116383174	TA	T	671	PASS	-	Del	-	1	8	MSH6	child	5_116383174_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
4c18d482-3284-11e6-b06d-a60c48d16a24	6_142594761_GCAAAG	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	6	142594761	GCAAA	G	300	PASS	-	Del	-	4	1	POLM	child	6_142594761_GCAAAG_POLM	4	4	2	CA	0	-	Microhomology-mediated
4c19d4b2-328f-11e6-bfa2-581f0e01a414	7_155121802_GCG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	155121802	GC	G	1002	PASS	-	Del	-	1	1	MSH6	child	7_155121802_GCG_MSH6	1	1	0	-	0	C	None
4c1f2304-3285-11e6-839a-bb9738e8a824	8_53199551_TAT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	8	53199551	TA	T	480	PASS	ST18	Del	intronic	1	8	POLE	parent	8_53199551_TAT_POLE	1	1	1	A	7	A	Repeat-mediated
4c27bc74-3282-11e6-9da4-3e472a2d4995	1_171610998_CTC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	1	171610998	CT	C	600	PASS	MYOC	Del	intronic	1	3	EXO1	child	1_171610998_CTC_EXO1	1	1	1	T	2	T	Repeat-mediated
4c2e617e-3326-11e6-9918-868d0322d171	7_131049548_GTG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	7	131049548	GT	G	480	PASS	MKLN1	Del	intronic	1	8	EXO1	child	7_131049548_GTG_EXO1	1	1	1	T	7	T	Repeat-mediated
4c345ed8-3323-11e6-84e3-a2cceab8d062	2_234429081_GAG	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	2	234429081	GA	G	1020	PASS	USP40	Del	intronic	1	8	CHK2	parent	2_234429081_GAG_CHK2	1	1	1	A	7	A	Repeat-mediated
4c41ea06-328a-11e6-a32d-75090e01a414	14_81320698_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	81320698	CA	C	300	PASS	CEP128	Del	intronic	1	8	MSH6	child	14_81320698_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
4c464cda-3259-11e6-a39a-dc8512ae24cf	8_105977298_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	105977298	GT	G	540	PASS	-	Del	-	1	8	MSH6	child	8_105977298_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
4c5496e2-3271-11e6-9309-bdc34a47a305	8_107666180_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	107666180	TA	T	780	PASS	OXR1	Del	intronic	1	8	MSH6	child	8_107666180_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
4c57beae-3275-11e6-a9be-d53298ba1142	13_72557655_GAG	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	13	72557655	GA	G	420	PASS	-	Del	-	1	8	POLM	child	13_72557655_GAG_POLM	1	1	1	A	7	A	Repeat-mediated
4c5c7da0-326f-11e6-b5b8-e0c24a47a305	X_24272447_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	24272447	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	X_24272447_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
4c845424-3288-11e6-a8a6-92e95d753391	10_58486626_CTC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	10	58486626	CT	C	300	PASS	-	Del	-	1	9	POLE	child	10_58486626_CTC_POLE	1	1	1	T	8	T	Repeat-mediated
4c8da084-3287-11e6-afcf-0311bce6aa09	9_16870938_AAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	16870938	A	AC	360	PASS	BNC2	Ins	upstream	1	1	MSH6	child	9_16870938_AAC_MSH6	1	1	-	-	-	-	Ins
4c8db4ea-328f-11e6-9230-fb250e01a414	3_89254798_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	89254798	GA	G	780	PASS	EPHA3	Del	intronic	1	5	MSH6	child	3_89254798_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
4c8f23ca-328f-11e6-92db-6c56f0f7a29c	1_78971333_ATA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	1	78971333	AT	A	660	PASS	PTGFR	Del	intronic	1	8	NEIL1	child	1_78971333_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
4ca07846-3258-11e6-acc5-308412ae24cf	5_138989669_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	138989669	TA	T	952	PASS	UBE2D2	Del	intronic	1	6	MSH6	child	5_138989669_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
4ca6617e-326d-11e6-acc7-e55219a91649	1_73961518_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	73961518	CT	C	360	PASS	-	Del	-	1	7	MSH6	child	1_73961518_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
4ca83134-3254-11e6-89d3-d29498816cf3	2_84752267_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	84752267	AT	A	540	PASS	DNAH6	Del	intronic	1	8	MSH6	child	2_84752267_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
4ca8b2a2-327d-11e6-8cd6-250199816cf3	5_13381375_TAT	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	5	13381375	TA	T	420	PASS	-	Del	-	1	1	POLM	child	5_13381375_TAT_POLM	1	1	0	-	0	A	None
4cb828fe-329b-11e6-a0ea-135325c9da85	15_71706664_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	71706664	CT	C	660	PASS	THSD4	Del	intronic	1	7	MSH6	child	15_71706664_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
4cbc52f4-3254-11e6-89d3-d29498816cf3	2_84761767_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	84761767	TA	T	360	PASS	DNAH6	Del	intronic	1	7	MSH6	child	2_84761767_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
4cbece1e-3275-11e6-a279-106e671699ea	3_176159016_TAT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	3	176159016	TA	T	480	PASS	-	Del	-	1	3	EXO1	parent	3_176159016_TAT_EXO1	1	1	1	A	2	A	Repeat-mediated
4cbf20a0-334a-11e6-b3a1-d0f2137bb207	5_160255456_TAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	5	160255456	TA	T	283	PASS	ATP10B	Del	intronic	1	7	FANCC	child	5_160255456_TAT_FANCC	1	1	1	A	6	A	Repeat-mediated
4cc23894-329b-11e6-8069-175325c9da85	12_86296826_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	86296826	TA	T	720	PASS	-	Del	-	1	6	MSH6	child	12_86296826_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
4ccf9c7c-3292-11e6-802b-5da39b6d3b88	10_106701714_GAG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	10	106701714	GA	G	300	PASS	SORCS3	Del	intronic	1	7	NUDT1	child	10_106701714_GAG_NUDT1	1	1	1	A	6	A	Repeat-mediated
4cd0c3f0-328c-11e6-bd84-429305ad5bc4	1_98624918_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	98624918	TA	T	420	PASS	-	Del	-	1	6	MSH6	child	1_98624918_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
4cd7dd50-3257-11e6-a39a-dc8512ae24cf	8_38623354_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	38623354	GA	G	1140	PASS	TACC1	Del	intronic	1	8	MSH6	child	8_38623354_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
4ce95f00-325a-11e6-a39a-dc8512ae24cf	8_16555456_GGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	16555456	G	GA	540	PASS	RP11-13N12.1	Ins	intronic	1	9	MSH6	child	8_16555456_GGA_MSH6	1	1	-	-	-	-	Ins
4cf42540-332a-11e6-91f6-970e147bb207	6_83971745_AAG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	6	83971745	A	AG	300	PASS	ME1	Ins	intronic	1	1	EXO1	child	6_83971745_AAG_EXO1	1	1	-	-	-	-	Ins
4cf4d5a0-3274-11e6-b332-88ba7d6a9fc7	15_82283863_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	82283863	AT	A	480	PASS	RP11-276M12.1	Del	intronic	1	8	MSH6	child	15_82283863_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
4cfc1524-3277-11e6-92d2-c259c225ee11	3_68671510_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	68671510	CA	C	600	PASS	-	Del	-	1	9	MSH6	child	3_68671510_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
4cfdf8c0-3273-11e6-abaf-4642cab49462	6_118010171_CGC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	118010171	CG	C	360	PASS	NUS1	Del	intronic	1	3	MSH6	child	6_118010171_CGC_MSH6	1	1	1	G	2	G	Repeat-mediated
4d0ba6da-3270-11e6-b4bf-85eb97ba1142	2_118560625_TAT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	2	118560625	TA	T	420	PASS	-	Del	-	1	9	EXO1	parent	2_118560625_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
4d130a96-329e-11e6-8c2e-3f6625c9da85	22_23822495_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	22	23822495	TA	T	840	PASS	AP000345.1	Del	intronic	1	6	MSH6	child	22_23822495_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
4d2203fe-3279-11e6-8c34-46e27872c165	5_95357157_CCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	95357157	C	CT	360	PASS	-	Ins	-	1	9	MSH6	child	5_95357157_CCT_MSH6	1	1	-	-	-	-	Ins
4d243962-3274-11e6-97a4-7a51e7d0bdd7	12_107232006_GAG	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	12	107232006	GA	G	360	PASS	RIC8B	Del	intronic	1	7	POLB	child	12_107232006_GAG_POLB	1	1	1	A	6	A	Repeat-mediated
4d31a618-328f-11e6-bb1e-70e16f39e758	X_74583528_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	74583528	CT	C	480	PASS	ZDHHC15	Del	downstream	1	8	MSH6	child	X_74583528_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
4d3a4270-326f-11e6-a539-0e5542c4520d	7_18921817_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	18921817	AT	A	360	PASS	HDAC9	Del	intronic	1	8	MSH6	child	7_18921817_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
4d44031e-3292-11e6-9432-c0e56f39e758	5_82979859_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	82979859	C	CA	420	PASS	HAPLN1	Ins	intronic	1	1	MSH6	child	5_82979859_CCA_MSH6	1	1	-	-	-	-	Ins
4d499a2c-3274-11e6-922f-729069062303	9_131819449_ATA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	9	131819449	AT	A	900	PASS	FAM73B	Del	intronic	1	8	CHK2	child	9_131819449_ATA_CHK2	1	1	1	T	7	T	Repeat-mediated
4d540618-3285-11e6-8313-52c92daed38e	6_125817772_ATA	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	6	125817772	AT	A	420	PASS	-	Del	-	1	6	POLB	child	6_125817772_ATA_POLB	1	1	1	T	5	T	Repeat-mediated
4d5eaee4-32a1-11e6-aea7-956725c9da85	3_188471616_ACAGACATTGGAGCCACCTTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	188471616	ACAGACATTGGAGCCACCTT	A	540	PASS	LPP	Del	intronic	19	1	MSH6	child	3_188471616_ACAGACATTGGAGCCACCTTA_MSH6	19	>=10	0	-	0	-	None
4d5fe794-3276-11e6-83cd-a472a178171f	4_89569876_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	89569876	AT	A	660	PASS	HERC3	Del	intronic	1	9	MSH6	child	4_89569876_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
4d61b504-3287-11e6-8bf5-48a538e8a824	14_46203437_ATGA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	14	46203437	ATG	A	540	PASS	-	Del	-	2	7	NUDT1	parent	14_46203437_ATGA_NUDT1	2	2	2	TG	6	TG	Repeat-mediated
4d650f4e-328a-11e6-8580-eccd191589db	16_81540693_TAT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	16	81540693	TA	T	360	PASS	CMIP	Del	intronic	1	8	FANCC	child	16_81540693_TAT_FANCC	1	1	1	A	7	A	Repeat-mediated
4d659576-3272-11e6-940c-da0fead19ece	11_50344817_GAGCTAG	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	11	50344817	GAGCTA	G	480	PASS	-	Del	-	5	1	NEIL1	child	11_50344817_GAGCTAG_NEIL1	5	5	3	AGC	0	-	Microhomology-mediated
4d6abf9e-3289-11e6-821d-8c090e01a414	13_22908759_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	22908759	GA	G	480	PASS	-	Del	-	1	5	MSH6	child	13_22908759_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
4d745bd8-329f-11e6-91d0-016425c9da85	7_106023255_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	106023255	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	7_106023255_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
4d771080-328b-11e6-b805-77090e01a414	2_136673771_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	136673771	TA	T	480	PASS	DARS	Del	intronic	1	9	MSH6	child	2_136673771_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
4d792582-326d-11e6-adc2-b7204b47a305	18_57741144_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	57741144	GT	G	294	PASS	-	Del	-	1	7	MSH6	child	18_57741144_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
4d7cf12c-329e-11e6-bc2c-2a5e25c9da85	4_88987142_ACTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	88987142	ACT	A	360	PASS	PKD2	Del	intronic	2	7	MSH6	child	4_88987142_ACTA_MSH6	2	2	2	CT	6	CT	Repeat-mediated
4d83f7a0-326d-11e6-acc7-e55219a91649	1_74290348_TGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	74290348	TG	T	360	PASS	-	Del	-	1	5	MSH6	child	1_74290348_TGT_MSH6	1	1	1	G	4	G	Repeat-mediated
4d894ba4-326f-11e6-b306-b5204b47a305	2_236406912_TCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	236406912	TC	T	540	PASS	AGAP1	Del	intronic	1	5	MSH6	child	2_236406912_TCT_MSH6	1	1	1	C	4	C	Repeat-mediated
4d913212-3272-11e6-bbeb-70bd19a91649	20_17968558_TGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	20	17968558	TG	T	300	PASS	MGME1	Del	intronic	1	7	MSH6	child	20_17968558_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
4d983a1e-328e-11e6-b8e6-91c36f39e758	11_42539705_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	42539705	C	CA	436	PASS	-	Ins	-	1	8	MSH6	child	11_42539705_CCA_MSH6	1	1	-	-	-	-	Ins
4d99efa6-329a-11e6-ae71-0c5325c9da85	1_22260839_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	22260839	AT	A	960	PASS	HSPG2	Del	intronic	1	5	MSH6	child	1_22260839_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
4d9a2026-328f-11e6-9d97-efe56f39e758	4_45925126_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	45925126	CT	C	480	PASS	-	Del	-	1	7	MSH6	child	4_45925126_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
4daa94ca-329d-11e6-aca6-b39fcc638e3d	2_225713612_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	225713612	GA	G	480	PASS	DOCK10	Del	intronic	1	8	MSH6	child	2_225713612_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
4dac5372-3276-11e6-8c34-46e27872c165	5_62434707_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	62434707	CT	C	600	PASS	-	Del	-	1	9	MSH6	child	5_62434707_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
4db072a0-3289-11e6-821d-8c090e01a414	13_22976454_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	22976454	AT	A	300	PASS	-	Del	-	1	6	MSH6	child	13_22976454_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
4db2790e-329f-11e6-b696-dd6225c9da85	5_144239926_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	144239926	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	5_144239926_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
4db81f84-3291-11e6-92cf-bf2a0e01a414	6_159159279_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	159159279	GT	G	360	PASS	SYTL3	Del	intronic	1	7	MSH6	child	6_159159279_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
4dbd9308-328f-11e6-9230-fb250e01a414	3_89974935_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	89974935	CA	C	360	PASS	-	Del	-	1	9	MSH6	child	3_89974935_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
4dbf152a-3271-11e6-acc7-e55219a91649	1_170478926_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	170478926	T	TA	300	PASS	-	Ins	-	1	4	MSH6	child	1_170478926_TTA_MSH6	1	1	-	-	-	-	Ins
4dc3c24c-3289-11e6-b805-77090e01a414	2_7343520_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	7343520	CA	C	360	PASS	-	Del	-	1	3	MSH6	child	2_7343520_CAC_MSH6	1	1	1	A	2	A	Repeat-mediated
4dc56204-3285-11e6-99f7-076ea2c71c31	12_79381465_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	79381465	TA	T	540	PASS	SYT1	Del	intronic	1	7	MSH6	child	12_79381465_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
4dc7deee-3285-11e6-97d5-6cf1bbe6aa09	17_70681141_GGCCAGACACAAGATACAAATGGTGCTGAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	70681141	GGCCAGACACAAGATACAAATGGTGCTGA	G	540	PASS	SLC39A11	Del	intronic	28	1	MSH6	child	17_70681141_GGCCAGACACAAGATACAAATGGTGCTGAG_MSH6	28	>=10	2	GC	0	-	Microhomology-mediated
4dcaab5a-3277-11e6-bcf0-b3e76de4ab00	22_25990876_TAT	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	22	25990876	TA	T	360	PASS	ADRBK2	Del	intronic	1	5	CHK2	child	22_25990876_TAT_CHK2	1	1	1	A	4	A	Repeat-mediated
4dd84a96-3275-11e6-a71d-236235cec73b	X_935255_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	935255	GT	G	480	PASS	-	Del	-	1	6	MSH6	child	X_935255_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
4dd85dbe-3325-11e6-afff-8a61fc77b11e	7_10235836_ATA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	7	10235836	AT	A	600	PASS	-	Del	-	1	5	EXO1	child	7_10235836_ATA_EXO1	1	1	1	T	4	T	Repeat-mediated
4de82cba-3273-11e6-a862-bc9becf1e924	1_54691179_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	54691179	CT	C	540	PASS	SSBP3	Del	downstream	1	8	MSH6	child	1_54691179_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
4decdff6-3252-11e6-bb07-5705ee3c4f5d	11_61633745_CTTC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	11	61633745	CTT	C	540	PASS	FADS2	Del	3prime_UTR_variant	2	2	POLB	child	11_61633745_CTTC_POLB	2	2	0	-	0	-	None
4dedbc7a-3273-11e6-975f-8246cab49462	16_54104467_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	54104467	AT	A	600	PASS	FTO	Del	intronic	1	7	MSH6	child	16_54104467_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
4df933bc-329a-11e6-b74d-b59fcc638e3d	18_31797240_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	31797240	CT	C	716	PASS	NOL4	Del	intronic	1	9	MSH6	child	18_31797240_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
4dfefe90-329b-11e6-aca6-b39fcc638e3d	2_99970828_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	99970828	AT	A	540	PASS	EIF5B	Del	intronic	1	6	MSH6	child	2_99970828_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
4e09170a-3277-11e6-9608-84e46de4ab00	7_115029336_GTG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	7	115029336	GT	G	780	PASS	-	Del	-	1	2	EXO1	child	7_115029336_GTG_EXO1	1	1	1	T	1	T	Repeat-mediated
4e0a2e8c-327d-11e6-8723-889be7d0bdd7	2_120510069_CACTAC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	2	120510069	CACTA	C	300	PASS	-	Del	-	4	2	NUDT1	child	2_120510069_CACTAC_NUDT1	4	4	4	ACTA	1	ACTA	Repeat-mediated
4e0ec4f6-328c-11e6-bd84-429305ad5bc4	1_99328124_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	99328124	CT	C	780	PASS	-	Del	-	1	8	MSH6	child	1_99328124_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
4e0fb132-3254-11e6-89d3-d29498816cf3	2_85275502_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	85275502	AT	A	540	PASS	KCMF1	Del	intronic	1	8	MSH6	child	2_85275502_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
4e1566c2-3286-11e6-ba9a-5a79a178171f	14_60629485_CTC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	14	60629485	CT	C	480	PASS	DHRS7	Del	intronic	1	8	FANCC	child	14_60629485_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
4e17eec2-3274-11e6-8cac-d8617098ee92	10_116770420_CCA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	10	116770420	C	CA	300	PASS	-	Ins	-	1	8	FANCC	child	10_116770420_CCA_FANCC	1	1	-	-	-	-	Ins
4e23d38e-328a-11e6-9b74-edcd191589db	10_91327012_AGAGCTGTACATGTCTTTGA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	10	91327012	AGAGCTGTACATGTCTTTG	A	420	PASS	-	Del	-	18	1	FANCC	child	10_91327012_AGAGCTGTACATGTCTTTGA_FANCC	18	>=10	4	GAGC	0	-	Microhomology-mediated
4e3cfcd6-329b-11e6-9048-b49fcc638e3d	17_63845064_CCTGC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	63845064	CCTG	C	540	PASS	CEP112	Del	intronic	3	3	MSH6	child	17_63845064_CCTGC_MSH6	3	3	3	CTG	2	CTG	Repeat-mediated
4e4623fc-329f-11e6-91d0-016425c9da85	7_106389760_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	106389760	TA	T	600	PASS	-	Del	-	1	9	MSH6	child	7_106389760_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
4e47cdf2-3271-11e6-81c8-19f506e9a829	2_33535441_ACTAATGAAAACACAGA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	2	33535441	ACTAATGAAAACACAG	A	420	PASS	LTBP1	Del	intronic	15	1	FANCC	child	2_33535441_ACTAATGAAAACACAGA_FANCC	15	>=10	1	C	0	-	Microhomology-mediated
4e4978b6-328d-11e6-b9c4-751d0e01a414	5_68122113_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	68122113	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	5_68122113_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
4e693a48-32a1-11e6-aea7-956725c9da85	3_188809643_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	188809643	AT	A	480	PASS	TPRG1	Del	intronic	1	8	MSH6	child	3_188809643_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
4e75d228-326d-11e6-adc2-b7204b47a305	18_58571789_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	58571789	AT	A	300	PASS	RP11-325K19.1	Del	upstream	1	9	MSH6	child	18_58571789_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
4e88a628-329a-11e6-b74d-b59fcc638e3d	18_31995086_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	31995086	CT	C	780	PASS	-	Del	-	1	8	MSH6	child	18_31995086_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
4e8d425c-3275-11e6-90ac-b4c37872c165	8_16701909_GGT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	8	16701909	G	GT	600	PASS	RP11-13N12.1	Ins	intronic	1	1	NEIL1	child	8_16701909_GGT_NEIL1	1	1	-	-	-	-	Ins
4e90f6f8-3325-11e6-98e4-0c20d8fd0a58	X_113971616_CTC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	X	113971616	CT	C	300	PASS	HTR2C	Del	intronic	1	8	CHK2	parent	X_113971616_CTC_CHK2	1	1	1	T	7	T	Repeat-mediated
4e93acae-328f-11e6-9d97-efe56f39e758	4_46190472_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	46190472	GA	G	480	PASS	-	Del	-	1	8	MSH6	child	4_46190472_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
4e998756-3284-11e6-aa13-78428e4678dd	5_149927413_ATA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	5	149927413	AT	A	660	PASS	NDST1	Del	intronic	1	5	EXO1	child	5_149927413_ATA_EXO1	1	1	1	T	4	T	Repeat-mediated
4e9a3e34-329e-11e6-bc2c-2a5e25c9da85	4_89230585_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	89230585	GA	G	540	PASS	RP11-10L7.1	Del	intronic	1	9	MSH6	child	4_89230585_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
4ea25c40-328f-11e6-a081-1bb7a178171f	X_44565134_GTG	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	X	44565134	GT	G	720	PASS	-	Del	-	1	5	POLE	child	X_44565134_GTG_POLE	1	1	1	T	4	T	Repeat-mediated
4eb3f336-32a0-11e6-aea7-956725c9da85	3_122977246_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	122977246	GA	G	660	PASS	SEC22A	Del	intronic	1	9	MSH6	child	3_122977246_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
4ebb092e-3286-11e6-b84c-a2a0fc1f1540	1_87811759_CTC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	1	87811759	CT	C	600	PASS	LMO4	Del	3prime_UTR_variant	1	7	FANCC	child	1_87811759_CTC_FANCC	1	1	1	T	6	T	Repeat-mediated
4ebd7748-3256-11e6-b25c-c08312ae24cf	6_1563335_ATA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	6	1563335	AT	A	360	PASS	-	Del	-	1	1	POLB	child	6_1563335_ATA_POLB	1	1	0	-	0	T	None
4ebe0b1a-3272-11e6-abaf-4642cab49462	6_45740249_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	45740249	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	6_45740249_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
4ec2b37a-3274-11e6-a390-fc104530f757	1_239183074_GAG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	1	239183074	GA	G	480	PASS	-	Del	-	1	7	FANCC	child	1_239183074_GAG_FANCC	1	1	1	A	6	A	Repeat-mediated
4ec48cc8-3291-11e6-b77d-2eef6f39e758	6_52122495_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	52122495	GA	G	840	PASS	-	Del	-	1	6	MSH6	child	6_52122495_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
4ec6a2ca-3281-11e6-9f44-a22236fc2f7d	18_48948881_GAG	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	18	48948881	GA	G	480	PASS	RP11-267C16.1	Del	intronic	1	7	NUDT1	child	18_48948881_GAG_NUDT1	1	1	1	A	6	A	Repeat-mediated
4ec6e316-3286-11e6-90da-f3a469062303	6_167750369_ACTGAAAAGAAGCATTTCA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	6	167750369	ACTGAAAAGAAGCATTTC	A	540	PASS	TTLL2	Del	intronic	17	1	FANCC	child	6_167750369_ACTGAAAAGAAGCATTTCA_FANCC	17	>=10	2	CT	0	-	Microhomology-mediated
4ec6e5ea-3273-11e6-bb8e-1d1e987b3f23	21_29093522_GAG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	21	29093522	GA	G	360	PASS	LINC00113	Del	upstream	1	7	NUDT1	child	21_29093522_GAG_NUDT1	1	1	1	A	6	A	Repeat-mediated
4ec73fe6-3286-11e6-b32c-fd87a2c71c31	5_6925053_ACA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	6925053	AC	A	360	PASS	-	Del	-	1	5	MSH6	child	5_6925053_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
4ec7b73a-3274-11e6-9e18-3a69671699ea	10_128316584_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	128316584	TA	T	780	PASS	C10orf90	Del	intronic	1	8	MSH6	child	10_128316584_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
4ed49728-3271-11e6-bd32-d83490e2c2e6	12_12975395_AAT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	12	12975395	A	AT	600	PASS	DDX47	Ins	intronic	1	7	POLB	child	12_12975395_AAT_POLB	1	1	-	-	-	-	Ins
4ed6144c-32a1-11e6-b696-dd6225c9da85	5_92294216_GGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	92294216	G	GT	420	PASS	-	Ins	-	1	8	MSH6	child	5_92294216_GGT_MSH6	1	1	-	-	-	-	Ins
4ed74afe-328a-11e6-9c89-8d090e01a414	1_52915804_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	52915804	CA	C	480	PASS	ZCCHC11	Del	intronic	1	7	MSH6	child	1_52915804_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
4ed8b790-326c-11e6-845f-b7e0c125ee11	11_20553875_GAG	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	11	20553875	GA	G	540	PASS	-	Del	-	1	6	POLM	parent	11_20553875_GAG_POLM	1	1	1	A	5	A	Repeat-mediated
4ee2e454-328a-11e6-9c89-8d090e01a414	1_52925373_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	52925373	CA	C	600	PASS	ZCCHC11	Del	intronic	1	4	MSH6	child	1_52925373_CAC_MSH6	1	1	1	A	3	A	Repeat-mediated
4ef0d3fa-3255-11e6-8fbd-68832aaffa45	12_89152414_TCTCT	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	12	89152414	TCTC	T	540	PASS	-	Del	-	3	1	POLM	child	12_89152414_TCTCT_POLM	3	3	2	CT	0	-	Microhomology-mediated
4f0b98c2-3299-11e6-8f27-3d588cd8cd69	21_33997534_CTCGC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	21	33997534	CTCG	C	1080	PASS	SYNJ1	Del	downstream	3	1	CHK2	child	21_33997534_CTCGC_CHK2	3	3	2	TC	0	-	Microhomology-mediated
4f0cb85a-3259-11e6-8340-da9012ae24cf	6_50288011_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	50288011	TA	T	540	PASS	-	Del	-	1	7	MSH6	child	6_50288011_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
4f0d0324-32a3-11e6-b970-398625c9da85	20_60841179_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	60841179	TA	T	720	PASS	OSBPL2	Del	intronic	1	9	MSH6	child	20_60841179_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
4f13ecb4-328c-11e6-919e-92c36f39e758	2_52395429_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	52395429	TA	T	480	PASS	AC007682.1	Del	intronic	1	7	MSH6	child	2_52395429_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
4f16da2c-3274-11e6-ace0-120b4ec77248	17_59846154_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	17	59846154	AT	A	600	PASS	BRIP1	Del	intronic	1	4	EXO1	child	17_59846154_ATA_EXO1	1	1	1	T	3	T	Repeat-mediated
4f27de24-3294-11e6-bbbf-4d50046f68b1	16_76528624_TTA	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	16	76528624	T	TA	420	PASS	CNTNAP4	Ins	intronic	1	6	NEIL1	child	16_76528624_TTA_NEIL1	1	1	-	-	-	-	Ins
4f2b3ba8-32a0-11e6-bc66-17b4cc638e3d	8_96655588_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	96655588	AT	A	600	PASS	KB-1047C11.2	Del	intronic	1	9	MSH6	child	8_96655588_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
4f2b66c2-3288-11e6-a8ac-a28ea2c71c31	3_61638995_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	61638995	CT	C	480	PASS	PTPRG	Del	intronic	1	9	MSH6	child	3_61638995_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
4f2c0c7c-3296-11e6-8ff8-970ab51afd22	X_126711033_CTTC	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	X	126711033	CTT	C	300	PASS	-	Del	-	2	3	NEIL1	child	X_126711033_CTTC_NEIL1	2	2	1	T	0	-	Microhomology-mediated
4f2d57f2-3283-11e6-8500-13197e6a9fc7	1_244288364_AAGATA	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	1	244288364	AAGAT	A	840	PASS	-	Del	-	4	3	POLB	child	1_244288364_AAGATA_POLB	4	4	4	AGAT	2	AGAT	Repeat-mediated
4f2e2d90-3273-11e6-83ef-69fb06e9a829	18_64663034_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	64663034	CA	C	540	PASS	-	Del	-	1	9	MSH6	child	18_64663034_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
4f3cd8c0-3270-11e6-b89d-b2d6b0dab373	4_53607584_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	53607584	GT	G	300	PASS	ERVMER34-1	Del	downstream	1	9	MSH6	child	4_53607584_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
4f3e923a-3286-11e6-a8af-066ea2c71c31	15_22354934_CCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	22354934	C	CT	540	PASS	-	Ins	-	1	6	MSH6	child	15_22354934_CCT_MSH6	1	1	-	-	-	-	Ins
4f42e196-3286-11e6-8064-0e1e987b3f23	6_10949586_ATA	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	6	10949586	AT	A	420	PASS	SYCP2L	Del	intronic	1	6	NEIL1	parent	6_10949586_ATA_NEIL1	1	1	1	T	5	T	Repeat-mediated
4f4c8b7e-3286-11e6-a21c-b819bce6aa09	X_9818725_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	9818725	CA	C	540	PASS	SHROOM2	Del	intronic	1	5	MSH6	child	X_9818725_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
4f571d00-3254-11e6-8ebc-3ef212ae24cf	15_60091740_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	60091740	AT	A	840	PASS	-	Del	-	1	8	MSH6	child	15_60091740_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
4f59295c-3276-11e6-b89c-b448aea0a4d2	2_148250709_CAC	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	2	148250709	CA	C	480	PASS	RNU6-715P	Del	downstream	1	8	POLM	child	2_148250709_CAC_POLM	1	1	1	A	7	A	Repeat-mediated
4f724288-329a-11e6-b74d-b59fcc638e3d	18_32442764_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	32442764	TA	T	720	PASS	DTNA	Del	intronic	1	9	MSH6	child	18_32442764_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
4f75bce2-3272-11e6-b5b8-e0c24a47a305	X_66187503_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	66187503	T	TA	540	PASS	-	Ins	-	1	6	MSH6	child	X_66187503_TTA_MSH6	1	1	-	-	-	-	Ins
4f79f778-328e-11e6-bb1e-70e16f39e758	X_43998124_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	43998124	TA	T	780	PASS	-	Del	-	1	8	MSH6	child	X_43998124_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
4f7cef24-3292-11e6-8d18-13cc0d01a414	20_41826629_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	20	41826629	GA	G	300	PASS	-	Del	-	1	7	MSH6	child	20_41826629_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
4f7d2b5c-3287-11e6-b32c-fd87a2c71c31	5_118130693_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	118130693	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	5_118130693_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
4f809906-3285-11e6-9546-b5936f39e758	15_76336838_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	15	76336838	TA	T	923	PASS	NRG4	Del	intronic	1	8	EXO1	child	15_76336838_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
4f8a6010-3291-11e6-9749-1e2c0625f869	4_106244794_GAG	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	4	106244794	GA	G	348	PASS	-	Del	-	1	7	NEIL1	child	4_106244794_GAG_NEIL1	1	1	1	A	6	A	Repeat-mediated
4f911f10-328f-11e6-9d97-efe56f39e758	4_46576055_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	46576055	GT	G	420	PASS	-	Del	-	1	9	MSH6	child	4_46576055_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
4f939418-326f-11e6-a0a7-943dc225ee11	1_23536966_ATCAGGGTGTCAGATGGGAAGGACTCTTAGGAATCATCTAGTCCGACTCCCTCATGATGCTGACAGGAATTGGGCTCAGAGAGGGCAAGACACTTGCTCAAGGTAACACAGTGTGTTACAGGCTGAGACCAAGTCTTCAGACTCCCACCAGCGCTCCTTCTACTGGCTCCTGCTTGCAACAGGAATTTGAGATGAAAGAGAGAAGGCTCTCAGGCCCATTTCACACTATATGCTTCTGGCATTTTCAAGTCTCCCCCCCAGCTCTCATCTGAGTTTCCACACCAGGTGAGTAATCCTGGGAGCCGACTGGCAGGGCTGACCATACTTTGCAAGAAGCCTTTAGAACTGCATCCCCCCTATACTGGAGCCCAACCTCTCTCTTCTCTTCTCCCCCAGATGCTGCACACCTGGGTCCGCAGAGAACACTTTGAGCTGATGGAGTGAATATTTCCAGGACAGAGGAGAAGCTATCTTCTCTAGACTGGATAAACAAGGTACTAACAACAGGAATTCATTTTCTTGAAACCAAACACCAAATTTGTTAGTGTTTACAGGATACAAACTTGCTATTCATCATCTGCTTTTTCTTTTGGGAGCCACAATACAGGTGTGATTCAGAGCACAAGCTTTGGAGCTAGATACAGCTATGGAGTCAGGTAGACTGAACTCACGTGA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	1	23536966	ATCAGGGTGTCAGATGGGAAGGACTCTTAGGAATCATCTAGTCCGACTCCCTCATGATGCTGACAGGAATTGGGCTCAGAGAGGGCAAGACACTTGCTCAAGGTAACACAGTGTGTTACAGGCTGAGACCAAGTCTTCAGACTCCCACCAGCGCTCCTTCTACTGGCTCCTGCTTGCAACAGGAATTTGAGATGAAAGAGAGAAGGCTCTCAGGCCCATTTCACACTATATGCTTCTGGCATTTTCAAGTCTCCCCCCCAGCTCTCATCTGAGTTTCCACACCAGGTGAGTAATCCTGGGAGCCGACTGGCAGGGCTGACCATACTTTGCAAGAAGCCTTTAGAACTGCATCCCCCCTATACTGGAGCCCAACCTCTCTCTTCTCTTCTCCCCCAGATGCTGCACACCTGGGTCCGCAGAGAACACTTTGAGCTGATGGAGTGAATATTTCCAGGACAGAGGAGAAGCTATCTTCTCTAGACTGGATAAACAAGGTACTAACAACAGGAATTCATTTTCTTGAAACCAAACACCAAATTTGTTAGTGTTTACAGGATACAAACTTGCTATTCATCATCTGCTTTTTCTTTTGGGAGCCACAATACAGGTGTGATTCAGAGCACAAGCTTTGGAGCTAGATACAGCTATGGAGTCAGGTAGACTGAACTCACGTG	A	660	PASS	-	Del	-	673	1	EXO1	parent	1_23536966_ATCAGGGTGTCAGATGGGAAGGACTCTTAGGAATCATCTAGTCCGACTCCCTCATGATGCTGACAGGAATTGGGCTCAGAGAGGGCAAGACACTTGCTCAAGGTAACACAGTGTGTTACAGGCTGAGACCAAGTCTTCAGACTCCCACCAGCGCTCCTTCTACTGGCTCCTGCTTGCAACAGGAATTTGAGATGAAAGAGAGAAGGCTCTCAGGCCCATTTCACACTATATGCTTCTGGCATTTTCAAGTCTCCCCCCCAGCTCTCATCTGAGTTTCCACACCAGGTGAGTAATCCTGGGAGCCGACTGGCAGGGCTGACCATACTTTGCAAGAAGCCTTTAGAACTGCATCCCCCCTATACTGGAGCCCAACCTCTCTCTTCTCTTCTCCCCCAGATGCTGCACACCTGGGTCCGCAGAGAACACTTTGAGCTGATGGAGTGAATATTTCCAGGACAGAGGAGAAGCTATCTTCTCTAGACTGGATAAACAAGGTACTAACAACAGGAATTCATTTTCTTGAAACCAAACACCAAATTTGTTAGTGTTTACAGGATACAAACTTGCTATTCATCATCTGCTTTTTCTTTTGGGAGCCACAATACAGGTGTGATTCAGAGCACAAGCTTTGGAGCTAGATACAGCTATGGAGTCAGGTAGACTGAACTCACGTGA_EXO1	673	>=10	4	TCAG	0	-	Microhomology-mediated
4f9c4f92-329f-11e6-94ca-0aaecc638e3d	X_112746791_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	112746791	TA	T	360	PASS	-	Del	-	1	8	MSH6	child	X_112746791_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
4f9e8378-3274-11e6-b332-88ba7d6a9fc7	15_82522054_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	82522054	TA	T	813	PASS	EFTUD1	Del	intronic	1	8	MSH6	child	15_82522054_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
4fa8fb00-329c-11e6-a5cf-e5abcc638e3d	9_5241062_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	5241062	AT	A	518	PASS	-	Del	-	1	7	MSH6	child	9_5241062_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
4faeca48-329d-11e6-ae71-0c5325c9da85	1_201685143_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	201685143	GA	G	540	PASS	NAV1	Del	intronic	1	9	MSH6	child	1_201685143_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
4fb56fda-3273-11e6-9e18-3a69671699ea	10_66544447_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	66544447	GT	G	720	PASS	-	Del	-	1	8	MSH6	child	10_66544447_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
4fb5a59e-328d-11e6-b9c4-751d0e01a414	5_68454189_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	68454189	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	5_68454189_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
4fb770cc-32a1-11e6-aea7-956725c9da85	3_189188779_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	189188779	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	3_189188779_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
4fb9089e-3272-11e6-a721-59c27872c165	5_81838361_ATA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	5	81838361	AT	A	300	PASS	CTD-2015A6.1	Del	downstream	1	8	NEIL1	child	5_81838361_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
4fbf0954-3274-11e6-bfb2-2749c225ee11	12_126844326_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	126844326	TA	T	660	PASS	RP4-809F18.1	Del	intronic	1	6	MSH6	child	12_126844326_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
4fc33a90-32a3-11e6-b970-398625c9da85	20_60979236_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	60979236	CA	C	480	PASS	CABLES2	Del	intronic	1	9	MSH6	child	20_60979236_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
4fc6887e-325a-11e6-8340-da9012ae24cf	6_126846825_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	126846825	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	6_126846825_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
4fc6b1c2-3279-11e6-8026-e974e7d0bdd7	2_55858994_TCACAT	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	2	55858994	TCACA	T	660	PASS	PNPT1	Del	downstream	4	5	FANCC	parent	2_55858994_TCACAT_FANCC	4	4	4	CACA	3	CA	Repeat-mediated
4fc949f4-328e-11e6-bfac-a2a9cdacbbbf	11_93997400_ATA	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	11	93997400	AT	A	480	PASS	RP11-680H20.2	Del	intronic	1	8	POLB	child	11_93997400_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
4fd0735c-326e-11e6-9fba-41ebd8b4fa2c	11_66076017_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	66076017	CA	C	660	PASS	-	Del	-	1	8	MSH6	child	11_66076017_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
4fdbd9e6-3286-11e6-9317-6ba56f39e758	8_4888168_GAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	8	4888168	GA	G	300	PASS	-	Del	-	1	9	EXO1	child	8_4888168_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
4fdd8b68-3292-11e6-80ab-78dad8b4fa2c	19_46615747_GTGTTG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	19	46615747	GTGTT	G	600	PASS	AC007193.6	Del	intronic	4	1	NUDT1	child	19_46615747_GTGTTG_NUDT1	4	4	2	TG	0	-	Microhomology-mediated
4fde1ef6-328e-11e6-919e-92c36f39e758	2_190033275_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	190033275	GA	G	480	PASS	COL5A2	Del	intronic	1	9	MSH6	child	2_190033275_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
4fe5a396-32a3-11e6-b970-398625c9da85	20_61013614_TGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	61013614	TG	T	540	PASS	-	Del	-	1	6	MSH6	child	20_61013614_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
4fe5c2a2-3296-11e6-b0f9-fcf7d8b4fa2c	X_107532792_TAT	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	X	107532792	TA	T	360	PASS	COL4A6	Del	intronic	1	9	NUDT1	child	X_107532792_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
4fe6242c-3287-11e6-997d-e46e3adbad45	12_39405207_CTGC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	12	39405207	CTG	C	720	PASS	-	Del	-	2	2	NUDT1	parent	12_39405207_CTGC_NUDT1	2	2	2	TG	1	TG	Repeat-mediated
4fed8d8c-3275-11e6-a2a4-305390e2c2e6	3_180360046_ATA	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	3	180360046	AT	A	360	PASS	CCDC39	Del	intronic	1	8	POLB	child	3_180360046_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
4fee926a-3273-11e6-9fba-41ebd8b4fa2c	11_122735739_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	122735739	T	TA	300	PASS	CRTAM	Ins	intronic	1	1	MSH6	child	11_122735739_TTA_MSH6	1	1	-	-	-	-	Ins
4ff32d70-329b-11e6-b549-1e5325c9da85	10_88590602_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	88590602	GT	G	720	PASS	BMPR1A	Del	intronic	1	9	MSH6	child	10_88590602_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
4ff65a4e-3256-11e6-885f-d1947872c165	4_12055823_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	12055823	GT	G	480	PASS	-	Del	-	1	9	MSH6	child	4_12055823_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
4ff8a742-3272-11e6-b89d-b2d6b0dab373	4_186396231_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	186396231	AT	A	420	PASS	CCDC110	Del	upstream	1	9	MSH6	child	4_186396231_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
4ffbad42-3287-11e6-a21c-b819bce6aa09	X_62284088_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	62284088	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	X_62284088_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
50060558-326e-11e6-b306-b5204b47a305	2_152079055_TCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	152079055	TC	T	300	PASS	-	Del	-	1	6	MSH6	child	2_152079055_TCT_MSH6	1	1	1	C	5	C	Repeat-mediated
5018f796-3285-11e6-8ebc-68f1bbe6aa09	18_20611709_AAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	20611709	A	AT	540	PASS	-	Ins	-	1	2	MSH6	child	18_20611709_AAT_MSH6	1	1	-	-	-	-	Ins
501968c6-3284-11e6-9546-b5936f39e758	15_50605061_CTC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	15	50605061	CT	C	360	PASS	GABPB1	Del	intronic	1	8	EXO1	child	15_50605061_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
501d17d0-3290-11e6-9d97-efe56f39e758	4_115817387_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	115817387	GA	G	720	PASS	NDST4	Del	intronic	1	6	MSH6	child	4_115817387_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
501f218a-327a-11e6-83cd-a472a178171f	4_178361188_GGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	178361188	G	GT	660	PASS	AGA	Ins	intronic	1	5	MSH6	child	4_178361188_GGT_MSH6	1	1	-	-	-	-	Ins
501f6e1c-328c-11e6-919e-92c36f39e758	2_52800352_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	52800352	AT	A	720	PASS	-	Del	-	1	9	MSH6	child	2_52800352_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
5026387a-3276-11e6-b872-fc996f39e758	8_60792446_GAG	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	8	60792446	GA	G	540	PASS	-	Del	-	1	9	NEIL1	child	8_60792446_GAG_NEIL1	1	1	1	A	8	A	Repeat-mediated
50295b82-327a-11e6-bb6d-38aec042253c	3_34796365_GGA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	3	34796365	G	GA	300	PASS	-	Ins	-	1	8	CHK2	child	3_34796365_GGA_CHK2	1	1	-	-	-	-	Ins
502e43d4-3286-11e6-b282-3612147bb207	6_41307048_ACTCGGCCTCCCAAAGTGCTGGGATTACAGGCTTGAGCCACCATGCCCAGACTATGCCACTTGTTTTTGTTGTTGTTGTTATTGTTGTTGTTTTGAGACAGAGTCTCACTCAGTCACCCAGGCTGCAGTGCAGTGGTGTGATCTCGGCTCACTGCAAGCTCCGCCTCCTGGGTTCACACCTTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGTGCCCGCCACCATGCCCGGCTAATTTTTTTATATTTTTACTAGAGATGGGGTTTCACCATGTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCCGCCCTCA	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	6	41307048	ACTCGGCCTCCCAAAGTGCTGGGATTACAGGCTTGAGCCACCATGCCCAGACTATGCCACTTGTTTTTGTTGTTGTTGTTATTGTTGTTGTTTTGAGACAGAGTCTCACTCAGTCACCCAGGCTGCAGTGCAGTGGTGTGATCTCGGCTCACTGCAAGCTCCGCCTCCTGGGTTCACACCTTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGTGCCCGCCACCATGCCCGGCTAATTTTTTTATATTTTTACTAGAGATGGGGTTTCACCATGTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCCGCCCTC	A	351	PASS	NCR2	Del	intronic	323	1	FANCC	child	6_41307048_ACTCGGCCTCCCAAAGTGCTGGGATTACAGGCTTGAGCCACCATGCCCAGACTATGCCACTTGTTTTTGTTGTTGTTGTTATTGTTGTTGTTTTGAGACAGAGTCTCACTCAGTCACCCAGGCTGCAGTGCAGTGGTGTGATCTCGGCTCACTGCAAGCTCCGCCTCCTGGGTTCACACCTTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGTGCCCGCCACCATGCCCGGCTAATTTTTTTATATTTTTACTAGAGATGGGGTTTCACCATGTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCCGCCCTCA_FANCC	323	>=10	31	CTCGGCCTCCCAAAGTGCTGGGATTACAGGC	0	-	Microhomology-mediated
502f6a78-32a1-11e6-91d0-016425c9da85	7_67632306_TTTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	67632306	T	TTA	300	PASS	RP5-945F2.3	Ins	intronic	2	5	MSH6	child	7_67632306_TTTA_MSH6	2	2	-	-	-	-	Ins
50359154-3275-11e6-b6cd-6bb47098ee92	21_42350837_CTC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	21	42350837	CT	C	300	PASS	-	Del	-	1	7	FANCC	child	21_42350837_CTC_FANCC	1	1	1	T	6	T	Repeat-mediated
503743dc-3275-11e6-b8ae-92c57872c165	14_106251261_GGAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	106251261	G	GAT	382	PASS	-	Ins	-	2	5	MSH6	child	14_106251261_GGAT_MSH6	2	2	-	-	-	-	Ins
5038ba58-3277-11e6-92d2-c259c225ee11	3_69388168_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	69388168	AT	A	720	PASS	FRMD4B	Del	intronic	1	1	MSH6	child	3_69388168_ATA_MSH6	1	1	0	-	0	T	None
50405ef8-3320-11e6-a14e-43a02aaffa45	19_3370367_ATCA	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	19	3370367	ATC	A	300	PASS	NFIC	Del	intronic	2	4	CHK2	child	19_3370367_ATCA_CHK2	2	2	2	TC	3	TC	Repeat-mediated
505ab072-3259-11e6-8cd9-139b7872c165	3_140077636_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	140077636	GT	G	540	PASS	CLSTN2	Del	intronic	1	7	MSH6	child	3_140077636_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
505cd884-3254-11e6-8a2a-3af212ae24cf	16_46860599_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	16	46860599	AT	A	480	PASS	C16orf87	Del	intronic	1	6	MSH6	child	16_46860599_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
505d87f0-326f-11e6-819e-9d1aa20b69d5	11_33717167_ACA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	11	33717167	AC	A	540	PASS	C11orf91	Del	downstream	1	2	EXO1	parent	11_33717167_ACA_EXO1	1	1	1	C	1	C	Repeat-mediated
50672e92-3286-11e6-afcf-0311bce6aa09	9_68291231_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	68291231	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	9_68291231_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
50704e76-326f-11e6-b306-b5204b47a305	2_237593861_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	237593861	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	2_237593861_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
507114e2-3291-11e6-9d24-ade56f39e758	7_11125473_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	11125473	G	GT	540	PASS	PHF14	Ins	intronic	1	7	MSH6	child	7_11125473_GGT_MSH6	1	1	-	-	-	-	Ins
5073dfa4-328e-11e6-8c87-38240e01a414	22_41558882_TTGGGCTAAATCTACATAACATACATCTAATGGATAGTAAAACCATGGAAAACACTGAAGTACTAAGGAACATTATTTCTTAATGTTAATTTTAATGTTCTTAATGTTGAATGTGAAACATTAAAGATCTAAACTTCTAGTTTGCAGTGAGGCCTTTTAGATCATGGAGGACTGACATGTATGTCTTCTAGATGTTCCTAAAATGGATGGGATGGTATTTGGATTTATTTGGAATTTTCAGCACCAGGAATCTGTCTTAAAAATTAGCCAGGTTTTGGCCGGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCCGGCTAAAACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTAGTGGCGGGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAACCTGGGAGGCGGAGCTTGCAGTGAGCCGAGATCCCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTTTGGCCGGGCACAGTGGCCCACATCTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGATCACCCAAGGTCAAGAGTTCGAGACCAGCCTGGCCAACATGGCAAAATCCCGTCTCTACTACAAATATATAAATTAGCTGTGCGTGGTGGTGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTGGAACCCGGGAGGCAGGGGTTGAAGTGAGCTGATATGACGCCACTGCACTCCAGCCTGGGCGACACAGAGAGACTCCATCTCAGAAAACAAAACAAAAAACAGCCAGGCATGATAGTATGTGCCTATCCTAGCCAGGTAGCTGAGAGGCCAAGGCAGGAAAATGGCTTGAGCCCAGGAGTTTAAGGTTGTAGTGAGCTGTGATCATGCCACCCACTCCAGCCTGTACAACAGAGACCCTATCTCTAAAAAAATAGAAACTTTATTAAAACTATTTTCAGTTCTTTGGTCATGACCTTGGCTGTCTTTGTCAGAAGTCATGGGAAATATTGCAAGTTTTCATTTGGTTAAGGTTTGGGGTTAATTTTGGAATTGGCTCTGCTCTTCCAGGTTTGTTGAATGTACAGAGTGCGGAAGAAAGATGCATCAGATCTGTGTCCTTCACCATGAGATCATCTGGCCTGCTGGGTAAGTCTTAACGTTGTTACTTTCTCTGGAATTTTTCTTTATCGTGAATATTAACAAGTTTTTTATTCTATGCAATTGACTGTATTATATCTTCAAAGTTACTATCTTTAAATTGTTTTCTTTGGGTTTGGCCACGATAATTATAGTTCGCTTTTTAAAAATTAAGTAACCTAGTATCCAAAAATAGATTTTTATCTTATTTTTATGCATTCTTCTTAGCCATATAAATATATTTTATTCTGCTGGATTGTTTATTAAAATTATATTGTAGTTATTACACATCAAAAGTAAATATTTATGGCCAGGCGAGGTGGCTCACGCCTGTAATCCCAGCACTTTGGTTAAAAATAGATAATTAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	22	41558882	TTGGGCTAAATCTACATAACATACATCTAATGGATAGTAAAACCATGGAAAACACTGAAGTACTAAGGAACATTATTTCTTAATGTTAATTTTAATGTTCTTAATGTTGAATGTGAAACATTAAAGATCTAAACTTCTAGTTTGCAGTGAGGCCTTTTAGATCATGGAGGACTGACATGTATGTCTTCTAGATGTTCCTAAAATGGATGGGATGGTATTTGGATTTATTTGGAATTTTCAGCACCAGGAATCTGTCTTAAAAATTAGCCAGGTTTTGGCCGGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCCGGCTAAAACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTAGTGGCGGGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAACCTGGGAGGCGGAGCTTGCAGTGAGCCGAGATCCCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTTTGGCCGGGCACAGTGGCCCACATCTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGATCACCCAAGGTCAAGAGTTCGAGACCAGCCTGGCCAACATGGCAAAATCCCGTCTCTACTACAAATATATAAATTAGCTGTGCGTGGTGGTGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTGGAACCCGGGAGGCAGGGGTTGAAGTGAGCTGATATGACGCCACTGCACTCCAGCCTGGGCGACACAGAGAGACTCCATCTCAGAAAACAAAACAAAAAACAGCCAGGCATGATAGTATGTGCCTATCCTAGCCAGGTAGCTGAGAGGCCAAGGCAGGAAAATGGCTTGAGCCCAGGAGTTTAAGGTTGTAGTGAGCTGTGATCATGCCACCCACTCCAGCCTGTACAACAGAGACCCTATCTCTAAAAAAATAGAAACTTTATTAAAACTATTTTCAGTTCTTTGGTCATGACCTTGGCTGTCTTTGTCAGAAGTCATGGGAAATATTGCAAGTTTTCATTTGGTTAAGGTTTGGGGTTAATTTTGGAATTGGCTCTGCTCTTCCAGGTTTGTTGAATGTACAGAGTGCGGAAGAAAGATGCATCAGATCTGTGTCCTTCACCATGAGATCATCTGGCCTGCTGGGTAAGTCTTAACGTTGTTACTTTCTCTGGAATTTTTCTTTATCGTGAATATTAACAAGTTTTTTATTCTATGCAATTGACTGTATTATATCTTCAAAGTTACTATCTTTAAATTGTTTTCTTTGGGTTTGGCCACGATAATTATAGTTCGCTTTTTAAAAATTAAGTAACCTAGTATCCAAAAATAGATTTTTATCTTATTTTTATGCATTCTTCTTAGCCATATAAATATATTTTATTCTGCTGGATTGTTTATTAAAATTATATTGTAGTTATTACACATCAAAAGTAAATATTTATGGCCAGGCGAGGTGGCTCACGCCTGTAATCCCAGCACTTTGG	TTAAAAATAGATAATTAT	360	PASS	EP300	Complex	ess_splice	1593	0	MSH6	child	22_41558882_TTGGGCTAAATCTACATAACATACATCTAATGGATAGTAAAACCATGGAAAACACTGAAGTACTAAGGAACATTATTTCTTAATGTTAATTTTAATGTTCTTAATGTTGAATGTGAAACATTAAAGATCTAAACTTCTAGTTTGCAGTGAGGCCTTTTAGATCATGGAGGACTGACATGTATGTCTTCTAGATGTTCCTAAAATGGATGGGATGGTATTTGGATTTATTTGGAATTTTCAGCACCAGGAATCTGTCTTAAAAATTAGCCAGGTTTTGGCCGGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCCGGCTAAAACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTAGTGGCGGGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAACCTGGGAGGCGGAGCTTGCAGTGAGCCGAGATCCCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTTTGGCCGGGCACAGTGGCCCACATCTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGATCACCCAAGGTCAAGAGTTCGAGACCAGCCTGGCCAACATGGCAAAATCCCGTCTCTACTACAAATATATAAATTAGCTGTGCGTGGTGGTGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTGGAACCCGGGAGGCAGGGGTTGAAGTGAGCTGATATGACGCCACTGCACTCCAGCCTGGGCGACACAGAGAGACTCCATCTCAGAAAACAAAACAAAAAACAGCCAGGCATGATAGTATGTGCCTATCCTAGCCAGGTAGCTGAGAGGCCAAGGCAGGAAAATGGCTTGAGCCCAGGAGTTTAAGGTTGTAGTGAGCTGTGATCATGCCACCCACTCCAGCCTGTACAACAGAGACCCTATCTCTAAAAAAATAGAAACTTTATTAAAACTATTTTCAGTTCTTTGGTCATGACCTTGGCTGTCTTTGTCAGAAGTCATGGGAAATATTGCAAGTTTTCATTTGGTTAAGGTTTGGGGTTAATTTTGGAATTGGCTCTGCTCTTCCAGGTTTGTTGAATGTACAGAGTGCGGAAGAAAGATGCATCAGATCTGTGTCCTTCACCATGAGATCATCTGGCCTGCTGGGTAAGTCTTAACGTTGTTACTTTCTCTGGAATTTTTCTTTATCGTGAATATTAACAAGTTTTTTATTCTATGCAATTGACTGTATTATATCTTCAAAGTTACTATCTTTAAATTGTTTTCTTTGGGTTTGGCCACGATAATTATAGTTCGCTTTTTAAAAATTAAGTAACCTAGTATCCAAAAATAGATTTTTATCTTATTTTTATGCATTCTTCTTAGCCATATAAATATATTTTATTCTGCTGGATTGTTTATTAAAATTATATTGTAGTTATTACACATCAAAAGTAAATATTTATGGCCAGGCGAGGTGGCTCACGCCTGTAATCCCAGCACTTTGGTTAAAAATAGATAATTAT_MSH6	1576	>=10	-	-	-	-	Complex
5076bb06-3285-11e6-870e-6af1bbe6aa09	19_54389826_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	54389826	TA	T	540	PASS	PRKCG	Del	intronic	1	9	MSH6	child	19_54389826_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
507c65ec-3280-11e6-a2c9-149290e2c2e6	3_45380317_AGTTA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	3	45380317	AGTT	A	600	PASS	-	Del	-	3	2	NUDT1	child	3_45380317_AGTTA_NUDT1	3	3	3	GTT	1	GTT	Repeat-mediated
507f65b0-3327-11e6-a5dc-75b8cde16804	1_205528921_AAG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	1	205528921	A	AG	300	PASS	-	Ins	-	1	1	EXO1	child	1_205528921_AAG_EXO1	1	1	-	-	-	-	Ins
5085d8e0-3292-11e6-9401-04ed6f39e758	3_165492130_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	165492130	AT	A	360	PASS	BCHE	Del	intronic	1	9	MSH6	child	3_165492130_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
50891de0-3290-11e6-b4b8-6de0977b3f23	5_148313102_CTC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	5	148313102	CT	C	660	PASS	-	Del	-	1	1	NEIL1	child	5_148313102_CTC_NEIL1	1	1	0	-	0	T	None
508b2dce-329f-11e6-b696-dd6225c9da85	5_145155487_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	145155487	GA	G	960	PASS	PRELID2	Del	intronic	1	9	MSH6	child	5_145155487_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
508c16f8-3286-11e6-8b67-086ea2c71c31	1_170335697_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	170335697	AT	A	600	PASS	-	Del	-	1	9	MSH6	child	1_170335697_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
50958240-328d-11e6-8eee-76090e01a414	10_131966717_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	131966717	A	AT	300	PASS	GLRX3	Ins	intronic	1	8	MSH6	child	10_131966717_AAT_MSH6	1	1	-	-	-	-	Ins
5097b056-326f-11e6-b72f-e311987b3f23	19_23018079_GGTAAG	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	19	23018079	GGTAA	G	540	PASS	-	Del	-	4	1	NEIL1	child	19_23018079_GGTAAG_NEIL1	4	4	0	-	0	-	None
509ab946-3322-11e6-91ad-40968a20d9eb	17_27998738_ACTA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	17	27998738	ACT	A	660	PASS	SSH2	Del	intronic	2	2	EXO1	child	17_27998738_ACTA_EXO1	2	2	2	CT	1	CT	Repeat-mediated
50b8ac72-328b-11e6-9996-bebd38e8a824	X_67436633_GAG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	X	67436633	GA	G	300	PASS	OPHN1	Del	intronic	1	9	NUDT1	parent	X_67436633_GAG_NUDT1	1	1	1	A	8	A	Repeat-mediated
50b9bbd2-3324-11e6-a56f-7e1a2eaed38e	21_34791352_CTGTC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	21	34791352	CTGT	C	300	PASS	IFNGR2	Del	intronic	3	2	EXO1	child	21_34791352_CTGTC_EXO1	3	3	3	TGT	1	TGT	Repeat-mediated
50ba9238-329c-11e6-aca6-b39fcc638e3d	2_167829664_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	167829664	AT	A	900	PASS	XIRP2	Del	intronic	1	7	MSH6	child	2_167829664_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
50c05ffc-3273-11e6-a89b-2697ecf1e924	2_135585197_CAC	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	2	135585197	CA	C	547	PASS	-	Del	-	1	7	NEIL1	child	2_135585197_CAC_NEIL1	1	1	1	A	6	A	Repeat-mediated
50c1d9ce-3258-11e6-8cd9-139b7872c165	3_56271689_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	56271689	CT	C	720	PASS	ERC2	Del	intronic	1	9	MSH6	child	3_56271689_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
50c538dc-3292-11e6-9d24-ade56f39e758	7_81618706_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	81618706	C	CA	720	PASS	CACNA2D1	Ins	intronic	1	0	MSH6	child	7_81618706_CCA_MSH6	1	1	-	-	-	-	Ins
50c538f0-326f-11e6-b306-b5204b47a305	2_237708624_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	237708624	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	2_237708624_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
50cf5944-3322-11e6-be22-69745e975b79	1_158705022_GTG	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	1	158705022	GT	G	900	PASS	-	Del	-	1	1	CHK2	parent	1_158705022_GTG_CHK2	1	1	0	-	0	T	None
50df4166-328b-11e6-a7cf-80090e01a414	15_81858673_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	81858673	GT	G	720	PASS	CTD-2034I4.1	Del	intronic	1	7	MSH6	child	15_81858673_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
50dfc1f6-3257-11e6-b4d0-327a7872c165	11_132137823_GGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	132137823	G	GT	420	PASS	NTM	Ins	intronic	1	7	MSH6	child	11_132137823_GGT_MSH6	1	1	-	-	-	-	Ins
50e05a3e-3285-11e6-9955-19979cdf095d	8_48241407_GTG	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	8	48241407	GT	G	600	PASS	SPIDR	Del	intronic	1	8	POLE	child	8_48241407_GTG_POLE	1	1	1	T	7	T	Repeat-mediated
50e22952-32a0-11e6-a04f-c66a25c9da85	6_65497347_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	65497347	GT	G	420	PASS	EYS	Del	intronic	1	9	MSH6	child	6_65497347_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
50e4e440-329a-11e6-a5cf-205325c9da85	11_27654519_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	27654519	CT	C	709	PASS	LINC00678	Del	intronic	1	5	MSH6	child	11_27654519_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
50eafe10-3273-11e6-bea5-e783a20b69d5	13_56784122_TCTGGGT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	13	56784122	TCTGGG	T	480	PASS	-	Del	-	5	1	EXO1	child	13_56784122_TCTGGGT_EXO1	5	5	2	CT	0	-	Microhomology-mediated
50f54410-3287-11e6-b093-c9c7b0dab373	2_236888610_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	236888610	CA	C	600	PASS	AGAP1	Del	intronic	1	8	MSH6	child	2_236888610_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
50f78cce-3292-11e6-9230-fb250e01a414	3_81429643_TTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	81429643	T	TG	480	PASS	-	Ins	-	1	2	MSH6	child	3_81429643_TTG_MSH6	1	1	-	-	-	-	Ins
50f8fd46-328f-11e6-bd84-429305ad5bc4	1_211423658_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	211423658	A	AT	540	PASS	-	Ins	-	1	3	MSH6	child	1_211423658_AAT_MSH6	1	1	-	-	-	-	Ins
50fd3ec4-328a-11e6-ad64-7189a178171f	5_143328946_CTC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	5	143328946	CT	C	420	PASS	-	Del	-	1	9	FANCC	child	5_143328946_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
5104ec4e-3278-11e6-a391-f6d67d6a9fc7	6_51492898_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	51492898	AG	A	540	PASS	PKHD1	Del	intronic	1	5	MSH6	child	6_51492898_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
51074cf4-3328-11e6-81bd-c0e680635058	20_22637926_CTC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	20	22637926	CT	C	300	PASS	-	Del	-	1	7	CHK2	child	20_22637926_CTC_CHK2	1	1	1	T	6	T	Repeat-mediated
51111f1e-329b-11e6-b129-195325c9da85	16_69173703_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	69173703	CT	C	540	PASS	CIRH1A	Del	intronic	1	7	MSH6	child	16_69173703_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
51121cb4-3275-11e6-acb5-bbf1bbe6aa09	7_30384942_CTC	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	7	30384942	CT	C	300	PASS	ZNRF2	Del	intronic	1	8	POLB	child	7_30384942_CTC_POLB	1	1	1	T	7	T	Repeat-mediated
51178f62-3277-11e6-9e0f-7959cab49462	7_124877985_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	124877985	AT	A	540	PASS	RP11-3B12.3	Del	intronic	1	9	MSH6	child	7_124877985_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
511ba0ae-3284-11e6-9a5a-824d8e4678dd	21_40047087_ATA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	21	40047087	AT	A	360	PASS	-	Del	-	1	8	FANCC	child	21_40047087_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
511bdc58-328f-11e6-944d-00b812ae24cf	6_111651985_TAT	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	6	111651985	TA	T	360	PASS	REV3L	Del	intronic	1	9	CHK2	child	6_111651985_TAT_CHK2	1	1	1	A	8	A	Repeat-mediated
5124c66e-326d-11e6-acc7-e55219a91649	1_75955393_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	75955393	TA	T	480	PASS	SLC44A5	Del	intronic	1	7	MSH6	child	1_75955393_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
512eb084-329f-11e6-b696-dd6225c9da85	5_145348160_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	145348160	TA	T	600	PASS	SH3RF2	Del	intronic	1	7	MSH6	child	5_145348160_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
51327876-328c-11e6-b4fe-93c36f39e758	12_50227115_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	50227115	CA	C	540	PASS	NCKAP5L	Del	upstream	1	9	MSH6	child	12_50227115_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
5133cc6a-328e-11e6-be52-ac74fd44d094	20_8618965_GTTG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	20	8618965	GTT	G	420	PASS	PLCB1	Del	intronic	2	3	FANCC	child	20_8618965_GTTG_FANCC	2	2	1	T	0	-	Microhomology-mediated
51356e32-3273-11e6-bea5-e783a20b69d5	13_56912529_GTG	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	13	56912529	GT	G	300	PASS	-	Del	-	1	9	EXO1	child	13_56912529_GTG_EXO1	1	1	1	T	8	T	Repeat-mediated
51394f7a-3273-11e6-a0c2-ca706f39e758	17_15766654_GGA	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	17	15766654	G	GA	556	PASS	-	Ins	-	1	4	NEIL1	child	17_15766654_GGA_NEIL1	1	1	-	-	-	-	Ins
515e4f46-3273-11e6-abaf-4642cab49462	6_119271568_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	119271568	GA	G	360	PASS	-	Del	-	1	7	MSH6	child	6_119271568_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
516a1a08-3271-11e6-9309-bdc34a47a305	8_109562348_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	109562348	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	8_109562348_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5171a0fc-3285-11e6-8313-52c92daed38e	6_127705132_CAAC	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	6	127705132	CAA	C	600	PASS	-	Del	-	2	2	POLB	child	6_127705132_CAAC_POLB	2	2	0	-	0	-	None
5187a8dc-3287-11e6-a284-4b89a2c71c31	4_69874524_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	69874524	CA	C	540	PASS	-	Del	-	1	7	MSH6	child	4_69874524_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
518fdd62-32a1-11e6-a04f-c66a25c9da85	6_131881566_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	131881566	AT	A	780	PASS	-	Del	-	1	8	MSH6	child	6_131881566_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
5194cc2e-3273-11e6-bb8e-1d1e987b3f23	21_29946903_TAT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	21	29946903	TA	T	600	PASS	AF131217.1	Del	intronic	1	2	NUDT1	child	21_29946903_TAT_NUDT1	1	1	1	A	1	A	Repeat-mediated
519b5196-329d-11e6-8069-175325c9da85	12_62109139_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	62109139	A	AT	660	PASS	FAM19A2	Ins	intronic	1	7	MSH6	child	12_62109139_AAT_MSH6	1	1	-	-	-	-	Ins
51a2f094-328a-11e6-9c1f-afbe38e8a824	8_20456046_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	8	20456046	AT	A	660	PASS	-	Del	-	1	9	NUDT1	parent	8_20456046_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
51a40482-3273-11e6-b747-d9deed3c4f5d	X_10580680_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	X	10580680	AT	A	720	PASS	MID1	Del	intronic	1	6	MSH6	parent	X_10580680_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
51a7f584-3277-11e6-83cd-a472a178171f	4_163133580_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	163133580	AT	A	600	PASS	-	Del	-	1	8	MSH6	child	4_163133580_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
51af6088-3274-11e6-b8ae-92c57872c165	14_47117281_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	47117281	C	CA	420	PASS	RPL10L	Ins	downstream	1	6	MSH6	child	14_47117281_CCA_MSH6	1	1	-	-	-	-	Ins
51b1fb02-328a-11e6-a80b-87090e01a414	11_65532840_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	65532840	CA	C	540	PASS	RP11-770G2.2	Del	intronic	1	7	MSH6	child	11_65532840_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
51b5060e-3270-11e6-a202-899bcc638e3d	16_85671266_CGTTC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	16	85671266	CGTT	C	300	PASS	GSE1	Del	intronic	3	1	NEIL1	child	16_85671266_CGTTC_NEIL1	3	3	2	GT	0	-	Microhomology-mediated
51c41048-3277-11e6-a71d-236235cec73b	X_103995558_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	103995558	TA	T	360	PASS	IL1RAPL2	Del	intronic	1	9	MSH6	child	X_103995558_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
51d09a9a-328e-11e6-8b82-18a5e7d0bdd7	15_62607995_GTG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	15	62607995	GT	G	660	PASS	-	Del	-	1	9	FANCC	child	15_62607995_GTG_FANCC	1	1	1	T	8	T	Repeat-mediated
51db18f6-3286-11e6-8b67-086ea2c71c31	1_170809939_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	170809939	AT	A	660	PASS	-	Del	-	1	7	MSH6	child	1_170809939_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
51dd0daa-326d-11e6-9793-9a8fb0dab373	13_69750161_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	69750161	GA	G	360	PASS	-	Del	-	1	8	MSH6	child	13_69750161_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
51e17dc2-3272-11e6-a390-fc104530f757	1_102167472_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	1	102167472	AT	A	360	PASS	-	Del	-	1	9	FANCC	child	1_102167472_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
51eea6be-3259-11e6-8cd9-139b7872c165	3_140754872_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	140754872	CT	C	540	PASS	-	Del	-	1	7	MSH6	child	3_140754872_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
51f7ebc0-3281-11e6-9ec5-888f1ac527ab	13_110147784_CAC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	13	110147784	CA	C	540	PASS	-	Del	-	1	6	FANCC	child	13_110147784_CAC_FANCC	1	1	1	A	5	A	Repeat-mediated
51f85476-3276-11e6-83cd-a472a178171f	4_91428388_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	91428388	TA	T	600	PASS	CCSER1	Del	intronic	1	9	MSH6	child	4_91428388_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
51f897fe-328c-11e6-b9c4-751d0e01a414	5_4952022_ACA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	4952022	AC	A	480	PASS	-	Del	-	1	6	MSH6	child	5_4952022_ACA_MSH6	1	1	1	C	5	C	Repeat-mediated
51fe7cca-326c-11e6-acc7-e55219a91649	1_1041432_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	1041432	TA	T	300	PASS	C1orf159	Del	5prime_UTR_variant	1	6	MSH6	child	1_1041432_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
520a1de4-328c-11e6-8952-77c36f39e758	10_50586298_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	50586298	TA	T	780	PASS	DRGX	Del	intronic	1	9	MSH6	child	10_50586298_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
52123d54-3272-11e6-bbeb-70bd19a91649	20_19832795_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	20	19832795	GA	G	300	PASS	-	Del	-	1	3	MSH6	child	20_19832795_GAG_MSH6	1	1	1	A	2	A	Repeat-mediated
521557d2-3281-11e6-ab87-22bd9b6d3b88	10_68483254_CAC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	10	68483254	CA	C	780	PASS	CTNNA3	Del	intronic	1	8	EXO1	child	10_68483254_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
52213a8e-3277-11e6-b332-88ba7d6a9fc7	15_97882508_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	97882508	A	AT	420	PASS	CTD-2147F2.1	Ins	intronic	1	8	MSH6	child	15_97882508_AAT_MSH6	1	1	-	-	-	-	Ins
5240d17c-3273-11e6-a5d0-4fd14a47a305	2_79603946_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	79603946	AT	A	437	PASS	CTNNA2	Del	intronic	1	6	MSH6	child	2_79603946_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
5241e9fe-3282-11e6-86cf-8f288e4678dd	10_13805238_TTC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	10	13805238	T	TC	360	PASS	FRMD4A	Ins	intronic	1	1	FANCC	child	10_13805238_TTC_FANCC	1	1	-	-	-	-	Ins
52454ade-3289-11e6-b805-77090e01a414	2_9005329_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	9005329	CT	C	420	PASS	MBOAT2	Del	intronic	1	8	MSH6	child	2_9005329_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
524d7184-328c-11e6-ac7a-a3c36f39e758	18_53337996_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	53337996	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	18_53337996_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
52580092-328f-11e6-9230-fb250e01a414	3_94434190_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	94434190	GT	G	420	PASS	-	Del	-	1	7	MSH6	child	3_94434190_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
5258cc6c-3284-11e6-9607-56b01ac527ab	4_170768388_TAT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	4	170768388	TA	T	300	PASS	-	Del	-	1	9	FANCC	child	4_170768388_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
525c0de8-328c-11e6-a80b-87090e01a414	11_55486147_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	55486147	A	AT	300	PASS	-	Ins	-	1	1	MSH6	child	11_55486147_AAT_MSH6	1	1	-	-	-	-	Ins
525d6cf6-326e-11e6-acc7-e55219a91649	1_160931888_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	160931888	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	1_160931888_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
5266467c-3283-11e6-a72f-6a393dc9300a	2_203334571_GAG	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	2	203334571	GA	G	360	PASS	BMPR2	Del	intronic	1	7	FANCC	child	2_203334571_GAG_FANCC	1	1	1	A	6	A	Repeat-mediated
526b039c-3274-11e6-a8b6-76174530f757	12_99960360_TGT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	12	99960360	TG	T	420	PASS	ANKS1B	Del	intronic	1	5	EXO1	child	12_99960360_TGT_EXO1	1	1	1	G	4	G	Repeat-mediated
526b3d16-327f-11e6-ac5a-c6aa3adbad45	X_133374297_ATA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	X	133374297	AT	A	900	PASS	CCDC160	Del	intronic	1	7	NUDT1	child	X_133374297_ATA_NUDT1	1	1	1	T	6	T	Repeat-mediated
526d6088-326f-11e6-bfba-13bf4a47a305	9_94485254_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	94485254	CA	C	360	PASS	ROR2	Del	3prime_UTR_variant	1	7	MSH6	child	9_94485254_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
52762e0e-3277-11e6-a71d-236235cec73b	X_104256672_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	104256672	TA	T	660	PASS	IL1RAPL2	Del	intronic	1	7	MSH6	child	X_104256672_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
5279a80c-3292-11e6-9401-04ed6f39e758	3_165937948_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	165937948	AT	A	900	PASS	-	Del	-	1	9	MSH6	child	3_165937948_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
527bc280-3275-11e6-b96a-e20a1ea8ec0e	7_78660112_TTCATTTTAGTAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	7	78660112	TTCATTTTAGTA	T	540	PASS	MAGI2	Del	intronic	11	1	FANCC	child	7_78660112_TTCATTTTAGTAT_FANCC	11	>=10	4	TCAT	0	-	Microhomology-mediated
527f71ac-3273-11e6-abaf-4642cab49462	6_119491959_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	119491959	TA	T	360	PASS	-	Del	-	1	4	MSH6	child	6_119491959_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
5285b0e6-328a-11e6-9892-02ba5d753391	5_7750753_ATTATA	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	5	7750753	ATTAT	A	360	PASS	ADCY2	Del	intronic	4	2	POLE	child	5_7750753_ATTATA_POLE	4	4	4	TTAT	1	TTAT	Repeat-mediated
52888108-328b-11e6-a380-15ec54de4fc4	1_228603389_CAGC	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	1	228603389	CAG	C	300	PASS	TRIM17	Del	5prime_UTR_variant	2	2	CHK2	child	1_228603389_CAGC_CHK2	2	2	2	AG	1	AG	Repeat-mediated
5289b0fa-3286-11e6-a21c-b819bce6aa09	X_12052774_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	12052774	GT	G	480	PASS	-	Del	-	1	8	MSH6	child	X_12052774_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
528edbb8-3324-11e6-ada1-2957fc77b11e	5_94828340_CAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAC	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	5	94828340	CAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAA	C	360	PASS	TTC37	Del	intronic	34	1	POLE	child	5_94828340_CAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAC_POLE	34	>=10	15	AAAAAAAAAAAAAAA	0	-	Microhomology-mediated
529082da-3273-11e6-8fda-8f271daa6045	X_89547600_ATA	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	X	89547600	AT	A	360	PASS	-	Del	-	1	9	NUDT1	child	X_89547600_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
52930702-3288-11e6-a284-4b89a2c71c31	4_164285327_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	164285327	TA	T	720	PASS	-	Del	-	1	5	MSH6	child	4_164285327_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
52b0042a-3278-11e6-9e07-80d27d6a9fc7	X_102285446_ATA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	X	102285446	AT	A	300	PASS	-	Del	-	1	9	NEIL1	child	X_102285446_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
52b55412-3290-11e6-b77c-51e2977b3f23	4_119332687_ATA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	4	119332687	AT	A	540	PASS	-	Del	-	1	8	NEIL1	child	4_119332687_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
52b65ef6-328c-11e6-aac2-75bb5d753391	4_147236041_GACAG	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	4	147236041	GACA	G	300	PASS	SLC10A7	Del	intronic	3	2	POLE	child	4_147236041_GACAG_POLE	3	3	3	ACA	1	ACA	Repeat-mediated
52b97ffe-327e-11e6-aa5e-d58054de4fc4	18_55757648_TGT	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	18	55757648	TG	T	360	PASS	NEDD4L	Del	intronic	1	1	NEIL1	child	18_55757648_TGT_NEIL1	1	1	0	-	0	G	None
52bb327e-329f-11e6-91d0-016425c9da85	7_107470625_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	107470625	CT	C	570	PASS	-	Del	-	1	9	MSH6	child	7_107470625_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
52c5fa74-3254-11e6-8ebc-3ef212ae24cf	15_60766116_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	60766116	CT	C	360	PASS	NARG2	Del	intronic	1	8	MSH6	child	15_60766116_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
52c886a8-3287-11e6-a5b3-3f1ebce6aa09	7_81269212_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	81269212	CT	C	720	PASS	-	Del	-	1	9	MSH6	child	7_81269212_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
52dd8874-3290-11e6-9d97-efe56f39e758	4_116731051_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	116731051	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	4_116731051_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
52e216a2-3289-11e6-a100-84090e01a414	18_4873241_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	4873241	GA	G	420	PASS	RP11-172F10.1	Del	intronic	1	8	MSH6	child	18_4873241_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
52e285da-3291-11e6-bfa2-581f0e01a414	7_141250660_GGC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	141250660	G	GC	840	PASS	AGK	Ins	upstream	1	3	MSH6	child	7_141250660_GGC_MSH6	1	1	-	-	-	-	Ins
52ef7cda-3274-11e6-9065-cc4890e2c2e6	1_224404412_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	1	224404412	AT	A	420	PASS	-	Del	-	1	7	MSH6	parent	1_224404412_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
52f4cf5a-328d-11e6-919e-92c36f39e758	2_122531693_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	122531693	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	2_122531693_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
52fe4aba-328f-11e6-bd84-429305ad5bc4	1_212193347_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	212193347	C	CA	660	PASS	INTS7	Ins	intronic	1	6	MSH6	child	1_212193347_CCA_MSH6	1	1	-	-	-	-	Ins
53015eb0-3273-11e6-9e18-3a69671699ea	10_67658711_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	67658711	GA	G	300	PASS	-	Del	-	1	4	MSH6	child	10_67658711_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
53032c9a-327d-11e6-89da-51be4dc77248	15_77159176_ATA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	15	77159176	AT	A	540	PASS	SCAPER	Del	upstream	1	9	NUDT1	child	15_77159176_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
5304f0fa-3275-11e6-a76d-26961565c797	1_204525925_GTG	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	1	204525925	GT	G	600	PASS	MDM4	Del	3prime_UTR_variant	1	9	EXO1	child	1_204525925_GTG_EXO1	1	1	1	T	8	T	Repeat-mediated
5309d900-3287-11e6-b611-f56e3adbad45	11_40558245_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	11	40558245	CT	C	360	PASS	LRRC4C	Del	intronic	1	9	NUDT1	parent	11_40558245_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
5309e00a-3285-11e6-a8af-066ea2c71c31	15_67855961_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	67855961	AT	A	780	PASS	MAP2K5	Del	intronic	1	6	MSH6	child	15_67855961_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
530a29c8-3255-11e6-b4d0-327a7872c165	11_121635753_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	121635753	CT	C	420	PASS	-	Del	-	1	8	MSH6	child	11_121635753_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5310499c-3292-11e6-b0cf-8b7219a91649	7_129502650_TGT	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	7	129502650	TG	T	840	PASS	UBE2H	Del	intronic	1	7	NEIL1	child	7_129502650_TGT_NEIL1	1	1	1	G	6	G	Repeat-mediated
531f873e-3271-11e6-b89d-b2d6b0dab373	4_124704919_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	124704919	GA	G	780	PASS	LINC01091	Del	intronic	1	9	MSH6	child	4_124704919_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
532252ac-3280-11e6-a2c9-149290e2c2e6	3_46225762_ACACA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	3	46225762	ACAC	A	360	PASS	CCR3	Del	intronic	3	1	NUDT1	child	3_46225762_ACACA_NUDT1	3	3	2	CA	0	-	Microhomology-mediated
53266d58-32a1-11e6-aea7-956725c9da85	3_190103445_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	190103445	AT	A	300	PASS	CLDN16	Del	upstream	1	6	MSH6	child	3_190103445_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
532a94bc-3285-11e6-821e-69f1bbe6aa09	16_82316406_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	82316406	CA	C	420	PASS	-	Del	-	1	5	MSH6	child	16_82316406_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
533066c4-3255-11e6-a304-347a7872c165	1_115847482_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	115847482	CT	C	540	PASS	NGF	Del	intronic	1	6	MSH6	child	1_115847482_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
5339a9b6-3285-11e6-a8af-066ea2c71c31	15_67872110_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	67872110	TA	T	1080	PASS	MAP2K5	Del	intronic	1	9	MSH6	child	15_67872110_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
533d8c64-3282-11e6-a72f-6a393dc9300a	2_79830705_AGA	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	2	79830705	AG	A	660	PASS	CTNNA2	Del	intronic	1	1	FANCC	child	2_79830705_AGA_FANCC	1	1	0	-	0	G	None
5343c1a2-3290-11e6-bcba-4aab4430f757	2_114695011_CCA	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	2	114695011	C	CA	360	PASS	ACTR3	Ins	intronic	1	0	POLE	child	2_114695011_CCA_POLE	1	1	-	-	-	-	Ins
53456de4-3255-11e6-8ebc-3ef212ae24cf	15_79901847_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	79901847	TA	T	780	PASS	-	Del	-	1	3	MSH6	child	15_79901847_TAT_MSH6	1	1	1	A	2	A	Repeat-mediated
53490afe-3259-11e6-8cd9-139b7872c165	3_141244660_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	141244660	TA	T	300	PASS	RASA2	Del	intronic	1	8	MSH6	child	3_141244660_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
534d0c60-3292-11e6-9413-6a7219a91649	5_138858995_TAT	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	5	138858995	TA	T	360	PASS	TMEM173	Del	intronic	1	9	NEIL1	child	5_138858995_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
534e9606-328e-11e6-bfa2-581f0e01a414	7_98772830_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	98772830	AT	A	480	PASS	KPNA7	Del	intronic	1	8	MSH6	child	7_98772830_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
5356a9ea-3289-11e6-b9eb-c78fa2c71c31	6_149304590_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	149304590	GA	G	480	PASS	UST	Del	intronic	1	9	MSH6	child	6_149304590_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
5356deba-328e-11e6-ace9-29a5e7d0bdd7	16_48561596_CTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	16	48561596	CT	C	360	PASS	-	Del	-	1	8	FANCC	child	16_48561596_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
5366b84c-328b-11e6-a653-2591e7d0bdd7	1_89847039_ATA	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	1	89847039	AT	A	960	PASS	GBP6	Del	intronic	1	6	POLM	child	1_89847039_ATA_POLM	1	1	1	T	5	T	Repeat-mediated
536f4f54-32a2-11e6-aea7-956725c9da85	3_49300664_GGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	49300664	G	GT	360	PASS	-	Ins	-	1	7	MSH6	child	3_49300664_GGT_MSH6	1	1	-	-	-	-	Ins
536fe536-327a-11e6-8a64-801e9a696edf	3_133854195_CAGC	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	3	133854195	CAG	C	480	PASS	-	Del	-	2	3	POLM	child	3_133854195_CAGC_POLM	2	2	2	AG	2	AG	Repeat-mediated
53872324-3282-11e6-8500-13197e6a9fc7	1_164885253_TAT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	1	164885253	TA	T	780	PASS	-	Del	-	1	9	POLB	child	1_164885253_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
53878d24-326d-11e6-acc7-e55219a91649	1_76986983_TACT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	76986983	TAC	T	300	PASS	ST6GALNAC3	Del	intronic	2	6	MSH6	child	1_76986983_TACT_MSH6	2	2	2	AC	5	AC	Repeat-mediated
538b1010-3291-11e6-9d97-efe56f39e758	4_181595328_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	181595328	GA	G	360	PASS	-	Del	-	1	8	MSH6	child	4_181595328_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
5393994e-3271-11e6-81c8-19f506e9a829	2_34671651_AGA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	2	34671651	AG	A	300	PASS	AC073218.1	Del	intronic	1	1	FANCC	child	2_34671651_AGA_FANCC	1	1	0	-	0	G	None
5396a464-32a2-11e6-bc2c-2a5e25c9da85	4_153237708_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	153237708	A	AT	600	PASS	FBXW7	Ins	downstream	1	8	MSH6	child	4_153237708_AAT_MSH6	1	1	-	-	-	-	Ins
53be9734-3285-11e6-a8ad-04770d016689	9_14821290_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	9	14821290	TA	T	360	PASS	FREM1	Del	intronic	1	9	EXO1	child	9_14821290_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
53bedd7a-3285-11e6-a722-38d09b6d3b88	3_124143107_ATA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	3	124143107	AT	A	720	PASS	KALRN	Del	intronic	1	9	EXO1	child	3_124143107_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
53c35cdc-329f-11e6-a04f-c66a25c9da85	6_8792187_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	8792187	AC	A	540	PASS	-	Del	-	1	5	MSH6	child	6_8792187_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
53dcd668-3285-11e6-b293-6ca635cec73b	11_121171853_ACTA	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	11	121171853	ACT	A	360	PASS	SC5D	Del	intronic	2	4	POLE	child	11_121171853_ACTA_POLE	2	2	2	CT	3	CT	Repeat-mediated
53de3a12-328a-11e6-a284-4b89a2c71c31	4_156629413_GGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	156629413	G	GA	360	PASS	GUCY1A3	Ins	frameshift	1	5	MSH6	child	4_156629413_GGA_MSH6	1	1	-	-	-	-	Ins
53e51f94-3276-11e6-83cd-a472a178171f	4_91977852_ACTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	91977852	ACT	A	540	PASS	CCSER1	Del	intronic	2	2	MSH6	child	4_91977852_ACTA_MSH6	2	2	2	CT	1	CT	Repeat-mediated
53e6954c-3274-11e6-bfb2-2749c225ee11	12_128064119_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	128064119	GA	G	540	PASS	-	Del	-	1	9	MSH6	child	12_128064119_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
53efe3b2-3289-11e6-bbaf-7c090e01a414	19_4451621_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	4451621	GA	G	360	PASS	UBXN6	Del	intronic	1	7	MSH6	child	19_4451621_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
53f3d6dc-3277-11e6-9e0f-7959cab49462	7_125400964_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	125400964	TA	T	480	PASS	-	Del	-	1	6	MSH6	child	7_125400964_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
53f9e160-32a1-11e6-a04f-c66a25c9da85	6_132769819_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	132769819	CA	C	600	PASS	STX7	Del	3prime_UTR_variant	1	7	MSH6	child	6_132769819_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
53fcc2a8-328e-11e6-b805-77090e01a414	2_71770827_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	71770827	C	CA	378	PASS	DYSF	Ins	intronic	1	6	MSH6	child	2_71770827_CCA_MSH6	1	1	-	-	-	-	Ins
54017c94-3270-11e6-b89d-b2d6b0dab373	4_54987594_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	54987594	CT	C	660	PASS	-	Del	-	1	8	MSH6	child	4_54987594_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5404d32a-3276-11e6-83cd-a472a178171f	4_92055249_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	92055249	CA	C	360	PASS	CCSER1	Del	intronic	1	7	MSH6	child	4_92055249_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
540592b4-326d-11e6-b2ac-b6204b47a305	17_41993565_GCG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	41993565	GC	G	420	PASS	FAM215A	Del	upstream	1	6	MSH6	child	17_41993565_GCG_MSH6	1	1	1	C	5	C	Repeat-mediated
54101602-3291-11e6-8d00-b1b0e7d0bdd7	5_103039167_ATGATA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	5	103039167	ATGAT	A	360	PASS	-	Del	-	4	1	FANCC	child	5_103039167_ATGATA_FANCC	4	4	2	TG	0	-	Microhomology-mediated
54236e8e-3271-11e6-9309-bdc34a47a305	8_110900841_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	110900841	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	8_110900841_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
542b2fe2-3272-11e6-91a3-999a9cdf095d	11_41877865_GTCATTCG	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	11	41877865	GTCATTC	G	300	PASS	RP11-375D13.4	Del	upstream	6	1	NUDT1	child	11_41877865_GTCATTCG_NUDT1	6	6	1	T	0	-	Microhomology-mediated
54303f50-3321-11e6-a903-ae0342c4520d	13_73359017_TGT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	13	73359017	TG	T	780	PASS	DIS3	Del	upstream	1	1	EXO1	child	13_73359017_TGT_EXO1	1	1	0	-	0	G	None
54425c90-328f-11e6-b805-77090e01a414	2_147252555_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	147252555	A	AT	360	PASS	-	Ins	-	1	1	MSH6	child	2_147252555_AAT_MSH6	1	1	-	-	-	-	Ins
5444ddf2-3290-11e6-9401-04ed6f39e758	3_24021826_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	24021826	AT	A	720	PASS	NR1D2	Del	3prime_UTR_variant	1	7	MSH6	child	3_24021826_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
545503b4-3289-11e6-9c89-8d090e01a414	1_7648441_CGC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	7648441	CG	C	300	PASS	CAMTA1	Del	intronic	1	5	MSH6	child	1_7648441_CGC_MSH6	1	1	1	G	4	G	Repeat-mediated
545c4d18-3289-11e6-865d-6e96cdacbbbf	19_22813783_GAG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	19	22813783	GA	G	480	PASS	ZNF492	Del	upstream	1	7	FANCC	child	19_22813783_GAG_FANCC	1	1	1	A	6	A	Repeat-mediated
546293da-328e-11e6-b10a-17a5e7d0bdd7	1_50388428_GGGAGGTAAAAAATCTCTACAAG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	1	50388428	GGGAGGTAAAAAATCTCTACAA	G	480	PASS	AGBL4	Del	intronic	21	1	FANCC	child	1_50388428_GGGAGGTAAAAAATCTCTACAAG_FANCC	21	>=10	4	GGAG	0	-	Microhomology-mediated
54692e94-3328-11e6-868e-d16670cce0de	6_97887255_ATA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	6	97887255	AT	A	300	PASS	-	Del	-	1	6	EXO1	child	6_97887255_ATA_EXO1	1	1	1	T	5	T	Repeat-mediated
546a97a6-3275-11e6-bb72-cbe0f6d33ce3	1_81538965_AAAGA	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	1	81538965	AAAG	A	420	PASS	-	Del	-	3	2	POLM	child	1_81538965_AAAGA_POLM	3	3	3	AAG	1	AAG	Repeat-mediated
546ea20e-3286-11e6-b1ba-6def1da8ec0e	1_198192954_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	1	198192954	AT	A	480	PASS	NEK7	Del	intronic	1	8	EXO1	child	1_198192954_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
547794c0-329c-11e6-aca6-b39fcc638e3d	2_169015574_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	169015574	TA	T	780	PASS	STK39	Del	intronic	1	9	MSH6	child	2_169015574_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
548a8180-3273-11e6-af89-7600ebb8d062	5_138487499_GAG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	5	138487499	GA	G	300	PASS	SIL1	Del	intronic	1	9	NUDT1	child	5_138487499_GAG_NUDT1	1	1	1	A	8	A	Repeat-mediated
5491a832-3275-11e6-b6cd-6bb47098ee92	21_43441416_ATCTCATGTGTA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	21	43441416	ATCTCATGTGT	A	360	PASS	ZNF295-AS1	Del	upstream	10	1	FANCC	child	21_43441416_ATCTCATGTGTA_FANCC	10	>=10	3	TCT	0	-	Microhomology-mediated
54aabf1a-328f-11e6-9230-fb250e01a414	3_94891787_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	94891787	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	3_94891787_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
54aadcfa-326e-11e6-9003-ae204b47a305	19_17848091_CCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	17848091	C	CT	420	PASS	MAP1S	Ins	downstream	1	8	MSH6	child	19_17848091_CCT_MSH6	1	1	-	-	-	-	Ins
54b0852c-325c-11e6-8cd9-139b7872c165	3_153604440_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	153604440	C	CA	360	PASS	RP11-217E22.5	Ins	intronic	1	6	MSH6	child	3_153604440_CCA_MSH6	1	1	-	-	-	-	Ins
54b17906-32a1-11e6-b696-dd6225c9da85	5_94395307_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	94395307	C	CA	480	PASS	MCTP1	Ins	intronic	1	7	MSH6	child	5_94395307_CCA_MSH6	1	1	-	-	-	-	Ins
54b4cc44-32a3-11e6-bc66-17b4cc638e3d	8_137602829_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	137602829	C	CT	360	PASS	RP11-30J20.1	Ins	intronic	1	9	MSH6	child	8_137602829_CCT_MSH6	1	1	-	-	-	-	Ins
54b66caa-3278-11e6-9e4c-96041ea8ec0e	5_138410701_AAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	5	138410701	A	AT	420	PASS	SIL1	Ins	intronic	1	0	FANCC	child	5_138410701_AAT_FANCC	1	1	-	-	-	-	Ins
54c1522c-329c-11e6-a0ea-135325c9da85	15_94375740_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	94375740	CA	C	420	PASS	CTD-3049M7.1	Del	intronic	1	9	MSH6	child	15_94375740_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
54c53710-3275-11e6-83cd-a472a178171f	4_15079736_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	15079736	CT	C	480	PASS	-	Del	-	1	7	MSH6	child	4_15079736_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
54c91d32-329b-11e6-8876-266aa178171f	3_151731331_CCG	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	3	151731331	C	CG	360	PASS	-	Ins	-	1	1	NEIL1	child	3_151731331_CCG_NEIL1	1	1	-	-	-	-	Ins
54ca121e-3287-11e6-a21c-b819bce6aa09	X_66441778_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	66441778	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	X_66441778_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
54cae3e6-328d-11e6-aa75-90c36f39e758	13_32261477_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	32261477	A	AT	480	PASS	-	Ins	-	1	4	MSH6	child	13_32261477_AAT_MSH6	1	1	-	-	-	-	Ins
54e4d2ee-328b-11e6-b805-77090e01a414	2_138551129_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	138551129	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	2_138551129_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
54e4e8c6-3289-11e6-b805-77090e01a414	2_9757390_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	9757390	CA	C	900	PASS	YWHAQ	Del	intronic	1	7	MSH6	child	2_9757390_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
54e7578c-329d-11e6-ae71-0c5325c9da85	1_202438374_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	202438374	CT	C	660	PASS	PPP1R12B	Del	intronic	1	8	MSH6	child	1_202438374_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
54f4f4a6-3292-11e6-8371-bc370d016689	15_67982364_ATA	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	15	67982364	AT	A	300	PASS	MAP2K5	Del	intronic	1	8	NUDT1	child	15_67982364_ATA_NUDT1	1	1	1	T	7	T	Repeat-mediated
54fa3ffc-3273-11e6-a8b6-76174530f757	12_31496018_ATA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	12	31496018	AT	A	300	PASS	-	Del	-	1	5	EXO1	child	12_31496018_ATA_EXO1	1	1	1	T	4	T	Repeat-mediated
54ff1e82-3273-11e6-9e18-3a69671699ea	10_68361036_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	68361036	GA	G	780	PASS	CTNNA3	Del	intronic	1	8	MSH6	child	10_68361036_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
5501dbb2-328d-11e6-bd84-429305ad5bc4	1_241591197_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	241591197	CA	C	540	PASS	RP11-527D7.1	Del	intronic	1	7	MSH6	child	1_241591197_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
550e42ea-329b-11e6-8069-175325c9da85	12_88436702_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	88436702	GT	G	540	PASS	C12orf29	Del	splice_region	1	9	MSH6	child	12_88436702_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
551051f4-3294-11e6-bbbd-3e3a7a852e0e	21_39093384_CAC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	21	39093384	CA	C	407	PASS	KCNJ6	Del	intronic	1	6	CHK2	child	21_39093384_CAC_CHK2	1	1	1	A	5	A	Repeat-mediated
551b75a6-3290-11e6-9432-c0e56f39e758	5_123850269_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	123850269	CT	C	840	PASS	CTD-2308B18.3	Del	intronic	1	6	MSH6	child	5_123850269_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
551e95b8-3323-11e6-9b97-aa021daa6045	19_35906471_GTG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	19	35906471	GT	G	960	PASS	AC002511.1	Del	intronic	1	1	EXO1	child	19_35906471_GTG_EXO1	1	1	0	-	0	T	None
55260944-329f-11e6-a04f-c66a25c9da85	6_9134708_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	9134708	AT	A	660	PASS	RP11-354I10.1	Del	intronic	1	9	MSH6	child	6_9134708_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
552f5bb2-3271-11e6-9309-bdc34a47a305	8_111294184_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	111294184	CA	C	360	PASS	-	Del	-	1	9	MSH6	child	8_111294184_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
55383234-328d-11e6-9c89-8d090e01a414	1_239676448_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	239676448	GT	G	420	PASS	-	Del	-	1	5	MSH6	child	1_239676448_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
554f4306-328e-11e6-919e-92c36f39e758	2_191448774_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	191448774	CA	C	720	PASS	-	Del	-	1	5	MSH6	child	2_191448774_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
55577be2-328a-11e6-a19d-3c763adbad45	4_156224976_GAG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	4	156224976	GA	G	540	PASS	-	Del	-	1	9	NUDT1	parent	4_156224976_GAG_NUDT1	1	1	1	A	8	A	Repeat-mediated
5557feac-3292-11e6-b77d-2eef6f39e758	6_125734939_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	125734939	GA	G	600	PASS	-	Del	-	1	8	MSH6	child	6_125734939_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
5561adcc-3255-11e6-bc65-c9667872c165	13_52135594_GGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	52135594	G	GT	300	PASS	RNU6-65P	Ins	upstream	1	5	MSH6	child	13_52135594_GGT_MSH6	1	1	-	-	-	-	Ins
55638e54-3272-11e6-8a8e-99db12ae24cf	1_78971333_ATA	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	1	78971333	AT	A	900	PASS	PTGFR	Del	intronic	1	8	NEIL1	child	1_78971333_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
55700dfe-3287-11e6-8734-49a538e8a824	15_40229808_GTG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	15	40229808	GT	G	420	PASS	EIF2AK4	Del	intronic	1	8	NUDT1	parent	15_40229808_GTG_NUDT1	1	1	1	T	7	T	Repeat-mediated
5571f192-3326-11e6-8a20-9a0d75253f64	9_127039787_TTG	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	9	127039787	T	TG	360	PASS	NEK6	Ins	intronic	1	0	CHK2	child	9_127039787_TTG_CHK2	1	1	-	-	-	-	Ins
5572e1bc-3270-11e6-a539-0e5542c4520d	7_97348252_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	97348252	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	7_97348252_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
55764bd0-328f-11e6-ad16-6b56f0f7a29c	10_94800016_CTC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	10	94800016	CT	C	600	PASS	EXOC6	Del	intronic	1	8	NEIL1	child	10_94800016_CTC_NEIL1	1	1	1	T	7	T	Repeat-mediated
557739dc-328f-11e6-a1a1-958e3adbad45	11_97546008_TAT	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	11	97546008	TA	T	360	PASS	-	Del	-	1	9	NEIL1	child	11_97546008_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
55883db6-3296-11e6-8669-5f48a178171f	15_75374578_AAT	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	15	75374578	A	AT	300	PASS	-	Ins	-	1	5	NEIL1	child	15_75374578_AAT_NEIL1	1	1	-	-	-	-	Ins
558b2262-327b-11e6-a391-f6d67d6a9fc7	6_85750594_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	85750594	C	CA	300	PASS	-	Ins	-	1	1	MSH6	child	6_85750594_CCA_MSH6	1	1	-	-	-	-	Ins
558c2752-3285-11e6-a309-3c0f147bb207	22_50225384_ACCTTGATCCAGGA	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	22	50225384	ACCTTGATCCAGG	A	480	PASS	RP3-522J7.6	Del	downstream	12	1	FANCC	child	22_50225384_ACCTTGATCCAGGA_FANCC	12	>=10	1	C	0	-	Microhomology-mediated
558de3c8-3288-11e6-a8ac-a28ea2c71c31	3_63921929_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	63921929	AT	A	480	PASS	ATXN7	Del	intronic	1	9	MSH6	child	3_63921929_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
558ffbc6-3324-11e6-a066-657f12ae24cf	X_88668445_ATA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	X	88668445	AT	A	389	PASS	-	Del	-	1	8	POLE	child	X_88668445_ATA_POLE	1	1	1	T	7	T	Repeat-mediated
559063b8-329d-11e6-ae71-0c5325c9da85	1_202643150_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	202643150	AT	A	780	PASS	SYT2	Del	intronic	1	8	MSH6	child	1_202643150_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
559a27fa-328d-11e6-bfa2-581f0e01a414	7_39722244_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	39722244	CT	C	360	PASS	RALA	Del	intronic	1	9	MSH6	child	7_39722244_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
55a92950-3286-11e6-8b67-086ea2c71c31	1_172630907_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	172630907	TA	T	420	PASS	FASLG	Del	intronic	1	9	MSH6	child	1_172630907_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
55b0a604-328a-11e6-a94a-059612ae24cf	19_48827599_ACA	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	19	48827599	AC	A	420	PASS	CCDC114	Del	upstream	1	1	CHK2	child	19_48827599_ACA_CHK2	1	1	0	-	0	C	None
55b110dc-3274-11e6-bf33-43b638e8a824	4_189651739_GTG	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	4	189651739	GT	G	300	PASS	-	Del	-	1	8	NEIL1	child	4_189651739_GTG_NEIL1	1	1	1	T	7	T	Repeat-mediated
55b5af96-3271-11e6-9f1d-8260f7be831b	14_69862987_ATA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	14	69862987	AT	A	840	PASS	SLC39A9	Del	upstream	1	9	CHK2	child	14_69862987_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
55b8e854-329a-11e6-8069-175325c9da85	12_26905546_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	26905546	TA	T	660	PASS	ITPR2	Del	intronic	1	6	MSH6	child	12_26905546_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
55baf996-3272-11e6-bbeb-70bd19a91649	20_21840672_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	20	21840672	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	20_21840672_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
55c11ff6-328b-11e6-8736-3591e7d0bdd7	10_80492909_CTC	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	10	80492909	CT	C	600	PASS	-	Del	-	1	6	POLM	child	10_80492909_CTC_POLM	1	1	1	T	5	T	Repeat-mediated
55c64eb0-3270-11e6-b89d-b2d6b0dab373	4_55346003_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	55346003	GA	G	480	PASS	-	Del	-	1	8	MSH6	child	4_55346003_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
55cef0b6-328d-11e6-b8e6-91c36f39e758	11_119213687_TGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	119213687	TG	T	960	PASS	MFRP	Del	frameshift	1	7	MSH6	child	11_119213687_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
55d12746-3323-11e6-91b9-d71a8977c0b2	8_42801741_CTTGC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	8	42801741	CTTG	C	540	PASS	HOOK3	Del	intronic	3	2	CHK2	parent	8_42801741_CTTGC_CHK2	3	3	3	TTG	1	TTG	Repeat-mediated
55d506fa-326e-11e6-9d68-ac9acab49462	15_79151024_CTTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	79151024	CTT	C	1140	PASS	-	Del	-	2	3	MSH6	child	15_79151024_CTTC_MSH6	2	2	1	T	0	-	Microhomology-mediated
55e625dc-327f-11e6-9176-77c54dc77248	5_143019098_CTC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	5	143019098	CT	C	720	PASS	-	Del	-	1	9	NUDT1	child	5_143019098_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
55e74188-328e-11e6-9230-fb250e01a414	3_30073945_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	30073945	GT	G	840	PASS	-	Del	-	1	7	MSH6	child	3_30073945_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
55e8c8c0-3278-11e6-9e0f-7959cab49462	7_24337696_GGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	24337696	G	GT	420	PASS	-	Ins	-	1	7	MSH6	child	7_24337696_GGT_MSH6	1	1	-	-	-	-	Ins
55e9e29a-328d-11e6-8106-81c36f39e758	19_28940960_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	28940960	G	GT	600	PASS	AC005307.3	Ins	intronic	1	8	MSH6	child	19_28940960_GGT_MSH6	1	1	-	-	-	-	Ins
55e9f314-3325-11e6-8527-5503694da5d2	X_85754475_TTTAGCCTAATATCTTCAGCTTATAATTATAGAGAGAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	X	85754475	TTTAGCCTAATATCTTCAGCTTATAATTATAGAGAGA	T	360	PASS	DACH2	Del	intronic	36	1	EXO1	child	X_85754475_TTTAGCCTAATATCTTCAGCTTATAATTATAGAGAGAT_EXO1	36	>=10	1	T	0	-	Microhomology-mediated
55f2af7a-328c-11e6-b9c4-751d0e01a414	5_6339584_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	6339584	CA	C	360	PASS	CTD-2324F15.2	Del	upstream	1	9	MSH6	child	5_6339584_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
55f8b8e4-3286-11e6-8e86-a8fc137bb207	8_126433893_ACACTTTGGGAGGCTGAGGTGGGCGGATTGCTTGAGTCCAGGAGTTCAAGACCAGCCTGGACAACATGGCAAAAACCCATCTTTACTAAAAATACAAAAAATAGCTGGGCATGCTGGCGCACGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGACAATCGCTTGAAACCGGAAGGCAGAGGTTGCAGGGAGCTGAGATCTCATCACAGCACTCCAGCCGAGGTGACAGGGTGAGACCCTGCCACACACACAAAAAAAACAAAAACAAGCAAACAAAAAACATTTTACGCTGGGCGTGGTGGCTCATGCCTGTAATCCCAGA	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	8	126433893	ACACTTTGGGAGGCTGAGGTGGGCGGATTGCTTGAGTCCAGGAGTTCAAGACCAGCCTGGACAACATGGCAAAAACCCATCTTTACTAAAAATACAAAAAATAGCTGGGCATGCTGGCGCACGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGACAATCGCTTGAAACCGGAAGGCAGAGGTTGCAGGGAGCTGAGATCTCATCACAGCACTCCAGCCGAGGTGACAGGGTGAGACCCTGCCACACACACAAAAAAAACAAAAACAAGCAAACAAAAAACATTTTACGCTGGGCGTGGTGGCTCATGCCTGTAATCCCAG	A	267	PASS	-	Del	-	324	1	FANCC	child	8_126433893_ACACTTTGGGAGGCTGAGGTGGGCGGATTGCTTGAGTCCAGGAGTTCAAGACCAGCCTGGACAACATGGCAAAAACCCATCTTTACTAAAAATACAAAAAATAGCTGGGCATGCTGGCGCACGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGACAATCGCTTGAAACCGGAAGGCAGAGGTTGCAGGGAGCTGAGATCTCATCACAGCACTCCAGCCGAGGTGACAGGGTGAGACCCTGCCACACACACAAAAAAAACAAAAACAAGCAAACAAAAAACATTTTACGCTGGGCGTGGTGGCTCATGCCTGTAATCCCAGA_FANCC	324	>=10	27	CACTTTGGGAGGCTGAGGTGGGCGGAT	0	-	Microhomology-mediated
55f8f9f8-3290-11e6-bd26-49b0e7d0bdd7	7_16827614_TTTCT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	7	16827614	TTTC	T	360	PASS	TSPAN13	Del	downstream	3	3	FANCC	child	7_16827614_TTTCT_FANCC	3	3	3	TTC	2	TTC	Repeat-mediated
55fb78f6-3284-11e6-91c1-9ac3b0dab373	21_16441625_TAT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	21	16441625	TA	T	660	PASS	NRIP1	Del	upstream	1	8	POLE	parent	21_16441625_TAT_POLE	1	1	1	A	7	A	Repeat-mediated
560d7d40-3274-11e6-88b6-40832aaffa45	1_77313016_CTC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	77313016	CT	C	420	PASS	-	Del	-	1	7	EXO1	child	1_77313016_CTC_EXO1	1	1	1	T	6	T	Repeat-mediated
560e054c-328a-11e6-b9eb-c78fa2c71c31	6_68255655_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	68255655	T	TA	300	PASS	RNU6-280P	Ins	upstream	1	8	MSH6	child	6_68255655_TTA_MSH6	1	1	-	-	-	-	Ins
56109db2-327f-11e6-9a18-69cfaa716c52	4_103635567_GAG	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	4	103635567	GA	G	480	PASS	MANBA	Del	intronic	1	9	POLB	parent	4_103635567_GAG_POLB	1	1	1	A	8	A	Repeat-mediated
5612e9c8-3275-11e6-9522-b51a987b3f23	12_128691422_GGT	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	12	128691422	G	GT	300	PASS	-	Ins	-	1	5	NUDT1	child	12_128691422_GGT_NUDT1	1	1	-	-	-	-	Ins
56178d96-329f-11e6-a04f-c66a25c9da85	6_9409206_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	9409206	GT	G	420	PASS	-	Del	-	1	7	MSH6	child	6_9409206_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
562c4796-3258-11e6-9d15-298312ae24cf	X_122217789_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	122217789	CA	C	360	PASS	-	Del	-	1	9	MSH6	child	X_122217789_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
563036de-328b-11e6-b805-77090e01a414	2_138919275_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	138919275	TA	T	480	PASS	-	Del	-	1	6	MSH6	child	2_138919275_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
56311c7a-3272-11e6-940c-da0fead19ece	11_57542046_GTAAAACTGGCCCAAAG	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	11	57542046	GTAAAACTGGCCCAAA	G	600	PASS	CTNND1	Del	intronic	15	1	NEIL1	child	11_57542046_GTAAAACTGGCCCAAAG_NEIL1	15	>=10	3	TAA	0	-	Microhomology-mediated
56423394-3285-11e6-913b-f60d51c54cdd	19_2801974_CCA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	19	2801974	C	CA	660	PASS	THOP1	Ins	intronic	1	1	EXO1	child	19_2801974_CCA_EXO1	1	1	-	-	-	-	Ins
564332b6-328b-11e6-b805-77090e01a414	2_138933295_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	138933295	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	2_138933295_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
564a3b10-3272-11e6-8f33-a6d9cde16804	11_873749_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	873749	CT	C	840	PASS	CHID1	Del	intronic	1	7	MSH6	child	11_873749_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
564f1752-329a-11e6-8069-175325c9da85	12_27002407_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	27002407	GA	G	660	PASS	-	Del	-	1	8	MSH6	child	12_27002407_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
565d1e56-3281-11e6-845d-6b29bce6aa09	X_5650177_AAGTAGGTGTTAAAAAGTAAAATGTGGGCCAGGCGCAGTGGCCCACACCTGTAATCCCAGCACTTTGGGAGGCTGAGGAGGGTGGATTGCCTGAGGTCAGGAGTTCGAGACCA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	X	5650177	AAGTAGGTGTTAAAAAGTAAAATGTGGGCCAGGCGCAGTGGCCCACACCTGTAATCCCAGCACTTTGGGAGGCTGAGGAGGGTGGATTGCCTGAGGTCAGGAGTTCGAGACC	A	420	PASS	-	Del	-	111	1	POLM	child	X_5650177_AAGTAGGTGTTAAAAAGTAAAATGTGGGCCAGGCGCAGTGGCCCACACCTGTAATCCCAGCACTTTGGGAGGCTGAGGAGGGTGGATTGCCTGAGGTCAGGAGTTCGAGACCA_POLM	111	>=10	3	AGT	0	-	Microhomology-mediated
56676bc2-328b-11e6-a75f-859bcdacbbbf	9_113734923_GGATACTTG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	9	113734923	GGATACTT	G	300	PASS	LPAR1	Del	intronic	7	1	FANCC	child	9_113734923_GGATACTTG_FANCC	7	7	2	GA	0	-	Microhomology-mediated
566e2604-3323-11e6-8ccd-5c056323ba5a	2_116432926_TAT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	2	116432926	TA	T	720	PASS	DPP10	Del	intronic	1	9	EXO1	child	2_116432926_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
566f6196-326e-11e6-9d68-ac9acab49462	15_79168286_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	79168286	GT	G	300	PASS	MORF4L1	Del	intronic	1	7	MSH6	child	15_79168286_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
56a52d32-3285-11e6-8b67-086ea2c71c31	1_76720397_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	76720397	GT	G	420	PASS	ST6GALNAC3	Del	intronic	1	8	MSH6	child	1_76720397_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
56b3c45e-328b-11e6-9539-3490a178171f	3_144062868_CTGC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	3	144062868	CTG	C	480	PASS	-	Del	-	2	2	FANCC	child	3_144062868_CTGC_FANCC	2	2	2	TG	1	TG	Repeat-mediated
56b72e60-3276-11e6-ab69-1c1607e9a829	9_131496059_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	131496059	CT	C	420	PASS	ZER1	Del	intronic	1	8	MSH6	child	9_131496059_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
56bb477e-329f-11e6-bc2c-2a5e25c9da85	4_156807241_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	156807241	TA	T	420	PASS	-	Del	-	1	5	MSH6	child	4_156807241_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
56c1f39e-329a-11e6-ae71-0c5325c9da85	1_23822576_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	23822576	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	1_23822576_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
56c6db26-328f-11e6-8508-9ba45d753391	20_51997389_CATTC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	20	51997389	CATT	C	300	PASS	TSHZ2	Del	intronic	3	1	POLE	child	20_51997389_CATTC_POLE	3	3	2	AT	0	-	Microhomology-mediated
56cb0f08-328e-11e6-ab9a-705238e8a824	18_58107730_TAT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	18	58107730	TA	T	300	PASS	-	Del	-	1	6	FANCC	child	18_58107730_TAT_FANCC	1	1	1	A	5	A	Repeat-mediated
56ddde22-3274-11e6-a8b6-76174530f757	12_101264296_ATA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	12	101264296	AT	A	600	PASS	ANO4	Del	intronic	1	9	EXO1	child	12_101264296_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
56df43a6-3298-11e6-a210-6a27c7271a47	X_4279872_ATA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	X	4279872	AT	A	300	PASS	-	Del	-	1	8	CHK2	child	X_4279872_ATA_CHK2	1	1	1	T	7	T	Repeat-mediated
56e14306-328c-11e6-a2c2-fa8aa178171f	8_33754039_TTGACC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	8	33754039	T	TGACC	300	PASS	RP11-317N12.1	Ins	intronic	4	0	FANCC	child	8_33754039_TTGACC_FANCC	4	4	-	-	-	-	Ins
56efebb0-3276-11e6-8c34-46e27872c165	5_65452406_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	65452406	GT	G	480	PASS	SREK1	Del	intronic	1	7	MSH6	child	5_65452406_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
56f6ce7e-3296-11e6-9b8b-c9bbf530df36	20_47897230_CTGAC	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	20	47897230	CTGA	C	1320	PASS	ZNFX1	Del	upstream	3	2	POLB	child	20_47897230_CTGAC_POLB	3	3	3	TGA	1	TGA	Repeat-mediated
56f91a92-328e-11e6-bfa2-581f0e01a414	7_99714105_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	99714105	TA	T	360	PASS	TAF6	Del	intronic	1	7	MSH6	child	7_99714105_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
56f9ac28-3284-11e6-870e-6af1bbe6aa09	19_997895_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	997895	CA	C	480	PASS	GRIN3B	Del	upstream	1	6	MSH6	child	19_997895_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
56f9d652-328a-11e6-bb2d-24a320e7b7a8	X_23926183_CTGC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	X	23926183	CTG	C	420	PASS	CXorf58	Del	5prime_UTR_variant	2	1	POLE	child	X_23926183_CTGC_POLE	2	2	1	T	0	-	Microhomology-mediated
56fa5c0e-3270-11e6-81de-443e72d7bc54	2_175723572_TAGAAT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	2	175723572	TAGAA	T	720	PASS	CHN1	Del	intronic	4	1	POLM	child	2_175723572_TAGAAT_POLM	4	4	2	AG	0	-	Microhomology-mediated
5705c36c-3277-11e6-a47c-77abeab8d062	5_75372379_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	5	75372379	AT	A	540	PASS	-	Del	-	1	9	EXO1	child	5_75372379_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
57085108-3273-11e6-8f33-a6d9cde16804	11_85640448_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	85640448	GA	G	360	PASS	-	Del	-	1	9	MSH6	child	11_85640448_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
570aafcc-3280-11e6-8597-c8186ee4ab00	8_42196157_GGCGCCG	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	8	42196157	GGCGCC	G	960	PASS	POLB	Del	frameshift	5	1	POLB	parent	8_42196157_GGCGCCG_POLB	5	5	2	GC	0	-	Microhomology-mediated
57272b3a-3289-11e6-b32c-fd87a2c71c31	5_166749608_CCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	166749608	C	CT	360	PASS	TENM2	Ins	intronic	1	8	MSH6	child	5_166749608_CCT_MSH6	1	1	-	-	-	-	Ins
572d4484-328e-11e6-bfac-a2a9cdacbbbf	11_97166989_TTGT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	11	97166989	TTG	T	525	PASS	-	Del	-	2	7	POLB	child	11_97166989_TTGT_POLB	2	2	2	TG	6	TG	Repeat-mediated
572d5734-3276-11e6-9019-27a01da8ec0e	6_25194012_GAG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	6	25194012	GA	G	300	PASS	-	Del	-	1	9	FANCC	child	6_25194012_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
5730c96e-328f-11e6-8e48-791e0e01a414	8_119813888_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	119813888	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	8_119813888_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
573916de-3274-11e6-b776-ad832aaffa45	13_102768705_GGTG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	13	102768705	GGT	G	420	PASS	FGF14	Del	intronic	2	5	EXO1	child	13_102768705_GGTG_EXO1	2	2	2	GT	4	GT	Repeat-mediated
573c712c-326e-11e6-b306-b5204b47a305	2_153989244_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	153989244	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	2_153989244_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
5748338e-329d-11e6-ae71-0c5325c9da85	1_202856485_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	202856485	AT	A	360	PASS	KLHL12	Del	downstream	1	9	MSH6	child	1_202856485_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
57495d6a-3273-11e6-abaf-4642cab49462	6_121183982_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	121183982	CA	C	300	PASS	-	Del	-	1	7	MSH6	child	6_121183982_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
574d136c-328f-11e6-bfa2-581f0e01a414	7_157855206_CCTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	157855206	CCT	C	300	PASS	PTPRN2	Del	intronic	2	3	MSH6	child	7_157855206_CCTC_MSH6	2	2	2	CT	2	CT	Repeat-mediated
5750e3b0-3277-11e6-92d2-c259c225ee11	3_71623258_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	71623258	GT	G	660	PASS	FOXP1	Del	intronic	1	8	MSH6	child	3_71623258_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
575888b6-3279-11e6-a391-f6d67d6a9fc7	6_128252000_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	128252000	GA	G	470	PASS	-	Del	-	1	5	MSH6	child	6_128252000_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
57634bf2-329c-11e6-bda6-065325c9da85	13_77012105_AAAATAAAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	77012105	A	AAATAAAT	720	PASS	-	Ins	-	7	0	MSH6	child	13_77012105_AAAATAAAT_MSH6	7	7	-	-	-	-	Ins
57654d32-326d-11e6-b306-b5204b47a305	2_62666391_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	62666391	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	2_62666391_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
57655c1c-3292-11e6-9401-04ed6f39e758	3_167434388_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	167434388	TA	T	360	PASS	PDCD10	Del	intronic	1	9	MSH6	child	3_167434388_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
57684988-326d-11e6-9f48-94df41c4520d	12_57774551_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	57774551	TA	T	633	PASS	R3HDM2	Del	intronic	1	9	MSH6	child	12_57774551_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
576bb8e8-3281-11e6-9fe5-cc8f38e8a824	19_13012802_CTGC	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	19	13012802	CTG	C	960	PASS	GCDH	Del	downstream	2	1	POLE	parent	19_13012802_CTGC_POLE	2	2	1	T	0	-	Microhomology-mediated
578a7b30-3285-11e6-83b0-2c6e0d016689	2_174226530_GTG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	2	174226530	GT	G	415	PASS	CDCA7	Del	intronic	1	9	EXO1	child	2_174226530_GTG_EXO1	1	1	1	T	8	T	Repeat-mediated
578e1af6-3285-11e6-99f7-076ea2c71c31	12_82697815_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	82697815	CT	C	398	PASS	-	Del	-	1	7	MSH6	child	12_82697815_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
578e5c5a-3271-11e6-b5b8-e0c24a47a305	X_136489237_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	136489237	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	X_136489237_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
579c3806-3277-11e6-92d2-c259c225ee11	3_71701552_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	71701552	GA	G	600	PASS	-	Del	-	1	9	MSH6	child	3_71701552_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
579cf48e-328c-11e6-b4fe-93c36f39e758	12_51254205_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	51254205	CT	C	300	PASS	TMPRSS12	Del	intronic	1	9	MSH6	child	12_51254205_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
57a56910-3274-11e6-8bd4-92b28a20d9eb	9_108134291_GAG	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	9	108134291	GA	G	540	PASS	SLC44A1	Del	intronic	1	8	NEIL1	child	9_108134291_GAG_NEIL1	1	1	1	A	7	A	Repeat-mediated
57a88be8-3320-11e6-a5ff-2d2ef7d33ce3	10_14654963_CTC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	10	14654963	CT	C	360	PASS	FAM107B	Del	intronic	1	7	CHK2	child	10_14654963_CTC_CHK2	1	1	1	T	6	T	Repeat-mediated
57aa5582-3289-11e6-a100-84090e01a414	18_6498938_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	6498938	AT	A	360	PASS	CTD-2124B20.2	Del	downstream	1	9	MSH6	child	18_6498938_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
57aa6a64-3279-11e6-a391-f6d67d6a9fc7	6_128330277_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	128330277	CT	C	540	PASS	PTPRK	Del	frameshift	1	6	MSH6	child	6_128330277_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
57b5b3e8-3273-11e6-901f-2d6266a58581	3_16699672_CAGCTC	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	3	16699672	CAGCT	C	360	PASS	-	Del	-	4	1	NUDT1	child	3_16699672_CAGCTC_NUDT1	4	4	1	A	0	-	Microhomology-mediated
57bcbdca-3276-11e6-92d2-c259c225ee11	3_838505_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	838505	GA	G	420	PASS	AC090044.1	Del	intronic	1	8	MSH6	child	3_838505_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
57bd739a-3277-11e6-83cd-a472a178171f	4_164667632_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	164667632	GT	G	960	PASS	MARCH1	Del	intronic	1	9	MSH6	child	4_164667632_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
57cb901a-3281-11e6-a545-ae2236fc2f7d	14_67002144_ATA	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	14	67002144	AT	A	300	PASS	GPHN	Del	intronic	1	9	NUDT1	child	14_67002144_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
57d4b3ea-3275-11e6-88aa-2d54a966024e	7_96392739_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	7	96392739	AT	A	360	PASS	-	Del	-	1	8	MSH6	parent	7_96392739_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
57d6479c-3279-11e6-a391-f6d67d6a9fc7	6_128365909_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	128365909	CT	C	540	PASS	PTPRK	Del	intronic	1	7	MSH6	child	6_128365909_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
57d97cf0-3292-11e6-b77d-2eef6f39e758	6_126589037_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	126589037	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	6_126589037_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
57da4456-3282-11e6-9881-48b254de4fc4	5_314966_AGGAATTA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	5	314966	AGGAATT	A	540	PASS	PDCD6	Del	3prime_UTR_variant	6	1	FANCC	child	5_314966_AGGAATTA_FANCC	6	6	0	-	0	-	None
57fef618-3276-11e6-83cd-a472a178171f	4_93616732_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	93616732	GA	G	600	PASS	GRID2	Del	intronic	1	9	MSH6	child	4_93616732_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
58126d74-3285-11e6-870e-6af1bbe6aa09	19_56150887_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	56150887	CT	C	600	PASS	ZNF580	Del	upstream	1	4	MSH6	child	19_56150887_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
5813f64e-3285-11e6-8b67-086ea2c71c31	1_77347247_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	77347247	AT	A	480	PASS	ST6GALNAC5	Del	intronic	1	9	MSH6	child	1_77347247_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
581565de-3257-11e6-885f-d1947872c165	4_83827647_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	83827647	CA	C	780	PASS	THAP9	Del	frameshift	1	7	MSH6	child	4_83827647_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
5815902e-328c-11e6-8eee-76090e01a414	10_67390405_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	67390405	C	CA	420	PASS	RP11-222A11.1	Ins	intronic	1	7	MSH6	child	10_67390405_CCA_MSH6	1	1	-	-	-	-	Ins
58162a3c-328e-11e6-bb1e-70e16f39e758	X_46958107_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	46958107	GT	G	840	PASS	-	Del	-	1	8	MSH6	child	X_46958107_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
5817d104-3273-11e6-abaf-4642cab49462	6_121420430_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	121420430	CT	C	420	PASS	TBC1D32	Del	intronic	1	7	MSH6	child	6_121420430_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
5819ec80-3289-11e6-b0bc-c7a46f39e758	5_108385269_CCT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	5	108385269	C	CT	373	PASS	FER	Ins	intronic	1	9	EXO1	child	5_108385269_CCT_EXO1	1	1	-	-	-	-	Ins
5821891a-3273-11e6-975f-8246cab49462	16_56851408_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	56851408	CT	C	540	PASS	NUP93	Del	intronic	1	8	MSH6	child	16_56851408_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5821ad28-3273-11e6-8f33-a6d9cde16804	11_85985244_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	85985244	GT	G	480	PASS	EED	Del	intronic	1	6	MSH6	child	11_85985244_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
58279c3c-3279-11e6-8026-e974e7d0bdd7	2_59044775_CAC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	2	59044775	CA	C	720	PASS	LINC01122	Del	intronic	1	9	FANCC	parent	2_59044775_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
582bd3f4-3276-11e6-ab69-1c1607e9a829	9_131638389_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	131638389	CT	C	539	PASS	CCBL1	Del	intronic	1	7	MSH6	child	9_131638389_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
58349668-326e-11e6-92dd-fda8977b3f23	10_125130439_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	125130439	AT	A	300	PASS	RP11-282I1.1	Del	intronic	1	4	MSH6	child	10_125130439_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
58386e04-328d-11e6-8952-77c36f39e758	10_119483895_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	119483895	TA	T	720	PASS	-	Del	-	1	8	MSH6	child	10_119483895_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
584226d6-328f-11e6-b81f-4ee66f39e758	8_40491654_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	40491654	TA	T	480	PASS	ZMAT4	Del	intronic	1	8	MSH6	child	8_40491654_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
58475426-3276-11e6-83cd-a472a178171f	4_93726956_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	93726956	GA	G	300	PASS	GRID2	Del	intronic	1	8	MSH6	child	4_93726956_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
58479634-3325-11e6-a89e-8866c042253c	7_107990812_ACTCATCAGGTTTTCCTGGAGTGA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	7	107990812	ACTCATCAGGTTTTCCTGGAGTG	A	420	PASS	NRCAM	Del	intronic	22	1	POLE	child	7_107990812_ACTCATCAGGTTTTCCTGGAGTGA_POLE	22	>=10	4	CTCA	0	-	Microhomology-mediated
584da18c-3285-11e6-b093-c9c7b0dab373	2_72834273_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	72834273	AT	A	360	PASS	EXOC6B	Del	intronic	1	7	MSH6	child	2_72834273_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
5851ddfc-329d-11e6-bbf7-b00798ba1142	3_89559636_AATC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	3	89559636	A	ATC	600	PASS	-	Ins	-	2	1	CHK2	child	3_89559636_AATC_CHK2	2	2	-	-	-	-	Ins
58581664-3323-11e6-84e3-a2cceab8d062	2_237340741_CTC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	2	237340741	CT	C	960	PASS	IQCA1	Del	intronic	1	9	CHK2	parent	2_237340741_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
585a2008-3288-11e6-a21c-b819bce6aa09	X_31754119_AAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	31754119	A	AT	360	PASS	DMD	Ins	intronic	1	8	MSH6	child	X_31754119_AAT_MSH6	1	1	-	-	-	-	Ins
585e1b5c-3285-11e6-8b67-086ea2c71c31	1_77583687_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	77583687	TA	T	540	PASS	PIGK	Del	intronic	1	9	MSH6	child	1_77583687_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
58639c66-3290-11e6-bc33-715238e8a824	2_188961167_AAATA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	2	188961167	AAAT	A	300	PASS	LINC01090	Del	intronic	3	4	FANCC	child	2_188961167_AAATA_FANCC	3	3	3	AAT	3	AAT	Repeat-mediated
5863fd1c-32a1-11e6-ae71-0c5325c9da85	1_193585515_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	193585515	C	CA	300	PASS	-	Ins	-	1	3	MSH6	child	1_193585515_CCA_MSH6	1	1	-	-	-	-	Ins
58737fec-328f-11e6-9d24-ade56f39e758	7_52726177_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	52726177	GA	G	360	PASS	-	Del	-	1	8	MSH6	child	7_52726177_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
587872e4-3272-11e6-9e18-3a69671699ea	10_2652416_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	2652416	TA	T	660	PASS	-	Del	-	1	9	MSH6	child	10_2652416_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
587c38ee-3285-11e6-a0a8-096ea2c71c31	11_89083902_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	89083902	AT	A	420	PASS	NOX4	Del	intronic	1	8	MSH6	child	11_89083902_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
5882b754-3259-11e6-acc5-308412ae24cf	5_28421555_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	28421555	C	CA	660	PASS	-	Ins	-	1	7	MSH6	child	5_28421555_CCA_MSH6	1	1	-	-	-	-	Ins
5882fc50-3321-11e6-aebd-38d38877c0b2	17_11592419_AAT	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	17	11592419	A	AT	300	PASS	DNAH9	Ins	intronic	1	1	CHK2	parent	17_11592419_AAT_CHK2	1	1	-	-	-	-	Ins
5884d04c-3287-11e6-8bf5-48a538e8a824	14_49960395_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	14	49960395	AT	A	540	PASS	-	Del	-	1	9	NUDT1	parent	14_49960395_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
588a1fc0-3291-11e6-9401-04ed6f39e758	3_97356386_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	97356386	CT	C	480	PASS	EPHA6	Del	intronic	1	8	MSH6	child	3_97356386_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
588b088e-3289-11e6-a8ff-fbcd191589db	11_22875061_GAG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	11	22875061	GA	G	540	PASS	CCDC179	Del	intronic	1	7	FANCC	child	11_22875061_GAG_FANCC	1	1	1	A	6	A	Repeat-mediated
5898d386-3281-11e6-a5e9-0107694da5d2	7_75585598_CAGC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	7	75585598	CAG	C	300	PASS	POR	Del	intronic	2	2	NEIL1	child	7_75585598_CAGC_NEIL1	2	2	2	AG	1	AG	Repeat-mediated
58ac9098-328f-11e6-bd84-429305ad5bc4	1_214418528_CCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	214418528	C	CT	480	PASS	-	Ins	-	1	8	MSH6	child	1_214418528_CCT_MSH6	1	1	-	-	-	-	Ins
58b4512a-3285-11e6-a0a8-096ea2c71c31	11_89251571_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	89251571	TA	T	300	PASS	NOX4	Del	intronic	1	9	MSH6	child	11_89251571_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
58d0b088-3256-11e6-bf41-357a7872c165	10_57898548_GGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	57898548	G	GT	660	PASS	-	Ins	-	1	5	MSH6	child	10_57898548_GGT_MSH6	1	1	-	-	-	-	Ins
58d39730-326f-11e6-bf40-308964f80bad	4_57980916_ATA	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	4	57980916	AT	A	420	PASS	IGFBP7	Del	upstream	1	6	POLM	parent	4_57980916_ATA_POLM	1	1	1	T	5	T	Repeat-mediated
58d3c148-328c-11e6-b9c4-751d0e01a414	5_7203565_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	7203565	AT	A	360	PASS	-	Del	-	1	6	MSH6	child	5_7203565_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
58eb78e2-3287-11e6-b32c-fd87a2c71c31	5_122704654_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	122704654	GT	G	600	PASS	CEP120	Del	intronic	1	9	MSH6	child	5_122704654_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
58f1c7fe-3293-11e6-9230-fb250e01a414	3_156252511_CCCCAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	156252511	C	CCCAG	600	PASS	KCNAB1	Ins	intronic	4	0	MSH6	child	3_156252511_CCCCAG_MSH6	4	4	-	-	-	-	Ins
58f7121a-328c-11e6-9c89-8d090e01a414	1_182541283_TTAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	182541283	TTA	T	360	PASS	RNASEL	Del	downstream	2	1	MSH6	child	1_182541283_TTAT_MSH6	2	2	0	-	0	-	None
58f7db18-3328-11e6-95a6-476ac042253c	3_156798591_ATTTTGCAAACTATTAAAGTAACTTGATATCATGCTATATCTTTAAAAGATATTTCTCAGCTGTGAATACTATTGGAATGAAATCGGGACTTTTCAAAAAAGTCTGCAGCATGAAAAGGTTTGCATATGAATTCTGATTCCATTAGAAAACCATTTCTTTTAGGACTGTTTTATCATTCTCTATTGGTTCATGTAATATGATTGGTTTGTTCTTATTCTAATTAAAGATGCAATTTATTAAAGAGTCTTTAACTTCACTAAGGCAAAGTTTAAAAAGCTTCTAATCAGATATTCTTGGTAGGCAGGAGAACTATAACCTTCAAACTCTCTGATGTTGTATGAAGCAGCTCTCATCTCTACACAAAGATTTTCACTTCTGTGATCTGGCCTGGTAAAACATTTATTCCTTTATACTCAGTCCTAGTTTGTTTTAGATCTGGGCCTCTGGGCCCATTAATTTGTATAGGATGATAATTTGTATAGGAAGACAGGTGTGCTGTTTTTCTTCAATCCTTGAGGATATTAGGAAAAACTTTAACCAATTAAGGGATCCCATCACCTGACGTTTCTTTGGGGAAAATGACTTTTGAAGGCATGTGGGGATTGTCAAGGAAATAATTTTCCCTTTAAATTACATGTTTGTACGTAAGAGGAATGCTGAGCAGGATATCAAGAGGCAGTGGTCACTCATGGCACTATTTTCAAAGTTAGTTAAACAAGGAAACCAAACCGTGTTAGGATGGT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	3	156798591	ATTTTGCAAACTATTAAAGTAACTTGATATCATGCTATATCTTTAAAAGATATTTCTCAGCTGTGAATACTATTGGAATGAAATCGGGACTTTTCAAAAAAGTCTGCAGCATGAAAAGGTTTGCATATGAATTCTGATTCCATTAGAAAACCATTTCTTTTAGGACTGTTTTATCATTCTCTATTGGTTCATGTAATATGATTGGTTTGTTCTTATTCTAATTAAAGATGCAATTTATTAAAGAGTCTTTAACTTCACTAAGGCAAAGTTTAAAAAGCTTCTAATCAGATATTCTTGGTAGGCAGGAGAACTATAACCTTCAAACTCTCTGATGTTGTATGAAGCAGCTCTCATCTCTACACAAAGATTTTCACTTCTGTGATCTGGCCTGGTAAAACATTTATTCCTTTATACTCAGTCCTAGTTTGTTTTAGATCTGGGCCTCTGGGCCCATTAATTTGTATAGGATGATAATTTGTATAGGAAGACAGGTGTGCTGTTTTTCTTCAATCCTTGAGGATATTAGGAAAAACTTTAACCAATTAAGGGATCCCATCACCTGACGTTTCTTTGGGGAAAATGACTTTTGAAGGCATGTGGGGATTGTCAAGGAAATAATTTTCCCTTTAAATTACATGTTTGTACGTAAGAGGAATGCTGAGCAGGATATCAAGAGGCAGTGGTCACTCATGGCACTATTTTCAAAGTTAGTTAAACAAGGAAACCAA	ACCGTGTTAGGATGGT	600	PASS	LINC00880	Complex	downstream	727	0	CHK2	child	3_156798591_ATTTTGCAAACTATTAAAGTAACTTGATATCATGCTATATCTTTAAAAGATATTTCTCAGCTGTGAATACTATTGGAATGAAATCGGGACTTTTCAAAAAAGTCTGCAGCATGAAAAGGTTTGCATATGAATTCTGATTCCATTAGAAAACCATTTCTTTTAGGACTGTTTTATCATTCTCTATTGGTTCATGTAATATGATTGGTTTGTTCTTATTCTAATTAAAGATGCAATTTATTAAAGAGTCTTTAACTTCACTAAGGCAAAGTTTAAAAAGCTTCTAATCAGATATTCTTGGTAGGCAGGAGAACTATAACCTTCAAACTCTCTGATGTTGTATGAAGCAGCTCTCATCTCTACACAAAGATTTTCACTTCTGTGATCTGGCCTGGTAAAACATTTATTCCTTTATACTCAGTCCTAGTTTGTTTTAGATCTGGGCCTCTGGGCCCATTAATTTGTATAGGATGATAATTTGTATAGGAAGACAGGTGTGCTGTTTTTCTTCAATCCTTGAGGATATTAGGAAAAACTTTAACCAATTAAGGGATCCCATCACCTGACGTTTCTTTGGGGAAAATGACTTTTGAAGGCATGTGGGGATTGTCAAGGAAATAATTTTCCCTTTAAATTACATGTTTGTACGTAAGAGGAATGCTGAGCAGGATATCAAGAGGCAGTGGTCACTCATGGCACTATTTTCAAAGTTAGTTAAACAAGGAAACCAAACCGTGTTAGGATGGT_CHK2	712	>=10	-	-	-	-	Complex
58fd5f58-326e-11e6-9f48-94df41c4520d	12_133702169_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	133702169	CA	C	300	PASS	ZNF891	Del	intronic	1	9	MSH6	child	12_133702169_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
5905715a-3289-11e6-a80b-87090e01a414	11_6935498_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	6935498	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	11_6935498_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
5906c9ac-328d-11e6-bd84-429305ad5bc4	1_243309330_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	243309330	GA	G	540	PASS	CEP170	Del	intronic	1	8	MSH6	child	1_243309330_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
590b3eb2-3254-11e6-89d3-d29498816cf3	2_88685040_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	88685040	GA	G	540	PASS	RNU6-1168P	Del	upstream	1	9	MSH6	child	2_88685040_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
590dd4b0-3272-11e6-975f-8246cab49462	16_387594_TCAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	387594	TCA	T	900	PASS	AXIN1	Del	intronic	2	2	MSH6	child	16_387594_TCAT_MSH6	2	2	2	CA	1	CA	Repeat-mediated
59140898-328c-11e6-bd84-429305ad5bc4	1_105573505_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	105573505	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	1_105573505_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
59257f7a-329a-11e6-ae71-0c5325c9da85	1_24184563_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	24184563	CT	C	720	PASS	FUCA1	Del	intronic	1	9	MSH6	child	1_24184563_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
59343d22-3294-11e6-b14c-5e337a852e0e	X_110124336_GAAAAAG	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	X	110124336	GAAAAA	G	360	PASS	-	Del	-	5	7	CHK2	child	X_110124336_GAAAAAG_CHK2	5	5	2	AA	0	-	Microhomology-mediated
59541702-328d-11e6-ae53-96c36f39e758	15_82130218_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	82130218	GA	G	480	PASS	RP11-499F3.2	Del	intronic	1	8	MSH6	child	15_82130218_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
5962d590-32a0-11e6-bc66-17b4cc638e3d	8_99157625_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	99157625	CT	C	780	PASS	POP1	Del	intronic	1	7	MSH6	child	8_99157625_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
5973442c-328a-11e6-b74f-549ba2c71c31	20_51358597_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	51358597	CT	C	660	PASS	-	Del	-	1	9	MSH6	child	20_51358597_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
5976b1f8-3275-11e6-abaf-4642cab49462	6_76881663_AAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	76881663	A	AC	300	PASS	-	Ins	-	1	8	MSH6	child	6_76881663_AAC_MSH6	1	1	-	-	-	-	Ins
5976cf24-326d-11e6-b2ac-b6204b47a305	17_42836877_TGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	42836877	TG	T	360	PASS	ADAM11	Del	intronic	1	7	MSH6	child	17_42836877_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
5985f000-328e-11e6-b9c4-751d0e01a414	5_140327255_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	140327255	TA	T	300	PASS	PCDHA9	Del	intronic	1	6	MSH6	child	5_140327255_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
598888de-327e-11e6-94ee-5ee4b41afd22	9_84807985_GTG	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	9	84807985	GT	G	360	PASS	-	Del	-	1	9	POLM	child	9_84807985_GTG_POLM	1	1	1	T	8	T	Repeat-mediated
5989d0a0-3273-11e6-8b9c-cffdd8b4fa2c	11_17493439_CCA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	11	17493439	C	CA	600	PASS	ABCC8	Ins	intronic	1	5	MSH6	parent	11_17493439_CCA_MSH6	1	1	-	-	-	-	Ins
598c704e-3287-11e6-b093-c9c7b0dab373	2_240058803_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	240058803	GT	G	660	PASS	HDAC4	Del	intronic	1	8	MSH6	child	2_240058803_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
598dc7e8-3271-11e6-8418-1c5942c4520d	3_131695602_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	131695602	TA	T	360	PASS	CPNE4	Del	intronic	1	8	MSH6	child	3_131695602_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
59908a1c-3273-11e6-b89d-b2d6b0dab373	4_58628647_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	58628647	C	CA	360	PASS	-	Ins	-	1	5	MSH6	child	4_58628647_CCA_MSH6	1	1	-	-	-	-	Ins
59a9d61a-3274-11e6-bfb2-2749c225ee11	12_129546938_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	129546938	GA	G	300	PASS	-	Del	-	1	8	MSH6	child	12_129546938_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
59b0afae-329b-11e6-b549-1e5325c9da85	10_91075755_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	91075755	AT	A	840	PASS	LIPA	Del	intronic	1	8	MSH6	child	10_91075755_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
59b3805c-328d-11e6-b8e6-91c36f39e758	11_120163086_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	120163086	CA	C	360	PASS	POU2F3	Del	intronic	1	9	MSH6	child	11_120163086_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
59b3cfd2-3290-11e6-9d24-ade56f39e758	7_114403161_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	114403161	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	7_114403161_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
59b43218-3274-11e6-94a5-6c01ebb8d062	8_105958933_TAT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	8	105958933	TA	T	660	PASS	-	Del	-	1	3	NUDT1	child	8_105958933_TAT_NUDT1	1	1	1	A	2	A	Repeat-mediated
59b65fd4-329c-11e6-b549-1e5325c9da85	10_11315677_TTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	11315677	T	TG	300	PASS	CELF2	Ins	intronic	1	0	MSH6	child	10_11315677_TTG_MSH6	1	1	-	-	-	-	Ins
59bc225e-3281-11e6-845d-6b29bce6aa09	X_8182867_TTTCTAATATCAT	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	X	8182867	TTTCTAATATCA	T	480	PASS	-	Del	-	11	1	POLM	child	X_8182867_TTTCTAATATCAT_POLM	11	>=10	1	T	0	-	Microhomology-mediated
59c596b0-329d-11e6-bc2c-2a5e25c9da85	4_29279891_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	29279891	TA	T	660	PASS	-	Del	-	1	6	MSH6	child	4_29279891_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
59dedb2a-3284-11e6-8ebc-68f1bbe6aa09	18_1525096_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	1525096	TA	T	840	PASS	RP11-476K15.1	Del	intronic	1	8	MSH6	child	18_1525096_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
59e0182c-328a-11e6-8eee-76090e01a414	10_72094948_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	72094948	GA	G	1020	PASS	LRRC20	Del	intronic	1	5	MSH6	child	10_72094948_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
59efb5d4-328a-11e6-821d-8c090e01a414	13_85440924_CAGC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	85440924	CAG	C	300	PASS	-	Del	-	2	1	MSH6	child	13_85440924_CAGC_MSH6	2	2	1	A	0	-	Microhomology-mediated
59f8ba7a-3286-11e6-b093-c9c7b0dab373	2_160568312_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	160568312	AT	A	780	PASS	MARCH7	Del	upstream	1	4	MSH6	child	2_160568312_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
59fbcf12-3254-11e6-8508-6f1dee3c4f5d	5_74749392_TCT	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	5	74749392	TC	T	660	PASS	COL4A3BP	Del	intronic	1	1	POLB	child	5_74749392_TCT_POLB	1	1	0	-	0	C	None
59fd09a2-328d-11e6-8fa6-65cc977b3f23	15_84081163_ATATGA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	15	84081163	ATATG	A	480	PASS	-	Del	-	4	5	NEIL1	child	15_84081163_ATATGA_NEIL1	4	4	4	TATG	4	TATG	Repeat-mediated
59fdfd72-3273-11e6-b8ae-92c57872c165	14_79431133_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	79431133	AT	A	420	PASS	NRXN3	Del	intronic	1	9	MSH6	child	14_79431133_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
59feba00-329b-11e6-aca6-b39fcc638e3d	2_102548783_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	102548783	AT	A	540	PASS	-	Del	-	1	8	MSH6	child	2_102548783_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
5a0448ac-329c-11e6-a5cf-e5abcc638e3d	9_7887533_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	7887533	AT	A	660	PASS	-	Del	-	1	7	MSH6	child	9_7887533_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
5a098bf0-3283-11e6-89eb-f2eacdacbbbf	4_86892482_ATA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	4	86892482	AT	A	480	PASS	ARHGAP24	Del	intronic	1	7	EXO1	child	4_86892482_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
5a15c618-3292-11e6-9432-c0e56f39e758	5_87820120_TTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	87820120	T	TG	720	PASS	LINC00461	Ins	intronic	1	3	MSH6	child	5_87820120_TTG_MSH6	1	1	-	-	-	-	Ins
5a1b723a-327d-11e6-a360-ea8590e2c2e6	11_96203866_ATA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	11	96203866	AT	A	360	PASS	JRKL-AS1	Del	intronic	1	9	NUDT1	child	11_96203866_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
5a201074-3287-11e6-a5b3-3f1ebce6aa09	7_83706669_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	83706669	AT	A	420	PASS	SEMA3A	Del	intronic	1	7	MSH6	child	7_83706669_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
5a25bd9a-326d-11e6-92dd-fda8977b3f23	10_65373981_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	65373981	CA	C	300	PASS	REEP3	Del	intronic	1	9	MSH6	child	10_65373981_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
5a289712-328c-11e6-9c89-8d090e01a414	1_182798101_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	182798101	AT	A	300	PASS	NPL	Del	3prime_UTR_variant	1	7	MSH6	child	1_182798101_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
5a28e384-3278-11e6-a391-f6d67d6a9fc7	6_53926986_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	53926986	GT	G	300	PASS	MLIP	Del	intronic	1	9	MSH6	child	6_53926986_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
5a2d6ece-3276-11e6-8c34-46e27872c165	5_66513657_CAGC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	66513657	CAG	C	660	PASS	-	Del	-	2	4	MSH6	child	5_66513657_CAGC_MSH6	2	2	2	AG	3	AG	Repeat-mediated
5a2f7c66-3288-11e6-b32c-fd87a2c71c31	5_50202202_AAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	50202202	A	AT	660	PASS	-	Ins	-	1	6	MSH6	child	5_50202202_AAT_MSH6	1	1	-	-	-	-	Ins
5a38e998-3285-11e6-aa7b-37792aaffa45	5_27044466_AAT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	5	27044466	A	AT	480	PASS	CDH9	Ins	intronic	1	9	POLE	child	5_27044466_AAT_POLE	1	1	-	-	-	-	Ins
5a396c10-328a-11e6-9b74-edcd191589db	10_94363651_GTG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	10	94363651	GT	G	300	PASS	KIF11	Del	intronic	1	7	FANCC	child	10_94363651_GTG_FANCC	1	1	1	T	6	T	Repeat-mediated
5a3eaf24-329c-11e6-bda6-065325c9da85	13_77954534_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	77954534	A	AT	780	PASS	-	Ins	-	1	8	MSH6	child	13_77954534_AAT_MSH6	1	1	-	-	-	-	Ins
5a40028e-3323-11e6-ad87-aefe97ba1142	10_3916300_GGA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	10	3916300	G	GA	900	PASS	-	Ins	-	1	4	EXO1	child	10_3916300_GGA_EXO1	1	1	-	-	-	-	Ins
5a43e1c6-329a-11e6-a5cf-205325c9da85	11_30463286_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	30463286	CT	C	780	PASS	MPPED2	Del	intronic	1	9	MSH6	child	11_30463286_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
5a475fa8-3287-11e6-95fb-1402b5d65427	10_65473593_CTTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	10	65473593	CTT	C	900	PASS	RP11-170M17.1	Del	intronic	2	4	NUDT1	parent	10_65473593_CTTC_NUDT1	2	2	2	TT	2	T	Repeat-mediated
5a5435e8-3291-11e6-8297-8cfd977b3f23	6_39847034_ACA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	6	39847034	AC	A	480	PASS	DAAM2	Del	frameshift	1	5	NEIL1	child	6_39847034_ACA_NEIL1	1	1	1	C	4	C	Repeat-mediated
5a576ebc-326d-11e6-acc7-e55219a91649	1_79191091_TGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	79191091	TG	T	360	PASS	-	Del	-	1	7	MSH6	child	1_79191091_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
5a5c502e-328d-11e6-9c89-8d090e01a414	1_240789832_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	240789832	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	1_240789832_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5a620004-325c-11e6-8b28-55ad7872c165	20_62213241_TTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	62213241	T	TG	300	PASS	-	Ins	-	1	1	MSH6	child	20_62213241_TTG_MSH6	1	1	-	-	-	-	Ins
5a64955e-326f-11e6-a539-0e5542c4520d	7_22742481_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	22742481	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	7_22742481_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
5a65cf2e-3291-11e6-9401-04ed6f39e758	3_97705838_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	97705838	CT	C	420	PASS	-	Del	-	1	8	MSH6	child	3_97705838_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5a6e6784-3254-11e6-b4d0-327a7872c165	11_58488624_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	58488624	CT	C	540	PASS	GLYAT	Del	intronic	1	9	MSH6	child	11_58488624_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
5a6f2038-328c-11e6-8256-94c36f39e758	17_40977113_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	40977113	CA	C	300	PASS	BECN1	Del	upstream	1	1	MSH6	child	17_40977113_CAC_MSH6	1	1	0	-	0	A	None
5a6f317e-3271-11e6-b5b8-e0c24a47a305	X_137704957_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	137704957	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	X_137704957_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
5a82761e-3288-11e6-8bbd-f88da2c71c31	21_22112095_CCA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	21	22112095	C	CA	780	PASS	LINC00320	Ins	downstream	1	7	MSH6	child	21_22112095_CCA_MSH6	1	1	-	-	-	-	Ins
5a8d8600-3277-11e6-a71d-236235cec73b	X_107587765_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	107587765	CT	C	420	PASS	COL4A6	Del	intronic	1	8	MSH6	child	X_107587765_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5a8e95e8-3274-11e6-b562-fe54dcd214c4	5_2452049_CTC	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	5	2452049	CT	C	480	PASS	-	Del	-	1	9	NUDT1	child	5_2452049_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
5a91a7ba-329c-11e6-8d0f-075325c9da85	14_67556963_GGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	67556963	G	GT	540	PASS	GPHN	Ins	intronic	1	6	MSH6	child	14_67556963_GGT_MSH6	1	1	-	-	-	-	Ins
5a95fd00-3298-11e6-a210-6a27c7271a47	X_5812796_ATA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	X	5812796	AT	A	300	PASS	NLGN4X	Del	intronic	1	8	CHK2	child	X_5812796_ATA_CHK2	1	1	1	T	7	T	Repeat-mediated
5a9d4346-3278-11e6-a47c-77abeab8d062	5_155984679_CAGAGAC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	5	155984679	CAGAGA	C	420	PASS	SGCD	Del	intronic	5	1	EXO1	child	5_155984679_CAGAGAC_EXO1	5	5	0	-	0	-	None
5aa76280-328d-11e6-a2c6-303e046f68b1	16_83793375_TAT	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	16	83793375	TA	T	420	PASS	CDH13	Del	intronic	1	8	POLE	child	16_83793375_TAT_POLE	1	1	1	A	7	A	Repeat-mediated
5aa924c4-3320-11e6-bda0-2f6519a91649	12_7517387_CAC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	12	7517387	CA	C	960	PASS	CD163L1	Del	intronic	1	9	CHK2	child	12_7517387_CAC_CHK2	1	1	1	A	8	A	Repeat-mediated
5aa97e68-3291-11e6-a24a-86b34430f757	5_175390144_CAGC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	5	175390144	CAG	C	378	PASS	THOC3	Del	intronic	2	1	POLE	child	5_175390144_CAGC_POLE	2	2	1	A	0	-	Microhomology-mediated
5aae1b90-3321-11e6-bfd0-d4ceeab8d062	19_40881077_CAC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	19	40881077	CA	C	480	PASS	HIPK4	Del	downstream	1	9	CHK2	child	19_40881077_CAC_CHK2	1	1	1	A	8	A	Repeat-mediated
5ab4460e-3273-11e6-923c-a6d5ed3c4f5d	4_141735536_TAT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	4	141735536	TA	T	630	PASS	-	Del	-	1	8	POLB	child	4_141735536_TAT_POLB	1	1	1	A	7	A	Repeat-mediated
5ab45d60-3291-11e6-9d24-ade56f39e758	7_13653073_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	13653073	C	CA	420	PASS	AC011288.2	Ins	intronic	1	7	MSH6	child	7_13653073_CCA_MSH6	1	1	-	-	-	-	Ins
5ac13f8a-3273-11e6-9e18-3a69671699ea	10_69682479_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	69682479	CA	C	780	PASS	HERC4	Del	3prime_UTR_variant	1	8	MSH6	child	10_69682479_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
5acc4ef8-329f-11e6-91d0-016425c9da85	7_109534398_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	109534398	GA	G	660	PASS	-	Del	-	1	9	MSH6	child	7_109534398_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
5ace6e7c-329a-11e6-a5cf-205325c9da85	11_30609188_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	30609188	TA	T	540	PASS	MPPED2	Del	upstream	1	7	MSH6	child	11_30609188_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
5ad0aed2-3289-11e6-a80b-87090e01a414	11_7376216_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	7376216	TA	T	300	PASS	SYT9	Del	intronic	1	8	MSH6	child	11_7376216_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
5ad931d6-3259-11e6-8cd9-139b7872c165	3_143178152_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	143178152	TA	T	600	PASS	SLC9A9	Del	intronic	1	7	MSH6	child	3_143178152_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
5ae42514-329f-11e6-b696-dd6225c9da85	5_148029874_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	148029874	TA	T	360	PASS	HTR4	Del	intronic	1	9	MSH6	child	5_148029874_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
5aea0694-334b-11e6-9f94-b3873cfdbd24	6_38113473_TGCCGGGAATGTGTTTCTAAGT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	6	38113473	TGCCGGGAATGTGTTTCTAAG	T	1140	PASS	ZFAND3	Del	intronic	20	1	FANCC	child	6_38113473_TGCCGGGAATGTGTTTCTAAGT_FANCC	20	>=10	3	GCC	0	-	Microhomology-mediated
5aedb6ca-328a-11e6-bae2-7096cdacbbbf	18_69113337_GGA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	18	69113337	G	GA	300	PASS	-	Ins	-	1	4	FANCC	child	18_69113337_GGA_FANCC	1	1	-	-	-	-	Ins
5af405e4-3284-11e6-83f8-60792aaffa45	7_103864206_TAT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	7	103864206	TA	T	840	PASS	-	Del	-	1	7	POLE	child	7_103864206_TAT_POLE	1	1	1	A	6	A	Repeat-mediated
5af4aed2-3292-11e6-9230-fb250e01a414	3_85113725_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	85113725	A	AT	300	PASS	CADM2	Ins	intronic	1	6	MSH6	child	3_85113725_AAT_MSH6	1	1	-	-	-	-	Ins
5af77338-326f-11e6-9f48-94df41c4520d	12_83822048_GGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	83822048	G	GT	300	PASS	-	Ins	-	1	7	MSH6	child	12_83822048_GGT_MSH6	1	1	-	-	-	-	Ins
5af81d66-3287-11e6-a284-4b89a2c71c31	4_73251704_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	73251704	AT	A	1020	PASS	ADAMTS3	Del	intronic	1	8	MSH6	child	4_73251704_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
5afa342a-3273-11e6-b2b6-6589a20b69d5	8_21377979_ACCCA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	8	21377979	ACCC	A	540	PASS	-	Del	-	3	4	POLB	child	8_21377979_ACCCA_POLB	3	3	1	C	0	-	Microhomology-mediated
5b011c1a-3271-11e6-8418-1c5942c4520d	3_132290065_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	132290065	CT	C	360	PASS	ACAD11	Del	intronic	1	9	MSH6	child	3_132290065_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
5b014376-3284-11e6-821b-ea18038949d4	3_55038386_GTTCG	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	3	55038386	GTTC	G	900	PASS	CACNA2D3	Del	intronic	3	2	POLM	child	3_55038386_GTTCG_POLM	3	3	3	TTC	1	TTC	Repeat-mediated
5b14ecbc-3290-11e6-9d24-ade56f39e758	7_114712344_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	114712344	CT	C	360	PASS	AC068610.5	Del	intronic	1	8	MSH6	child	7_114712344_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5b17c7e0-328e-11e6-8e48-791e0e01a414	8_47677297_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	47677297	GT	G	360	PASS	-	Del	-	1	9	MSH6	child	8_47677297_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
5b2ee9a0-3277-11e6-a8d8-3e6075253f64	3_136724435_CTC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	3	136724435	CT	C	420	PASS	IL20RB	Del	intronic	1	8	FANCC	child	3_136724435_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
5b31dfdc-329c-11e6-a0ea-135325c9da85	15_96404055_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	96404055	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	15_96404055_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
5b37ee0e-329c-11e6-8d0f-075325c9da85	14_67730615_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	67730615	A	AT	540	PASS	MPP5	Ins	intronic	1	6	MSH6	child	14_67730615_AAT_MSH6	1	1	-	-	-	-	Ins
5b38fb0a-328d-11e6-8459-82090e01a414	12_104286590_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	104286590	C	CA	300	PASS	-	Ins	-	1	7	MSH6	child	12_104286590_CCA_MSH6	1	1	-	-	-	-	Ins
5b3d779c-3275-11e6-a501-63cd7872c165	6_114360257_CCAC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	6	114360257	CCA	C	300	PASS	-	Del	-	2	2	NEIL1	child	6_114360257_CCAC_NEIL1	2	2	2	CA	1	CA	Repeat-mediated
5b4625f8-3271-11e6-b630-aeceb41afd22	17_31078800_CAC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	17	31078800	CA	C	360	PASS	MYO1D	Del	intronic	1	7	FANCC	child	17_31078800_CAC_FANCC	1	1	1	A	6	A	Repeat-mediated
5b5f08fa-3287-11e6-9a8e-d2b1f6dffcf6	1_55150676_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	1	55150676	CT	C	360	PASS	MROH7	Del	intronic	1	9	NUDT1	parent	1_55150676_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
5b62dc58-3275-11e6-88aa-2d54a966024e	7_97173759_CAC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	7	97173759	CA	C	600	PASS	-	Del	-	1	9	MSH6	parent	7_97173759_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
5b650cbe-32a0-11e6-aca6-b39fcc638e3d	2_175164718_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	175164718	C	CA	780	PASS	-	Ins	-	1	7	MSH6	child	2_175164718_CCA_MSH6	1	1	-	-	-	-	Ins
5b66ff72-3275-11e6-bfd3-a6593dc9300a	X_29385248_ATAATTATTTATTCA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	X	29385248	ATAATTATTTATTC	A	780	PASS	IL1RAPL1	Del	intronic	13	1	EXO1	child	X_29385248_ATAATTATTTATTCA_EXO1	13	>=10	1	T	0	-	Microhomology-mediated
5b6b4f9e-3321-11e6-9320-f78420e7b7a8	16_61279343_ACTGCTTTGAGGGGATTCAGGTAATTAAAATATTTGTGTTTGCAGA	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	16	61279343	ACTGCTTTGAGGGGATTCAGGTAATTAAAATATTTGTGTTTGCAG	A	300	PASS	-	Del	-	44	1	CHK2	child	16_61279343_ACTGCTTTGAGGGGATTCAGGTAATTAAAATATTTGTGTTTGCAGA_CHK2	44	>=10	34	CTGCTTTGAGGGGATTCAGGTAATTAAAATATTT	0	-	Microhomology-mediated
5b6d02d2-3284-11e6-b179-b9af90e2c2e6	15_62004141_GAG	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	15	62004141	GA	G	720	PASS	RP11-507B12.1	Del	intronic	1	9	POLE	child	15_62004141_GAG_POLE	1	1	1	A	8	A	Repeat-mediated
5b6d66ca-329b-11e6-b549-1e5325c9da85	10_91595051_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	91595051	GT	G	960	PASS	LINC00865	Del	intronic	1	8	MSH6	child	10_91595051_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
5b7295ea-3323-11e6-98e4-0c20d8fd0a58	X_42712107_GAG	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	X	42712107	GA	G	840	PASS	-	Del	-	1	7	CHK2	parent	X_42712107_GAG_CHK2	1	1	1	A	6	A	Repeat-mediated
5b74f594-326d-11e6-9f48-94df41c4520d	12_58772506_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	58772506	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	12_58772506_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
5b7604be-329c-11e6-a0ea-135325c9da85	15_96446652_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	96446652	GA	G	480	PASS	-	Del	-	1	8	MSH6	child	15_96446652_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
5b821182-326f-11e6-b4bf-85eb97ba1142	2_31868055_GAG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	2	31868055	GA	G	720	PASS	-	Del	-	1	9	EXO1	parent	2_31868055_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
5b9b8ff8-3270-11e6-a539-0e5542c4520d	7_98660471_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	98660471	CA	C	360	PASS	SMURF1	Del	intronic	1	8	MSH6	child	7_98660471_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
5b9bac4a-3289-11e6-bc2b-e5cd191589db	12_24606203_TAT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	12	24606203	TA	T	300	PASS	RP11-444D3.1	Del	intronic	1	8	FANCC	child	12_24606203_TAT_FANCC	1	1	1	A	7	A	Repeat-mediated
5b9bbeb2-3273-11e6-aa3b-ca60a178171f	13_84252998_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	84252998	CA	C	840	PASS	-	Del	-	1	8	MSH6	child	13_84252998_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
5b9f195a-3295-11e6-a24b-ac3c7a852e0e	6_81963232_AACTCTGCA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	6	81963232	AACTCTGC	A	300	PASS	-	Del	-	7	1	CHK2	child	6_81963232_AACTCTGCA_CHK2	7	7	2	AC	0	-	Microhomology-mediated
5ba58c42-3289-11e6-bbaf-7c090e01a414	19_5473533_TTATATATGGAGGCTCAAAGCCAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	5473533	TTATATATGGAGGCTCAAAGCCA	T	540	PASS	-	Del	-	22	1	MSH6	child	19_5473533_TTATATATGGAGGCTCAAAGCCAT_MSH6	22	>=10	1	T	0	-	Microhomology-mediated
5bb3f104-3277-11e6-9e0f-7959cab49462	7_127503656_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	127503656	CT	C	720	PASS	SND1	Del	intronic	1	8	MSH6	child	7_127503656_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5bb5fd8c-3349-11e6-8b31-52813cfdbd24	7_41524492_ATA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	7	41524492	AT	A	600	PASS	-	Del	-	1	9	FANCC	child	7_41524492_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
5bb626e8-328d-11e6-bd84-429305ad5bc4	1_244604819_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	244604819	GT	G	480	PASS	ADSS	Del	intronic	1	9	MSH6	child	1_244604819_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
5bbaa162-3325-11e6-8c1c-2deb137bb207	15_85228173_CCA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	15	85228173	C	CA	420	PASS	SEC11A	Ins	intronic	1	5	EXO1	child	15_85228173_CCA_EXO1	1	1	-	-	-	-	Ins
5bbeba86-329e-11e6-91d0-016425c9da85	7_56048839_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	56048839	GT	G	720	PASS	GBAS	Del	intronic	1	8	MSH6	child	7_56048839_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
5bc22a8e-329b-11e6-b549-1e5325c9da85	10_91636392_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	91636392	CA	C	480	PASS	-	Del	-	1	8	MSH6	child	10_91636392_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
5be64166-328d-11e6-b6a6-1f1e0e01a414	4_54987594_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	54987594	CT	C	840	PASS	-	Del	-	1	8	MSH6	child	4_54987594_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5be9f99e-3325-11e6-9f5d-eba78a20d9eb	8_15852602_GCTG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	8	15852602	GCT	G	540	PASS	RP11-77B22.2	Del	intronic	2	2	EXO1	child	8_15852602_GCTG_EXO1	2	2	2	CT	1	CT	Repeat-mediated
5bf06ae2-328d-11e6-9297-a3a9cdacbbbf	10_4283907_TAT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	10	4283907	TA	T	300	PASS	LINC00702	Del	intronic	1	9	POLB	child	10_4283907_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
5bf22830-3276-11e6-8c34-46e27872c165	5_67327588_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	67327588	CA	C	360	PASS	-	Del	-	1	5	MSH6	child	5_67327588_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
5bf5358c-328c-11e6-aa75-90c36f39e758	13_71808098_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	71808098	CA	C	540	PASS	-	Del	-	1	7	MSH6	child	13_71808098_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
5bf67a0c-328a-11e6-94b1-74090e01a414	17_54981741_TCTCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	54981741	TCTC	T	300	PASS	TRIM25	Del	inframe	3	2	MSH6	child	17_54981741_TCTCT_MSH6	3	3	3	CTC	1	CTC	Repeat-mediated
5bfd7eaa-329f-11e6-aea7-956725c9da85	3_54146291_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	54146291	GA	G	720	PASS	-	Del	-	1	8	MSH6	child	3_54146291_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
5c0876b2-3285-11e6-821e-69f1bbe6aa09	16_84929970_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	84929970	TA	T	540	PASS	CRISPLD2	Del	intronic	1	9	MSH6	child	16_84929970_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
5c1f0dd4-3256-11e6-885f-d1947872c165	4_16056484_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	16056484	GA	G	540	PASS	PROM1	Del	intronic	1	7	MSH6	child	4_16056484_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
5c2158f0-326f-11e6-acc7-e55219a91649	1_240789832_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	240789832	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	1_240789832_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5c32a0b6-3255-11e6-a0fc-e737fa52e078	2_96163120_TAT	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	2	96163120	TA	T	540	PASS	-	Del	-	1	9	POLM	child	2_96163120_TAT_POLM	1	1	1	A	8	A	Repeat-mediated
5c5551a8-3271-11e6-9309-bdc34a47a305	8_113709960_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	113709960	TA	T	456	PASS	CSMD3	Del	intronic	1	9	MSH6	child	8_113709960_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
5c56c240-3285-11e6-a1ac-fd6da2c71c31	13_107585514_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	107585514	CT	C	471	PASS	-	Del	-	1	7	MSH6	child	13_107585514_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
5c5773c8-328c-11e6-b9c4-751d0e01a414	5_8129883_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	8129883	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	5_8129883_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
5c5dc166-3272-11e6-bfa3-628a0cfb5812	X_106318942_CAC	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	X	106318942	CA	C	300	PASS	RBM41	Del	intronic	1	8	POLB	child	X_106318942_CAC_POLB	1	1	1	A	7	A	Repeat-mediated
5c5feacc-3286-11e6-8b67-086ea2c71c31	1_175860545_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	175860545	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	1_175860545_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
5c613fb2-3277-11e6-998e-ba48fa52e078	8_131367629_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	131367629	CA	C	840	PASS	ASAP1	Del	intronic	1	7	MSH6	child	8_131367629_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
5c62e40c-3259-11e6-acc5-308412ae24cf	5_29623512_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	29623512	A	AT	480	PASS	-	Ins	-	1	6	MSH6	child	5_29623512_AAT_MSH6	1	1	-	-	-	-	Ins
5c662600-3289-11e6-a8ac-a28ea2c71c31	3_174659984_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	174659984	CT	C	420	PASS	NAALADL2	Del	intronic	1	6	MSH6	child	3_174659984_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
5c6b40f0-326f-11e6-a539-0e5542c4520d	7_23219389_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	23219389	AT	A	480	PASS	KLHL7	Del	downstream	1	9	MSH6	child	7_23219389_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
5c709b58-329d-11e6-ae71-0c5325c9da85	1_203764935_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	203764935	GT	G	540	PASS	ZC3H11A	Del	upstream	1	7	MSH6	child	1_203764935_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
5c721d78-3254-11e6-81f9-42f212ae24cf	17_40881139_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	17	40881139	TA	T	300	PASS	EZH1	Del	intronic	1	8	MSH6	child	17_40881139_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
5c7c3390-328a-11e6-a80b-87090e01a414	11_67246073_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	67246073	CT	C	905	PASS	AIP	Del	upstream	1	8	MSH6	child	11_67246073_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5c871f36-3270-11e6-93e2-b755671699ea	12_95679469_TCT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	12	95679469	TC	T	360	PASS	VEZT	Del	intronic	1	4	EXO1	parent	12_95679469_TCT_EXO1	1	1	1	C	3	C	Repeat-mediated
5c8bfe5e-3278-11e6-9a3d-a569e7d0bdd7	3_155542232_GAG	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	3	155542232	GA	G	420	PASS	SLC33A1	Del	3prime_UTR_variant	1	8	POLB	child	3_155542232_GAG_POLB	1	1	1	A	7	A	Repeat-mediated
5c8d5992-3292-11e6-b14c-5e337a852e0e	X_6434807_AAGA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	X	6434807	AAG	A	360	PASS	-	Del	-	2	1	CHK2	child	X_6434807_AAGA_CHK2	2	2	1	A	0	-	Microhomology-mediated
5c90e19e-326e-11e6-b306-b5204b47a305	2_155981586_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	155981586	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	2_155981586_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
5c90fe26-3283-11e6-9346-16323cfdbd24	2_175399979_ATTATA	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	2	175399979	ATTAT	A	540	PASS	-	Del	-	4	1	POLE	parent	2_175399979_ATTATA_POLE	4	4	3	TTA	0	-	Microhomology-mediated
5c9532b4-328a-11e6-bbaf-7c090e01a414	19_38608434_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	38608434	CT	C	300	PASS	SIPA1L3	Del	intronic	1	9	MSH6	child	19_38608434_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
5c9e51e6-3285-11e6-a8ad-04770d016689	9_18289933_GTG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	9	18289933	GT	G	420	PASS	-	Del	-	1	8	EXO1	child	9_18289933_GTG_EXO1	1	1	1	T	7	T	Repeat-mediated
5cad831c-328c-11e6-b68c-9fa420e7b7a8	8_57336123_CTC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	8	57336123	CT	C	300	PASS	-	Del	-	1	9	POLE	child	8_57336123_CTC_POLE	1	1	1	T	8	T	Repeat-mediated
5cb15fc0-328f-11e6-a724-38ab4430f757	1_214192495_GAG	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	1	214192495	GA	G	780	PASS	PROX1	Del	intronic	1	4	POLE	child	1_214192495_GAG_POLE	1	1	1	A	3	A	Repeat-mediated
5cb2e906-3273-11e6-a5d0-4fd14a47a305	2_84480049_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	84480049	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	2_84480049_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5cb69016-3277-11e6-a71d-236235cec73b	X_108371927_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	108371927	AT	A	660	PASS	-	Del	-	1	4	MSH6	child	X_108371927_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
5cb769be-329a-11e6-a5cf-205325c9da85	11_31080670_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	31080670	CA	C	660	PASS	-	Del	-	1	6	MSH6	child	11_31080670_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
5cba66cc-3255-11e6-8f56-7d832aaffa45	13_109386316_CAC	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	13	109386316	CA	C	420	PASS	MYO16	Del	intronic	1	9	POLM	child	13_109386316_CAC_POLM	1	1	1	A	8	A	Repeat-mediated
5cbcef18-328d-11e6-9f30-37ab4430f757	11_68620710_GTG	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	11	68620710	GT	G	420	PASS	-	Del	-	1	8	POLE	child	11_68620710_GTG_POLE	1	1	1	T	7	T	Repeat-mediated
5cc09d3c-328f-11e6-94e1-63e1191589db	3_143838317_AGA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	3	143838317	AG	A	300	PASS	-	Del	-	1	2	FANCC	child	3_143838317_AGA_FANCC	1	1	1	G	1	G	Repeat-mediated
5cc785f2-3285-11e6-b309-dd03987b3f23	15_75641546_CCT	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	15	75641546	C	CT	480	PASS	NEIL1	Ins	frameshift	1	3	NEIL1	parent	15_75641546_CCT_NEIL1	1	1	-	-	-	-	Ins
5ccc4890-328e-11e6-919e-92c36f39e758	2_193280421_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	193280421	AT	A	540	PASS	-	Del	-	1	7	MSH6	child	2_193280421_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
5ccc9e66-334d-11e6-84ae-66e1b0dab373	20_3994910_GAG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	20	3994910	GA	G	420	PASS	RNF24	Del	intronic	1	8	FANCC	child	20_3994910_GAG_FANCC	1	1	1	A	7	A	Repeat-mediated
5cd06242-3273-11e6-a2a4-305390e2c2e6	3_27473371_TAT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	3	27473371	TA	T	540	PASS	SLC4A7	Del	intronic	1	9	POLB	child	3_27473371_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
5cd449e8-328c-11e6-b805-77090e01a414	2_205058527_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	205058527	GA	G	540	PASS	-	Del	-	1	8	MSH6	child	2_205058527_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
5cd993cc-3286-11e6-bc08-5710147bb207	3_100712532_AAAGA	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	3	100712532	AAAG	A	540	PASS	ABI3BP	Del	upstream	3	3	FANCC	child	3_100712532_AAAGA_FANCC	3	3	3	AAG	2	AAG	Repeat-mediated
5cdc1f0e-3284-11e6-a1ac-fd6da2c71c31	13_21229933_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	21229933	CA	C	300	PASS	IFT88	Del	intronic	1	7	MSH6	child	13_21229933_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
5ce021fe-3256-11e6-a304-347a7872c165	1_197033423_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	197033423	TA	T	420	PASS	F13B	Del	intronic	1	7	MSH6	child	1_197033423_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
5ce6015e-328e-11e6-b9c4-751d0e01a414	5_141404440_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	141404440	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	5_141404440_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
5ce64eee-328d-11e6-bd84-429305ad5bc4	1_245050586_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	245050586	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	1_245050586_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
5ce74190-329d-11e6-94ca-0aaecc638e3d	X_37833130_AGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	37833130	AG	A	780	PASS	-	Del	-	1	2	MSH6	child	X_37833130_AGA_MSH6	1	1	1	G	1	G	Repeat-mediated
5cea6c1e-328c-11e6-b4fe-93c36f39e758	12_52005939_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	52005939	GT	G	360	PASS	SCN8A	Del	intronic	1	8	MSH6	child	12_52005939_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
5cf588b0-3282-11e6-9056-cd8f38e8a824	17_80781374_CGTC	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	17	80781374	CGT	C	300	PASS	TBCD	Del	intronic	2	4	POLE	parent	17_80781374_CGTC_POLE	2	2	2	GT	3	GT	Repeat-mediated
5cf62db6-3277-11e6-8c34-46e27872c165	5_140164734_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	140164734	TA	T	540	PASS	PCDHA1	Del	upstream	1	9	MSH6	child	5_140164734_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
5d0403de-329d-11e6-a5cf-e5abcc638e3d	9_90618769_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	90618769	CA	C	710	PASS	-	Del	-	1	9	MSH6	child	9_90618769_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
5d0426ce-3325-11e6-ae91-9acb70cce0de	4_142782495_GAG	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	4	142782495	GA	G	300	PASS	-	Del	-	1	7	POLE	child	4_142782495_GAG_POLE	1	1	1	A	6	A	Repeat-mediated
5d068908-328c-11e6-8083-5acc977b3f23	16_53812709_ATA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	16	53812709	AT	A	360	PASS	FTO	Del	intronic	1	9	NEIL1	child	16_53812709_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
5d0bebac-3325-11e6-841a-c49690e2c2e6	6_40059458_TAT	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	6	40059458	TA	T	420	PASS	-	Del	-	1	1	POLE	child	6_40059458_TAT_POLE	1	1	0	-	0	A	None
5d152084-3274-11e6-9e18-3a69671699ea	10_133277502_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	133277502	AT	A	660	PASS	-	Del	-	1	8	MSH6	child	10_133277502_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
5d170f0a-3325-11e6-a89e-8866c042253c	7_109510545_CTC	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	7	109510545	CT	C	300	PASS	-	Del	-	1	8	POLE	child	7_109510545_CTC_POLE	1	1	1	T	7	T	Repeat-mediated
5d17314a-326e-11e6-92dd-fda8977b3f23	10_126545328_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	126545328	GT	G	300	PASS	-	Del	-	1	7	MSH6	child	10_126545328_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
5d1e3ace-3293-11e6-9eb4-6cb54430f757	3_96658905_GGA	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	3	96658905	G	GA	470	PASS	EPHA6	Ins	intronic	1	7	POLE	child	3_96658905_GGA_POLE	1	1	-	-	-	-	Ins
5d2b1706-329a-11e6-a0ea-135325c9da85	15_42427120_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	42427120	AT	A	480	PASS	-	Del	-	1	6	MSH6	child	15_42427120_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
5d4b4746-327d-11e6-ade0-f80d6ee4ab00	16_53400152_TAT	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	16	53400152	TA	T	360	PASS	-	Del	-	1	4	POLB	parent	16_53400152_TAT_POLB	1	1	1	A	3	A	Repeat-mediated
5d4bb35a-328e-11e6-b8ba-0ad9191589db	8_78191085_GCAGTGAGCCAAGATG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	8	78191085	GCAGTGAGCCAAGAT	G	420	PASS	-	Del	-	14	1	FANCC	child	8_78191085_GCAGTGAGCCAAGATG_FANCC	14	>=10	2	CA	0	-	Microhomology-mediated
5d4dbc20-3281-11e6-8857-3d859cdf095d	18_53714510_CTC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	18	53714510	CT	C	600	PASS	CTD-2008L17.2	Del	intronic	1	9	POLE	child	18_53714510_CTC_POLE	1	1	1	T	8	T	Repeat-mediated
5d5144f6-3328-11e6-8b1e-ddf006e9a829	20_9960697_ATA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	20	9960697	AT	A	300	PASS	-	Del	-	1	8	POLE	child	20_9960697_ATA_POLE	1	1	1	T	7	T	Repeat-mediated
5d63eedc-328b-11e6-a80b-87090e01a414	11_129222574_TCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	129222574	TC	T	360	PASS	-	Del	-	1	1	MSH6	child	11_129222574_TCT_MSH6	1	1	0	-	0	C	None
5d702e1e-3271-11e6-8418-1c5942c4520d	3_133306657_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	133306657	CT	C	300	PASS	CDV3	Del	3prime_UTR_variant	1	8	MSH6	child	3_133306657_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5d7322c2-3325-11e6-8527-5503694da5d2	X_87798139_TGAGT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	X	87798139	TGAG	T	420	PASS	-	Del	-	3	2	EXO1	child	X_87798139_TGAGT_EXO1	3	3	3	GAG	1	GAG	Repeat-mediated
5d818014-3259-11e6-8cd9-139b7872c165	3_144100507_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	144100507	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	3_144100507_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
5d840c3a-3290-11e6-92cf-bf2a0e01a414	6_101516367_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	101516367	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	6_101516367_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
5d85c02a-329f-11e6-91d0-016425c9da85	7_110255690_TGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	110255690	TG	T	360	PASS	-	Del	-	1	1	MSH6	child	7_110255690_TGT_MSH6	1	1	0	-	0	G	None
5d8dedbc-32a0-11e6-a04f-c66a25c9da85	6_68295685_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	68295685	CT	C	720	PASS	-	Del	-	1	8	MSH6	child	6_68295685_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5d8ee55c-3271-11e6-8418-1c5942c4520d	3_133333868_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	133333868	CA	C	300	PASS	TOPBP1	Del	intronic	1	8	MSH6	child	3_133333868_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
5d8f5568-3290-11e6-92db-6c56f0f7a29c	1_189281718_TGT	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	1	189281718	TG	T	300	PASS	-	Del	-	1	2	NEIL1	child	1_189281718_TGT_NEIL1	1	1	1	G	1	G	Repeat-mediated
5db10f8a-327e-11e6-9a18-69cfaa716c52	4_307076_AAAATGCA	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	4	307076	AAAATGC	A	405	PASS	-	Del	-	6	1	POLB	parent	4_307076_AAAATGCA_POLB	6	6	3	AAA	0	-	Microhomology-mediated
5db40e32-3284-11e6-9daa-026ea2c71c31	14_20317396_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	20317396	GA	G	434	PASS	-	Del	-	1	7	MSH6	child	14_20317396_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
5db54508-328a-11e6-a8ac-a28ea2c71c31	3_73567695_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	73567695	T	TA	420	PASS	PDZRN3	Ins	intronic	1	8	MSH6	child	3_73567695_TTA_MSH6	1	1	-	-	-	-	Ins
5dba26a2-3273-11e6-8f10-bfc27872c165	4_161449190_ATGTA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	4	161449190	ATGT	A	540	PASS	-	Del	-	3	1	EXO1	parent	4_161449190_ATGTA_EXO1	3	3	1	T	0	-	Microhomology-mediated
5dbb4016-3320-11e6-8250-3bb0cde16804	15_30153942_CTTC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	15	30153942	CTT	C	720	PASS	-	Del	-	2	4	CHK2	child	15_30153942_CTTC_CHK2	2	2	2	TT	2	T	Repeat-mediated
5dc079e2-3293-11e6-9230-fb250e01a414	3_157952832_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	157952832	C	CA	300	PASS	RSRC1	Ins	intronic	1	0	MSH6	child	3_157952832_CCA_MSH6	1	1	-	-	-	-	Ins
5dc52554-328f-11e6-ae83-5ae3191589db	6_121642077_GAG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	6	121642077	GA	G	360	PASS	TBC1D32	Del	intronic	1	9	FANCC	child	6_121642077_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
5dce6bc4-328e-11e6-b3cd-1ca5e7d0bdd7	17_58507756_GATTAGTG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	17	58507756	GATTAGT	G	480	PASS	C17orf64	Del	intronic	6	1	FANCC	child	17_58507756_GATTAGTG_FANCC	6	6	0	-	0	-	None
5dd9aa2e-328a-11e6-b805-77090e01a414	2_71005523_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	71005523	CT	C	540	PASS	FIGLA	Del	intronic	1	9	MSH6	child	2_71005523_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
5dda41dc-328f-11e6-b4fe-93c36f39e758	12_96020479_TTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	96020479	T	TG	420	PASS	-	Ins	-	1	5	MSH6	child	12_96020479_TTG_MSH6	1	1	-	-	-	-	Ins
5ddc24f0-328c-11e6-aa75-90c36f39e758	13_72379944_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	72379944	CT	C	300	PASS	DACH1	Del	intronic	1	9	MSH6	child	13_72379944_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
5de468a6-3276-11e6-bf4d-b5224ec77248	8_20469764_GCG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	8	20469764	GC	G	540	PASS	-	Del	-	1	1	EXO1	child	8_20469764_GCG_EXO1	1	1	0	-	0	C	None
5de59df4-3274-11e6-bfb2-2749c225ee11	12_130819236_ACA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	130819236	AC	A	300	PASS	PIWIL1	Del	upstream	1	1	MSH6	child	12_130819236_ACA_MSH6	1	1	0	-	0	C	None
5ded4ecc-3257-11e6-91d3-a68412ae24cf	7_66202618_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	66202618	CT	C	360	PASS	KCTD7	Del	upstream	1	6	MSH6	child	7_66202618_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
5e0464b0-3273-11e6-bfb2-2749c225ee11	12_68572575_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	68572575	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	12_68572575_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
5e113e72-3284-11e6-ad62-d2cf9b6d3b88	21_41187468_ATTTA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	21	41187468	ATTT	A	360	PASS	-	Del	-	3	5	EXO1	child	21_41187468_ATTTA_EXO1	3	3	2	TT	0	-	Microhomology-mediated
5e1179f0-3289-11e6-a32d-75090e01a414	14_24787785_AGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	24787785	AG	A	420	PASS	LTB4R	Del	downstream	1	6	MSH6	child	14_24787785_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
5e135440-329e-11e6-b696-dd6225c9da85	5_79576271_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	79576271	CT	C	960	PASS	-	Del	-	1	8	MSH6	child	5_79576271_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5e27ddd8-3277-11e6-998e-ba48fa52e078	8_132121436_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	132121436	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	8_132121436_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
5e2a9186-327c-11e6-89da-51be4dc77248	15_33234021_ATA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	15	33234021	AT	A	420	PASS	FMN1	Del	intronic	1	9	NUDT1	child	15_33234021_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
5e30262e-327b-11e6-ab1d-16d9ecf1e924	20_42950820_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	42950820	C	CA	360	PASS	-	Ins	-	1	8	MSH6	child	20_42950820_CCA_MSH6	1	1	-	-	-	-	Ins
5e346426-3291-11e6-80ab-78dad8b4fa2c	19_9587985_TCATCTAT	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	19	9587985	TCATCTA	T	480	PASS	ZNF560	Del	intronic	6	1	NUDT1	child	19_9587985_TCATCTAT_NUDT1	6	6	1	C	0	-	Microhomology-mediated
5e349d96-3292-11e6-b78c-8cb4e7d0bdd7	6_126127480_CCTTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	6	126127480	CCTT	C	540	PASS	NCOA7	Del	intronic	3	1	FANCC	child	6_126127480_CCTTC_FANCC	3	3	2	CT	0	-	Microhomology-mediated
5e3be1a4-3293-11e6-b81f-4ee66f39e758	8_110998387_AAAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	110998387	A	AAT	540	PASS	-	Ins	-	2	4	MSH6	child	8_110998387_AAAT_MSH6	2	2	-	-	-	-	Ins
5e3d9330-3290-11e6-bd26-49b0e7d0bdd7	7_19712858_ATA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	7	19712858	AT	A	300	PASS	-	Del	-	1	7	FANCC	child	7_19712858_ATA_FANCC	1	1	1	T	6	T	Repeat-mediated
5e41ec72-326e-11e6-b306-b5204b47a305	2_156715039_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	156715039	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	2_156715039_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
5e478da2-327e-11e6-831c-60fe684da5d2	12_42106984_CTTAC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	12	42106984	CTTA	C	360	PASS	-	Del	-	3	6	NEIL1	child	12_42106984_CTTAC_NEIL1	3	3	3	TTA	5	TTA	Repeat-mediated
5e6c7e6a-3287-11e6-a284-4b89a2c71c31	4_75058537_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	75058537	CT	C	660	PASS	MTHFD2L	Del	intronic	1	8	MSH6	child	4_75058537_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5e6ca9c0-3279-11e6-a71d-236235cec73b	X_123714244_TTTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	123714244	T	TTA	360	PASS	TENM1	Ins	intronic	2	5	MSH6	child	X_123714244_TTTA_MSH6	2	2	-	-	-	-	Ins
5e778292-328c-11e6-aa75-90c36f39e758	13_72517107_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	72517107	CA	C	720	PASS	-	Del	-	1	8	MSH6	child	13_72517107_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
5e7f3f8a-3270-11e6-a539-0e5542c4520d	7_99714105_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	99714105	TA	T	300	PASS	TAF6	Del	intronic	1	7	MSH6	child	7_99714105_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
5e7f9c22-3271-11e6-b5b8-e0c24a47a305	X_139171084_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	139171084	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	X_139171084_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
5e9d809a-3256-11e6-9d15-298312ae24cf	X_11992730_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	11992730	GA	G	360	PASS	-	Del	-	1	6	MSH6	child	X_11992730_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
5ea40dd0-329b-11e6-8069-175325c9da85	12_91097409_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	91097409	CA	C	780	PASS	-	Del	-	1	8	MSH6	child	12_91097409_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
5ea5c50c-3292-11e6-b717-5d42ead19ece	18_63451775_CTTC	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	18	63451775	CTT	C	420	PASS	CDH7	Del	intronic	2	3	NUDT1	child	18_63451775_CTTC_NUDT1	2	2	1	T	0	-	Microhomology-mediated
5eafecd6-3273-11e6-89f6-200f6323ba5a	7_105922080_ATTCA	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	7	105922080	ATTC	A	300	PASS	NAMPT	Del	intronic	3	2	POLB	child	7_105922080_ATTCA_POLB	3	3	3	TTC	1	TTC	Repeat-mediated
5eba9a32-3273-11e6-aa3b-ca60a178171f	13_85111818_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	85111818	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	13_85111818_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
5ec001c2-3299-11e6-8dc6-b86ca178171f	6_157065837_GAG	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	6	157065837	GA	G	540	PASS	-	Del	-	1	9	NEIL1	child	6_157065837_GAG_NEIL1	1	1	1	A	8	A	Repeat-mediated
5ec673b0-3256-11e6-9d15-298312ae24cf	X_12115087_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	12115087	CA	C	540	PASS	-	Del	-	1	9	MSH6	child	X_12115087_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
5ecdf062-3289-11e6-b686-d35a51c54cdd	4_169299911_TCT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	4	169299911	TC	T	720	PASS	DDX60L	Del	intronic	1	1	EXO1	child	4_169299911_TCT_EXO1	1	1	0	-	0	C	None
5ece5b88-329d-11e6-aca6-b39fcc638e3d	2_229614854_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	229614854	TA	T	360	PASS	-	Del	-	1	6	MSH6	child	2_229614854_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
5ed651ac-3276-11e6-8c34-46e27872c165	5_68278801_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	68278801	GA	G	480	PASS	7SK	Del	intronic	1	9	MSH6	child	5_68278801_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
5ed69006-328d-11e6-b805-77090e01a414	2_12305048_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	12305048	A	AT	420	PASS	AC096559.1	Ins	intronic	1	7	MSH6	child	2_12305048_AAT_MSH6	1	1	-	-	-	-	Ins
5ed6e9ce-3289-11e6-8b67-086ea2c71c31	1_207254072_GGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	207254072	G	GT	420	PASS	PFKFB2	Ins	3prime_UTR_variant	1	7	MSH6	child	1_207254072_GGT_MSH6	1	1	-	-	-	-	Ins
5ed93c0a-3271-11e6-bfa3-628a0cfb5812	X_49112538_TGAT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	X	49112538	TGA	T	1140	PASS	FOXP3	Del	intronic	2	2	POLB	child	X_49112538_TGAT_POLB	2	2	2	GA	1	GA	Repeat-mediated
5edf9016-3279-11e6-92bd-d96cf7be831b	13_62046366_ATA	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	13	62046366	AT	A	480	PASS	-	Del	-	1	4	FANCC	parent	13_62046366_ATA_FANCC	1	1	1	T	3	T	Repeat-mediated
5ee747ac-329c-11e6-bda6-065325c9da85	13_79658092_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	79658092	A	AT	360	PASS	-	Ins	-	1	5	MSH6	child	13_79658092_AAT_MSH6	1	1	-	-	-	-	Ins
5ee8f536-3277-11e6-a71d-236235cec73b	X_109219004_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	109219004	CT	C	720	PASS	-	Del	-	1	9	MSH6	child	X_109219004_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
5efbee90-3284-11e6-94b4-11d09b6d3b88	22_45357825_ATA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	22	45357825	AT	A	420	PASS	PHF21B	Del	intronic	1	8	EXO1	child	22_45357825_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
5efcacba-326e-11e6-9d68-ac9acab49462	15_79979853_ATTGGTCACCATAAAAAGTATGTTGCCCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	79979853	ATTGGTCACCATAAAAAGTATGTTGCCC	A	420	PASS	-	Del	-	27	1	MSH6	child	15_79979853_ATTGGTCACCATAAAAAGTATGTTGCCCA_MSH6	27	>=10	4	TTGG	0	-	Microhomology-mediated
5efe8998-328e-11e6-8f31-bfe16f39e758	9_33147261_TTCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	33147261	TTC	T	300	PASS	B4GALT1	Del	intronic	2	1	MSH6	child	9_33147261_TTCT_MSH6	2	2	0	-	0	-	None
5f13672a-3291-11e6-9d97-efe56f39e758	4_184078649_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	184078649	AT	A	360	PASS	WWC2	Del	intronic	1	9	MSH6	child	4_184078649_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
5f203f3a-3274-11e6-8e5a-ca301daa6045	18_69082272_TTAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	18	69082272	TTA	T	360	PASS	-	Del	-	2	8	EXO1	child	18_69082272_TTAT_EXO1	2	2	2	TA	7	TA	Repeat-mediated
5f207c1a-3284-11e6-bc59-aceb1f4bbf9c	8_65575333_CAC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	8	65575333	CA	C	540	PASS	CYP7B1	Del	intronic	1	9	EXO1	child	8_65575333_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
5f22d13c-3288-11e6-b9eb-c78fa2c71c31	6_42829580_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	42829580	TA	T	420	PASS	GLTSCR1L	Del	intronic	1	7	MSH6	child	6_42829580_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
5f270136-3291-11e6-b81f-4ee66f39e758	8_115047244_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	115047244	AT	A	420	PASS	-	Del	-	1	7	MSH6	child	8_115047244_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
5f2e970a-3289-11e6-821d-8c090e01a414	13_25881699_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	25881699	AT	A	600	PASS	NUPL1	Del	intronic	1	9	MSH6	child	13_25881699_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
5f309378-3259-11e6-a39a-dc8512ae24cf	8_113146612_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	113146612	TA	T	480	PASS	-	Del	-	1	5	MSH6	child	8_113146612_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
5f32e59e-3284-11e6-870e-6af1bbe6aa09	19_2695009_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	2695009	CA	C	540	PASS	GNG7	Del	intronic	1	8	MSH6	child	19_2695009_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
5f346104-3288-11e6-a8ac-a28ea2c71c31	3_67868631_AAGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	67868631	AAG	A	960	PASS	RP11-81N13.1	Del	intronic	2	5	MSH6	child	3_67868631_AAGA_MSH6	2	2	2	AG	4	AG	Repeat-mediated
5f36b1c8-3276-11e6-83cd-a472a178171f	4_96147974_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	96147974	GT	G	480	PASS	UNC5C	Del	intronic	1	9	MSH6	child	4_96147974_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
5f3d8c08-3291-11e6-9401-04ed6f39e758	3_99224500_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	99224500	AT	A	480	PASS	RP11-779P15.2	Del	downstream	1	8	MSH6	child	3_99224500_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
5f4d2380-3277-11e6-9608-84e46de4ab00	7_122176624_GAG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	7	122176624	GA	G	360	PASS	CADPS2	Del	intronic	1	6	EXO1	child	7_122176624_GAG_EXO1	1	1	1	A	5	A	Repeat-mediated
5f50712e-328c-11e6-b9c4-751d0e01a414	5_8951319_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	8951319	AT	A	660	PASS	-	Del	-	1	5	MSH6	child	5_8951319_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
5f51deea-3275-11e6-998e-ba48fa52e078	8_25307748_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	25307748	TA	T	300	PASS	KCTD9	Del	intronic	1	8	MSH6	child	8_25307748_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
5f569a66-328e-11e6-bec1-ca1d0e01a414	X_89727973_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	89727973	TA	T	276	PASS	-	Del	-	1	7	MSH6	child	X_89727973_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
5f570244-3257-11e6-a39a-dc8512ae24cf	8_43329720_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	43329720	TA	T	540	PASS	-	Del	-	1	8	MSH6	child	8_43329720_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
5f59c1e6-3257-11e6-a7ac-209a7872c165	22_17335995_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	22	17335995	CA	C	270	PASS	-	Del	-	1	8	MSH6	child	22_17335995_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
5f5bc408-3277-11e6-ab97-84f471d7bc54	6_39206530_ATA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	6	39206530	AT	A	360	PASS	-	Del	-	1	9	NEIL1	child	6_39206530_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
5f628efa-3290-11e6-92cf-bf2a0e01a414	6_101901074_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	101901074	CT	C	420	PASS	GRIK2	Del	intronic	1	9	MSH6	child	6_101901074_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
5f6a43b0-3296-11e6-8ff8-970ab51afd22	X_134171040_ATA	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	X	134171040	AT	A	300	PASS	FAM127A	Del	downstream	1	8	NEIL1	child	X_134171040_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
5f6d5de8-3291-11e6-b3a9-d5afe7d0bdd7	4_121529760_AAGAGACTGGGCA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	4	121529760	AAGAGACTGGGC	A	360	PASS	-	Del	-	11	1	FANCC	child	4_121529760_AAGAGACTGGGCA_FANCC	11	>=10	5	AGAGA	0	-	Microhomology-mediated
5f7a6aec-3255-11e6-a304-347a7872c165	1_120118822_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	120118822	CA	C	900	PASS	-	Del	-	1	9	MSH6	child	1_120118822_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
5f853104-3285-11e6-be43-0a6ea2c71c31	10_83512403_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	83512403	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	10_83512403_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
5f892a0a-3291-11e6-b81f-4ee66f39e758	8_115382230_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	115382230	GA	G	493	PASS	-	Del	-	1	7	MSH6	child	8_115382230_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
5f8fec44-328e-11e6-b4fe-93c36f39e758	12_26976767_TTAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	26976767	T	TAC	600	PASS	ITPR2	Ins	intronic	2	6	MSH6	child	12_26976767_TTAC_MSH6	2	2	-	-	-	-	Ins
5f90190a-328c-11e6-919e-92c36f39e758	2_56678220_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	56678220	AT	A	420	PASS	-	Del	-	1	5	MSH6	child	2_56678220_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
5f9a09f6-328c-11e6-bec1-ca1d0e01a414	X_2485871_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	2485871	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	X_2485871_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
5f9af136-32a0-11e6-bc66-17b4cc638e3d	8_101369077_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	101369077	CT	C	420	PASS	-	Del	-	1	8	MSH6	child	8_101369077_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
5fac6980-3254-11e6-81f9-42f212ae24cf	17_41434670_CCTTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	17	41434670	CCTT	C	780	PASS	-	Del	-	3	2	MSH6	child	17_41434670_CCTTC_MSH6	3	3	3	CTT	1	CTT	Repeat-mediated
5fad1af6-328b-11e6-a8b1-14ec54de4fc4	11_97272575_GGT	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	11	97272575	G	GT	360	PASS	-	Ins	-	1	7	CHK2	child	11_97272575_GGT_CHK2	1	1	-	-	-	-	Ins
5fadfa84-329f-11e6-94ca-0aaecc638e3d	X_116236723_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	116236723	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	X_116236723_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
5faf05be-3254-11e6-a70f-7c832aaffa45	17_4836914_CCCTC	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	17	4836914	CCCT	C	600	PASS	GP1BA	Del	inframe	3	3	POLM	child	17_4836914_CCCTC_POLM	3	3	3	CCT	2	CCT	Repeat-mediated
5fb900aa-329a-11e6-b74d-b59fcc638e3d	18_36206868_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	36206868	AT	A	480	PASS	-	Del	-	1	7	MSH6	child	18_36206868_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
5fba4ef4-328d-11e6-bd84-429305ad5bc4	1_246013830_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	246013830	CA	C	600	PASS	SMYD3	Del	intronic	1	9	MSH6	child	1_246013830_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
5fbe13fa-3255-11e6-a4a7-35f212ae24cf	14_41528309_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	41528309	A	AT	600	PASS	-	Ins	-	1	6	MSH6	child	14_41528309_AAT_MSH6	1	1	-	-	-	-	Ins
5fc617ae-329f-11e6-bc2c-2a5e25c9da85	4_159123457_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	159123457	AT	A	420	PASS	TMEM144	Del	intronic	1	9	MSH6	child	4_159123457_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
5fc908f2-3258-11e6-91d3-a68412ae24cf	7_142596065_CCTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	142596065	CCT	C	660	PASS	-	Del	-	2	6	MSH6	child	7_142596065_CCTC_MSH6	2	2	2	CT	5	CT	Repeat-mediated
5fcd1eb6-3293-11e6-9280-9ce5d0959d89	11_97868570_CTC	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	11	97868570	CT	C	360	PASS	-	Del	-	1	8	POLB	child	11_97868570_CTC_POLB	1	1	1	T	7	T	Repeat-mediated
5fd95ad4-327d-11e6-8559-4f7ef7be831b	5_120376355_TAT	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	5	120376355	TA	T	720	PASS	-	Del	-	1	8	FANCC	parent	5_120376355_TAT_FANCC	1	1	1	A	7	A	Repeat-mediated
5fdd59a0-329a-11e6-8069-175325c9da85	12_29251287_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	29251287	CA	C	780	PASS	-	Del	-	1	9	MSH6	child	12_29251287_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
5fe6ff0a-3254-11e6-9f9d-2c7a7872c165	12_55991444_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	55991444	GA	G	660	PASS	-	Del	-	1	9	MSH6	child	12_55991444_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
5ff0fbca-326f-11e6-b77c-ce5aceda8250	11_51539463_AAACTTTTATTGAGA	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	11	51539463	AAACTTTTATTGAG	A	420	PASS	-	Del	-	13	1	POLM	child	11_51539463_AAACTTTTATTGAGA_POLM	13	>=10	2	AA	0	-	Microhomology-mediated
5ff67922-328f-11e6-aa67-b667694da5d2	5_9365872_TTTGT	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	5	9365872	TTTG	T	660	PASS	SEMA5A	Del	intronic	3	3	POLM	child	5_9365872_TTTGT_POLM	3	3	3	TTG	2	TTG	Repeat-mediated
5ffedd3a-3292-11e6-8d18-13cc0d01a414	20_45617750_GCG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	20	45617750	GC	G	360	PASS	EYA2	Del	intronic	1	6	MSH6	child	20_45617750_GCG_MSH6	1	1	1	C	5	C	Repeat-mediated
6008c2a6-329b-11e6-aca6-b39fcc638e3d	2_105280529_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	105280529	TA	T	480	PASS	AC013402.5	Del	intronic	1	9	MSH6	child	2_105280529_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
600f1dda-3323-11e6-8301-82209a696edf	18_35777274_CCGT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	18	35777274	C	CGT	660	PASS	-	Ins	-	2	0	EXO1	child	18_35777274_CCGT_EXO1	2	2	-	-	-	-	Ins
60114278-3287-11e6-b32c-fd87a2c71c31	5_125410057_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	125410057	TA	T	360	PASS	RP11-114J13.1	Del	downstream	1	9	MSH6	child	5_125410057_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
601591f6-3292-11e6-b77d-2eef6f39e758	6_129417500_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	129417500	CA	C	780	PASS	LAMA2	Del	intronic	1	6	MSH6	child	6_129417500_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
6019eb3a-3291-11e6-9401-04ed6f39e758	3_99651328_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	99651328	AT	A	360	PASS	FILIP1L	Del	intronic	1	9	MSH6	child	3_99651328_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
601e9750-3275-11e6-88b6-40832aaffa45	1_168753841_TAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	168753841	TA	T	540	PASS	LINC00626	Del	upstream	1	9	EXO1	child	1_168753841_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
60257ef6-3281-11e6-befb-a32236fc2f7d	2_57093228_ATA	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	2	57093228	AT	A	300	PASS	-	Del	-	1	7	NUDT1	child	2_57093228_ATA_NUDT1	1	1	1	T	6	T	Repeat-mediated
60410146-3324-11e6-a632-bec270cce0de	15_30105201_GGA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	15	30105201	G	GA	480	PASS	TJP1	Ins	intronic	1	9	EXO1	child	15_30105201_GGA_EXO1	1	1	-	-	-	-	Ins
60496fbe-326d-11e6-b9f4-5d1d694da5d2	14_72511433_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	72511433	CA	C	420	PASS	RGS6	Del	intronic	1	7	MSH6	child	14_72511433_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
604a2b1a-329b-11e6-a0ea-135325c9da85	15_73003449_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	73003449	GT	G	540	PASS	BBS4	Del	intronic	1	8	MSH6	child	15_73003449_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
604caa40-3276-11e6-8c46-ff5e90e2c2e6	4_54862960_GTG	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	4	54862960	GT	G	540	PASS	RP11-571I18.4	Del	downstream	1	9	POLB	child	4_54862960_GTG_POLB	1	1	1	T	8	T	Repeat-mediated
6052e6ac-327c-11e6-96f9-44dab41afd22	17_60361806_TTCTCT	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	17	60361806	TTCTC	T	281	PASS	-	Del	-	4	4	POLM	child	17_60361806_TTCTCT_POLM	4	4	4	TCTC	2	TC	Repeat-mediated
6055e67c-326d-11e6-9793-9a8fb0dab373	13_73435947_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	73435947	GA	G	300	PASS	PIBF1	Del	intronic	1	6	MSH6	child	13_73435947_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
606d1f48-334b-11e6-9c63-4b9e38e8a824	8_99742279_ACA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	8	99742279	AC	A	360	PASS	STK3	Del	intronic	1	2	FANCC	child	8_99742279_ACA_FANCC	1	1	1	C	1	C	Repeat-mediated
60870d48-3285-11e6-a0a8-096ea2c71c31	11_93356177_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	93356177	GT	G	360	PASS	-	Del	-	1	9	MSH6	child	11_93356177_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
608fc7be-3292-11e6-9401-04ed6f39e758	3_170062553_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	170062553	GA	G	300	PASS	RP11-543D10.2	Del	upstream	1	6	MSH6	child	3_170062553_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
6090fea2-3348-11e6-b3a1-d0f2137bb207	5_14022214_GAG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	5	14022214	GA	G	540	PASS	-	Del	-	1	9	FANCC	child	5_14022214_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
60a32fa8-326e-11e6-9d68-ac9acab49462	15_80163714_AAAGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	80163714	AAAG	A	300	PASS	MTHFS	Del	intronic	3	2	MSH6	child	15_80163714_AAAGA_MSH6	3	3	3	AAG	1	AAG	Repeat-mediated
60ab67f4-3255-11e6-8ebc-3ef212ae24cf	15_81151423_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	81151423	CT	C	420	PASS	KIAA1199	Del	intronic	1	8	MSH6	child	15_81151423_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
60c05c32-3321-11e6-a0d4-d30675253f64	18_144246_TTA	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	18	144246	T	TA	360	PASS	-	Ins	-	1	9	CHK2	child	18_144246_TTA_CHK2	1	1	-	-	-	-	Ins
60c9ff90-3320-11e6-b981-016519a91649	2_15876709_TCT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	2	15876709	TC	T	840	PASS	-	Del	-	1	2	CHK2	child	2_15876709_TCT_CHK2	1	1	1	C	1	C	Repeat-mediated
60cc3f58-3285-11e6-91a0-67a635cec73b	10_130073759_GAG	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	10	130073759	GA	G	1200	PASS	-	Del	-	1	8	POLE	child	10_130073759_GAG_POLE	1	1	1	A	7	A	Repeat-mediated
60d0ba86-3273-11e6-a5d0-4fd14a47a305	2_85637955_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	85637955	AT	A	360	PASS	CAPG	Del	upstream	1	8	MSH6	child	2_85637955_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
60d52532-3271-11e6-8418-1c5942c4520d	3_134655412_CGC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	134655412	CG	C	360	PASS	EPHB1	Del	intronic	1	1	MSH6	child	3_134655412_CGC_MSH6	1	1	0	-	0	G	None
60d7e738-3274-11e6-90ac-b4c37872c165	8_107721656_TCAAAAT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	8	107721656	TCAAAA	T	480	PASS	OXR1	Del	intronic	5	1	NEIL1	child	8_107721656_TCAAAAT_NEIL1	5	5	2	CA	0	-	Microhomology-mediated
60dd2330-3321-11e6-898e-96c25d753391	11_118891594_GTG	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	11	118891594	GT	G	600	PASS	TRAPPC4	Del	intronic	1	7	CHK2	parent	11_118891594_GTG_CHK2	1	1	1	T	6	T	Repeat-mediated
60de7658-3287-11e6-a8ad-04770d016689	9_121024992_CCT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	9	121024992	C	CT	780	PASS	-	Ins	-	1	7	EXO1	child	9_121024992_CCT_EXO1	1	1	-	-	-	-	Ins
60e69e22-326f-11e6-819e-9d1aa20b69d5	11_40558245_CTC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	11	40558245	CT	C	360	PASS	LRRC4C	Del	intronic	1	9	EXO1	parent	11_40558245_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
60ebadcc-328d-11e6-9777-62d8191589db	5_104254958_AATTTAATTTTTTTCACAGTTGAAACCATTGCTATTTTTTCTA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	5	104254958	AATTTAATTTTTTTCACAGTTGAAACCATTGCTATTTTTTCT	A	840	PASS	CTD-2374C24.1	Del	intronic	41	1	FANCC	child	5_104254958_AATTTAATTTTTTTCACAGTTGAAACCATTGCTATTTTTTCTA_FANCC	41	>=10	2	AT	0	-	Microhomology-mediated
60f54510-3276-11e6-92d2-c259c225ee11	3_3739987_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	3739987	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	3_3739987_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
60f9ed7e-328d-11e6-b9c4-751d0e01a414	5_73387916_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	73387916	CT	C	360	PASS	CTD-2292M14.1	Del	intronic	1	8	MSH6	child	5_73387916_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
6107fec4-3255-11e6-9f9d-2c7a7872c165	12_121599159_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	121599159	AT	A	360	PASS	P2RX7	Del	intronic	1	8	MSH6	child	12_121599159_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
61093c54-329f-11e6-94ca-0aaecc638e3d	X_117176442_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	117176442	CA	C	480	PASS	KLHL13	Del	intronic	1	7	MSH6	child	X_117176442_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
611c36b6-3285-11e6-be43-0a6ea2c71c31	10_84306117_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	84306117	GT	G	540	PASS	NRG3	Del	intronic	1	9	MSH6	child	10_84306117_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
6124744c-329a-11e6-9048-b49fcc638e3d	17_22081567_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	22081567	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	17_22081567_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
613e7baa-32a2-11e6-aea7-956725c9da85	3_52294966_AAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	52294966	A	AC	480	PASS	WDR82	Ins	intronic	1	3	MSH6	child	3_52294966_AAC_MSH6	1	1	-	-	-	-	Ins
61404f46-3286-11e6-a21c-b819bce6aa09	X_18482664_ACA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	18482664	AC	A	600	PASS	CDKL5	Del	intronic	1	1	MSH6	child	X_18482664_ACA_MSH6	1	1	0	-	0	C	None
61481392-329b-11e6-b129-195325c9da85	16_71124365_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	71124365	TA	T	410	PASS	HYDIN	Del	intronic	1	5	MSH6	child	16_71124365_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
614d8e7c-3286-11e6-a21c-b819bce6aa09	X_18498239_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	18498239	CT	C	480	PASS	CDKL5	Del	intronic	1	9	MSH6	child	X_18498239_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
6153f82c-328e-11e6-b8ba-0ad9191589db	8_79249382_ATA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	8	79249382	AT	A	360	PASS	-	Del	-	1	5	FANCC	child	8_79249382_ATA_FANCC	1	1	1	T	4	T	Repeat-mediated
61560f5a-326f-11e6-9f48-94df41c4520d	12_86502194_CCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	86502194	C	CT	360	PASS	MGAT4C	Ins	intronic	1	7	MSH6	child	12_86502194_CCT_MSH6	1	1	-	-	-	-	Ins
6157ad6e-3289-11e6-94b1-74090e01a414	17_6732123_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	6732123	CT	C	540	PASS	TEKT1	Del	intronic	1	9	MSH6	child	17_6732123_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
615dd2a2-3275-11e6-abaf-4642cab49462	6_79274549_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	79274549	T	TA	600	PASS	-	Ins	-	1	7	MSH6	child	6_79274549_TTA_MSH6	1	1	-	-	-	-	Ins
61609f60-3288-11e6-8404-8e1fbce6aa09	8_121279346_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	121279346	AT	A	720	PASS	COL14A1	Del	intronic	1	8	MSH6	child	8_121279346_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
6162f8c2-328e-11e6-bb1e-70e16f39e758	X_50066565_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	50066565	TA	T	993	PASS	CCNB3	Del	intronic	1	8	MSH6	child	X_50066565_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
61664312-3278-11e6-a76d-26961565c797	1_199425021_AAC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	1	199425021	A	AC	540	PASS	-	Ins	-	1	3	EXO1	child	1_199425021_AAC_EXO1	1	1	-	-	-	-	Ins
6172520e-32a2-11e6-b970-398625c9da85	20_2481014_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	2481014	AT	A	780	PASS	ZNF343	Del	intronic	1	6	MSH6	child	20_2481014_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
6177074a-328e-11e6-84e9-d36dfd44d094	2_208002473_CCTCTC	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	2	208002473	CCTCT	C	600	PASS	KLF7	Del	intronic	4	5	POLM	child	2_208002473_CCTCTC_POLM	4	4	4	CTCT	3	CT	Repeat-mediated
617c6244-3289-11e6-8eee-76090e01a414	10_9586976_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	9586976	GT	G	360	PASS	-	Del	-	1	9	MSH6	child	10_9586976_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
61834b30-328a-11e6-a32d-75090e01a414	14_87565215_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	87565215	TA	T	300	PASS	-	Del	-	1	6	MSH6	child	14_87565215_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
6187d014-3286-11e6-bb1d-5179a178171f	13_64853662_CTC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	13	64853662	CT	C	300	PASS	-	Del	-	1	7	FANCC	child	13_64853662_CTC_FANCC	1	1	1	T	6	T	Repeat-mediated
618e10d8-3294-11e6-92f4-38f3d8b4fa2c	9_80741738_ATA	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	9	80741738	AT	A	480	PASS	-	Del	-	1	7	NUDT1	child	9_80741738_ATA_NUDT1	1	1	1	T	6	T	Repeat-mediated
6192c2b6-327d-11e6-b10b-a867faf1a024	1_87535114_TAT	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	1	87535114	TA	T	540	PASS	HS2ST1	Del	intronic	1	8	POLB	parent	1_87535114_TAT_POLB	1	1	1	A	7	A	Repeat-mediated
619ce678-3297-11e6-8879-9b3e8cd8cd69	1_92932005_CAAC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	1	92932005	CAA	C	900	PASS	-	Del	-	2	3	CHK2	child	1_92932005_CAAC_CHK2	2	2	1	A	0	-	Microhomology-mediated
61a4d20e-3286-11e6-a1c7-605851c54cdd	X_7755156_TAT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	X	7755156	TA	T	720	PASS	-	Del	-	1	5	EXO1	child	X_7755156_TAT_EXO1	1	1	1	A	4	A	Repeat-mediated
61a8a67c-3272-11e6-af89-7600ebb8d062	5_57246007_GTTTGGGGTGGTGCAATGTATGATCTGAG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	5	57246007	GTTTGGGGTGGTGCAATGTATGATCTGA	G	840	PASS	-	Del	-	27	1	NUDT1	child	5_57246007_GTTTGGGGTGGTGCAATGTATGATCTGAG_NUDT1	27	>=10	1	T	0	-	Microhomology-mediated
61ae9030-3274-11e6-a5d0-4fd14a47a305	2_175030696_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	175030696	CA	C	540	PASS	OLA1	Del	intronic	1	7	MSH6	child	2_175030696_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
61bab206-3284-11e6-be43-0a6ea2c71c31	10_3881232_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	3881232	CA	C	420	PASS	RP11-464C19.2	Del	downstream	1	9	MSH6	child	10_3881232_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
61baf372-3290-11e6-9432-c0e56f39e758	5_126846689_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	126846689	TA	T	540	PASS	-	Del	-	1	8	MSH6	child	5_126846689_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
61be6922-3258-11e6-91d3-a68412ae24cf	7_143743447_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	143743447	AT	A	420	PASS	OR2A5	Del	upstream	1	7	MSH6	child	7_143743447_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
61c0d246-3273-11e6-975f-8246cab49462	16_58633972_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	58633972	GA	G	720	PASS	CNOT1	Del	intronic	1	9	MSH6	child	16_58633972_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
61c1ad60-3287-11e6-8734-49a538e8a824	15_41976372_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	15	41976372	AT	A	720	PASS	MGA	Del	intronic	1	1	NUDT1	parent	15_41976372_ATA_NUDT1	1	1	0	-	0	T	None
61c8a56e-3293-11e6-b0cf-8b7219a91649	7_56019338_AAAG	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	7	56019338	A	AAG	300	PASS	MRPS17	Ins	upstream	2	0	NEIL1	child	7_56019338_AAAG_NEIL1	2	2	-	-	-	-	Ins
61c8aafa-328e-11e6-88c7-2ba6e7d0bdd7	6_45414224_CTC	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	6	45414224	CT	C	480	PASS	RUNX2	Del	intronic	1	7	POLM	child	6_45414224_CTC_POLM	1	1	1	T	6	T	Repeat-mediated
61d375c2-326e-11e6-92dd-fda8977b3f23	10_127643500_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	127643500	TA	T	420	PASS	FANK1	Del	intronic	1	7	MSH6	child	10_127643500_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
61d8fca8-329c-11e6-a0ea-135325c9da85	15_98198731_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	98198731	CT	C	300	PASS	-	Del	-	1	7	MSH6	child	15_98198731_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
61e518f6-328f-11e6-92cf-bf2a0e01a414	6_34911064_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	34911064	CA	C	300	PASS	ANKS1A	Del	intronic	1	5	MSH6	child	6_34911064_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
61e60dc6-328d-11e6-8770-3e160e01a414	9_126570834_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	126570834	AT	A	600	PASS	DENND1A	Del	intronic	1	7	MSH6	child	9_126570834_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
61ee0900-328c-11e6-bdca-61cc977b3f23	10_67217074_TAT	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	10	67217074	TA	T	780	PASS	-	Del	-	1	8	NEIL1	child	10_67217074_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
61efa8aa-3273-11e6-9309-bdc34a47a305	8_136166983_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	136166983	T	TA	383	PASS	-	Ins	-	1	0	MSH6	child	8_136166983_TTA_MSH6	1	1	-	-	-	-	Ins
61f1d508-32a0-11e6-bc66-17b4cc638e3d	8_102060076_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	102060076	CT	C	600	PASS	RP11-302J23.1	Del	upstream	1	9	MSH6	child	8_102060076_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
61f38e46-3289-11e6-bc2b-e5cd191589db	12_25756220_ATAGTA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	12	25756220	ATAGT	A	360	PASS	IFLTD1	Del	intronic	4	1	FANCC	child	12_25756220_ATAGTA_FANCC	4	4	2	TA	0	-	Microhomology-mediated
61fbc102-328d-11e6-aa75-90c36f39e758	13_35740325_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	35740325	T	TA	780	PASS	NBEA	Ins	intronic	1	7	MSH6	child	13_35740325_TTA_MSH6	1	1	-	-	-	-	Ins
6205f48c-329d-11e6-a0ea-135325c9da85	15_60595311_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	60595311	A	AT	720	PASS	-	Ins	-	1	7	MSH6	child	15_60595311_AAT_MSH6	1	1	-	-	-	-	Ins
62073624-3277-11e6-83cd-a472a178171f	4_166935060_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	166935060	CT	C	840	PASS	TLL1	Del	intronic	1	8	MSH6	child	4_166935060_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
620ae59e-3272-11e6-a812-e11198ba1142	9_11882198_CCA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	9	11882198	C	CA	480	PASS	-	Ins	-	1	6	EXO1	parent	9_11882198_CCA_EXO1	1	1	-	-	-	-	Ins
62123480-328f-11e6-9230-fb250e01a414	3_99349240_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	99349240	CT	C	600	PASS	-	Del	-	1	7	MSH6	child	3_99349240_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
621c236a-3289-11e6-821d-8c090e01a414	13_26580187_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	26580187	CA	C	300	PASS	ATP8A2	Del	intronic	1	8	MSH6	child	13_26580187_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
621ec806-326e-11e6-9fba-41ebd8b4fa2c	11_67246073_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	67246073	CT	C	480	PASS	AIP	Del	upstream	1	8	MSH6	child	11_67246073_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
6220e970-329a-11e6-b549-1e5325c9da85	10_29812505_TCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	29812505	TC	T	420	PASS	SVIL	Del	frameshift	1	4	MSH6	child	10_29812505_TCT_MSH6	1	1	1	C	3	C	Repeat-mediated
6220f698-3283-11e6-9881-48b254de4fc4	5_108436127_AGAAGGATA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	5	108436127	AGAAGGAT	A	480	PASS	FER	Del	frameshift	7	1	FANCC	child	5_108436127_AGAAGGATA_FANCC	7	7	3	GAA	0	-	Microhomology-mediated
62278032-329a-11e6-b74d-b59fcc638e3d	18_36537439_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	36537439	GA	G	900	PASS	-	Del	-	1	9	MSH6	child	18_36537439_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
622c1bfe-326f-11e6-a539-0e5542c4520d	7_25039693_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	25039693	CT	C	655	PASS	-	Del	-	1	9	MSH6	child	7_25039693_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
62328598-3297-11e6-8879-9b3e8cd8cd69	1_93278015_CAC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	1	93278015	CA	C	720	PASS	-	Del	-	1	5	CHK2	child	1_93278015_CAC_CHK2	1	1	1	A	4	A	Repeat-mediated
6237009c-3291-11e6-bd26-49b0e7d0bdd7	7_104048111_TAT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	7	104048111	TA	T	360	PASS	LHFPL3	Del	intronic	1	7	FANCC	child	7_104048111_TAT_FANCC	1	1	1	A	6	A	Repeat-mediated
6238d2b0-3281-11e6-a62e-ba6f2aaffa45	10_62784999_CTC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	10	62784999	CT	C	300	PASS	LINC00845	Del	intronic	1	7	POLE	child	10_62784999_CTC_POLE	1	1	1	T	6	T	Repeat-mediated
623bdbba-328e-11e6-bec1-ca1d0e01a414	X_90890516_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	90890516	GT	G	280	PASS	-	Del	-	1	9	MSH6	child	X_90890516_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
623e23f0-326d-11e6-acc7-e55219a91649	1_81582345_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	81582345	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	1_81582345_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
623fb100-3292-11e6-9432-c0e56f39e758	5_90128147_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	90128147	A	AT	960	PASS	GPR98	Ins	intronic	1	2	MSH6	child	5_90128147_AAT_MSH6	1	1	-	-	-	-	Ins
62406d34-3346-11e6-b5ef-938f38e8a824	13_91517022_GGTTG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	13	91517022	GGTT	G	420	PASS	-	Del	-	3	2	FANCC	child	13_91517022_GGTTG_FANCC	3	3	3	GTT	1	GTT	Repeat-mediated
62431fb4-328f-11e6-bb1e-70e16f39e758	X_79145983_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	79145983	GA	G	360	PASS	-	Del	-	1	9	MSH6	child	X_79145983_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
62436ad0-32a0-11e6-bc2c-2a5e25c9da85	4_19035266_TTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	19035266	T	TG	480	PASS	-	Ins	-	1	7	MSH6	child	4_19035266_TTG_MSH6	1	1	-	-	-	-	Ins
62442fd8-325a-11e6-91d3-a68412ae24cf	7_129646233_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	129646233	A	AT	300	PASS	-	Ins	-	1	7	MSH6	child	7_129646233_AAT_MSH6	1	1	-	-	-	-	Ins
62455872-3278-11e6-b562-fe54dcd214c4	5_156399824_TTTA	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	5	156399824	T	TTA	360	PASS	-	Ins	-	2	0	NUDT1	child	5_156399824_TTTA_NUDT1	2	2	-	-	-	-	Ins
624fa50a-3270-11e6-b89d-b2d6b0dab373	4_57717799_ACA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	57717799	AC	A	540	PASS	-	Del	-	1	2	MSH6	child	4_57717799_ACA_MSH6	1	1	1	C	1	C	Repeat-mediated
62556c9e-32a0-11e6-bc66-17b4cc638e3d	8_102156363_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	102156363	CT	C	600	PASS	KB-1460A1.3	Del	downstream	1	7	MSH6	child	8_102156363_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
625a431c-325b-11e6-885f-d1947872c165	4_177556226_GGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	177556226	G	GT	420	PASS	-	Ins	-	1	7	MSH6	child	4_177556226_GGT_MSH6	1	1	-	-	-	-	Ins
625d4b08-3273-11e6-a721-59c27872c165	5_180536474_ATA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	5	180536474	AT	A	360	PASS	-	Del	-	1	8	NEIL1	child	5_180536474_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
626c4506-328f-11e6-9230-fb250e01a414	3_99592464_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	99592464	GT	G	1020	PASS	FILIP1L	Del	intronic	1	8	MSH6	child	3_99592464_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
628c86fe-3294-11e6-92f4-38f3d8b4fa2c	9_81027936_GTGTATATATGTATATATGTGTATATAG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	9	81027936	GTGTATATATGTATATATGTGTATATA	G	300	PASS	-	Del	-	26	1	NUDT1	child	9_81027936_GTGTATATATGTATATATGTGTATATAG_NUDT1	26	>=10	11	TGTATATATGT	1	TA	Microhomology-mediated
629d28be-3254-11e6-8a2a-3af212ae24cf	16_51946274_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	16	51946274	TA	T	660	PASS	-	Del	-	1	9	MSH6	child	16_51946274_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
62a57eea-3323-11e6-84e3-a2cceab8d062	2_240229353_CAAC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	2	240229353	CAA	C	540	PASS	HDAC4	Del	intronic	2	2	CHK2	parent	2_240229353_CAAC_CHK2	2	2	0	-	0	-	None
62a99af0-3271-11e6-b923-6726694da5d2	5_139160018_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	139160018	CT	C	360	PASS	CTB-35F21.5	Del	downstream	1	8	MSH6	child	5_139160018_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
62b79db6-329a-11e6-b549-1e5325c9da85	10_29981592_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	29981592	AT	A	780	PASS	SVIL	Del	intronic	1	7	MSH6	child	10_29981592_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
62ba04ea-3284-11e6-8ebc-68f1bbe6aa09	18_3830685_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	3830685	TA	T	420	PASS	DLGAP1	Del	intronic	1	7	MSH6	child	18_3830685_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
62bf78ca-326c-11e6-a740-f74aa78019ab	15_36170696_ACTTTA	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	15	36170696	ACTTT	A	600	PASS	-	Del	-	4	3	POLM	parent	15_36170696_ACTTTA_POLM	4	4	4	CTTT	2	CTTT	Repeat-mediated
62cafb80-3273-11e6-8f33-a6d9cde16804	11_90571895_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	90571895	CA	C	1080	PASS	DISC1FP1	Del	intronic	1	7	MSH6	child	11_90571895_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
62cb769c-3277-11e6-92d2-c259c225ee11	3_74348356_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	74348356	CA	C	420	PASS	CNTN3	Del	intronic	1	9	MSH6	child	3_74348356_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
62d7a232-328b-11e6-b119-71c75d753391	22_41558882_TTGGGCTAAATCTACATAACATACATCTAATGGATAGTAAAACCATGGAAAACACTGAAGTACTAAGGAACATTATTTCTTAATGTTAATTTTAATGTTCTTAATGTTGAATGTGAAACATTAAAGATCTAAACTTCTAGTTTGCAGTGAGGCCTTTTAGATCATGGAGGACTGACATGTATGTCTTCTAGATGTTCCTAAAATGGATGGGATGGTATTTGGATTTATTTGGAATTTTCAGCACCAGGAATCTGTCTTAAAAATTAGCCAGGTTTTGGCCGGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCCGGCTAAAACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTAGTGGCGGGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAACCTGGGAGGCGGAGCTTGCAGTGAGCCGAGATCCCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTTTGGCCGGGCACAGTGGCCCACATCTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGATCACCCAAGGTCAAGAGTTCGAGACCAGCCTGGCCAACATGGCAAAATCCCGTCTCTACTACAAATATATAAATTAGCTGTGCGTGGTGGTGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTGGAACCCGGGAGGCAGGGGTTGAAGTGAGCTGATATGACGCCACTGCACTCCAGCCTGGGCGACACAGAGAGACTCCATCTCAGAAAACAAAACAAAAAACAGCCAGGCATGATAGTATGTGCCTATCCTAGCCAGGTAGCTGAGAGGCCAAGGCAGGAAAATGGCTTGAGCCCAGGAGTTTAAGGTTGTAGTGAGCTGTGATCATGCCACCCACTCCAGCCTGTACAACAGAGACCCTATCTCTAAAAAAATAGAAACTTTATTAAAACTATTTTCAGTTCTTTGGTCATGACCTTGGCTGTCTTTGTCAGAAGTCATGGGAAATATTGCAAGTTTTCATTTGGTTAAGGTTTGGGGTTAATTTTGGAATTGGCTCTGCTCTTCCAGGTTTGTTGAATGTACAGAGTGCGGAAGAAAGATGCATCAGATCTGTGTCCTTCACCATGAGATCATCTGGCCTGCTGGGTAAGTCTTAACGTTGTTACTTTCTCTGGAATTTTTCTTTATCGTGAATATTAACAAGTTTTTTATTCTATGCAATTGACTGTATTATATCTTCAAAGTTACTATCTTTAAATTGTTTTCTTTGGGTTTGGCCACGATAATTATAGTTCGCTTTTTAAAAATTAAGTAACCTAGTATCCAAAAATAGATTTTTATCTTATTTTTATGCATTCTTCTTAGCCATATAAATATATTTTATTCTGCTGGATTGTTTATTAAAATTATATTGTAGTTATTACACATCAAAAGTAAATATTTATGGCCAGGCGAGGTGGCTCACGCCTGTAATCCCAGCACTTTGGTTAAAAATAGATAATTAT	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	22	41558882	TTGGGCTAAATCTACATAACATACATCTAATGGATAGTAAAACCATGGAAAACACTGAAGTACTAAGGAACATTATTTCTTAATGTTAATTTTAATGTTCTTAATGTTGAATGTGAAACATTAAAGATCTAAACTTCTAGTTTGCAGTGAGGCCTTTTAGATCATGGAGGACTGACATGTATGTCTTCTAGATGTTCCTAAAATGGATGGGATGGTATTTGGATTTATTTGGAATTTTCAGCACCAGGAATCTGTCTTAAAAATTAGCCAGGTTTTGGCCGGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCCGGCTAAAACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTAGTGGCGGGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAACCTGGGAGGCGGAGCTTGCAGTGAGCCGAGATCCCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTTTGGCCGGGCACAGTGGCCCACATCTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGATCACCCAAGGTCAAGAGTTCGAGACCAGCCTGGCCAACATGGCAAAATCCCGTCTCTACTACAAATATATAAATTAGCTGTGCGTGGTGGTGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTGGAACCCGGGAGGCAGGGGTTGAAGTGAGCTGATATGACGCCACTGCACTCCAGCCTGGGCGACACAGAGAGACTCCATCTCAGAAAACAAAACAAAAAACAGCCAGGCATGATAGTATGTGCCTATCCTAGCCAGGTAGCTGAGAGGCCAAGGCAGGAAAATGGCTTGAGCCCAGGAGTTTAAGGTTGTAGTGAGCTGTGATCATGCCACCCACTCCAGCCTGTACAACAGAGACCCTATCTCTAAAAAAATAGAAACTTTATTAAAACTATTTTCAGTTCTTTGGTCATGACCTTGGCTGTCTTTGTCAGAAGTCATGGGAAATATTGCAAGTTTTCATTTGGTTAAGGTTTGGGGTTAATTTTGGAATTGGCTCTGCTCTTCCAGGTTTGTTGAATGTACAGAGTGCGGAAGAAAGATGCATCAGATCTGTGTCCTTCACCATGAGATCATCTGGCCTGCTGGGTAAGTCTTAACGTTGTTACTTTCTCTGGAATTTTTCTTTATCGTGAATATTAACAAGTTTTTTATTCTATGCAATTGACTGTATTATATCTTCAAAGTTACTATCTTTAAATTGTTTTCTTTGGGTTTGGCCACGATAATTATAGTTCGCTTTTTAAAAATTAAGTAACCTAGTATCCAAAAATAGATTTTTATCTTATTTTTATGCATTCTTCTTAGCCATATAAATATATTTTATTCTGCTGGATTGTTTATTAAAATTATATTGTAGTTATTACACATCAAAAGTAAATATTTATGGCCAGGCGAGGTGGCTCACGCCTGTAATCCCAGCACTTTGG	TTAAAAATAGATAATTAT	360	PASS	EP300	Complex	ess_splice	1593	0	POLE	child	22_41558882_TTGGGCTAAATCTACATAACATACATCTAATGGATAGTAAAACCATGGAAAACACTGAAGTACTAAGGAACATTATTTCTTAATGTTAATTTTAATGTTCTTAATGTTGAATGTGAAACATTAAAGATCTAAACTTCTAGTTTGCAGTGAGGCCTTTTAGATCATGGAGGACTGACATGTATGTCTTCTAGATGTTCCTAAAATGGATGGGATGGTATTTGGATTTATTTGGAATTTTCAGCACCAGGAATCTGTCTTAAAAATTAGCCAGGTTTTGGCCGGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCCGGCTAAAACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTAGTGGCGGGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAACCTGGGAGGCGGAGCTTGCAGTGAGCCGAGATCCCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTTTGGCCGGGCACAGTGGCCCACATCTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGATCACCCAAGGTCAAGAGTTCGAGACCAGCCTGGCCAACATGGCAAAATCCCGTCTCTACTACAAATATATAAATTAGCTGTGCGTGGTGGTGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTGGAACCCGGGAGGCAGGGGTTGAAGTGAGCTGATATGACGCCACTGCACTCCAGCCTGGGCGACACAGAGAGACTCCATCTCAGAAAACAAAACAAAAAACAGCCAGGCATGATAGTATGTGCCTATCCTAGCCAGGTAGCTGAGAGGCCAAGGCAGGAAAATGGCTTGAGCCCAGGAGTTTAAGGTTGTAGTGAGCTGTGATCATGCCACCCACTCCAGCCTGTACAACAGAGACCCTATCTCTAAAAAAATAGAAACTTTATTAAAACTATTTTCAGTTCTTTGGTCATGACCTTGGCTGTCTTTGTCAGAAGTCATGGGAAATATTGCAAGTTTTCATTTGGTTAAGGTTTGGGGTTAATTTTGGAATTGGCTCTGCTCTTCCAGGTTTGTTGAATGTACAGAGTGCGGAAGAAAGATGCATCAGATCTGTGTCCTTCACCATGAGATCATCTGGCCTGCTGGGTAAGTCTTAACGTTGTTACTTTCTCTGGAATTTTTCTTTATCGTGAATATTAACAAGTTTTTTATTCTATGCAATTGACTGTATTATATCTTCAAAGTTACTATCTTTAAATTGTTTTCTTTGGGTTTGGCCACGATAATTATAGTTCGCTTTTTAAAAATTAAGTAACCTAGTATCCAAAAATAGATTTTTATCTTATTTTTATGCATTCTTCTTAGCCATATAAATATATTTTATTCTGCTGGATTGTTTATTAAAATTATATTGTAGTTATTACACATCAAAAGTAAATATTTATGGCCAGGCGAGGTGGCTCACGCCTGTAATCCCAGCACTTTGGTTAAAAATAGATAATTAT_POLE	1576	>=10	-	-	-	-	Complex
62dd36de-326d-11e6-adc2-b7204b47a305	18_65046084_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	65046084	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	18_65046084_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
62df419a-3281-11e6-87bb-2600bce6aa09	17_69231337_AAT	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	17	69231337	A	AT	600	PASS	-	Ins	-	1	5	POLM	child	17_69231337_AAT_POLM	1	1	-	-	-	-	Ins
62e1f7d2-3272-11e6-90d3-9639fc77b11e	13_112646665_GTG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	13	112646665	GT	G	360	PASS	-	Del	-	1	9	MSH6	parent	13_112646665_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
62e53866-3290-11e6-9c89-8d090e01a414	1_170478926_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	170478926	T	TA	960	PASS	-	Ins	-	1	4	MSH6	child	1_170478926_TTA_MSH6	1	1	-	-	-	-	Ins
62ede7f8-3287-11e6-9a8e-d2b1f6dffcf6	1_60801938_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	1	60801938	CT	C	420	PASS	-	Del	-	1	9	NUDT1	parent	1_60801938_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
62f3739a-3272-11e6-bbeb-70bd19a91649	20_30502156_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	20	30502156	GT	G	420	PASS	TTLL9	Del	intronic	1	7	MSH6	child	20_30502156_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
62f7dfae-328e-11e6-919e-92c36f39e758	2_195375470_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	195375470	CA	C	408	PASS	-	Del	-	1	8	MSH6	child	2_195375470_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
62f81954-3281-11e6-ba80-c6262eaed38e	2_97344783_ATA	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	2	97344783	AT	A	540	PASS	-	Del	-	1	6	POLB	child	2_97344783_ATA_POLB	1	1	1	T	5	T	Repeat-mediated
62fb250c-3292-11e6-9401-04ed6f39e758	3_170648864_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	170648864	CT	C	720	PASS	-	Del	-	1	9	MSH6	child	3_170648864_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
62fc1250-328d-11e6-b5d1-34059c6d3b88	13_24059928_TAAT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	13	24059928	TAA	T	360	PASS	LINC00327	Del	intronic	2	4	POLB	child	13_24059928_TAAT_POLB	2	2	2	AA	2	A	Repeat-mediated
630756b0-3288-11e6-a284-4b89a2c71c31	4_169563390_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	169563390	GA	G	600	PASS	PALLD	Del	intronic	1	7	MSH6	child	4_169563390_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
63099df6-3271-11e6-8418-1c5942c4520d	3_135800217_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	135800217	CT	C	360	PASS	PPP2R3A	Del	intronic	1	8	MSH6	child	3_135800217_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
630fbae0-329b-11e6-8069-175325c9da85	12_92446233_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	92446233	AT	A	720	PASS	C12orf79	Del	intronic	1	9	MSH6	child	12_92446233_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
631721f6-3271-11e6-b4ee-9405147bb207	10_29076749_TAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	10	29076749	TA	T	540	PASS	LINC00837	Del	downstream	1	7	MSH6	parent	10_29076749_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
631ceb30-329a-11e6-aca6-b39fcc638e3d	2_42193690_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	42193690	AT	A	900	PASS	-	Del	-	1	8	MSH6	child	2_42193690_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
6323dfa8-329f-11e6-94ca-0aaecc638e3d	X_117715307_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	117715307	TA	T	480	PASS	DOCK11	Del	intronic	1	9	MSH6	child	X_117715307_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
632a0b3a-3254-11e6-8a2a-3af212ae24cf	16_52156936_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	16	52156936	AT	A	660	PASS	-	Del	-	1	9	MSH6	child	16_52156936_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
632e21d4-3259-11e6-a39a-dc8512ae24cf	8_114609419_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	114609419	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	8_114609419_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
63302570-328f-11e6-84a5-b1e2977b3f23	7_56006511_TCT	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	7	56006511	TC	T	900	PASS	ZNF713	Del	intronic	1	3	NEIL1	child	7_56006511_TCT_NEIL1	1	1	1	C	2	C	Repeat-mediated
63379eb8-328f-11e6-a081-1bb7a178171f	X_52070061_CAC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	X	52070061	CA	C	540	PASS	-	Del	-	1	9	POLE	child	X_52070061_CAC_POLE	1	1	1	A	8	A	Repeat-mediated
633c3f6a-327e-11e6-b73f-448daea0a4d2	2_195161134_ACTA	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	2	195161134	ACT	A	900	PASS	-	Del	-	2	2	POLB	parent	2_195161134_ACTA_POLB	2	2	2	CT	1	CT	Repeat-mediated
633ed19a-3291-11e6-9401-04ed6f39e758	3_100462369_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	100462369	CT	C	360	PASS	TFG	Del	intronic	1	9	MSH6	child	3_100462369_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
6342afb4-329a-11e6-bda6-065325c9da85	13_50387988_GAATAGATGGAAAGTTGCTAGAAGGGAGTGGTTACATGCCACCAGAGTAAGCG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	50387988	GAATAGATGGAAAGTTGCTAGAAGGGAGTGGTTACATGCCACCAGAGTAAGC	G	660	PASS	-	Del	-	51	1	MSH6	child	13_50387988_GAATAGATGGAAAGTTGCTAGAAGGGAGTGGTTACATGCCACCAGAGTAAGCG_MSH6	51	>=10	2	AA	0	-	Microhomology-mediated
63488fca-3285-11e6-b093-c9c7b0dab373	2_76078432_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	76078432	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	2_76078432_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
634abca8-328c-11e6-a70a-47793adbad45	3_67907164_AAT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	3	67907164	A	AT	540	PASS	RP11-81N13.1	Ins	intronic	1	8	NUDT1	parent	3_67907164_AAT_NUDT1	1	1	-	-	-	-	Ins
634b3384-328e-11e6-b9c4-751d0e01a414	5_143644762_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	143644762	AT	A	540	PASS	KCTD16	Del	intronic	1	9	MSH6	child	5_143644762_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
63538cda-3277-11e6-83cd-a472a178171f	4_167259588_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	167259588	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	4_167259588_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
635c3e78-3283-11e6-ba13-7508694da5d2	8_130748410_CAC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	8	130748410	CA	C	800	PASS	-	Del	-	1	7	NEIL1	child	8_130748410_CAC_NEIL1	1	1	1	A	6	A	Repeat-mediated
6360bf08-328c-11e6-bd84-429305ad5bc4	1_111700382_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	111700382	CA	C	600	PASS	CEPT1	Del	intronic	1	6	MSH6	child	1_111700382_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
6362afd8-3274-11e6-b332-88ba7d6a9fc7	15_84778000_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	84778000	CT	C	600	PASS	-	Del	-	1	7	MSH6	child	15_84778000_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
636410d4-328e-11e6-9c89-8d090e01a414	1_33483921_GGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	33483921	G	GA	300	PASS	AK2	Ins	intronic	1	4	MSH6	child	1_33483921_GGA_MSH6	1	1	-	-	-	-	Ins
636a3a26-329e-11e6-bc2c-2a5e25c9da85	4_95631531_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	95631531	GA	G	420	PASS	-	Del	-	1	7	MSH6	child	4_95631531_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
636d5f84-329f-11e6-a5cf-e5abcc638e3d	9_91944193_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	91944193	A	AT	420	PASS	SECISBP2	Ins	intronic	1	9	MSH6	child	9_91944193_AAT_MSH6	1	1	-	-	-	-	Ins
636d99ea-3290-11e6-8621-65d8191589db	4_133826932_GGC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	4	133826932	G	GC	420	PASS	RP11-404I7.2	Ins	intronic	1	1	FANCC	child	4_133826932_GGC_FANCC	1	1	-	-	-	-	Ins
63761768-3287-11e6-a284-4b89a2c71c31	4_76922600_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	76922600	GA	G	720	PASS	CXCL9	Del	3prime_UTR_variant	1	8	MSH6	child	4_76922600_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
6386436c-3274-11e6-9e18-3a69671699ea	10_135249733_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	135249733	TG	T	697	PASS	SPRN	Del	intronic	1	4	MSH6	child	10_135249733_TGT_MSH6	1	1	1	G	3	G	Repeat-mediated
638a75f0-3255-11e6-9ea1-7b832aaffa45	14_104106025_TCTTGGCCTCCCAAAGTGCTGGGATTACTGGTATGAGCCACCACACCCGGCCCAGATGTGAATTCTTTATTTTTATTTTATTATTTTTGAGACAGGGTCTCAACTCTGTCACCCAGGCTAGAGCACAATGGTGCAATCATGTTTCACTGCAGCCTTGATTTCCTGGACTCCAGTGATACACCTCAGCCTCCTGAGTAGCTGGGACCACAGGTGCATGTCACCACACCCAGCTAATTTTGGTATTTTTTTTTAGGATGGGGTTTTGCCATGTTTCCCTGTCTGGCTTTGAAATCCTGAGCTCAAGAGATCCACCCGCT	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	14	104106025	TCTTGGCCTCCCAAAGTGCTGGGATTACTGGTATGAGCCACCACACCCGGCCCAGATGTGAATTCTTTATTTTTATTTTATTATTTTTGAGACAGGGTCTCAACTCTGTCACCCAGGCTAGAGCACAATGGTGCAATCATGTTTCACTGCAGCCTTGATTTCCTGGACTCCAGTGATACACCTCAGCCTCCTGAGTAGCTGGGACCACAGGTGCATGTCACCACACCCAGCTAATTTTGGTATTTTTTTTTAGGATGGGGTTTTGCCATGTTTCCCTGTCTGGCTTTGAAATCCTGAGCTCAAGAGATCCACCCGC	T	360	PASS	KLC1	Del	intronic	315	1	POLM	child	14_104106025_TCTTGGCCTCCCAAAGTGCTGGGATTACTGGTATGAGCCACCACACCCGGCCCAGATGTGAATTCTTTATTTTTATTTTATTATTTTTGAGACAGGGTCTCAACTCTGTCACCCAGGCTAGAGCACAATGGTGCAATCATGTTTCACTGCAGCCTTGATTTCCTGGACTCCAGTGATACACCTCAGCCTCCTGAGTAGCTGGGACCACAGGTGCATGTCACCACACCCAGCTAATTTTGGTATTTTTTTTTAGGATGGGGTTTTGCCATGTTTCCCTGTCTGGCTTTGAAATCCTGAGCTCAAGAGATCCACCCGCT_POLM	315	>=10	27	CTTGGCCTCCCAAAGTGCTGGGATTAC	0	-	Microhomology-mediated
6394b316-3288-11e6-bb85-03a66f39e758	4_152440901_GTG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	4	152440901	GT	G	300	PASS	FAM160A1	Del	intronic	1	7	EXO1	child	4_152440901_GTG_EXO1	1	1	1	T	6	T	Repeat-mediated
639e45a0-3320-11e6-8db2-39e579852e0e	2_36161766_GAG	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	2	36161766	GA	G	420	PASS	-	Del	-	1	9	POLE	child	2_36161766_GAG_POLE	1	1	1	A	8	A	Repeat-mediated
639eeab0-3275-11e6-bfd3-a6593dc9300a	X_33068537_TAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	X	33068537	TA	T	360	PASS	DMD	Del	intronic	1	7	EXO1	child	X_33068537_TAT_EXO1	1	1	1	A	6	A	Repeat-mediated
63ad559e-3277-11e6-8c34-46e27872c165	5_142280326_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	142280326	TA	T	480	PASS	ARHGAP26	Del	intronic	1	9	MSH6	child	5_142280326_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
63add6ec-32a2-11e6-b696-dd6225c9da85	5_171450334_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	171450334	C	CA	660	PASS	-	Ins	-	1	9	MSH6	child	5_171450334_CCA_MSH6	1	1	-	-	-	-	Ins
63ae1ccc-328b-11e6-a8ac-a28ea2c71c31	3_192438857_GGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	192438857	G	GA	840	PASS	FGF12	Ins	intronic	1	2	MSH6	child	3_192438857_GGA_MSH6	1	1	-	-	-	-	Ins
63b2b246-3259-11e6-9f82-71a92aaffa45	6_92350674_ATA	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	6	92350674	AT	A	420	PASS	CASC6	Del	intronic	1	1	POLM	child	6_92350674_ATA_POLM	1	1	0	-	0	T	None
63ba8946-329d-11e6-bc66-17b4cc638e3d	8_603518_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	603518	CT	C	600	PASS	-	Del	-	1	8	MSH6	child	8_603518_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
63bdef28-3275-11e6-998e-ba48fa52e078	8_26438822_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	26438822	GT	G	360	PASS	DPYSL2	Del	intronic	1	8	MSH6	child	8_26438822_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
63bfe25a-328a-11e6-9539-3490a178171f	3_55926819_TTGT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	3	55926819	TTG	T	420	PASS	ERC2	Del	intronic	2	1	FANCC	child	3_55926819_TTGT_FANCC	2	2	1	T	0	-	Microhomology-mediated
63c066ce-3273-11e6-b539-d702ebb8d062	7_79886205_TGCTTGGT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	7	79886205	TGCTTGG	T	840	PASS	AC003988.1	Del	intronic	6	1	NUDT1	child	7_79886205_TGCTTGGT_NUDT1	6	6	3	GCT	0	-	Microhomology-mediated
63cb134a-3272-11e6-a862-bc9becf1e924	1_8536592_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	8536592	CA	C	660	PASS	RERE	Del	intronic	1	7	MSH6	child	1_8536592_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
63cbe848-3271-11e6-8418-1c5942c4520d	3_135972968_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	135972968	GT	G	300	PASS	PCCB	Del	intronic	1	8	MSH6	child	3_135972968_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
63ce86e8-3276-11e6-83cd-a472a178171f	4_97941927_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	97941927	TA	T	720	PASS	-	Del	-	1	8	MSH6	child	4_97941927_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
63d081e8-326f-11e6-9f48-94df41c4520d	12_87548669_GGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	87548669	G	GA	420	PASS	-	Ins	-	1	7	MSH6	child	12_87548669_GGA_MSH6	1	1	-	-	-	-	Ins
63d8c430-328c-11e6-b4fe-93c36f39e758	12_53669244_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	53669244	CA	C	838	PASS	ESPL1	Del	intronic	1	9	MSH6	child	12_53669244_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
63e44e6e-3321-11e6-a17c-098c64f80bad	14_66396238_TGT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	14	66396238	TG	T	600	PASS	-	Del	-	1	6	EXO1	child	14_66396238_TGT_EXO1	1	1	1	G	5	G	Repeat-mediated
63eeeef0-3277-11e6-ae53-82ab977b3f23	3_166274868_GTTATTTG	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	3	166274868	GTTATTT	G	360	PASS	-	Del	-	6	1	NUDT1	child	3_166274868_GTTATTTG_NUDT1	6	6	0	-	0	-	None
63f384be-326e-11e6-b306-b5204b47a305	2_158823263_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	158823263	CT	C	360	PASS	UPP2	Del	intronic	1	8	MSH6	child	2_158823263_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
63f58fb6-329b-11e6-9048-b49fcc638e3d	17_67088098_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	67088098	TA	T	420	PASS	ABCA6	Del	intronic	1	9	MSH6	child	17_67088098_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
63fd253e-3271-11e6-ae57-cc5566a58581	18_54731342_AGAGA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	18	54731342	AGAG	A	420	PASS	LINC-ROR	Del	intronic	3	2	FANCC	child	18_54731342_AGAGA_FANCC	3	3	3	GAG	1	GAG	Repeat-mediated
640b1516-328c-11e6-84e9-d36dfd44d094	2_118374_GAG	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	2	118374	GA	G	420	PASS	-	Del	-	1	9	POLM	child	2_118374_GAG_POLM	1	1	1	A	8	A	Repeat-mediated
640e90a6-32a0-11e6-94ca-0aaecc638e3d	X_30733926_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	30733926	C	CT	480	PASS	GK	Ins	intronic	1	5	MSH6	child	X_30733926_CCT_MSH6	1	1	-	-	-	-	Ins
640f69ca-3270-11e6-b306-b5204b47a305	2_71596779_AAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	71596779	A	AT	420	PASS	ZNF638	Ins	intronic	1	8	MSH6	child	2_71596779_AAT_MSH6	1	1	-	-	-	-	Ins
64134b58-328e-11e6-919e-92c36f39e758	2_195717727_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	195717727	CT	C	440	PASS	-	Del	-	1	8	MSH6	child	2_195717727_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
641c1780-326e-11e6-b306-b5204b47a305	2_158845341_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	158845341	GA	G	360	PASS	UPP2	Del	intronic	1	7	MSH6	child	2_158845341_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
642542e0-328e-11e6-bfa2-581f0e01a414	7_101393615_AAACA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	101393615	AAAC	A	720	PASS	-	Del	-	3	3	MSH6	child	7_101393615_AAACA_MSH6	3	3	3	AAC	2	AAC	Repeat-mediated
6425efe2-3270-11e6-b923-6726694da5d2	5_62727848_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	62727848	CA	C	360	PASS	-	Del	-	1	7	MSH6	child	5_62727848_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
642af51c-326d-11e6-bc62-6d4742c4520d	16_58903684_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	58903684	AT	A	420	PASS	RP11-410D17.2	Del	intronic	1	9	MSH6	child	16_58903684_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
642b5182-3296-11e6-b38a-97f8d8b4fa2c	4_141432867_CAC	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	4	141432867	CA	C	360	PASS	-	Del	-	1	8	NUDT1	child	4_141432867_CAC_NUDT1	1	1	1	A	7	A	Repeat-mediated
642d25ec-328d-11e6-b6a6-1f1e0e01a414	4_56840728_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	56840728	CT	C	300	PASS	CEP135	Del	intronic	1	8	MSH6	child	4_56840728_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
64396d1c-3287-11e6-a5b3-3f1ebce6aa09	7_88545369_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	88545369	TA	T	300	PASS	ZNF804B	Del	intronic	1	8	MSH6	child	7_88545369_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
643f800c-3283-11e6-8500-13197e6a9fc7	1_14734911_CCAGACT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	1	14734911	CCAGA	CT	360	PASS	-	Complex	-	4	0	POLB	child	1_14734911_CCAGACT_POLB	3	3	-	-	-	-	Complex
6440bb52-3274-11e6-9e18-3a69671699ea	10_135458786_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	135458786	CT	C	458	PASS	-	Del	-	1	5	MSH6	child	10_135458786_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
644e014e-3293-11e6-b81f-4ee66f39e758	8_113753941_GGC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	113753941	G	GC	420	PASS	CSMD3	Ins	intronic	1	7	MSH6	child	8_113753941_GGC_MSH6	1	1	-	-	-	-	Ins
646d3752-3294-11e6-9401-04ed6f39e758	3_111747288_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	111747288	A	AT	660	PASS	-	Ins	-	1	3	MSH6	child	3_111747288_AAT_MSH6	1	1	-	-	-	-	Ins
646f0e2c-3273-11e6-abaf-4642cab49462	6_124923455_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	124923455	AT	A	300	PASS	NKAIN2	Del	intronic	1	6	MSH6	child	6_124923455_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
647145fa-3284-11e6-9daa-026ea2c71c31	14_22059262_TCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	22059262	TC	T	360	PASS	-	Del	-	1	1	MSH6	child	14_22059262_TCT_MSH6	1	1	0	-	0	C	None
6475223a-3273-11e6-8f33-a6d9cde16804	11_91210973_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	91210973	CA	C	360	PASS	-	Del	-	1	9	MSH6	child	11_91210973_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
647775fa-328a-11e6-9340-3a91e7d0bdd7	12_2674695_TTTGGTGTTGGGGCT	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	12	2674695	TTTGGTGTTGGGGC	T	452	PASS	CACNA1C	Del	intronic	13	1	POLM	child	12_2674695_TTTGGTGTTGGGGCT_POLM	13	>=10	3	TTG	0	-	Microhomology-mediated
647ed1d8-3271-11e6-bfba-13bf4a47a305	9_136684718_TTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	136684718	T	TG	300	PASS	VAV2	Ins	intronic	1	6	MSH6	child	9_136684718_TTG_MSH6	1	1	-	-	-	-	Ins
6482e1aa-3272-11e6-abaf-4642cab49462	6_52454901_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	52454901	AT	A	300	PASS	-	Del	-	1	1	MSH6	child	6_52454901_ATA_MSH6	1	1	0	-	0	T	None
6489eb00-329d-11e6-bc2c-2a5e25c9da85	4_32141836_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	32141836	TA	T	600	PASS	RP11-734I18.1	Del	intronic	1	5	MSH6	child	4_32141836_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
64909776-3288-11e6-a21c-b819bce6aa09	X_38414376_CCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	38414376	C	CT	660	PASS	-	Ins	-	1	5	MSH6	child	X_38414376_CCT_MSH6	1	1	-	-	-	-	Ins
64952e36-3273-11e6-83ef-69fb06e9a829	18_69189483_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	69189483	TA	T	300	PASS	RP11-510D19.1	Del	nc_variant	1	6	MSH6	child	18_69189483_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
649ef896-3271-11e6-949c-85d3ed3c4f5d	19_14369602_CTC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	19	14369602	CT	C	480	PASS	CTD-2189E23.1	Del	intronic	1	7	MSH6	parent	19_14369602_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
64b35b56-3285-11e6-be43-0a6ea2c71c31	10_85681586_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	85681586	TA	T	480	PASS	-	Del	-	1	6	MSH6	child	10_85681586_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
64b6c9dc-326f-11e6-bfba-13bf4a47a305	9_99764195_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	99764195	GA	G	305	PASS	HIATL2	Del	intronic	1	9	MSH6	child	9_99764195_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
64c7e58e-3281-11e6-9e54-079882d12d16	12_99807373_ACTA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	12	99807373	ACT	A	300	PASS	ANKS1B	Del	intronic	2	2	FANCC	child	12_99807373_ACTA_FANCC	2	2	2	CT	1	CT	Repeat-mediated
64d040b4-329d-11e6-aca6-b39fcc638e3d	2_231368878_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	231368878	GA	G	540	PASS	SP100	Del	intronic	1	9	MSH6	child	2_231368878_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
64defd76-329c-11e6-a0ea-135325c9da85	15_98840261_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	98840261	CA	C	587	PASS	CTD-2544M6.1	Del	upstream	1	9	MSH6	child	15_98840261_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
64e37d38-3274-11e6-a5d0-4fd14a47a305	2_175938779_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	175938779	TA	T	660	PASS	ATF2	Del	3prime_UTR_variant	1	8	MSH6	child	2_175938779_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
64ead42a-3279-11e6-a391-f6d67d6a9fc7	6_132947745_ACA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	132947745	AC	A	660	PASS	TAAR2	Del	upstream	1	7	MSH6	child	6_132947745_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
64ec3fba-327c-11e6-be58-48be4dc77248	14_46697237_TACAAT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	14	46697237	TACAA	T	360	PASS	LINC00871	Del	intronic	4	2	NUDT1	child	14_46697237_TACAAT_NUDT1	4	4	4	ACAA	1	ACAA	Repeat-mediated
64f19fe8-3289-11e6-b689-aeb3cc638e3d	17_16255933_CAC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	17	16255933	CA	C	780	PASS	CENPV	Del	intronic	1	9	NUDT1	child	17_16255933_CAC_NUDT1	1	1	1	A	8	A	Repeat-mediated
6500fd92-3290-11e6-850b-ec0b9c6d3b88	4_85646916_ATA	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	4	85646916	AT	A	300	PASS	WDFY3	Del	intronic	1	8	POLB	child	4_85646916_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
650508b0-3290-11e6-92cf-bf2a0e01a414	6_103794263_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	103794263	GT	G	300	PASS	-	Del	-	1	9	MSH6	child	6_103794263_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
6507a8c6-3278-11e6-a391-f6d67d6a9fc7	6_56333732_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	56333732	TA	T	600	PASS	DST	Del	intronic	1	9	MSH6	child	6_56333732_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
6511a498-3273-11e6-98e1-30573cfdbd24	9_20127931_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	9	20127931	AT	A	660	PASS	-	Del	-	1	9	MSH6	parent	9_20127931_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
651a1a98-3281-11e6-9f9b-29bd9b6d3b88	11_68353582_ATA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	11	68353582	AT	A	420	PASS	PPP6R3	Del	intronic	1	9	EXO1	child	11_68353582_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
651cabec-3285-11e6-99f7-076ea2c71c31	12_87568386_ACA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	87568386	AC	A	300	PASS	-	Del	-	1	2	MSH6	child	12_87568386_ACA_MSH6	1	1	1	C	1	C	Repeat-mediated
651cee48-328c-11e6-919e-92c36f39e758	2_58924285_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	58924285	AT	A	420	PASS	LINC01122	Del	intronic	1	6	MSH6	child	2_58924285_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
6524451c-3273-11e6-81c8-19f506e9a829	2_180613797_CTC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	2	180613797	CT	C	480	PASS	ZNF385B	Del	intronic	1	8	FANCC	child	2_180613797_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
6524cc6c-3273-11e6-aa3b-ca60a178171f	13_87139579_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	87139579	GA	G	420	PASS	-	Del	-	1	8	MSH6	child	13_87139579_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
6536e5fa-328c-11e6-b805-77090e01a414	2_207464619_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	207464619	AT	A	300	PASS	ADAM23	Del	intronic	1	5	MSH6	child	2_207464619_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
65375398-3276-11e6-8fe4-214938e8a824	20_49053755_TAT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	20	49053755	TA	T	720	PASS	-	Del	-	1	6	POLM	child	20_49053755_TAT_POLM	1	1	1	A	5	A	Repeat-mediated
653a3b92-3278-11e6-a6f2-281f630e6611	8_55550178_CTC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	8	55550178	CT	C	780	PASS	-	Del	-	1	9	CHK2	child	8_55550178_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
653bb594-3296-11e6-9baf-ebf997ba1142	14_21631963_TAT	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	14	21631963	TA	T	720	PASS	-	Del	-	1	9	CHK2	child	14_21631963_TAT_CHK2	1	1	1	A	8	A	Repeat-mediated
653d1268-3273-11e6-972e-caab7d6a9fc7	15_84514387_TAT	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	15	84514387	TA	T	360	PASS	ADAMTSL3	Del	intronic	1	9	NEIL1	child	15_84514387_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
6544f050-3255-11e6-809b-7a832aaffa45	16_79907201_CAC	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	16	79907201	CA	C	360	PASS	-	Del	-	1	9	POLM	child	16_79907201_CAC_POLM	1	1	1	A	8	A	Repeat-mediated
655e8350-3285-11e6-821e-69f1bbe6aa09	16_88293571_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	88293571	CT	C	480	PASS	LA16c-444G7.1	Del	intronic	1	9	MSH6	child	16_88293571_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
655eea60-3272-11e6-9a4f-14b6dcd214c4	4_123450680_TACT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	4	123450680	TAC	T	600	PASS	-	Del	-	2	6	POLM	child	4_123450680_TACT_POLM	2	2	2	AC	5	AC	Repeat-mediated
655f2c82-3286-11e6-8064-0e1e987b3f23	6_17253002_CAAC	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	6	17253002	CAA	C	480	PASS	-	Del	-	2	6	NEIL1	parent	6_17253002_CAAC_NEIL1	2	2	2	AA	4	A	Repeat-mediated
6560f28e-328f-11e6-9432-c0e56f39e758	5_54314182_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	54314182	CA	C	675	PASS	ESM1	Del	intronic	1	8	MSH6	child	5_54314182_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
656815f4-3321-11e6-aa01-c73272d7bc54	12_68819515_ATA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	12	68819515	AT	A	420	PASS	RP11-81H14.2	Del	intronic	1	9	EXO1	child	12_68819515_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
656a576a-3277-11e6-8c34-46e27872c165	5_143005567_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	143005567	AG	A	300	PASS	-	Del	-	1	2	MSH6	child	5_143005567_AGA_MSH6	1	1	1	G	1	G	Repeat-mediated
656f0682-326f-11e6-acc7-e55219a91649	1_242938965_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	242938965	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	1_242938965_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
6571d88e-328e-11e6-b6a6-1f1e0e01a414	4_122391736_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	122391736	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	4_122391736_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
65821f08-3272-11e6-aa3b-ca60a178171f	13_22025974_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	22025974	CA	C	300	PASS	ZDHHC20	Del	intronic	1	9	MSH6	child	13_22025974_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
658a5914-3292-11e6-abf5-7bdad8b4fa2c	17_68404003_GTG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	17	68404003	GT	G	300	PASS	-	Del	-	1	5	NUDT1	child	17_68404003_GTG_NUDT1	1	1	1	T	4	T	Repeat-mediated
6590736c-3274-11e6-bb68-f04e3cfdbd24	1_180023021_TGAAT	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	1	180023021	TGAA	T	300	PASS	CEP350	Del	inframe	3	1	NUDT1	child	1_180023021_TGAAT_NUDT1	3	3	1	G	0	-	Microhomology-mediated
659349e6-3294-11e6-98e0-70dad8b4fa2c	2_223375811_ATA	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	2	223375811	AT	A	300	PASS	SGPP2	Del	intronic	1	6	NUDT1	child	2_223375811_ATA_NUDT1	1	1	1	T	5	T	Repeat-mediated
65952f28-328e-11e6-bb1e-70e16f39e758	X_51732131_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	51732131	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	X_51732131_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
659ee890-3254-11e6-bf41-357a7872c165	10_61635732_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	61635732	CA	C	420	PASS	CCDC6	Del	intronic	1	8	MSH6	child	10_61635732_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
65a87bc4-3292-11e6-b77d-2eef6f39e758	6_131003581_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	131003581	CA	C	600	PASS	-	Del	-	1	8	MSH6	child	6_131003581_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
65ad21f4-329e-11e6-8c2e-3f6625c9da85	22_28767132_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	22	28767132	GT	G	300	PASS	TTC28	Del	intronic	1	7	MSH6	child	22_28767132_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
65b2ddfa-3272-11e6-a862-bc9becf1e924	1_8880860_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	8880860	AT	A	840	PASS	RERE	Del	upstream	1	9	MSH6	child	1_8880860_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
65b3187c-329c-11e6-a5cf-e5abcc638e3d	9_11552867_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	11552867	GA	G	480	PASS	-	Del	-	1	5	MSH6	child	9_11552867_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
65b65838-3284-11e6-8ebc-68f1bbe6aa09	18_4919823_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	4919823	GT	G	600	PASS	RP11-172F10.1	Del	intronic	1	5	MSH6	child	18_4919823_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
65b7ff60-328b-11e6-b805-77090e01a414	2_142509430_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	142509430	AT	A	360	PASS	LRP1B	Del	intronic	1	9	MSH6	child	2_142509430_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
65c32b7a-3325-11e6-80f2-a91d98ba1142	21_21327505_ATA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	21	21327505	AT	A	360	PASS	-	Del	-	1	7	EXO1	child	21_21327505_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
65c554a8-326d-11e6-b306-b5204b47a305	2_66874834_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	66874834	CT	C	286	PASS	AC007392.3	Del	intronic	1	8	MSH6	child	2_66874834_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
65c65e78-3292-11e6-b77d-2eef6f39e758	6_131064397_AAAGTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	131064397	AAAGT	A	360	PASS	-	Del	-	4	1	MSH6	child	6_131064397_AAAGTA_MSH6	4	4	3	AAG	0	-	Microhomology-mediated
65cecf90-328d-11e6-bd1b-5fcc977b3f23	11_132000433_CCTTTC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	11	132000433	CCTTT	C	660	PASS	NTM	Del	intronic	4	2	NEIL1	child	11_132000433_CCTTTC_NEIL1	4	4	4	CTTT	1	CTTT	Repeat-mediated
65d01b56-3270-11e6-acc7-e55219a91649	1_70640466_GGAATT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	70640466	G	GAATT	600	PASS	LRRC40	Ins	intronic	4	0	MSH6	child	1_70640466_GGAATT_MSH6	4	4	-	-	-	-	Ins
65f331c4-3291-11e6-b8ba-0ad9191589db	8_131916534_CCT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	8	131916534	C	CT	300	PASS	ADCY8	Ins	intronic	1	0	FANCC	child	8_131916534_CCT_FANCC	1	1	-	-	-	-	Ins
65fc023e-3284-11e6-9daa-026ea2c71c31	14_22503079_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	22503079	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	14_22503079_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
65fc427a-328a-11e6-b805-77090e01a414	2_73585842_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	73585842	CT	C	600	PASS	-	Del	-	1	7	MSH6	child	2_73585842_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
65fde8e0-3272-11e6-aa3b-ca60a178171f	13_22072231_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	22072231	GA	G	420	PASS	MICU2	Del	intronic	1	9	MSH6	child	13_22072231_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
66022896-3273-11e6-b332-88ba7d6a9fc7	15_64822233_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	64822233	GT	G	420	PASS	ZNF609	Del	intronic	1	9	MSH6	child	15_64822233_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
66048fe0-329c-11e6-b723-b29fcc638e3d	19_39348534_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	39348534	C	CA	420	PASS	-	Ins	-	1	8	MSH6	child	19_39348534_CCA_MSH6	1	1	-	-	-	-	Ins
66088b30-3329-11e6-8b1e-ddf006e9a829	20_22468247_GGT	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	20	22468247	G	GT	360	PASS	-	Ins	-	1	6	POLE	child	20_22468247_GGT_POLE	1	1	-	-	-	-	Ins
660e88ee-3290-11e6-bec1-ca1d0e01a414	X_99916162_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	99916162	G	GT	360	PASS	SRPX2	Ins	intronic	1	7	MSH6	child	X_99916162_GGT_MSH6	1	1	-	-	-	-	Ins
6612da18-329d-11e6-aca6-b39fcc638e3d	2_231689135_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	231689135	TA	T	540	PASS	CAB39	Del	downstream	1	9	MSH6	child	2_231689135_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
6614999a-3322-11e6-b981-016519a91649	2_185879566_TAAT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	2	185879566	TAA	T	300	PASS	-	Del	-	2	7	CHK2	child	2_185879566_TAAT_CHK2	2	2	2	AA	5	A	Repeat-mediated
661cf9fa-328c-11e6-8490-d04c1087d53a	2_2121676_ATA	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	2	2121676	AT	A	360	PASS	MYT1L	Del	intronic	1	7	POLE	child	2_2121676_ATA_POLE	1	1	1	T	6	T	Repeat-mediated
66243168-328a-11e6-9892-02ba5d753391	5_14123733_GTG	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	5	14123733	GT	G	420	PASS	-	Del	-	1	4	POLE	child	5_14123733_GTG_POLE	1	1	1	T	3	T	Repeat-mediated
662563c6-3294-11e6-83fc-8f4c0d016689	4_108211133_TCT	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	4	108211133	TC	T	300	PASS	RP11-713M6.2	Del	intronic	1	1	NUDT1	child	4_108211133_TCT_NUDT1	1	1	0	-	0	C	None
6629d414-329a-11e6-8d0f-075325c9da85	14_51592601_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	51592601	AT	A	528	PASS	-	Del	-	1	8	MSH6	child	14_51592601_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
662eeb86-3275-11e6-8e2a-7f03630e6611	X_146269126_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	X	146269126	AT	A	420	PASS	MIR513C	Del	downstream	1	9	FANCC	child	X_146269126_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
662f66f4-329f-11e6-a04f-c66a25c9da85	6_12882708_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	12882708	CA	C	720	PASS	PHACTR1	Del	intronic	1	8	MSH6	child	6_12882708_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
664167be-3290-11e6-9432-c0e56f39e758	5_128202981_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	128202981	CT	C	420	PASS	-	Del	-	1	5	MSH6	child	5_128202981_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
6643b824-3287-11e6-b3c1-495b51c54cdd	8_24013615_TAT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	8	24013615	TA	T	420	PASS	-	Del	-	1	5	EXO1	child	8_24013615_TAT_EXO1	1	1	1	A	4	A	Repeat-mediated
66447154-328e-11e6-bec1-ca1d0e01a414	X_92327926_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	92327926	CT	C	550	PASS	-	Del	-	1	9	MSH6	child	X_92327926_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
664482ce-326c-11e6-92dd-fda8977b3f23	10_5527458_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	5527458	GA	G	420	PASS	-	Del	-	1	7	MSH6	child	10_5527458_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
6647e710-3259-11e6-8340-da9012ae24cf	6_56922581_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	56922581	GT	G	360	PASS	KIAA1586	Del	downstream	1	7	MSH6	child	6_56922581_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
664e67fe-3257-11e6-885f-d1947872c165	4_87395538_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	87395538	TA	T	540	PASS	MAPK10	Del	intronic	1	8	MSH6	child	4_87395538_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
6656d036-3290-11e6-a24a-86b34430f757	5_95125255_GAG	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	5	95125255	GA	G	900	PASS	RHOBTB3	Del	intronic	1	4	POLE	child	5_95125255_GAG_POLE	1	1	1	A	3	A	Repeat-mediated
666fe1dc-3292-11e6-919e-92c36f39e758	2_224501241_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	224501241	T	TA	360	PASS	-	Ins	-	1	8	MSH6	child	2_224501241_TTA_MSH6	1	1	-	-	-	-	Ins
667ef028-328d-11e6-8dad-8fe0191589db	21_23314255_ATA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	21	23314255	AT	A	300	PASS	AP000472.3	Del	intronic	1	8	FANCC	child	21_23314255_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
668276a0-329f-11e6-91d0-016425c9da85	7_112895580_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	112895580	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	7_112895580_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
66863e8e-3277-11e6-83cd-a472a178171f	4_168374496_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	168374496	GT	G	780	PASS	-	Del	-	1	7	MSH6	child	4_168374496_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
66871d9a-3290-11e6-9432-c0e56f39e758	5_128296228_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	128296228	CT	C	476	PASS	SLC27A6	Del	upstream	1	8	MSH6	child	5_128296228_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
668b30a8-3275-11e6-998e-ba48fa52e078	8_27273606_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	27273606	TA	T	480	PASS	PTK2B	Del	intronic	1	9	MSH6	child	8_27273606_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
6695c770-3284-11e6-a8af-066ea2c71c31	15_21900053_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	21900053	GA	G	440	PASS	-	Del	-	1	6	MSH6	child	15_21900053_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
669aed10-328c-11e6-8eee-76090e01a414	10_70284885_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	70284885	G	GT	480	PASS	SLC25A16	Ins	intronic	1	7	MSH6	child	10_70284885_GGT_MSH6	1	1	-	-	-	-	Ins
669e8784-3284-11e6-becf-9aabf4b7c17d	20_41747886_TATCT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	20	41747886	TATC	T	480	PASS	PTPRT	Del	intronic	3	2	FANCC	child	20_41747886_TATCT_FANCC	3	3	3	ATC	1	ATC	Repeat-mediated
66a0563e-3281-11e6-b263-76d64dc77248	8_23335969_AAT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	8	23335969	A	AT	600	PASS	CTC-756D1.2	Ins	intronic	1	6	NUDT1	child	8_23335969_AAT_NUDT1	1	1	-	-	-	-	Ins
66a1803e-328d-11e6-ae46-59cc977b3f23	12_130678538_ACA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	12	130678538	AC	A	780	PASS	-	Del	-	1	2	NEIL1	child	12_130678538_ACA_NEIL1	1	1	1	C	1	C	Repeat-mediated
66a246d2-3287-11e6-a21c-b819bce6aa09	X_75657686_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	75657686	AT	A	480	PASS	-	Del	-	1	7	MSH6	child	X_75657686_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
66b856ee-329f-11e6-bc2c-2a5e25c9da85	4_160473805_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	160473805	CT	C	780	PASS	-	Del	-	1	7	MSH6	child	4_160473805_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
66ce9f56-3292-11e6-9d24-ade56f39e758	7_88073301_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	88073301	G	GT	309	PASS	-	Ins	-	1	7	MSH6	child	7_88073301_GGT_MSH6	1	1	-	-	-	-	Ins
66cfe77e-3285-11e6-9a94-1d822aaffa45	6_39119288_TCT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	6	39119288	TC	T	420	PASS	-	Del	-	1	1	POLE	child	6_39119288_TCT_POLE	1	1	0	-	0	C	None
66d81430-328a-11e6-8eee-76090e01a414	10_74674924_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	74674924	CT	C	480	PASS	OIT3	Del	intronic	1	9	MSH6	child	10_74674924_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
66e5c3d0-3255-11e6-89d3-d29498816cf3	2_202450350_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	202450350	CA	C	480	PASS	ALS2CR11	Del	intronic	1	8	MSH6	child	2_202450350_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
66f6c9f0-3255-11e6-b4d0-327a7872c165	11_126170241_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	126170241	CT	C	600	PASS	DCPS	Del	upstream	1	9	MSH6	child	11_126170241_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
66f6d6d6-328a-11e6-a32d-75090e01a414	14_89306336_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	89306336	TA	T	480	PASS	TTC8	Del	intronic	1	7	MSH6	child	14_89306336_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
66f8f608-3282-11e6-aae3-0112f221c733	X_28039670_CTC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	X	28039670	CT	C	300	PASS	-	Del	-	1	9	FANCC	child	X_28039670_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
66fa56b8-3284-11e6-9a5a-824d8e4678dd	21_46504555_GTAATTCAGTAGTAGTG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	21	46504555	GTAATTCAGTAGTAGT	G	360	PASS	ADARB1	Del	intronic	15	1	FANCC	child	21_46504555_GTAATTCAGTAGTAGTG_FANCC	15	>=10	4	TAAT	0	-	Microhomology-mediated
66fb59c6-3272-11e6-a5d0-4fd14a47a305	2_580570_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	580570	TA	T	540	PASS	AC093326.3	Del	downstream	1	7	MSH6	child	2_580570_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
66fe0914-3277-11e6-8d20-7365cde16804	5_139779250_GGT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	5	139779250	G	GT	600	PASS	ANKHD1	Ins	upstream	1	9	MSH6	parent	5_139779250_GGT_MSH6	1	1	-	-	-	-	Ins
67022e3a-329b-11e6-9048-b49fcc638e3d	17_67629258_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	67629258	GA	G	486	PASS	AC003051.1	Del	downstream	1	7	MSH6	child	17_67629258_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
67061bbc-3282-11e6-9a85-856e0cfb5812	7_85483981_ATA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	7	85483981	AT	A	480	PASS	-	Del	-	1	6	POLM	child	7_85483981_ATA_POLM	1	1	1	T	5	T	Repeat-mediated
6708ee8e-3325-11e6-8c6b-3c0f42c4520d	4_171552061_AGA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	4	171552061	AG	A	360	PASS	-	Del	-	1	1	EXO1	child	4_171552061_AGA_EXO1	1	1	0	-	0	G	None
67099b94-3326-11e6-8b24-4ab97d6a9fc7	4_131328414_TGT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	4	131328414	TG	T	600	PASS	-	Del	-	1	3	EXO1	child	4_131328414_TGT_EXO1	1	1	1	G	2	G	Repeat-mediated
671bd314-3285-11e6-821e-69f1bbe6aa09	16_88931925_TGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	88931925	TG	T	660	PASS	TRAPPC2L	Del	downstream	1	4	MSH6	child	16_88931925_TGT_MSH6	1	1	1	G	3	G	Repeat-mediated
67243906-3275-11e6-9e18-3a69671699ea	10_68595746_GGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	68595746	G	GA	660	PASS	CTNNA3	Ins	intronic	1	9	MSH6	child	10_68595746_GGA_MSH6	1	1	-	-	-	-	Ins
67281bac-3324-11e6-a56f-7e1a2eaed38e	21_41187468_ATTTA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	21	41187468	ATTT	A	420	PASS	-	Del	-	3	5	EXO1	child	21_41187468_ATTTA_EXO1	3	3	2	TT	0	-	Microhomology-mediated
67289264-3273-11e6-9ac5-e82e84482639	11_5510917_TAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	11	5510917	TA	T	420	PASS	OR52D1	Del	3prime_UTR_variant	1	8	EXO1	child	11_5510917_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
673329fe-3291-11e6-9ea6-6ee2977b3f23	8_123375821_ATA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	8	123375821	AT	A	720	PASS	-	Del	-	1	9	NEIL1	child	8_123375821_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
67365476-3273-11e6-9e18-3a69671699ea	10_71017054_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	71017054	GT	G	720	PASS	HKDC1	Del	intronic	1	8	MSH6	child	10_71017054_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
673b390a-329b-11e6-a0ea-135325c9da85	15_73577281_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	73577281	AT	A	660	PASS	NEO1	Del	intronic	1	9	MSH6	child	15_73577281_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
67409230-329e-11e6-bc2c-2a5e25c9da85	4_96607424_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	96607424	TA	T	600	PASS	-	Del	-	1	9	MSH6	child	4_96607424_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
67421264-328e-11e6-aa75-90c36f39e758	13_101683284_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	101683284	A	AT	360	PASS	-	Ins	-	1	7	MSH6	child	13_101683284_AAT_MSH6	1	1	-	-	-	-	Ins
6743762c-3270-11e6-a539-0e5542c4520d	7_101393615_AAACA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	101393615	AAAC	A	360	PASS	-	Del	-	3	3	MSH6	child	7_101393615_AAACA_MSH6	3	3	3	AAC	2	AAC	Repeat-mediated
67467048-329d-11e6-94ca-0aaecc638e3d	X_41057721_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	41057721	CT	C	960	PASS	USP9X	Del	intronic	1	9	MSH6	child	X_41057721_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
67634f50-3285-11e6-9955-19979cdf095d	8_56420242_ATA	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	8	56420242	AT	A	540	PASS	XKR4	Del	intronic	1	6	POLE	child	8_56420242_ATA_POLE	1	1	1	T	5	T	Repeat-mediated
67635fe6-329d-11e6-aca6-b39fcc638e3d	2_232070913_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	232070913	AT	A	780	PASS	ARMC9	Del	5prime_UTR_variant	1	5	MSH6	child	2_232070913_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
67655e56-326e-11e6-afba-5998cab49462	19_58771809_AAT	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	19	58771809	A	AT	480	PASS	ZNF544	Ins	intronic	1	9	POLM	parent	19_58771809_AAT_POLM	1	1	-	-	-	-	Ins
67659090-3270-11e6-b923-6726694da5d2	5_64103617_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	64103617	GT	G	300	PASS	CWC27	Del	intronic	1	7	MSH6	child	5_64103617_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
676e98c0-3284-11e6-8b67-086ea2c71c31	1_7345623_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	7345623	CT	C	360	PASS	CAMTA1	Del	intronic	1	7	MSH6	child	1_7345623_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
676f6480-3275-11e6-998e-ba48fa52e078	8_27645564_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	27645564	GA	G	780	PASS	ESCO2	Del	intronic	1	4	MSH6	child	8_27645564_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
677cf99a-3290-11e6-b3a9-d5afe7d0bdd7	4_36178660_CAC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	4	36178660	CA	C	360	PASS	ARAP2	Del	intronic	1	9	FANCC	child	4_36178660_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
6783136e-328d-11e6-8770-3e160e01a414	9_127691007_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	127691007	CA	C	300	PASS	GOLGA1	Del	intronic	1	8	MSH6	child	9_127691007_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
67a0e42e-3289-11e6-b9eb-c78fa2c71c31	6_155783306_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	155783306	AT	A	420	PASS	-	Del	-	1	8	MSH6	child	6_155783306_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
67a5dccc-3275-11e6-8e2a-7f03630e6611	X_146787014_TAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	X	146787014	TA	T	600	PASS	-	Del	-	1	8	FANCC	child	X_146787014_TAT_FANCC	1	1	1	A	7	A	Repeat-mediated
67b1e512-329d-11e6-94ca-0aaecc638e3d	X_41110694_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	41110694	TA	T	1020	PASS	-	Del	-	1	8	MSH6	child	X_41110694_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
67b4c0f0-3272-11e6-975f-8246cab49462	16_3357692_TTCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	3357692	TTC	T	420	PASS	TIGD7	Del	upstream	2	1	MSH6	child	16_3357692_TTCT_MSH6	2	2	1	T	0	-	Microhomology-mediated
67b6e4d6-3284-11e6-90e0-6a2c36fc2f7d	X_136708271_ATA	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	X	136708271	AT	A	300	PASS	-	Del	-	1	9	NUDT1	child	X_136708271_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
67b75270-329f-11e6-91d0-016425c9da85	7_113388350_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	113388350	CT	C	413	PASS	-	Del	-	1	4	MSH6	child	7_113388350_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
67bb8ab0-328c-11e6-8d77-b5d8191589db	7_29270770_GAG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	7	29270770	GA	G	300	PASS	CHN2	Del	intronic	1	5	FANCC	child	7_29270770_GAG_FANCC	1	1	1	A	4	A	Repeat-mediated
67c399c4-3284-11e6-8ebc-68f1bbe6aa09	18_6046135_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	6046135	TA	T	600	PASS	L3MBTL4	Del	intronic	1	9	MSH6	child	18_6046135_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
67d0f04c-3270-11e6-8418-1c5942c4520d	3_44756053_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	44756053	TA	T	300	PASS	ZNF502	Del	intronic	1	8	MSH6	child	3_44756053_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
67e638b8-3283-11e6-89eb-f2eacdacbbbf	4_92740702_CTC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	4	92740702	CT	C	600	PASS	-	Del	-	1	9	EXO1	child	4_92740702_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
67e76978-328c-11e6-8083-5acc977b3f23	16_56772513_ATA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	16	56772513	AT	A	480	PASS	NUP93	Del	intronic	1	9	NEIL1	child	16_56772513_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
67ea9dfe-329c-11e6-a5cf-e5abcc638e3d	9_12080570_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	12080570	AT	A	720	PASS	-	Del	-	1	9	MSH6	child	9_12080570_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
67ef912a-328c-11e6-ac7a-a3c36f39e758	18_59075438_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	59075438	GA	G	540	PASS	CDH20	Del	intronic	1	8	MSH6	child	18_59075438_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
67f37f1e-3288-11e6-9a8e-d2b1f6dffcf6	1_207450184_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	1	207450184	AT	A	720	PASS	RP11-6J21.2	Del	intronic	1	6	NUDT1	parent	1_207450184_ATA_NUDT1	1	1	1	T	5	T	Repeat-mediated
67f485f8-3328-11e6-9f5d-eba78a20d9eb	8_107484026_CTC	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	8	107484026	CT	C	540	PASS	OXR1	Del	intronic	1	8	EXO1	child	8_107484026_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
67f7290c-326f-11e6-a539-0e5542c4520d	7_26622594_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	26622594	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	7_26622594_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
680a76c2-3271-11e6-b5b8-e0c24a47a305	X_142132954_AGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	142132954	AG	A	300	PASS	-	Del	-	1	6	MSH6	child	X_142132954_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
680d9dfa-326e-11e6-acc7-e55219a91649	1_166652145_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	166652145	TA	T	360	PASS	-	Del	-	1	6	MSH6	child	1_166652145_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
680fdc3a-3284-11e6-9cd7-7b3e51c54cdd	18_34656992_CAC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	18	34656992	CA	C	401	PASS	KIAA1328	Del	intronic	1	6	EXO1	child	18_34656992_CAC_EXO1	1	1	1	A	5	A	Repeat-mediated
68124e6e-3259-11e6-8cd9-139b7872c165	3_147125612_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	147125612	AT	A	660	PASS	ZIC1	Del	upstream	1	9	MSH6	child	3_147125612_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
6817dfda-3274-11e6-9162-5cdb6de4ab00	11_86042102_GTG	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	11	86042102	GT	G	1020	PASS	C11orf73	Del	intronic	1	9	CHK2	child	11_86042102_GTG_CHK2	1	1	1	T	8	T	Repeat-mediated
68183846-328c-11e6-a2cb-f3ac12ae24cf	5_53143457_AAGA	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	5	53143457	AAG	A	420	PASS	-	Del	-	2	7	CHK2	child	5_53143457_AAGA_CHK2	2	2	2	AG	6	AG	Repeat-mediated
681e9d8c-328a-11e6-b805-77090e01a414	2_74111013_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	74111013	TA	T	720	PASS	-	Del	-	1	9	MSH6	child	2_74111013_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
681eae30-328a-11e6-a70a-47793adbad45	3_67154039_CAC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	3	67154039	CA	C	660	PASS	-	Del	-	1	8	NUDT1	parent	3_67154039_CAC_NUDT1	1	1	1	A	7	A	Repeat-mediated
682149b4-3272-11e6-bfb2-2749c225ee11	12_6336362_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	6336362	AT	A	360	PASS	CD9	Del	intronic	1	8	MSH6	child	12_6336362_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
68229530-3326-11e6-9eb4-dd99cf737e61	8_89039437_ACA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	8	89039437	AC	A	540	PASS	MMP16	Del	downstream	1	2	EXO1	child	8_89039437_ACA_EXO1	1	1	1	C	1	C	Repeat-mediated
682c40b4-328e-11e6-8e48-791e0e01a414	8_52377045_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	52377045	GA	G	540	PASS	PXDNL	Del	intronic	1	7	MSH6	child	8_52377045_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
682d3c06-3259-11e6-8cd9-139b7872c165	3_147160313_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	147160313	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	3_147160313_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
68476bfe-3271-11e6-b1f2-34f6620e6611	1_46743585_TTCT	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	1	46743585	TTC	T	900	PASS	RAD54L	Del	frameshift	2	3	CHK2	child	1_46743585_TTCT_CHK2	2	2	2	TC	2	TC	Repeat-mediated
685d1b50-334a-11e6-8a03-0d6be84777f6	21_36062225_CCAAAC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	21	36062225	CCAAA	C	360	PASS	CLIC6	Del	intronic	4	1	FANCC	child	21_36062225_CCAAAC_FANCC	4	4	2	CA	0	-	Microhomology-mediated
6860ded2-329d-11e6-b549-1e5325c9da85	10_78889456_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	78889456	G	GA	720	PASS	KCNMA1	Ins	intronic	1	7	MSH6	child	10_78889456_GGA_MSH6	1	1	-	-	-	-	Ins
68701530-3286-11e6-817a-6b15987b3f23	8_65990112_CTAC	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	8	65990112	CTA	C	420	PASS	-	Del	-	2	1	NEIL1	parent	8_65990112_CTAC_NEIL1	2	2	1	T	0	-	Microhomology-mediated
6872306c-3273-11e6-bea5-e783a20b69d5	13_65835558_GTG	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	13	65835558	GT	G	360	PASS	-	Del	-	1	3	EXO1	child	13_65835558_GTG_EXO1	1	1	1	T	2	T	Repeat-mediated
68786a4a-326e-11e6-b306-b5204b47a305	2_160243572_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	160243572	CT	C	480	PASS	BAZ2B	Del	intronic	1	7	MSH6	child	2_160243572_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
687e80ae-328e-11e6-bd84-429305ad5bc4	1_71128955_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	71128955	G	GT	600	PASS	-	Ins	-	1	7	MSH6	child	1_71128955_GGT_MSH6	1	1	-	-	-	-	Ins
687f0858-3347-11e6-aa8a-bd633cfdbd24	15_84328140_TGGTGCATAAGTATAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	15	84328140	TGGTGCATAAGTATA	T	300	PASS	ADAMTSL3	Del	intronic	14	1	FANCC	child	15_84328140_TGGTGCATAAGTATAT_FANCC	14	>=10	2	GG	0	-	Microhomology-mediated
688026f4-328c-11e6-8490-d04c1087d53a	2_3247919_TCAAAT	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	2	3247919	TCAAA	T	540	PASS	TSSC1	Del	intronic	4	1	POLE	child	2_3247919_TCAAAT_POLE	4	4	2	CA	0	-	Microhomology-mediated
688ff012-329f-11e6-aea7-956725c9da85	3_57402976_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	57402976	TA	T	720	PASS	DNAH12	Del	intronic	1	9	MSH6	child	3_57402976_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
68a44ad6-3285-11e6-b093-c9c7b0dab373	2_77552377_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	77552377	CA	C	480	PASS	LRRTM4	Del	intronic	1	8	MSH6	child	2_77552377_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
68af175e-3271-11e6-b923-6726694da5d2	5_140327255_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	140327255	TA	T	420	PASS	PCDHA9	Del	intronic	1	6	MSH6	child	5_140327255_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
68b17f76-3285-11e6-901a-b6959cdf095d	X_131558332_ATCTA	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	X	131558332	ATCT	A	840	PASS	MBNL3	Del	intronic	3	2	POLE	child	X_131558332_ATCTA_POLE	3	3	3	TCT	1	TCT	Repeat-mediated
68b57cca-328f-11e6-9d97-efe56f39e758	4_52805078_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	52805078	CT	C	673	PASS	-	Del	-	1	7	MSH6	child	4_52805078_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
68be5b14-3272-11e6-b8ae-92c57872c165	14_20743375_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	20743375	CA	C	480	PASS	-	Del	-	1	8	MSH6	child	14_20743375_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
68bebfae-32a0-11e6-aea7-956725c9da85	3_129616295_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	129616295	AT	A	660	PASS	TMCC1	Del	upstream	1	9	MSH6	child	3_129616295_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
68c61ea6-328d-11e6-ad89-6ebfcc638e3d	X_93323669_GCG	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	X	93323669	GC	G	480	PASS	-	Del	-	1	1	NUDT1	child	X_93323669_GCG_NUDT1	1	1	0	-	0	C	None
68cafe80-32a1-11e6-a04f-c66a25c9da85	6_138209135_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	138209135	CT	C	420	PASS	TNFAIP3	Del	downstream	1	8	MSH6	child	6_138209135_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
68d17afa-3272-11e6-81c8-19f506e9a829	2_110882861_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	2	110882861	AT	A	420	PASS	NPHP1	Del	intronic	1	9	FANCC	child	2_110882861_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
68d1d21a-3273-11e6-abaf-4642cab49462	6_126491052_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	126491052	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	6_126491052_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
68d2f336-3258-11e6-acc5-308412ae24cf	5_147550586_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	147550586	CT	C	480	PASS	SPINK14	Del	intronic	1	9	MSH6	child	5_147550586_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
68d8a7cc-328a-11e6-a284-4b89a2c71c31	4_164007349_AAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	164007349	A	AT	600	PASS	-	Ins	-	1	7	MSH6	child	4_164007349_AAT_MSH6	1	1	-	-	-	-	Ins
68dce212-325b-11e6-8cd9-139b7872c165	3_81557691_CCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	81557691	C	CT	540	PASS	GBE1	Ins	intronic	1	6	MSH6	child	3_81557691_CCT_MSH6	1	1	-	-	-	-	Ins
68e78d7c-3290-11e6-bd26-49b0e7d0bdd7	7_23058381_TAT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	7	23058381	TA	T	360	PASS	FAM126A	Del	upstream	1	6	FANCC	child	7_23058381_TAT_FANCC	1	1	1	A	5	A	Repeat-mediated
68eb6598-3284-11e6-b093-c9c7b0dab373	2_7963776_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	7963776	TA	T	360	PASS	-	Del	-	1	6	MSH6	child	2_7963776_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
68f6aaf8-3288-11e6-9317-6ba56f39e758	8_105501486_TAAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	8	105501486	TAA	T	300	PASS	LRP12	Del	3prime_UTR_variant	2	8	EXO1	child	8_105501486_TAAT_EXO1	2	2	2	AA	6	A	Repeat-mediated
68fe3774-3291-11e6-9d97-efe56f39e758	4_186040705_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	186040705	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	4_186040705_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
6905ff3c-3272-11e6-bbeb-70bd19a91649	20_32429535_TCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	20	32429535	TC	T	300	PASS	CHMP4B	Del	intronic	1	7	MSH6	child	20_32429535_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
690766d4-328a-11e6-b805-77090e01a414	2_74239993_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	74239993	GT	G	420	PASS	-	Del	-	1	9	MSH6	child	2_74239993_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
690c3d18-329d-11e6-bc2c-2a5e25c9da85	4_34683768_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	34683768	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	4_34683768_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
690f321e-3290-11e6-8d00-b1b0e7d0bdd7	5_18278947_CTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	5	18278947	CT	C	300	PASS	-	Del	-	1	9	FANCC	child	5_18278947_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
69136146-328f-11e6-bec1-ca1d0e01a414	X_6697808_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	6697808	C	CA	360	PASS	-	Ins	-	1	7	MSH6	child	X_6697808_CCA_MSH6	1	1	-	-	-	-	Ins
6918e46a-325b-11e6-8b28-55ad7872c165	20_54799604_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	54799604	CT	C	480	PASS	-	Del	-	1	7	MSH6	child	20_54799604_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
69206516-3277-11e6-bc24-bc6e3cfdbd24	6_85604571_CAC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	6	85604571	CA	C	300	PASS	-	Del	-	1	7	MSH6	parent	6_85604571_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
692604c0-3273-11e6-a862-bc9becf1e924	1_62257761_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	62257761	AT	A	1080	PASS	INADL	Del	intronic	1	8	MSH6	child	1_62257761_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
6929c016-3286-11e6-a21c-b819bce6aa09	X_22483716_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	22483716	CT	C	360	PASS	RP11-40F8.2	Del	intronic	1	4	MSH6	child	X_22483716_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
692da7e8-3345-11e6-ab14-b68f38e8a824	17_2520366_CAC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	17	2520366	CA	C	480	PASS	PAFAH1B1	Del	intronic	1	9	FANCC	child	17_2520366_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
69339eb4-328c-11e6-bd84-429305ad5bc4	1_114561061_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	114561061	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	1_114561061_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
693437ee-329f-11e6-b696-dd6225c9da85	5_151942873_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	151942873	AT	A	780	PASS	-	Del	-	1	5	MSH6	child	5_151942873_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
693590ca-32a0-11e6-a04f-c66a25c9da85	6_71412091_TTGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	71412091	TTG	T	420	PASS	SMAP1	Del	intronic	2	1	MSH6	child	6_71412091_TTGT_MSH6	2	2	0	-	0	-	None
6943567c-3284-11e6-99f7-076ea2c71c31	12_6409576_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	6409576	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	12_6409576_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
6948cbfc-329d-11e6-aca6-b39fcc638e3d	2_232402895_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	232402895	GT	G	317	PASS	-	Del	-	1	9	MSH6	child	2_232402895_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
695660ec-3292-11e6-ba4d-956e694da5d2	6_84273930_ATA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	6	84273930	AT	A	660	PASS	SNAP91	Del	intronic	1	9	POLM	child	6_84273930_ATA_POLM	1	1	1	T	8	T	Repeat-mediated
695fdfb4-326f-11e6-b5b8-e0c24a47a305	X_35988480_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	35988480	AT	A	480	PASS	CXorf22	Del	intronic	1	9	MSH6	child	X_35988480_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
696d75ba-3275-11e6-a71d-236235cec73b	X_7423811_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	7423811	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	X_7423811_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
69730770-328c-11e6-b4fe-93c36f39e758	12_54638512_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	54638512	CA	C	720	PASS	CBX5	Del	intronic	1	9	MSH6	child	12_54638512_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
6973b67a-3273-11e6-9b52-2fdc6de4ab00	12_3323380_CTC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	12	3323380	CT	C	540	PASS	TSPAN9	Del	intronic	1	6	EXO1	child	12_3323380_CTC_EXO1	1	1	1	T	5	T	Repeat-mediated
69804e34-329c-11e6-a5cf-e5abcc638e3d	9_12435617_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	12435617	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	9_12435617_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
698ba8e4-3277-11e6-8c34-46e27872c165	5_144679694_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	144679694	TA	T	540	PASS	-	Del	-	1	8	MSH6	child	5_144679694_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
69916fca-3288-11e6-a284-4b89a2c71c31	4_171679877_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	171679877	AT	A	780	PASS	-	Del	-	1	7	MSH6	child	4_171679877_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
69975f94-3291-11e6-bd26-49b0e7d0bdd7	7_105469900_AAAACA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	7	105469900	AAAAC	A	420	PASS	ATXN7L1	Del	intronic	4	3	FANCC	child	7_105469900_AAAACA_FANCC	4	4	4	AAAC	2	AAAC	Repeat-mediated
699f927c-328c-11e6-a0b5-40d57098ee92	3_3273969_CCTCTGGTCATAC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	3	3273969	CCTCTGGTCATA	C	600	PASS	-	Del	-	11	1	NUDT1	child	3_3273969_CCTCTGGTCATAC_NUDT1	11	>=10	3	CTC	0	-	Microhomology-mediated
69a0dee2-329c-11e6-aca6-b39fcc638e3d	2_172446355_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	172446355	TA	T	600	PASS	-	Del	-	1	9	MSH6	child	2_172446355_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
69ada550-3292-11e6-919e-92c36f39e758	2_225304435_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	225304435	A	AT	420	PASS	-	Ins	-	1	5	MSH6	child	2_225304435_AAT_MSH6	1	1	-	-	-	-	Ins
69b24ac4-326f-11e6-9fba-41ebd8b4fa2c	11_105744409_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	105744409	CT	C	480	PASS	GRIA4	Del	intronic	1	7	MSH6	child	11_105744409_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
69b35af0-3273-11e6-8c8f-1cd3ed3c4f5d	9_112173942_CCCT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	9	112173942	C	CCT	540	PASS	PTPN3	Ins	intronic	2	1	POLB	child	9_112173942_CCCT_POLB	2	2	-	-	-	-	Ins
69c5bb0a-326e-11e6-b306-b5204b47a305	2_160532261_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	160532261	CT	C	300	PASS	AC009961.3	Del	intronic	1	9	MSH6	child	2_160532261_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
69c7d14c-328c-11e6-bd84-429305ad5bc4	1_114946003_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	114946003	CT	C	420	PASS	TRIM33	Del	intronic	1	8	MSH6	child	1_114946003_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
69c84e4e-327b-11e6-a391-f6d67d6a9fc7	6_90456559_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	90456559	C	CA	540	PASS	MDN1	Ins	intronic	1	3	MSH6	child	6_90456559_CCA_MSH6	1	1	-	-	-	-	Ins
69c8c266-3285-11e6-b093-c9c7b0dab373	2_77980882_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	77980882	TA	T	540	PASS	-	Del	-	1	8	MSH6	child	2_77980882_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
69d1cb0a-328e-11e6-bfac-a2a9cdacbbbf	11_104708330_CTC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	11	104708330	CT	C	360	PASS	-	Del	-	1	7	POLB	child	11_104708330_CTC_POLB	1	1	1	T	6	T	Repeat-mediated
69d5ad46-328f-11e6-9d97-efe56f39e758	4_53060825_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	53060825	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	4_53060825_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
69d60566-328f-11e6-ae53-96c36f39e758	15_72664534_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	72664534	T	TA	360	PASS	HEXA	Ins	intronic	1	5	MSH6	child	15_72664534_TTA_MSH6	1	1	-	-	-	-	Ins
69d94656-3279-11e6-b554-cb0a0e01a414	16_35249875_CAC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	16	35249875	CA	C	845	PASS	-	Del	-	1	3	FANCC	parent	16_35249875_CAC_FANCC	1	1	1	A	2	A	Repeat-mediated
69d988dc-328d-11e6-88c1-95c36f39e758	14_35198293_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	35198293	A	AT	420	PASS	-	Ins	-	1	8	MSH6	child	14_35198293_AAT_MSH6	1	1	-	-	-	-	Ins
69da405a-3289-11e6-bf15-aeb06f39e758	6_74167821_TCT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	6	74167821	TC	T	300	PASS	MTO1	Del	upstream	1	3	EXO1	child	6_74167821_TCT_EXO1	1	1	1	C	2	C	Repeat-mediated
69dec7a4-329a-11e6-b549-1e5325c9da85	10_31256933_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	31256933	GA	G	660	PASS	ZNF438	Del	intronic	1	7	MSH6	child	10_31256933_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
69eb1f60-3289-11e6-a80b-87090e01a414	11_9853128_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	9853128	AT	A	600	PASS	SBF2	Del	intronic	1	8	MSH6	child	11_9853128_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
69eed854-329c-11e6-a0ea-135325c9da85	15_100028270_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	100028270	CA	C	360	PASS	MEF2A	Del	intronic	1	9	MSH6	child	15_100028270_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
6a02f430-3286-11e6-a21c-b819bce6aa09	X_23095966_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	23095966	CT	C	364	PASS	RP11-40F8.2	Del	intronic	1	7	MSH6	child	X_23095966_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
6a078006-3284-11e6-a1ac-fd6da2c71c31	13_24579678_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	24579678	GA	G	360	PASS	SPATA13	Del	intronic	1	5	MSH6	child	13_24579678_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
6a078618-3271-11e6-8fc7-e8702aaffa45	9_112172516_CAGTC	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	9	112172516	CAGT	C	480	PASS	PTPN3	Del	inframe	3	2	POLM	child	9_112172516_CAGTC_POLM	3	3	3	AGT	1	AGT	Repeat-mediated
6a084004-3284-11e6-b996-7c3e51c54cdd	14_47842304_GAG	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	14	47842304	GA	G	540	PASS	MDGA2	Del	intronic	1	2	EXO1	child	14_47842304_GAG_EXO1	1	1	1	A	1	A	Repeat-mediated
6a0c480c-3284-11e6-be43-0a6ea2c71c31	10_6297441_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	6297441	GT	G	720	PASS	-	Del	-	1	6	MSH6	child	10_6297441_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
6a0fb750-3287-11e6-a284-4b89a2c71c31	4_78932770_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	78932770	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	4_78932770_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
6a14136a-3276-11e6-9e25-e58e2aaffa45	4_91845621_TAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	4	91845621	TA	T	540	PASS	CCSER1	Del	intronic	1	6	EXO1	child	4_91845621_TAT_EXO1	1	1	1	A	5	A	Repeat-mediated
6a1f5bb2-329e-11e6-91d0-016425c9da85	7_57370755_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	57370755	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	7_57370755_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
6a258892-3290-11e6-9401-04ed6f39e758	3_30168039_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	30168039	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	3_30168039_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
6a264480-3290-11e6-9432-c0e56f39e758	5_129597777_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	129597777	AT	A	600	PASS	-	Del	-	1	9	MSH6	child	5_129597777_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
6a2a8b26-3290-11e6-8612-7b73fc77b11e	5_105871067_ATA	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	5	105871067	AT	A	480	PASS	-	Del	-	1	9	POLE	child	5_105871067_ATA_POLE	1	1	1	T	8	T	Repeat-mediated
6a34c666-327e-11e6-b4af-d90d7e6a9fc7	9_17033095_CTC	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	9	17033095	CT	C	360	PASS	-	Del	-	1	9	POLB	parent	9_17033095_CTC_POLB	1	1	1	T	8	T	Repeat-mediated
6a3c9a0e-328c-11e6-b43c-7ec36f39e758	16_52947638_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	52947638	GA	G	660	PASS	-	Del	-	1	9	MSH6	child	16_52947638_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
6a3d46de-3287-11e6-93b7-1d921da8ec0e	22_24513781_TTCT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	22	24513781	TTC	T	300	PASS	CABIN1	Del	intronic	2	1	EXO1	child	22_24513781_TTCT_EXO1	2	2	0	-	0	-	None
6a3ddb56-328e-11e6-aa75-90c36f39e758	13_102548178_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	102548178	A	AT	540	PASS	FGF14	Ins	intronic	1	7	MSH6	child	13_102548178_AAT_MSH6	1	1	-	-	-	-	Ins
6a47154a-328e-11e6-aa75-90c36f39e758	13_102552698_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	102552698	C	CA	360	PASS	FGF14	Ins	intronic	1	6	MSH6	child	13_102552698_CCA_MSH6	1	1	-	-	-	-	Ins
6a47e15c-325a-11e6-8340-da9012ae24cf	6_135270800_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	135270800	CA	C	780	PASS	ALDH8A1	Del	intronic	1	9	MSH6	child	6_135270800_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
6a4c2644-326f-11e6-9309-bdc34a47a305	8_16517830_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	16517830	TA	T	660	PASS	RP11-13N12.2	Del	intronic	1	8	MSH6	child	8_16517830_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
6a596a18-327c-11e6-8723-889be7d0bdd7	2_31884548_CAC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	2	31884548	CA	C	660	PASS	-	Del	-	1	3	NUDT1	child	2_31884548_CAC_NUDT1	1	1	1	A	2	A	Repeat-mediated
6a707194-328c-11e6-b8e6-91c36f39e758	11_60340745_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	60340745	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	11_60340745_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
6a77bda2-3325-11e6-b5f3-2a299a696edf	5_140194623_ATA	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	5	140194623	AT	A	480	PASS	PCDHA1	Del	intronic	1	7	CHK2	child	5_140194623_ATA_CHK2	1	1	1	T	6	T	Repeat-mediated
6a7ac4b4-328c-11e6-b910-5ccc977b3f23	17_55889939_TGT	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	17	55889939	TG	T	300	PASS	RP11-60A24.3	Del	intronic	1	1	NEIL1	child	17_55889939_TGT_NEIL1	1	1	0	-	0	G	None
6a980ff2-328b-11e6-a80b-87090e01a414	11_133697348_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	133697348	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	11_133697348_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
6a9dba66-3271-11e6-9260-549ffa52e078	11_74267154_ATA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	11	74267154	AT	A	660	PASS	-	Del	-	1	7	POLB	child	11_74267154_ATA_POLB	1	1	1	T	6	T	Repeat-mediated
6aa76dc2-328f-11e6-ad16-6b56f0f7a29c	10_102146316_CCTGC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	10	102146316	CCTG	C	540	PASS	-	Del	-	3	1	NEIL1	child	10_102146316_CCTGC_NEIL1	3	3	0	-	0	-	None
6aab5fd6-328f-11e6-92cf-bf2a0e01a414	6_36064343_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	36064343	AT	A	300	PASS	MAPK14	Del	intronic	1	6	MSH6	child	6_36064343_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
6aadd294-3257-11e6-a7ac-209a7872c165	22_19000466_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	22	19000466	AT	A	300	PASS	DGCR9	Del	upstream	1	8	MSH6	child	22_19000466_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
6ab687aa-328d-11e6-ac7a-a3c36f39e758	18_44284773_CCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	44284773	C	CT	480	PASS	ST8SIA5	Ins	intronic	1	1	MSH6	child	18_44284773_CCT_MSH6	1	1	-	-	-	-	Ins
6ab908ca-328a-11e6-9c89-8d090e01a414	1_59795962_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	59795962	TA	T	360	PASS	FGGY	Del	intronic	1	8	MSH6	child	1_59795962_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
6ac4ad44-3292-11e6-baa6-1a7219a91649	X_136534166_ATA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	X	136534166	AT	A	360	PASS	-	Del	-	1	5	NEIL1	child	X_136534166_ATA_NEIL1	1	1	1	T	4	T	Repeat-mediated
6ac82416-3273-11e6-975f-8246cab49462	16_60450820_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	60450820	GT	G	480	PASS	RP11-354I13.2	Del	intronic	1	7	MSH6	child	16_60450820_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
6adca546-328a-11e6-a70a-47793adbad45	3_68674824_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	3	68674824	AT	A	480	PASS	-	Del	-	1	8	NUDT1	parent	3_68674824_ATA_NUDT1	1	1	1	T	7	T	Repeat-mediated
6ae65254-328e-11e6-a83a-f948aa5f95ce	1_197795056_GTG	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	1	197795056	GT	G	660	PASS	-	Del	-	1	2	POLM	child	1_197795056_GTG_POLM	1	1	1	T	1	T	Repeat-mediated
6ae89418-329f-11e6-b696-dd6225c9da85	5_152376045_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	152376045	CT	C	660	PASS	AC091969.1	Del	intronic	1	6	MSH6	child	5_152376045_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
6ae93f5e-3271-11e6-a812-e11198ba1142	9_75064910_TACT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	9	75064910	TAC	T	480	PASS	-	Del	-	2	7	EXO1	parent	9_75064910_TACT_EXO1	2	2	2	AC	6	AC	Repeat-mediated
6aef671c-3271-11e6-8418-1c5942c4520d	3_137956574_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	137956574	GT	G	480	PASS	ARMC8	Del	intronic	1	6	MSH6	child	3_137956574_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
6af0cee8-3273-11e6-86e1-8d021ea8ec0e	X_11503733_ATA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	X	11503733	AT	A	900	PASS	ARHGAP6	Del	intronic	1	6	POLB	child	X_11503733_ATA_POLB	1	1	1	T	5	T	Repeat-mediated
6af10b4a-329d-11e6-aca6-b39fcc638e3d	2_232611511_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	232611511	GA	G	600	PASS	PDE6D	Del	intronic	1	7	MSH6	child	2_232611511_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
6af7eaa2-328c-11e6-a2c6-303e046f68b1	16_3355554_GCTCG	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	16	3355554	GCTC	G	420	PASS	TIGD7	Del	5prime_UTR_variant	3	2	POLE	child	16_3355554_GCTCG_POLE	3	3	3	CTC	1	CTC	Repeat-mediated
6af8ea88-328c-11e6-aa75-90c36f39e758	13_75088130_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	75088130	GA	G	600	PASS	-	Del	-	1	7	MSH6	child	13_75088130_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
6aff9efe-3256-11e6-9d15-298312ae24cf	X_16059594_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	16059594	GA	G	360	PASS	-	Del	-	1	9	MSH6	child	X_16059594_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
6affd466-3272-11e6-8418-1c5942c4520d	3_24243160_GGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	24243160	G	GA	660	PASS	THRB	Ins	intronic	1	2	MSH6	child	3_24243160_GGA_MSH6	1	1	-	-	-	-	Ins
6b0772b6-3321-11e6-9ab5-b30c2eaed38e	10_68810205_GAG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	10	68810205	GA	G	480	PASS	CTNNA3	Del	intronic	1	9	EXO1	child	10_68810205_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
6b09a77a-3272-11e6-a862-bc9becf1e924	1_9614714_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	9614714	CT	C	480	PASS	SLC25A33	Del	intronic	1	9	MSH6	child	1_9614714_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
6b0d5f66-328e-11e6-92c7-35ab4430f757	15_92189412_CTC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	15	92189412	CT	C	420	PASS	RP11-692C24.2	Del	intronic	1	9	POLE	child	15_92189412_CTC_POLE	1	1	1	T	8	T	Repeat-mediated
6b1015ea-328d-11e6-b6a6-1f1e0e01a414	4_57717799_ACA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	57717799	AC	A	360	PASS	-	Del	-	1	2	MSH6	child	4_57717799_ACA_MSH6	1	1	1	C	1	C	Repeat-mediated
6b108faa-328f-11e6-9d97-efe56f39e758	4_53571756_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	53571756	GA	G	600	PASS	-	Del	-	1	7	MSH6	child	4_53571756_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
6b16e648-3285-11e6-b093-c9c7b0dab373	2_78395815_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	78395815	AT	A	360	PASS	-	Del	-	1	4	MSH6	child	2_78395815_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
6b17c19a-3284-11e6-9f05-70ef1da8ec0e	10_63334341_GAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	10	63334341	GA	G	600	PASS	-	Del	-	1	9	EXO1	child	10_63334341_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
6b1d44f4-3256-11e6-a304-347a7872c165	1_200585093_TGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	200585093	TG	T	600	PASS	KIF14	Del	intronic	1	7	MSH6	child	1_200585093_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
6b253698-3272-11e6-b337-78fbd8b4fa2c	2_139249410_GTG	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	2	139249410	GT	G	420	PASS	AC097721.2	Del	intronic	1	9	POLB	child	2_139249410_GTG_POLB	1	1	1	T	8	T	Repeat-mediated
6b25be7e-3286-11e6-8b67-086ea2c71c31	1_180457375_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	180457375	CA	C	300	PASS	ACBD6	Del	intronic	1	9	MSH6	child	1_180457375_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
6b276e14-328f-11e6-bfac-a2a9cdacbbbf	11_67228011_CCAT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	11	67228011	C	CAT	360	PASS	CABP4	Ins	downstream	2	0	POLB	child	11_67228011_CCAT_POLB	2	2	-	-	-	-	Ins
6b31f8fe-3279-11e6-b81c-d33a1daa6045	8_127240525_ACTA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	8	127240525	ACT	A	540	PASS	-	Del	-	2	2	NEIL1	child	8_127240525_ACTA_NEIL1	2	2	2	CT	1	CT	Repeat-mediated
6b36324e-334a-11e6-8a03-0d6be84777f6	21_36943252_GTG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	21	36943252	GT	G	300	PASS	RUNX1	Del	intronic	1	5	FANCC	child	21_36943252_GTG_FANCC	1	1	1	T	4	T	Repeat-mediated
6b45b174-3287-11e6-a32f-5b79a178171f	11_118141768_TACT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	11	118141768	TAC	T	420	PASS	-	Del	-	2	1	FANCC	child	11_118141768_TACT_FANCC	2	2	1	A	0	-	Microhomology-mediated
6b46bb76-3324-11e6-92c8-fd9c38e8a824	22_46275551_CAC	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	22	46275551	CA	C	300	PASS	WI2-85898F10.1	Del	intronic	1	6	POLE	child	22_46275551_CAC_POLE	1	1	1	A	5	A	Repeat-mediated
6b47de18-3282-11e6-be6a-5ebd2daed38e	9_32130736_ATA	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	9	32130736	AT	A	660	PASS	-	Del	-	1	2	POLB	child	9_32130736_ATA_POLB	1	1	1	T	1	T	Repeat-mediated
6b4939b8-3271-11e6-b439-e34b3cfdbd24	2_27518183_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	2	27518183	AT	A	420	PASS	TRIM54	Del	intronic	1	8	MSH6	parent	2_27518183_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
6b5ec3e2-3324-11e6-9cf9-a1b77d6a9fc7	21_25462296_CAC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	21	25462296	CA	C	780	PASS	-	Del	-	1	7	CHK2	parent	21_25462296_CAC_CHK2	1	1	1	A	6	A	Repeat-mediated
6b67c206-3286-11e6-b093-c9c7b0dab373	2_167334837_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	167334837	GA	G	360	PASS	SCN7A	Del	intronic	1	9	MSH6	child	2_167334837_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
6b6944c0-328e-11e6-bb1e-70e16f39e758	X_53909299_GACG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	53909299	GAC	G	480	PASS	-	Del	-	2	8	MSH6	child	X_53909299_GACG_MSH6	2	2	2	AC	7	AC	Repeat-mediated
6b70854a-328a-11e6-9c1f-afbe38e8a824	8_27079452_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	8	27079452	CT	C	480	PASS	-	Del	-	1	8	NUDT1	parent	8_27079452_CTC_NUDT1	1	1	1	T	7	T	Repeat-mediated
6b768c3a-328d-11e6-bfa2-581f0e01a414	7_45660674_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	45660674	CT	C	360	PASS	ADCY1	Del	intronic	1	9	MSH6	child	7_45660674_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
6b897b6e-3324-11e6-8c6b-3c0f42c4520d	4_93339892_AAGGACATTA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	4	93339892	AAGGACATT	A	480	PASS	GRID2	Del	intronic	8	1	EXO1	child	4_93339892_AAGGACATTA_EXO1	8	8	3	AGG	0	-	Microhomology-mediated
6b8cfeb2-3291-11e6-90b7-60a39b6d3b88	12_33016249_GGGGAAAGGTAACTTG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	12	33016249	GGGGAAAGGTAACTT	G	300	PASS	PKP2	Del	intronic	14	1	NUDT1	child	12_33016249_GGGGAAAGGTAACTTG_NUDT1	14	>=10	3	GGG	0	-	Microhomology-mediated
6b8e6264-329d-11e6-91d0-016425c9da85	7_651175_TCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	651175	TC	T	660	PASS	PRKAR1B	Del	intronic	1	5	MSH6	child	7_651175_TCT_MSH6	1	1	1	C	4	C	Repeat-mediated
6b989ac8-32a1-11e6-b696-dd6225c9da85	5_101280400_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	101280400	C	CT	420	PASS	-	Ins	-	1	6	MSH6	child	5_101280400_CCT_MSH6	1	1	-	-	-	-	Ins
6b9a62c0-3258-11e6-9d15-298312ae24cf	X_129852440_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	129852440	CA	C	420	PASS	ENOX2	Del	intronic	1	6	MSH6	child	X_129852440_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
6b9f9aa2-328e-11e6-9230-fb250e01a414	3_35083072_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	35083072	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	3_35083072_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
6ba001f4-3275-11e6-a862-bc9becf1e924	1_204280699_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	204280699	CA	C	780	PASS	PLEKHA6	Del	intronic	1	9	MSH6	child	1_204280699_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
6ba17224-327e-11e6-8723-889be7d0bdd7	2_231361272_TAT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	2	231361272	TA	T	360	PASS	SP100	Del	intronic	1	9	NUDT1	child	2_231361272_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
6ba37a60-3274-11e6-af88-fed9cde16804	3_162859332_TGT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	3	162859332	TG	T	480	PASS	RP11-10O22.1	Del	intronic	1	3	NEIL1	child	3_162859332_TGT_NEIL1	1	1	1	G	2	G	Repeat-mediated
6bb20060-328f-11e6-8f31-bfe16f39e758	9_121876400_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	121876400	GA	G	540	PASS	-	Del	-	1	7	MSH6	child	9_121876400_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
6bb52bb8-329a-11e6-b74d-b59fcc638e3d	18_38706590_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	38706590	TA	T	540	PASS	-	Del	-	1	7	MSH6	child	18_38706590_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
6bc56986-3288-11e6-a5b3-3f1ebce6aa09	7_20975929_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	20975929	T	TA	480	PASS	LINC01162	Ins	intronic	1	7	MSH6	child	7_20975929_TTA_MSH6	1	1	-	-	-	-	Ins
6bc6de78-328e-11e6-9230-fb250e01a414	3_35201004_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	35201004	GA	G	300	PASS	-	Del	-	1	8	MSH6	child	3_35201004_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
6bc76e16-326f-11e6-b72f-e311987b3f23	19_33320232_CTC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	19	33320232	CT	C	420	PASS	SLC7A9	Del	downstream	1	6	NEIL1	child	19_33320232_CTC_NEIL1	1	1	1	T	5	T	Repeat-mediated
6bd0575a-3270-11e6-815d-97ef65a58581	12_102983362_AGA	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	12	102983362	AG	A	540	PASS	-	Del	-	1	2	NUDT1	child	12_102983362_AGA_NUDT1	1	1	1	G	1	G	Repeat-mediated
6bd4d1e0-3275-11e6-83cd-a472a178171f	4_23574931_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	23574931	TA	T	540	PASS	-	Del	-	1	4	MSH6	child	4_23574931_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
6bd93738-3272-11e6-9e18-3a69671699ea	10_6849081_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	6849081	GT	G	404	PASS	LINC00707	Del	intronic	1	8	MSH6	child	10_6849081_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
6be7ba2c-326f-11e6-b111-adcb79852e0e	15_37176292_ATCA	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	15	37176292	ATC	A	360	PASS	RP11-122D10.1	Del	intronic	2	7	POLB	child	15_37176292_ATCA_POLB	2	2	2	TC	6	TC	Repeat-mediated
6bf16040-3274-11e6-82d8-a30207e9a829	5_73398988_CAC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	5	73398988	CA	C	300	PASS	CTD-2292M14.1	Del	nc_variant	1	7	POLB	child	5_73398988_CAC_POLB	1	1	1	A	6	A	Repeat-mediated
6bf862b2-3276-11e6-acb5-bbf1bbe6aa09	7_142840473_AAACA	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	7	142840473	AAAC	A	420	PASS	PIP	Del	downstream	3	5	POLB	child	7_142840473_AAACA_POLB	3	3	3	AAC	4	AAC	Repeat-mediated
6bf91f26-329a-11e6-8d0f-075325c9da85	14_52881887_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	52881887	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	14_52881887_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
6bfafb12-3276-11e6-81c8-19f506e9a829	2_133834894_TTA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	2	133834894	T	TA	660	PASS	NCKAP5	Ins	intronic	1	4	FANCC	child	2_133834894_TTA_FANCC	1	1	-	-	-	-	Ins
6c0097f6-3290-11e6-9401-04ed6f39e758	3_30684206_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	30684206	CT	C	360	PASS	TGFBR2	Del	intronic	1	9	MSH6	child	3_30684206_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
6c1019b6-328f-11e6-9432-c0e56f39e758	5_55489678_CTAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	55489678	CTA	C	360	PASS	ANKRD55	Del	intronic	2	5	MSH6	child	5_55489678_CTAC_MSH6	2	2	2	TA	4	TA	Repeat-mediated
6c10ba90-3273-11e6-8f33-a6d9cde16804	11_94584567_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	94584567	CT	C	600	PASS	AMOTL1	Del	intronic	1	8	MSH6	child	11_94584567_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
6c12cdc6-3291-11e6-92cf-bf2a0e01a414	6_165454929_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	165454929	CT	C	600	PASS	-	Del	-	1	5	MSH6	child	6_165454929_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
6c19aef4-328a-11e6-8eee-76090e01a414	10_75243591_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	75243591	AT	A	480	PASS	PPP3CB	Del	intronic	1	9	MSH6	child	10_75243591_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
6c202062-326d-11e6-adc2-b7204b47a305	18_67915079_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	67915079	GA	G	300	PASS	-	Del	-	1	8	MSH6	child	18_67915079_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
6c241c34-3291-11e6-9070-b1a39b6d3b88	6_25069248_ATA	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	6	25069248	AT	A	300	PASS	-	Del	-	1	9	POLB	child	6_25069248_ATA_POLB	1	1	1	T	8	T	Repeat-mediated
6c288a0e-3254-11e6-9f9d-2c7a7872c165	12_57746728_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	57746728	GA	G	720	PASS	R3HDM2	Del	intronic	1	8	MSH6	child	12_57746728_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
6c30ef24-3271-11e6-a812-e11198ba1142	9_75451219_TAT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	9	75451219	TA	T	360	PASS	TMC1	Del	3prime_UTR_variant	1	8	EXO1	parent	9_75451219_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
6c57616e-3284-11e6-a0a8-096ea2c71c31	11_7825507_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	7825507	CA	C	420	PASS	RP11-35J10.5	Del	intronic	1	8	MSH6	child	11_7825507_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
6c649f96-3289-11e6-a7cf-80090e01a414	15_23666712_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	23666712	CT	C	420	PASS	-	Del	-	1	8	MSH6	child	15_23666712_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
6c64d6ca-328c-11e6-a6be-80b6d7db33ec	1_5402817_ATA	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	1	5402817	AT	A	420	PASS	-	Del	-	1	7	POLE	child	1_5402817_ATA_POLE	1	1	1	T	6	T	Repeat-mediated
6c680de8-3284-11e6-becf-9aabf4b7c17d	20_44659861_GTG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	20	44659861	GT	G	480	PASS	SLC12A5	Del	intronic	1	2	FANCC	child	20_44659861_GTG_FANCC	1	1	1	T	1	T	Repeat-mediated
6c70efb4-3273-11e6-9e18-3a69671699ea	10_72043099_GTCG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	72043099	GTC	G	300	PASS	NPFFR1	Del	intronic	2	9	MSH6	child	10_72043099_GTCG_MSH6	2	2	2	TC	8	TC	Repeat-mediated
6c722c3a-326e-11e6-9793-9a8fb0dab373	13_43322355_AAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	43322355	A	AT	540	PASS	-	Ins	-	1	8	MSH6	child	13_43322355_AAT_MSH6	1	1	-	-	-	-	Ins
6c73ad3e-3297-11e6-8932-5889e84777f6	20_43006874_ATA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	20	43006874	AT	A	300	PASS	HNF4A	Del	intronic	1	6	CHK2	child	20_43006874_ATA_CHK2	1	1	1	T	5	T	Repeat-mediated
6c880268-3277-11e6-a391-f6d67d6a9fc7	6_1335362_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	1335362	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	6_1335362_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
6c8975f8-3277-11e6-92d2-c259c225ee11	3_77402972_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	77402972	AG	A	720	PASS	ROBO2	Del	intronic	1	1	MSH6	child	3_77402972_AGA_MSH6	1	1	0	-	0	G	None
6c9039c8-3273-11e6-9e18-3a69671699ea	10_72094948_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	72094948	GA	G	780	PASS	LRRC20	Del	intronic	1	5	MSH6	child	10_72094948_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
6c9040a8-329b-11e6-8069-175325c9da85	12_94235773_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	94235773	TA	T	1080	PASS	CRADD	Del	intronic	1	9	MSH6	child	12_94235773_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
6c92f656-3276-11e6-92d2-c259c225ee11	3_6952864_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	6952864	CT	C	420	PASS	GRM7	Del	intronic	1	8	MSH6	child	3_6952864_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
6c9e7e3a-3286-11e6-b8a8-aac02daed38e	8_111324295_AAT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	8	111324295	A	AT	360	PASS	-	Ins	-	1	1	POLB	child	8_111324295_AAT_POLB	1	1	-	-	-	-	Ins
6c9e98de-3281-11e6-a5e9-0107694da5d2	7_81776409_CAC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	7	81776409	CA	C	360	PASS	CACNA2D1	Del	intronic	1	9	NEIL1	child	7_81776409_CAC_NEIL1	1	1	1	A	8	A	Repeat-mediated
6ca5ab0e-3274-11e6-93e1-6451e7d0bdd7	10_130127249_TAT	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	10	130127249	TA	T	360	PASS	-	Del	-	1	9	POLB	child	10_130127249_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
6cbba0aa-3286-11e6-b8a8-aac02daed38e	8_111545663_TTA	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	8	111545663	T	TA	840	PASS	-	Ins	-	1	5	POLB	child	8_111545663_TTA_POLB	1	1	-	-	-	-	Ins
6cc65938-3294-11e6-b14c-5e337a852e0e	X_116065428_GAG	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	X	116065428	GA	G	300	PASS	-	Del	-	1	8	CHK2	child	X_116065428_GAG_CHK2	1	1	1	A	7	A	Repeat-mediated
6cc87166-328d-11e6-b4fe-93c36f39e758	12_115033776_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	115033776	TA	T	420	PASS	-	Del	-	1	5	MSH6	child	12_115033776_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
6cd4590a-328c-11e6-b805-77090e01a414	2_208917720_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	208917720	AT	A	540	PASS	RNA5SP116	Del	downstream	1	5	MSH6	child	2_208917720_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
6ce67542-329e-11e6-b696-dd6225c9da85	5_82871694_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	82871694	GA	G	480	PASS	VCAN	Del	intronic	1	7	MSH6	child	5_82871694_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
6ce707f8-3287-11e6-9766-8c8ca2c71c31	22_31903723_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	22	31903723	GA	G	720	PASS	SFI1	Del	intronic	1	7	MSH6	child	22_31903723_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
6cfb4a1a-3291-11e6-9401-04ed6f39e758	3_103255720_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	103255720	AT	A	720	PASS	-	Del	-	1	7	MSH6	child	3_103255720_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
6d0ca076-3291-11e6-8454-1da73adbad45	22_45507217_ATA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	22	45507217	AT	A	300	PASS	-	Del	-	1	7	NEIL1	child	22_45507217_ATA_NEIL1	1	1	1	T	6	T	Repeat-mediated
6d0f5b62-3274-11e6-8607-751ad9b4fa2c	22_38687181_AGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	22	38687181	AG	A	300	PASS	CSNK1E	Del	3prime_UTR_variant	1	7	MSH6	child	22_38687181_AGA_MSH6	1	1	1	G	6	G	Repeat-mediated
6d1085d2-328d-11e6-8a9d-4cab4430f757	19_51827312_TACT	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	19	51827312	TAC	T	420	PASS	IGLON5	Del	intronic	2	2	POLE	child	19_51827312_TACT_POLE	2	2	2	AC	1	AC	Repeat-mediated
6d10bbca-325a-11e6-acc5-308412ae24cf	5_117523757_GGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	117523757	G	GT	360	PASS	CTD-3179P9.1	Ins	intronic	1	8	MSH6	child	5_117523757_GGT_MSH6	1	1	-	-	-	-	Ins
6d183436-3273-11e6-8bd4-92b28a20d9eb	9_12637812_GAG	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	9	12637812	GA	G	660	PASS	-	Del	-	1	9	NEIL1	child	9_12637812_GAG_NEIL1	1	1	1	A	8	A	Repeat-mediated
6d18b8d2-328e-11e6-bfac-a2a9cdacbbbf	11_106198015_ACA	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	11	106198015	AC	A	300	PASS	-	Del	-	1	3	POLB	child	11_106198015_ACA_POLB	1	1	1	C	2	C	Repeat-mediated
6d26e62e-3274-11e6-b89d-b2d6b0dab373	4_140207994_AAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	140207994	A	AT	420	PASS	NDUFC1	Ins	downstream	1	6	MSH6	child	4_140207994_AAT_MSH6	1	1	-	-	-	-	Ins
6d296e34-3284-11e6-aa1d-e9782aaffa45	4_135506252_GAG	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	4	135506252	GA	G	360	PASS	-	Del	-	1	8	POLE	child	4_135506252_GAG_POLE	1	1	1	A	7	A	Repeat-mediated
6d31c6c4-329d-11e6-bc66-17b4cc638e3d	8_2818981_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	2818981	AT	A	540	PASS	CSMD1	Del	intronic	1	8	MSH6	child	8_2818981_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
6d365518-3293-11e6-b81f-4ee66f39e758	8_117659774_GGAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	117659774	G	GAT	540	PASS	EIF3H	Ins	intronic	2	3	MSH6	child	8_117659774_GGAT_MSH6	2	2	-	-	-	-	Ins
6d409298-328a-11e6-ad64-7189a178171f	5_154133003_CAAATC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	5	154133003	CAAAT	C	480	PASS	LARP1	Del	intronic	4	3	FANCC	child	5_154133003_CAAATC_FANCC	4	4	4	AAAT	2	AAAT	Repeat-mediated
6d536daa-3285-11e6-8b67-086ea2c71c31	1_84940279_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	84940279	CT	C	600	PASS	RPF1	Del	upstream	1	7	MSH6	child	1_84940279_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
6d631b1c-3288-11e6-b686-d35a51c54cdd	4_106215472_GAG	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	4	106215472	GA	G	300	PASS	-	Del	-	1	9	EXO1	child	4_106215472_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
6d6a549e-3324-11e6-85fa-8f2b51c54cdd	7_69669931_GAG	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	7	69669931	GA	G	600	PASS	AUTS2	Del	intronic	1	9	CHK2	parent	7_69669931_GAG_CHK2	1	1	1	A	8	A	Repeat-mediated
6d7564d0-3273-11e6-a5d0-4fd14a47a305	2_89371106_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	89371106	AG	A	343	PASS	-	Del	-	1	6	MSH6	child	2_89371106_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
6d7c0888-3257-11e6-971b-98a02aaffa45	5_64263548_GAG	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	5	64263548	GA	G	480	PASS	CWC27	Del	intronic	1	8	POLM	child	5_64263548_GAG_POLM	1	1	1	A	7	A	Repeat-mediated
6d8cf4be-3288-11e6-a284-4b89a2c71c31	4_173235649_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	173235649	TA	T	660	PASS	GALNTL6	Del	intronic	1	8	MSH6	child	4_173235649_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
6d910a02-3271-11e6-b5b8-e0c24a47a305	X_144566707_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	144566707	GA	G	360	PASS	-	Del	-	1	6	MSH6	child	X_144566707_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
6d91cc82-3297-11e6-96fb-b1523adbad45	20_12546997_TGT	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	20	12546997	TG	T	300	PASS	-	Del	-	1	2	NEIL1	child	20_12546997_TGT_NEIL1	1	1	1	G	1	G	Repeat-mediated
6d9392aa-3324-11e6-9459-771c630e6611	4_72506438_GAG	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	4	72506438	GA	G	420	PASS	-	Del	-	1	6	CHK2	child	4_72506438_GAG_CHK2	1	1	1	A	5	A	Repeat-mediated
6d983c46-329e-11e6-b696-dd6225c9da85	5_82981281_TCAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	82981281	TCA	T	720	PASS	HAPLN1	Del	intronic	2	8	MSH6	child	5_82981281_TCAT_MSH6	2	2	2	CA	7	CA	Repeat-mediated
6d989f12-328d-11e6-8d77-b5d8191589db	7_98774510_CAC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	7	98774510	CA	C	480	PASS	KPNA7	Del	intronic	1	9	FANCC	child	7_98774510_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
6d9902b6-3285-11e6-8b67-086ea2c71c31	1_85074572_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	85074572	TA	T	480	PASS	-	Del	-	1	7	MSH6	child	1_85074572_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
6d9ac58e-3289-11e6-bf15-aeb06f39e758	6_75218243_AGA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	6	75218243	AG	A	780	PASS	RP11-554D15.1	Del	intronic	1	1	EXO1	child	6_75218243_AGA_EXO1	1	1	0	-	0	G	None
6da65f2c-3273-11e6-88b6-40832aaffa45	1_9362141_ATTGGCCGGTGAGCACGAGCCCACTGGTTA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	9362141	ATTGGCCGGTGAGCACGAGCCCACTGGTT	A	840	PASS	SPSB1	Del	intronic	28	1	EXO1	child	1_9362141_ATTGGCCGGTGAGCACGAGCCCACTGGTTA_EXO1	28	>=10	1	T	0	-	Microhomology-mediated
6dade9dc-328b-11e6-8353-a446fd44d094	1_247566022_GAG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	1	247566022	GA	G	360	PASS	-	Del	-	1	9	FANCC	child	1_247566022_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
6db4fdee-3281-11e6-8500-13197e6a9fc7	1_87161038_CAC	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	1	87161038	CA	C	540	PASS	-	Del	-	1	8	POLB	child	1_87161038_CAC_POLB	1	1	1	A	7	A	Repeat-mediated
6db88896-3291-11e6-984b-997830158702	1_29353309_ACCTTGTCTCTTA	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	1	29353309	ACCTTGTCTCTT	A	300	PASS	EPB41	Del	intronic	11	1	NUDT1	child	1_29353309_ACCTTGTCTCTTA_NUDT1	11	>=10	0	-	0	-	None
6dbcd27c-328f-11e6-8bc2-1045046f68b1	7_95342760_TAT	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	7	95342760	TA	T	480	PASS	-	Del	-	1	8	POLE	child	7_95342760_TAT_POLE	1	1	1	A	7	A	Repeat-mediated
6dbe17b2-3321-11e6-be22-69745e975b79	1_107802738_TAGTAAACT	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	1	107802738	TAGTAAAC	T	960	PASS	NTNG1	Del	intronic	7	1	CHK2	parent	1_107802738_TAGTAAACT_CHK2	7	7	3	AGT	0	-	Microhomology-mediated
6dbf3dea-3277-11e6-a71d-236235cec73b	X_114024171_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	114024171	TA	T	360	PASS	HTR2C	Del	intronic	1	9	MSH6	child	X_114024171_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
6dbfaed2-328c-11e6-919e-92c36f39e758	2_61475830_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	61475830	GA	G	720	PASS	USP34	Del	intronic	1	7	MSH6	child	2_61475830_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
6dc6ef12-328c-11e6-88c1-95c36f39e758	14_74134367_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	74134367	AT	A	540	PASS	DNAL1	Del	intronic	1	9	MSH6	child	14_74134367_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
6dc79be0-328e-11e6-bec1-ca1d0e01a414	X_94954901_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	94954901	AT	A	540	PASS	-	Del	-	1	6	MSH6	child	X_94954901_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
6dcb53fe-328c-11e6-bec1-ca1d0e01a414	X_6754191_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	6754191	GT	G	660	PASS	-	Del	-	1	6	MSH6	child	X_6754191_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
6dcd9a1a-3291-11e6-8eec-d1257a852e0e	10_127458297_ATA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	10	127458297	AT	A	300	PASS	MMP21	Del	intronic	1	9	CHK2	child	10_127458297_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
6dd47230-328d-11e6-8621-65d8191589db	4_103810145_CCTTC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	4	103810145	CCTT	C	660	PASS	CISD2	Del	3prime_UTR_variant	3	1	FANCC	child	4_103810145_CCTTC_FANCC	3	3	2	CT	0	-	Microhomology-mediated
6ddbdc54-328e-11e6-bb1e-70e16f39e758	X_54569369_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	54569369	CT	C	300	PASS	GNL3L	Del	intronic	1	9	MSH6	child	X_54569369_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
6dde50ca-3323-11e6-9907-b3021a1589db	5_27202822_GACAAG	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	5	27202822	GACAA	G	960	PASS	-	Del	-	4	1	CHK2	parent	5_27202822_GACAAG_CHK2	4	4	3	ACA	0	-	Microhomology-mediated
6dde9cee-3272-11e6-9065-cc4890e2c2e6	1_91753024_AAACTA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	1	91753024	AAACT	A	384	PASS	HFM1	Del	intronic	4	2	MSH6	parent	1_91753024_AAACTA_MSH6	4	4	4	AACT	1	AACT	Repeat-mediated
6dea5cf4-328c-11e6-bd84-429305ad5bc4	1_117791251_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	117791251	AT	A	600	PASS	-	Del	-	1	7	MSH6	child	1_117791251_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
6df64d44-3286-11e6-bb4b-c29638e8a824	X_87644604_CCA	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	X	87644604	C	CA	420	PASS	-	Ins	-	1	8	POLE	parent	X_87644604_CCA_POLE	1	1	-	-	-	-	Ins
6df65262-3286-11e6-a5b3-3f1ebce6aa09	7_842564_AAGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	842564	AAG	A	360	PASS	-	Del	-	2	7	MSH6	child	7_842564_AAGA_MSH6	2	2	2	AG	6	AG	Repeat-mediated
6df7b3aa-329a-11e6-b723-b29fcc638e3d	19_23907887_TGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	23907887	TG	T	420	PASS	-	Del	-	1	1	MSH6	child	19_23907887_TGT_MSH6	1	1	0	-	0	G	None
6dfcd3e6-3284-11e6-8ebc-68f1bbe6aa09	18_8971794_TCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	8971794	TC	T	360	PASS	-	Del	-	1	5	MSH6	child	18_8971794_TCT_MSH6	1	1	1	C	4	C	Repeat-mediated
6e020c2c-3283-11e6-81fd-f903987b3f23	2_158784017_GAG	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	2	158784017	GA	G	360	PASS	UPP2	Del	intronic	1	6	NEIL1	parent	2_158784017_GAG_NEIL1	1	1	1	A	5	A	Repeat-mediated
6e026ed4-3273-11e6-bfb2-2749c225ee11	12_72244358_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	72244358	AT	A	600	PASS	TBC1D15	Del	intronic	1	8	MSH6	child	12_72244358_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
6e035a80-327b-11e6-bf31-92cf1f4bbf9c	2_18865856_TTTGT	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	2	18865856	TTTG	T	420	PASS	-	Del	-	3	1	POLM	child	2_18865856_TTTGT_POLM	3	3	1	T	0	-	Microhomology-mediated
6e067bfa-3278-11e6-a8d8-3e6075253f64	3_196686579_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	3	196686579	AT	A	540	PASS	PIGZ	Del	intronic	1	8	FANCC	child	3_196686579_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
6e08063c-329b-11e6-9048-b49fcc638e3d	17_69560781_AATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	69560781	AAT	A	540	PASS	-	Del	-	2	5	MSH6	child	17_69560781_AATA_MSH6	2	2	2	AT	4	AT	Repeat-mediated
6e11ef4a-329f-11e6-a04f-c66a25c9da85	6_14835437_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	14835437	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	6_14835437_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
6e144a92-3277-11e6-92d2-c259c225ee11	3_77699629_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	77699629	AT	A	300	PASS	ROBO2	Del	downstream	1	9	MSH6	child	3_77699629_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
6e157526-3280-11e6-bd52-75299ecd0b3a	11_9815927_TAAGACCAGGCCTGGCCAGGCGTGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCAGACTGCTTGAGGCCAGGAGTGCAAGACCAGCCTGGCCAACATGGTGAAACCTTGTCTCTACTAAAAATACAAAAATTAGCCAGGCATGGTGGCACAGGCCTCTAATCCCAGCTACTAGGGAGGCTGAGGCAGGAGAATTGCCTGAACCTGGGAAATAGAGGTTGCAGTGAGCCAAGATCGCACCAATGCACTCCAGCCTTGGAGACAGAGTGATACAGTGAGTGGGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	11	9815927	TAAGACCAGGCCTGGCCAGGCGTGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCAGACTGCTTGAGGCCAGGAGTGCAAGACCAGCCTGGCCAACATGGTGAAACCTTGTCTCTACTAAAAATACAAAAATTAGCCAGGCATGGTGGCACAGGCCTCTAATCCCAGCTACTAGGGAGGCTGAGGCAGGAGAATTGCCTGAACCTGGGAAATAGAGGTTGCAGTGAGCCAAGATCGCACCAATGCACTCCAGCCTTGGAGACAGAGTGATACAGTGAGTGGGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAA	T	300	PASS	SBF2	Del	intronic	325	1	POLB	child	11_9815927_TAAGACCAGGCCTGGCCAGGCGTGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCAGACTGCTTGAGGCCAGGAGTGCAAGACCAGCCTGGCCAACATGGTGAAACCTTGTCTCTACTAAAAATACAAAAATTAGCCAGGCATGGTGGCACAGGCCTCTAATCCCAGCTACTAGGGAGGCTGAGGCAGGAGAATTGCCTGAACCTGGGAAATAGAGGTTGCAGTGAGCCAAGATCGCACCAATGCACTCCAGCCTTGGAGACAGAGTGATACAGTGAGTGGGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAT_POLB	325	>=10	14	AAGACCAGGCCTGG	0	-	Microhomology-mediated
6e2722d0-3325-11e6-8c6b-3c0f42c4520d	4_173640632_TAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	4	173640632	TA	T	300	PASS	GALNTL6	Del	intronic	1	9	EXO1	child	4_173640632_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
6e2fa01e-3284-11e6-821e-69f1bbe6aa09	16_7788511_TGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	7788511	TG	T	540	PASS	-	Del	-	1	6	MSH6	child	16_7788511_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
6e343472-3283-11e6-83f8-60792aaffa45	7_25547182_GTG	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	7	25547182	GT	G	480	PASS	-	Del	-	1	9	POLE	child	7_25547182_GTG_POLE	1	1	1	T	8	T	Repeat-mediated
6e3d04fa-3259-11e6-a39a-dc8512ae24cf	8_118825077_GCG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	118825077	GC	G	480	PASS	EXT1	Del	intronic	1	3	MSH6	child	8_118825077_GCG_MSH6	1	1	1	C	2	C	Repeat-mediated
6e3e76d0-326f-11e6-a539-0e5542c4520d	7_28206639_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	28206639	CA	C	480	PASS	JAZF1	Del	intronic	1	8	MSH6	child	7_28206639_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
6e4a49f6-3292-11e6-a366-d0257a852e0e	2_208025730_CCTAC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	2	208025730	CCTA	C	360	PASS	KLF7	Del	intronic	3	2	CHK2	child	2_208025730_CCTAC_CHK2	3	3	3	CTA	1	CTA	Repeat-mediated
6e4a4fae-329d-11e6-94ca-0aaecc638e3d	X_43000410_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	43000410	GT	G	480	PASS	-	Del	-	1	7	MSH6	child	X_43000410_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
6e617728-328a-11e6-b74f-549ba2c71c31	20_59735553_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	59735553	CA	C	720	PASS	-	Del	-	1	9	MSH6	child	20_59735553_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
6e70483c-326e-11e6-92dd-fda8977b3f23	10_132333199_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	132333199	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	10_132333199_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
6e71aada-3285-11e6-9097-d57f2aaffa45	3_145478500_CAC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	3	145478500	CA	C	1020	PASS	-	Del	-	1	9	POLE	child	3_145478500_CAC_POLE	1	1	1	A	8	A	Repeat-mediated
6e7620f8-329c-11e6-a5cf-205325c9da85	11_22452496_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	22452496	A	AT	420	PASS	-	Ins	-	1	8	MSH6	child	11_22452496_AAT_MSH6	1	1	-	-	-	-	Ins
6e88d7e4-3291-11e6-93a2-2649d7db33ec	20_36205812_GTG	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	20	36205812	GT	G	360	PASS	-	Del	-	1	1	POLE	child	20_36205812_GTG_POLE	1	1	0	-	0	T	None
6e8ba36e-328e-11e6-919e-92c36f39e758	2_198107313_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	198107313	TA	T	480	PASS	ANKRD44	Del	intronic	1	7	MSH6	child	2_198107313_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
6e8c5238-3323-11e6-8ccd-5c056323ba5a	2_124033265_GAG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	2	124033265	GA	G	540	PASS	-	Del	-	1	8	EXO1	child	2_124033265_GAG_EXO1	1	1	1	A	7	A	Repeat-mediated
6ea68bba-328a-11e6-84d3-e3cd191589db	15_75059022_CTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCGGGTGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTCAACATGGAGAAACCCCGTCTCTACTAAAAGCACAAAATTAGCCAGACATAGTGGTGAATGCCTGTAATCTCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGTTTGAACCCAGGAGGCGGAGGCTGCAGTGAGCCAAGATTGTGCCATTGCACTCCAGCCCAGGCGAAGGAGCGAGACTCCATCTGAAAAAAGAAAAGAAAAGAAAAGAGGAGGGTGGGCGCGGTGGGC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	15	75059022	CTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCGGGTGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTCAACATGGAGAAACCCCGTCTCTACTAAAAGCACAAAATTAGCCAGACATAGTGGTGAATGCCTGTAATCTCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGTTTGAACCCAGGAGGCGGAGGCTGCAGTGAGCCAAGATTGTGCCATTGCACTCCAGCCCAGGCGAAGGAGCGAGACTCCATCTGAAAAAAGAAAAGAAAAGAAAAGAGGAGGGTGGGCGCGGTGGG	C	300	PASS	-	Del	-	304	1	FANCC	child	15_75059022_CTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCGGGTGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTCAACATGGAGAAACCCCGTCTCTACTAAAAGCACAAAATTAGCCAGACATAGTGGTGAATGCCTGTAATCTCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGTTTGAACCCAGGAGGCGGAGGCTGCAGTGAGCCAAGATTGTGCCATTGCACTCCAGCCCAGGCGAAGGAGCGAGACTCCATCTGAAAAAAGAAAAGAAAAGAAAAGAGGAGGGTGGGCGCGGTGGGC_FANCC	304	>=10	40	TCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCGGG	0	-	Microhomology-mediated
6ea70c7e-3286-11e6-bb60-c21d694da5d2	6_129387183_GGTATGTCTTTTTTTTTTTTT	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	6	129387183	G	GTATGTCTTTTTTTTTTTTT	300	PASS	LAMA2	Ins	intronic	19	0	NEIL1	child	6_129387183_GGTATGTCTTTTTTTTTTTTT_NEIL1	19	>=10	-	-	-	-	Ins
6ea85e80-3321-11e6-89bb-56bf70cce0de	13_74687499_AGAGA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	13	74687499	AGAG	A	420	PASS	KLF12	Del	intronic	3	2	POLE	child	13_74687499_AGAGA_POLE	3	3	3	GAG	1	GAG	Repeat-mediated
6eba3b4c-3276-11e6-98dc-d270cde16804	22_49967325_AAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	22	49967325	A	AG	360	PASS	-	Ins	-	1	7	MSH6	child	22_49967325_AAG_MSH6	1	1	-	-	-	-	Ins
6ef0ed82-3324-11e6-90ba-dff479852e0e	21_26418308_GGAAG	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	21	26418308	GGAA	G	480	PASS	AP000235.2	Del	intronic	3	3	POLE	child	21_26418308_GGAAG_POLE	3	3	3	GAA	2	GAA	Repeat-mediated
6f024454-3286-11e6-afcf-0311bce6aa09	9_78427908_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	78427908	GT	G	660	PASS	-	Del	-	1	7	MSH6	child	9_78427908_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
6f0a9c7e-3256-11e6-9d15-298312ae24cf	X_16832240_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	16832240	CA	C	660	PASS	TXLNG	Del	intronic	1	5	MSH6	child	X_16832240_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
6f0e35cc-327f-11e6-9a18-69cfaa716c52	4_115583612_GAG	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	4	115583612	GA	G	480	PASS	UGT8	Del	intronic	1	5	POLB	parent	4_115583612_GAG_POLB	1	1	1	A	4	A	Repeat-mediated
6f102c4c-3284-11e6-888b-2d6e0d016689	18_75608404_GAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	18	75608404	GA	G	360	PASS	-	Del	-	1	9	EXO1	child	18_75608404_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
6f2ed57c-3273-11e6-aa3b-ca60a178171f	13_90492008_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	90492008	GA	G	720	PASS	-	Del	-	1	9	MSH6	child	13_90492008_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
6f306ca2-328c-11e6-bd84-429305ad5bc4	1_118769870_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	118769870	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	1_118769870_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
6f34bf76-328e-11e6-8e48-791e0e01a414	8_54099269_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	54099269	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	8_54099269_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
6f3faf08-3293-11e6-ba3d-81387a852e0e	22_22032476_CTC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	22	22032476	CT	C	360	PASS	PPIL2	Del	intronic	1	9	CHK2	child	22_22032476_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
6f407dc8-329a-11e6-b129-195325c9da85	16_29735328_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	29735328	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	16_29735328_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
6f488246-326f-11e6-a777-d57d9cdf095d	10_31214322_ATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	10	31214322	AT	A	480	PASS	ZNF438	Del	intronic	1	6	EXO1	parent	10_31214322_ATA_EXO1	1	1	1	T	5	T	Repeat-mediated
6f5858fe-329e-11e6-b696-dd6225c9da85	5_83479012_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	83479012	GT	G	300	PASS	EDIL3	Del	intronic	1	9	MSH6	child	5_83479012_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
6f5912e0-3284-11e6-9daa-026ea2c71c31	14_25744400_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	25744400	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	14_25744400_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
6f5b5ce8-328f-11e6-bb1e-70e16f39e758	X_84285390_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	84285390	TA	T	540	PASS	APOOL	Del	intronic	1	9	MSH6	child	X_84285390_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
6f5be238-328c-11e6-b4fe-93c36f39e758	12_55784273_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	55784273	AT	A	720	PASS	-	Del	-	1	7	MSH6	child	12_55784273_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
6f66ecea-3288-11e6-b9eb-c78fa2c71c31	6_50288011_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	50288011	TA	T	480	PASS	-	Del	-	1	7	MSH6	child	6_50288011_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
6f6a2abe-329b-11e6-b723-b29fcc638e3d	19_56923259_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	56923259	AT	A	540	PASS	ZNF583	Del	intronic	1	9	MSH6	child	19_56923259_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
6f700100-3255-11e6-8fbd-68832aaffa45	12_98762814_CAC	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	12	98762814	CA	C	660	PASS	-	Del	-	1	9	POLM	child	12_98762814_CAC_POLM	1	1	1	A	8	A	Repeat-mediated
6f723db8-3272-11e6-a862-bc9becf1e924	1_10397077_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	10397077	GA	G	600	PASS	KIF1B	Del	intronic	1	5	MSH6	child	1_10397077_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
6f761b22-3290-11e6-9d97-efe56f39e758	4_124453727_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	124453727	TA	T	600	PASS	-	Del	-	1	5	MSH6	child	4_124453727_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
6f7a0b9c-3290-11e6-9432-c0e56f39e758	5_131717858_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	131717858	AC	A	720	PASS	SLC22A5	Del	intronic	1	1	MSH6	child	5_131717858_ACA_MSH6	1	1	0	-	0	C	None
6f82a11c-3295-11e6-94ac-06337a852e0e	4_28988797_AAT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	4	28988797	A	AT	420	PASS	-	Ins	-	1	8	CHK2	child	4_28988797_AAT_CHK2	1	1	-	-	-	-	Ins
6f853fdc-3293-11e6-98e0-70dad8b4fa2c	2_161678414_CAC	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	2	161678414	CA	C	660	PASS	-	Del	-	1	5	NUDT1	child	2_161678414_CAC_NUDT1	1	1	1	A	4	A	Repeat-mediated
6f85b7b0-326f-11e6-acc7-e55219a91649	1_245854464_TCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	245854464	TC	T	300	PASS	KIF26B	Del	intronic	1	4	MSH6	child	1_245854464_TCT_MSH6	1	1	1	C	3	C	Repeat-mediated
6f890c44-328d-11e6-b4fe-93c36f39e758	12_115642490_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	115642490	CA	C	480	PASS	-	Del	-	1	8	MSH6	child	12_115642490_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
6f9cba42-3255-11e6-9f9d-2c7a7872c165	12_123742464_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	123742464	AT	A	540	PASS	C12orf65	Del	3prime_UTR_variant	1	8	MSH6	child	12_123742464_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
6f9da806-3257-11e6-a7ac-209a7872c165	22_20820089_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	22	20820089	GT	G	660	PASS	KLHL22	Del	intronic	1	9	MSH6	child	22_20820089_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
6fa6325a-328e-11e6-919e-92c36f39e758	2_198327670_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	198327670	CT	C	720	PASS	COQ10B	Del	intronic	1	8	MSH6	child	2_198327670_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
6fa93168-3274-11e6-b872-fc996f39e758	8_876737_TGT	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	8	876737	TG	T	660	PASS	-	Del	-	1	1	NEIL1	child	8_876737_TGT_NEIL1	1	1	0	-	0	G	None
6fb08314-3279-11e6-83cd-a472a178171f	4_116551244_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	116551244	T	TA	840	PASS	-	Ins	-	1	8	MSH6	child	4_116551244_TTA_MSH6	1	1	-	-	-	-	Ins
6fb7cc4a-3257-11e6-a7ac-209a7872c165	22_20831735_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	22	20831735	TA	T	720	PASS	KLHL22	Del	intronic	1	8	MSH6	child	22_20831735_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
6fb94866-329f-11e6-a04f-c66a25c9da85	6_15113067_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	15113067	GA	G	540	PASS	-	Del	-	1	8	MSH6	child	6_15113067_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
6fbe4512-3256-11e6-acc5-308412ae24cf	5_4298327_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	4298327	TA	T	540	PASS	-	Del	-	1	8	MSH6	child	5_4298327_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
6fbf0018-3271-11e6-8418-1c5942c4520d	3_139556717_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	139556717	GT	G	660	PASS	RP11-166D18.1	Del	intronic	1	7	MSH6	child	3_139556717_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
6fbf80a0-329a-11e6-b723-b29fcc638e3d	19_24121391_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	24121391	GT	G	300	PASS	ZNF726	Del	downstream	1	9	MSH6	child	19_24121391_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
6fc0306c-3273-11e6-9dfc-541498ba1142	8_110083905_GAG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	8	110083905	GA	G	600	PASS	-	Del	-	1	8	EXO1	parent	8_110083905_GAG_EXO1	1	1	1	A	7	A	Repeat-mediated
6fc1b504-3291-11e6-887e-75dad8b4fa2c	13_40936988_CTC	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	13	40936988	CT	C	780	PASS	-	Del	-	1	7	NUDT1	child	13_40936988_CTC_NUDT1	1	1	1	T	6	T	Repeat-mediated
6fcb1664-3276-11e6-9e0f-7959cab49462	7_67079471_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	67079471	AT	A	360	PASS	-	Del	-	1	5	MSH6	child	7_67079471_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
6fcf90ce-3288-11e6-a284-4b89a2c71c31	4_174141652_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	174141652	TA	T	520	PASS	GALNT7	Del	intronic	1	7	MSH6	child	4_174141652_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
6fd04d0e-329a-11e6-aca6-b39fcc638e3d	2_45283390_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	45283390	GA	G	1140	PASS	-	Del	-	1	7	MSH6	child	2_45283390_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
6fd2dfe8-328a-11e6-a80b-87090e01a414	11_71505372_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	71505372	CA	C	300	PASS	FAM86C1	Del	intronic	1	8	MSH6	child	11_71505372_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
6fde2c98-328c-11e6-b6a6-1f1e0e01a414	4_2008612_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	2008612	TA	T	840	PASS	NELFA	Del	intronic	1	6	MSH6	child	4_2008612_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
6fee7e16-3289-11e6-821d-8c090e01a414	13_28726353_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	28726353	TA	T	300	PASS	PAN3	Del	intronic	1	8	MSH6	child	13_28726353_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
6ff592bc-3259-11e6-acc5-308412ae24cf	5_34180096_CCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	34180096	C	CT	333	PASS	-	Ins	-	1	1	MSH6	child	5_34180096_CCT_MSH6	1	1	-	-	-	-	Ins
6ffa9f16-3275-11e6-bfd3-a6593dc9300a	X_40561025_CAC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	X	40561025	CA	C	360	PASS	MED14	Del	intronic	1	8	EXO1	child	X_40561025_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
70005bc0-3290-11e6-9401-04ed6f39e758	3_31967304_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	31967304	CA	C	300	PASS	OSBPL10	Del	intronic	1	9	MSH6	child	3_31967304_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
7002ce90-3287-11e6-a21c-b819bce6aa09	X_81293347_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	81293347	TA	T	300	PASS	-	Del	-	1	6	MSH6	child	X_81293347_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
700b95bc-3272-11e6-8f33-a6d9cde16804	11_8902672_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	8902672	AT	A	960	PASS	ST5	Del	intronic	1	9	MSH6	child	11_8902672_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
700bcc94-329a-11e6-b129-195325c9da85	16_29825015_GCG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	29825015	GC	G	540	PASS	PRRT2	Del	frameshift	1	9	MSH6	child	16_29825015_GCG_MSH6	1	1	1	C	8	C	Repeat-mediated
70118232-3296-11e6-800c-01f9d8b4fa2c	5_150316796_TAT	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	5	150316796	TA	T	360	PASS	-	Del	-	1	9	NUDT1	child	5_150316796_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
7019b794-3283-11e6-9ece-78393dc9300a	11_23117747_GGA	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	11	23117747	G	GA	720	PASS	-	Ins	-	1	7	NEIL1	parent	11_23117747_GGA_NEIL1	1	1	-	-	-	-	Ins
70233bea-329a-11e6-b74d-b59fcc638e3d	18_39993899_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	39993899	AT	A	600	PASS	LINC00907	Del	intronic	1	8	MSH6	child	18_39993899_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
702a52b4-3285-11e6-9e76-639d69062303	8_92110052_TAAGTAT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	8	92110052	TAAGTA	T	300	PASS	LRRC69	Del	upstream	5	2	FANCC	child	8_92110052_TAAGTAT_FANCC	5	5	5	AAGTA	1	AAGTA	Repeat-mediated
702adbc0-3259-11e6-aa0b-72f912ae24cf	8_127135136_CCT	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	8	127135136	C	CT	540	PASS	-	Ins	-	1	3	POLB	child	8_127135136_CCT_POLB	1	1	-	-	-	-	Ins
702b3840-3326-11e6-bd60-7fd335cec73b	8_125799517_CAC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	8	125799517	CA	C	360	PASS	-	Del	-	1	9	CHK2	child	8_125799517_CAC_CHK2	1	1	1	A	8	A	Repeat-mediated
702e8ac4-3284-11e6-9daa-026ea2c71c31	14_26197748_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	26197748	GT	G	420	PASS	-	Del	-	1	9	MSH6	child	14_26197748_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
703a85d6-3275-11e6-a6a8-746da178171f	4_89187540_TGATTGGGTGCAGGTGATGCTGATTGATTGGGTGCAGGTGATGCTGGCTGGGTGCAGGTGTTGCTGGCTGATTGGGTGCAGGTGATGCTGATTGGGTGCAGGTGATGCTGGCTGAATGGGTGCAGGTGATGCTGATTGGGTGCAGGTGATGCTGATTGACTGCGTGCAGGTGATGCTAGCTGATTGGGTGCAGGTGATGCTGGCTGACTGGGTGCAGGTGATGTTGGCTGATTGGGTGCAGGTGATGCTGATTGGGTGCAGGTGATGCTGGCTGATTGGGTGCAGGTGATGCTGGCTGATTGGGTGCAGGTGTTAGCTGATTGGGTGCAGGTGATGCTGATTGGGTGCAGGTGATGCTGGCTGACTGGATGCAAGTGATGCTGGCCT	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	4	89187540	TGATTGGGTGCAGGTGATGCTGATTGATTGGGTGCAGGTGATGCTGGCTGGGTGCAGGTGTTGCTGGCTGATTGGGTGCAGGTGATGCTGATTGGGTGCAGGTGATGCTGGCTGAATGGGTGCAGGTGATGCTGATTGGGTGCAGGTGATGCTGATTGACTGCGTGCAGGTGATGCTAGCTGATTGGGTGCAGGTGATGCTGGCTGACTGGGTGCAGGTGATGTTGGCTGATTGGGTGCAGGTGATGCTGATTGGGTGCAGGTGATGCTGGCTGATTGGGTGCAGGTGATGCTGGCTGATTGGGTGCAGGTGTTAGCTGATTGGGTGCAGGTGATGCTGATTGGGTGCAGGTGATGCTGGCTGACTGGATGCAAGTGATGCTGGCC	T	260	PASS	PPM1K	Del	intronic	385	1	NEIL1	child	4_89187540_TGATTGGGTGCAGGTGATGCTGATTGATTGGGTGCAGGTGATGCTGGCTGGGTGCAGGTGTTGCTGGCTGATTGGGTGCAGGTGATGCTGATTGGGTGCAGGTGATGCTGGCTGAATGGGTGCAGGTGATGCTGATTGGGTGCAGGTGATGCTGATTGACTGCGTGCAGGTGATGCTAGCTGATTGGGTGCAGGTGATGCTGGCTGACTGGGTGCAGGTGATGTTGGCTGATTGGGTGCAGGTGATGCTGATTGGGTGCAGGTGATGCTGGCTGATTGGGTGCAGGTGATGCTGGCTGATTGGGTGCAGGTGTTAGCTGATTGGGTGCAGGTGATGCTGATTGGGTGCAGGTGATGCTGGCTGACTGGATGCAAGTGATGCTGGCCT_NEIL1	385	>=10	21	GATTGGGTGCAGGTGATGCTG	0	-	Microhomology-mediated
703d020e-3287-11e6-9bb4-ea6e3adbad45	13_72535602_CTGC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	13	72535602	CTG	C	660	PASS	-	Del	-	2	1	NUDT1	parent	13_72535602_CTGC_NUDT1	2	2	1	T	0	-	Microhomology-mediated
703eb1f8-3273-11e6-975f-8246cab49462	16_62607226_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	62607226	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	16_62607226_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
703fd9c8-3289-11e6-a941-5a85a178171f	9_134853755_TAT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	9	134853755	TA	T	840	PASS	MED27	Del	intronic	1	7	FANCC	child	9_134853755_TAT_FANCC	1	1	1	A	6	A	Repeat-mediated
70441f88-328e-11e6-8f31-bfe16f39e758	9_36399105_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	36399105	CA	C	540	PASS	RNF38	Del	intronic	1	5	MSH6	child	9_36399105_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
7045c2ac-328e-11e6-b6a6-1f1e0e01a414	4_124704919_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	124704919	GA	G	480	PASS	LINC01091	Del	intronic	1	9	MSH6	child	4_124704919_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
704c2b8e-3288-11e6-a8ac-a28ea2c71c31	3_73711624_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	73711624	AT	A	720	PASS	-	Del	-	1	1	MSH6	child	3_73711624_ATA_MSH6	1	1	0	-	0	T	None
705b837a-3285-11e6-9b81-af532a2d4995	3_23271636_TTTAAG	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	3	23271636	T	TTAAG	300	PASS	UBE2E2	Ins	intronic	4	0	NUDT1	child	3_23271636_TTTAAG_NUDT1	4	4	-	-	-	-	Ins
705dead2-3273-11e6-a685-a844e7d0bdd7	10_55448163_AGA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	10	55448163	AG	A	480	PASS	-	Del	-	1	2	EXO1	child	10_55448163_AGA_EXO1	1	1	1	G	1	G	Repeat-mediated
7068d1ea-328c-11e6-b6a6-1f1e0e01a414	4_2090843_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	2090843	GT	G	300	PASS	POLN	Del	intronic	1	8	MSH6	child	4_2090843_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
7069425e-3257-11e6-9f9d-2c7a7872c165	12_127063557_GGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	127063557	G	GT	360	PASS	-	Ins	-	1	1	MSH6	child	12_127063557_GGT_MSH6	1	1	-	-	-	-	Ins
7072cccc-326e-11e6-b306-b5204b47a305	2_163337092_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	163337092	GT	G	300	PASS	KCNH7	Del	intronic	1	5	MSH6	child	2_163337092_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
707a71ac-3273-11e6-826a-adb6fa52e078	17_61147586_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	17	61147586	GA	G	300	PASS	TANC2	Del	intronic	1	8	MSH6	child	17_61147586_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
708a3178-328c-11e6-b6a6-1f1e0e01a414	4_2108024_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	2108024	CA	C	360	PASS	POLN	Del	intronic	1	5	MSH6	child	4_2108024_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
708ae966-3254-11e6-bc65-c9667872c165	13_89026855_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	89026855	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	13_89026855_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
708ce1e0-328a-11e6-bb2d-24a320e7b7a8	X_33077086_GTG	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	X	33077086	GT	G	300	PASS	DMD	Del	intronic	1	4	POLE	child	X_33077086_GTG_POLE	1	1	1	T	3	T	Repeat-mediated
709774f4-3297-11e6-af1c-983e8cd8cd69	11_109443353_GAG	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	11	109443353	GA	G	471	PASS	-	Del	-	1	6	CHK2	child	11_109443353_GAG_CHK2	1	1	1	A	5	A	Repeat-mediated
70996692-328d-11e6-ae53-96c36f39e758	15_84722740_AGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	84722740	AG	A	396	PASS	-	Del	-	1	6	MSH6	child	15_84722740_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
70a00672-3289-11e6-a7cf-80090e01a414	15_24515730_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	24515730	AT	A	471	PASS	RP11-580I1.2	Del	intronic	1	9	MSH6	child	15_24515730_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
70a163f8-326d-11e6-bc62-6d4742c4520d	16_63445059_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	63445059	GT	G	480	PASS	RP11-368L12.1	Del	intronic	1	5	MSH6	child	16_63445059_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
70a4669e-3320-11e6-b981-016519a91649	2_23343747_GAG	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	2	23343747	GA	G	300	PASS	AC016768.1	Del	intronic	1	5	CHK2	child	2_23343747_GAG_CHK2	1	1	1	A	4	A	Repeat-mediated
70a56018-328e-11e6-8952-77c36f39e758	10_62185871_CCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	62185871	C	CT	480	PASS	ANK3	Ins	intronic	1	2	MSH6	child	10_62185871_CCT_MSH6	1	1	-	-	-	-	Ins
70b1a34c-328d-11e6-9a04-1f6bfc77b11e	12_69842170_CTC	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	12	69842170	CT	C	480	PASS	RP11-956E11.1	Del	upstream	1	9	POLE	child	12_69842170_CTC_POLE	1	1	1	T	8	T	Repeat-mediated
70b385e4-3293-11e6-89b3-f12a3dc9300a	15_71851984_GGAAG	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	15	71851984	GGAA	G	480	PASS	THSD4	Del	intronic	3	3	POLB	child	15_71851984_GGAAG_POLB	3	3	3	GAA	2	GAA	Repeat-mediated
70b7690a-329a-11e6-b74d-b59fcc638e3d	18_40153993_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	40153993	AC	A	540	PASS	LINC00907	Del	intronic	1	3	MSH6	child	18_40153993_ACA_MSH6	1	1	1	C	2	C	Repeat-mediated
70b93ee6-328c-11e6-aac2-75bb5d753391	4_155553538_ATA	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	4	155553538	AT	A	600	PASS	LRAT	Del	intronic	1	5	POLE	child	4_155553538_ATA_POLE	1	1	1	T	4	T	Repeat-mediated
70bcb1e8-328c-11e6-9c89-8d090e01a414	1_188944987_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	188944987	CA	C	480	PASS	-	Del	-	1	2	MSH6	child	1_188944987_CAC_MSH6	1	1	1	A	1	A	Repeat-mediated
70bf36f6-32a1-11e6-a04f-c66a25c9da85	6_139893002_GCG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	139893002	GC	G	780	PASS	-	Del	-	1	7	MSH6	child	6_139893002_GCG_MSH6	1	1	1	C	6	C	Repeat-mediated
70c1a9a0-326e-11e6-acc7-e55219a91649	1_169571859_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	169571859	AT	A	480	PASS	SELP	Del	intronic	1	9	MSH6	child	1_169571859_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
70c6e1fe-327d-11e6-b10b-a867faf1a024	1_93687973_CAC	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	1	93687973	CA	C	720	PASS	CCDC18	Del	intronic	1	9	POLB	parent	1_93687973_CAC_POLB	1	1	1	A	8	A	Repeat-mediated
70c93478-3254-11e6-a304-347a7872c165	1_52330309_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	52330309	AT	A	540	PASS	NRD1	Del	intronic	1	9	MSH6	child	1_52330309_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
70d0ab26-3291-11e6-802b-5da39b6d3b88	10_32458439_GAG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	10	32458439	GA	G	360	PASS	RNU7-22P	Del	upstream	1	9	NUDT1	child	10_32458439_GAG_NUDT1	1	1	1	A	8	A	Repeat-mediated
70d3a58e-3272-11e6-b337-78fbd8b4fa2c	2_140733640_GATG	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	2	140733640	GAT	G	480	PASS	-	Del	-	2	5	POLB	child	2_140733640_GATG_POLB	2	2	2	AT	4	AT	Repeat-mediated
70dc97ee-3271-11e6-b923-6726694da5d2	5_143011158_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	143011158	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	5_143011158_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
70e60220-328f-11e6-bd90-978e3adbad45	12_102073989_TAAT	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	12	102073989	TAA	T	420	PASS	MYBPC1	Del	intronic	2	4	NEIL1	child	12_102073989_TAAT_NEIL1	2	2	2	AA	2	A	Repeat-mediated
70e79fd6-3276-11e6-ab69-1c1607e9a829	9_135789779_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	135789779	GA	G	600	PASS	TSC1	Del	intronic	1	5	MSH6	child	9_135789779_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
70ec351a-3324-11e6-af46-df1198ba1142	7_145565316_GTG	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	7	145565316	GT	G	480	PASS	-	Del	-	1	7	POLE	child	7_145565316_GTG_POLE	1	1	1	T	6	T	Repeat-mediated
70ecdaec-3275-11e6-a71d-236235cec73b	X_9818725_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	9818725	CA	C	600	PASS	SHROOM2	Del	intronic	1	5	MSH6	child	X_9818725_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
70f93bc0-3275-11e6-98dc-d270cde16804	22_17693328_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	22	17693328	AT	A	720	PASS	CECR1	Del	intronic	1	7	MSH6	child	22_17693328_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
70fcc938-3276-11e6-9ac6-2f1c25864c47	6_73760289_CTC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	6	73760289	CT	C	480	PASS	KCNQ5	Del	intronic	1	3	POLB	child	6_73760289_CTC_POLB	1	1	1	T	2	T	Repeat-mediated
71039b68-3277-11e6-a5d0-4fd14a47a305	2_181195993_GGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	181195993	G	GA	300	PASS	-	Ins	-	1	7	MSH6	child	2_181195993_GGA_MSH6	1	1	-	-	-	-	Ins
71076158-3272-11e6-bfb2-2749c225ee11	12_8069034_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	8069034	CA	C	480	PASS	SLC2A3	Del	downstream	1	8	MSH6	child	12_8069034_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
710cf22a-3322-11e6-8ccd-5c056323ba5a	2_52802545_GTG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	2	52802545	GT	G	660	PASS	-	Del	-	1	5	EXO1	child	2_52802545_GTG_EXO1	1	1	1	T	4	T	Repeat-mediated
710f14ac-3326-11e6-bd60-7fd335cec73b	8_126194897_AATA	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	8	126194897	AAT	A	360	PASS	NSMCE2	Del	intronic	2	2	CHK2	child	8_126194897_AATA_CHK2	2	2	2	AT	1	AT	Repeat-mediated
7116e872-3285-11e6-99f7-076ea2c71c31	12_92528146_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	92528146	GA	G	420	PASS	C12orf79	Del	intronic	1	9	MSH6	child	12_92528146_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
711820c0-328a-11e6-9c89-8d090e01a414	1_61689311_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	61689311	GT	G	540	PASS	NFIA	Del	intronic	1	7	MSH6	child	1_61689311_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
7127913e-328c-11e6-b8e6-91c36f39e758	11_61955751_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	61955751	AT	A	480	PASS	SCGB1D1	Del	upstream	1	9	MSH6	child	11_61955751_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
712bb3fe-329b-11e6-b723-b29fcc638e3d	19_57251736_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	57251736	AT	A	540	PASS	-	Del	-	1	5	MSH6	child	19_57251736_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
713410d0-328c-11e6-9c89-8d090e01a414	1_189013620_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	189013620	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	1_189013620_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
71388b2a-329f-11e6-aea7-956725c9da85	3_59265127_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	59265127	TA	T	300	PASS	-	Del	-	1	3	MSH6	child	3_59265127_TAT_MSH6	1	1	1	A	2	A	Repeat-mediated
7139796e-334d-11e6-84ae-66e1b0dab373	20_8540176_TAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	20	8540176	TA	T	300	PASS	PLCB1	Del	intronic	1	6	FANCC	child	20_8540176_TAT_FANCC	1	1	1	A	5	A	Repeat-mediated
713c1f50-328c-11e6-8952-77c36f39e758	10_58803522_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	58803522	AT	A	759	PASS	-	Del	-	1	9	MSH6	child	10_58803522_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
713d7876-3289-11e6-9c2b-e85751c54cdd	9_117285616_CCT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	9	117285616	C	CT	540	PASS	-	Ins	-	1	6	EXO1	child	9_117285616_CCT_EXO1	1	1	-	-	-	-	Ins
7144cf6c-328a-11e6-821d-8c090e01a414	13_91988390_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	91988390	GT	G	600	PASS	-	Del	-	1	7	MSH6	child	13_91988390_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
7149ea1a-3285-11e6-a8af-066ea2c71c31	15_71337396_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	71337396	AT	A	420	PASS	LRRC49	Del	intronic	1	8	MSH6	child	15_71337396_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
714c8c7c-3292-11e6-b77d-2eef6f39e758	6_134579550_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	134579550	TA	T	660	PASS	SGK1	Del	intronic	1	8	MSH6	child	6_134579550_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
715594b6-3288-11e6-b9eb-c78fa2c71c31	6_51452751_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	51452751	GT	G	420	PASS	-	Del	-	1	9	MSH6	child	6_51452751_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
71599b36-328f-11e6-8f31-bfe16f39e758	9_123438730_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	123438730	AT	A	600	PASS	MEGF9	Del	intronic	1	9	MSH6	child	9_123438730_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
716572ca-3277-11e6-8c34-46e27872c165	5_146697647_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	146697647	CT	C	600	PASS	STK32A	Del	intronic	1	7	MSH6	child	5_146697647_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
716c482a-3290-11e6-8fa6-65cc977b3f23	15_91831873_TTTC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	15	91831873	T	TTC	660	PASS	SV2B	Ins	intronic	2	7	NEIL1	child	15_91831873_TTTC_NEIL1	2	2	-	-	-	-	Ins
7173e798-328f-11e6-b6a6-1f1e0e01a414	4_184226386_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	184226386	GA	G	360	PASS	WWC2	Del	intronic	1	9	MSH6	child	4_184226386_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
717e2d8e-328a-11e6-a7cf-80090e01a414	15_65772466_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	65772466	TA	T	386	PASS	DPP8	Del	intronic	1	9	MSH6	child	15_65772466_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
7181e33c-3291-11e6-9d24-ade56f39e758	7_19704340_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	19704340	A	AT	360	PASS	-	Ins	-	1	7	MSH6	child	7_19704340_AAT_MSH6	1	1	-	-	-	-	Ins
71885670-3284-11e6-9daa-026ea2c71c31	14_26951685_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	26951685	TA	T	300	PASS	NOVA1	Del	intronic	1	8	MSH6	child	14_26951685_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
718ceaea-328a-11e6-b74f-549ba2c71c31	20_61186724_AGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	61186724	AG	A	780	PASS	-	Del	-	1	6	MSH6	child	20_61186724_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
718fc714-326d-11e6-b9f4-5d1d694da5d2	14_75435287_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	75435287	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	14_75435287_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
719462e2-3277-11e6-b068-16d27d6a9fc7	6_70683958_TAT	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	6	70683958	TA	T	300	PASS	COL19A1	Del	intronic	1	8	NEIL1	child	6_70683958_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
719e42ac-326e-11e6-acc7-e55219a91649	1_170031828_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	170031828	CT	C	300	PASS	KIFAP3	Del	intronic	1	9	MSH6	child	1_170031828_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
719f23dc-3284-11e6-a8af-066ea2c71c31	15_22498149_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	22498149	CA	C	262	PASS	-	Del	-	1	7	MSH6	child	15_22498149_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
71a565b6-3294-11e6-8b88-ec04b51afd22	9_6808917_GATGAAAGCATAAATCTTACAG	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	9	6808917	GATGAAAGCATAAATCTTACA	G	360	PASS	KDM4C	Del	intronic	20	1	NEIL1	child	9_6808917_GATGAAAGCATAAATCTTACAG_NEIL1	20	>=10	1	A	0	-	Microhomology-mediated
71aa1b38-3276-11e6-bc24-bc6e3cfdbd24	6_21053190_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	6	21053190	AT	A	300	PASS	CDKAL1	Del	intronic	1	9	MSH6	parent	6_21053190_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
71ba891e-328a-11e6-a7cf-80090e01a414	15_65777168_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	65777168	CT	C	300	PASS	DPP8	Del	intronic	1	7	MSH6	child	15_65777168_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
71c26a28-3279-11e6-a6f2-281f630e6611	8_137844579_CATTTTATACATTAAAACACAGAACAAAAGTAAATTTCAGGAAGAAAATGAGACCGGCTTAC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	8	137844579	CATTTTATACATTAAAACACAGAACAAAAGTAAATTTCAGGAAGAAAATGAGACCGGCTTA	C	960	PASS	RP11-30J20.1	Del	intronic	60	1	CHK2	child	8_137844579_CATTTTATACATTAAAACACAGAACAAAAGTAAATTTCAGGAAGAAAATGAGACCGGCTTAC_CHK2	60	>=10	1	A	0	-	Microhomology-mediated
71c986ce-3273-11e6-a862-bc9becf1e924	1_63959304_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	63959304	GA	G	420	PASS	ITGB3BP	Del	intronic	1	9	MSH6	child	1_63959304_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
71ca7d80-328d-11e6-919e-92c36f39e758	2_131754944_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	131754944	AT	A	480	PASS	ARHGEF4	Del	intronic	1	8	MSH6	child	2_131754944_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
71d06872-328c-11e6-bd84-429305ad5bc4	1_120348731_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	120348731	CT	C	420	PASS	REG4	Del	intronic	1	9	MSH6	child	1_120348731_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
71d24d66-3289-11e6-aff5-85090e01a414	16_10636323_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	10636323	AT	A	300	PASS	EMP2	Del	intronic	1	6	MSH6	child	16_10636323_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
71f23414-3270-11e6-a539-0e5542c4520d	7_103756087_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	103756087	CT	C	540	PASS	-	Del	-	1	7	MSH6	child	7_103756087_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
71fd7e04-328a-11e6-b74f-549ba2c71c31	20_61509887_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	61509887	CT	C	420	PASS	DIDO1	Del	3prime_UTR_variant	1	7	MSH6	child	20_61509887_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
72033af2-328e-11e6-919e-92c36f39e758	2_198879270_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	198879270	CT	C	720	PASS	PLCL1	Del	intronic	1	8	MSH6	child	2_198879270_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
7207c808-3291-11e6-9230-fb250e01a414	3_24243160_GGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	24243160	G	GA	660	PASS	THRB	Ins	intronic	1	2	MSH6	child	3_24243160_GGA_MSH6	1	1	-	-	-	-	Ins
7211dfbe-3287-11e6-a5b3-3f1ebce6aa09	7_93469439_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	93469439	CA	C	960	PASS	-	Del	-	1	9	MSH6	child	7_93469439_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
722569e4-326e-11e6-9d68-ac9acab49462	15_81858673_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	81858673	GT	G	1020	PASS	CTD-2034I4.1	Del	intronic	1	7	MSH6	child	15_81858673_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
72283e8a-3287-11e6-a21c-b819bce6aa09	X_83371330_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	83371330	AT	A	660	PASS	RPS6KA6	Del	intronic	1	8	MSH6	child	X_83371330_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
722ea048-3289-11e6-940d-53a538e8a824	2_187720876_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	2	187720876	AT	A	300	PASS	-	Del	-	1	5	NUDT1	parent	2_187720876_ATA_NUDT1	1	1	1	T	4	T	Repeat-mediated
723b317a-3322-11e6-ad87-aefe97ba1142	10_73930722_ACA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	10	73930722	AC	A	420	PASS	ASCC1	Del	intronic	1	8	EXO1	child	10_73930722_ACA_EXO1	1	1	1	C	7	C	Repeat-mediated
723c000c-3285-11e6-8b67-086ea2c71c31	1_86283131_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	86283131	AT	A	420	PASS	COL24A1	Del	intronic	1	9	MSH6	child	1_86283131_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
723d348a-328b-11e6-bd95-63cc977b3f23	1_9618240_CTAAAGC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	1	9618240	CTAAAG	C	1080	PASS	SLC25A33	Del	intronic	5	2	NEIL1	child	1_9618240_CTAAAGC_NEIL1	5	5	5	TAAAG	1	TAAAG	Repeat-mediated
724e754c-3281-11e6-af60-a9f7b0dab373	10_34376883_GAG	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	10	34376883	GA	G	660	PASS	-	Del	-	1	7	POLE	parent	10_34376883_GAG_POLE	1	1	1	A	6	A	Repeat-mediated
725afd24-3292-11e6-9d24-ade56f39e758	7_91698025_CCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	91698025	C	CT	600	PASS	AKAP9	Ins	intronic	1	8	MSH6	child	7_91698025_CCT_MSH6	1	1	-	-	-	-	Ins
72647b94-3272-11e6-a5d0-4fd14a47a305	2_4878338_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	4878338	CT	C	660	PASS	-	Del	-	1	8	MSH6	child	2_4878338_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
7265afb4-329a-11e6-b74d-b59fcc638e3d	18_40496254_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	40496254	TA	T	480	PASS	RIT2	Del	intronic	1	5	MSH6	child	18_40496254_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
726a9020-328a-11e6-afaf-7f6251c54cdd	6_132646153_ATA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	6	132646153	AT	A	420	PASS	MOXD1	Del	intronic	1	7	EXO1	child	6_132646153_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
726d8d40-328d-11e6-919e-92c36f39e758	2_131955895_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	131955895	TA	T	540	PASS	PLEKHB2	Del	intronic	1	5	MSH6	child	2_131955895_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
7277c194-3296-11e6-9baf-ebf997ba1142	14_24918511_ATA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	14	24918511	AT	A	412	PASS	-	Del	-	1	4	CHK2	child	14_24918511_ATA_CHK2	1	1	1	T	3	T	Repeat-mediated
728d1d42-329f-11e6-94ca-0aaecc638e3d	X_122200835_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	122200835	GA	G	900	PASS	-	Del	-	1	9	MSH6	child	X_122200835_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
728e93be-325b-11e6-8b28-55ad7872c165	20_57468357_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	57468357	CT	C	480	PASS	GNAS	Del	intronic	1	8	MSH6	child	20_57468357_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
729eae9e-3282-11e6-b857-6115038949d4	5_5143324_ATA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	5	5143324	AT	A	480	PASS	ADAMTS16	Del	intronic	1	2	POLM	child	5_5143324_ATA_POLM	1	1	1	T	1	T	Repeat-mediated
72a67994-3327-11e6-8030-ef8819a91649	6_138888396_CTGGAACTATAGGCACACACCACCACACTTGACTACTTTTTCTATTTTTTTGTAGAGACAAGGTTTCGTCGTGTTCCCCAGGCTGGTCTTGAACTCCTGGGCTCAAGTGTTATGCCCACTTCGGCCTCCGAAAATGTTGGGATAACAAGCATGAGCCACCACGCCTGGCCCAGGAAGCTATTCCTAAGTCCCACCAATTTAAGGATTTTATTATCAGAAATAGATCACAGCTATTTACATGGAAACAGGATCTTGACTTTTGACCTAGCTGCTTTTGGTTTTTCATGTCATTTTTCTCCACTGTAATATCTGGTCATTAGTAATCTAATTATGTGCAAGGATCCTGCTTTCTGCAACTATTTTATTAGGAGAAAAACTGGGATGAAATTACTTTAAATAGATCCAACTCCCACACTCAAAAATTGATTATCTAGTATATGGATTATTCATTACCCTTGATGCCTAGTATGGTCATTCTCTGGCCATTTTTGTAGTGGCTGAGAAGGGAGGACACTGACATTCAAATGATTCAAAGCTGGTAACATTACTAGTCTGTACGATAAAGTCCAGAAGGAAAGGATGAAACATTGTTCAAAGCAAGGCTTTGCATGTCAATTACCTTCTCTATCTGCTGACCTGCCAATACCAGGATCATCAATCACGCTTCTGCCCAGCTAAATGGAGAGCTGGGGATACAACAAAACAAGCTCTGCTCAATGAGAAGACGGACACCCCATATGATTCCACCTCTTTTAGTTTTATTTGAGTGAGCAAGAAAGGGAAAGCACAGAATAAATACTACTAGTCATTAGTTTTCCTCAAGGACCTTCCACAGTGCTGGAAAAGCAGCAGGCACTCATTAAATCTTGTTCAGTTAAATGCTAACAGTTAGAAGACCATGCAAAACATGAAAATGTTCCAGATAAAGTTCCTTTATGCGGACCTTCTCATCTAGGTCATCGTGTTGCACTTTTTCACAATTATCCTACATTTTCTCTTTAACCCCCCTGCTTTAGATGTCTTATTTGCTTCTCCATTTAAGCATGAACTCCATGACTTCAGGGCCTGAGTGCTATCTTTCTTTGTATCCTGCACATAGTATTCAGTAATGATTCCACCAATAAATGCTCTCACAACTTCACGTGAAAAGTTACATATTGTCTTATCTACCACTGCATTCCACTTTTTTACTATAAAGAAGACACTGATTCACACCCTTGATTTGTATGGCTAATTAAGTCAAAACATCATCTACTACTCCTCCTGAGTA	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	6	138888396	CTGGAACTATAGGCACACACCACCACACTTGACTACTTTTTCTATTTTTTTGTAGAGACAAGGTTTCGTCGTGTTCCCCAGGCTGGTCTTGAACTCCTGGGCTCAAGTGTTATGCCCACTTCGGCCTCCGAAAATGTTGGGATAACAAGCATGAGCCACCACGCCTGGCCCAGGAAGCTATTCCTAAGTCCCACCAATTTAAGGATTTTATTATCAGAAATAGATCACAGCTATTTACATGGAAACAGGATCTTGACTTTTGACCTAGCTGCTTTTGGTTTTTCATGTCATTTTTCTCCACTGTAATATCTGGTCATTAGTAATCTAATTATGTGCAAGGATCCTGCTTTCTGCAACTATTTTATTAGGAGAAAAACTGGGATGAAATTACTTTAAATAGATCCAACTCCCACACTCAAAAATTGATTATCTAGTATATGGATTATTCATTACCCTTGATGCCTAGTATGGTCATTCTCTGGCCATTTTTGTAGTGGCTGAGAAGGGAGGACACTGACATTCAAATGATTCAAAGCTGGTAACATTACTAGTCTGTACGATAAAGTCCAGAAGGAAAGGATGAAACATTGTTCAAAGCAAGGCTTTGCATGTCAATTACCTTCTCTATCTGCTGACCTGCCAATACCAGGATCATCAATCACGCTTCTGCCCAGCTAAATGGAGAGCTGGGGATACAACAAAACAAGCTCTGCTCAATGAGAAGACGGACACCCCATATGATTCCACCTCTTTTAGTTTTATTTGAGTGAGCAAGAAAGGGAAAGCACAGAATAAATACTACTAGTCATTAGTTTTCCTCAAGGACCTTCCACAGTGCTGGAAAAGCAGCAGGCACTCATTAAATCTTGTTCAGTTAAATGCTAACAGTTAGAAGACCATGCAAAACATGAAAATGTTCCAGATAAAGTTCCTTTATGCGGACCTTCTCATCTAGGTCATCGTGTTGCACTTTTTCACAATTATCCTACATTTTCTCTTTAACCCCCCTGCTTTAGATGTCTTATTTGCTTCTCCATTTAAGCATGAACTCCATGACTTCAGGGCCTGAGTGCTATCTTTCTTTGTATCCTGCACATAGTATTCAGTAATGATTCCACCAATAAATGCTCTCACAACTTCACGTGAAAAGTTACATATTGTCTTATCTACCACTGCATTCCACTTTTTTACTATAAAGAAGACACTGATTCACACCCTTGATTTGTATGGCTAATTAAGTCAAAACATCATCTACTACT	CCTCCTGAGTA	540	PASS	NHSL1	Complex	intronic	1258	0	CHK2	child	6_138888396_CTGGAACTATAGGCACACACCACCACACTTGACTACTTTTTCTATTTTTTTGTAGAGACAAGGTTTCGTCGTGTTCCCCAGGCTGGTCTTGAACTCCTGGGCTCAAGTGTTATGCCCACTTCGGCCTCCGAAAATGTTGGGATAACAAGCATGAGCCACCACGCCTGGCCCAGGAAGCTATTCCTAAGTCCCACCAATTTAAGGATTTTATTATCAGAAATAGATCACAGCTATTTACATGGAAACAGGATCTTGACTTTTGACCTAGCTGCTTTTGGTTTTTCATGTCATTTTTCTCCACTGTAATATCTGGTCATTAGTAATCTAATTATGTGCAAGGATCCTGCTTTCTGCAACTATTTTATTAGGAGAAAAACTGGGATGAAATTACTTTAAATAGATCCAACTCCCACACTCAAAAATTGATTATCTAGTATATGGATTATTCATTACCCTTGATGCCTAGTATGGTCATTCTCTGGCCATTTTTGTAGTGGCTGAGAAGGGAGGACACTGACATTCAAATGATTCAAAGCTGGTAACATTACTAGTCTGTACGATAAAGTCCAGAAGGAAAGGATGAAACATTGTTCAAAGCAAGGCTTTGCATGTCAATTACCTTCTCTATCTGCTGACCTGCCAATACCAGGATCATCAATCACGCTTCTGCCCAGCTAAATGGAGAGCTGGGGATACAACAAAACAAGCTCTGCTCAATGAGAAGACGGACACCCCATATGATTCCACCTCTTTTAGTTTTATTTGAGTGAGCAAGAAAGGGAAAGCACAGAATAAATACTACTAGTCATTAGTTTTCCTCAAGGACCTTCCACAGTGCTGGAAAAGCAGCAGGCACTCATTAAATCTTGTTCAGTTAAATGCTAACAGTTAGAAGACCATGCAAAACATGAAAATGTTCCAGATAAAGTTCCTTTATGCGGACCTTCTCATCTAGGTCATCGTGTTGCACTTTTTCACAATTATCCTACATTTTCTCTTTAACCCCCCTGCTTTAGATGTCTTATTTGCTTCTCCATTTAAGCATGAACTCCATGACTTCAGGGCCTGAGTGCTATCTTTCTTTGTATCCTGCACATAGTATTCAGTAATGATTCCACCAATAAATGCTCTCACAACTTCACGTGAAAAGTTACATATTGTCTTATCTACCACTGCATTCCACTTTTTTACTATAAAGAAGACACTGATTCACACCCTTGATTTGTATGGCTAATTAAGTCAAAACATCATCTACTACTCCTCCTGAGTA_CHK2	1248	>=10	-	-	-	-	Complex
72c2228a-3272-11e6-b8ae-92c57872c165	14_22615183_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	22615183	AT	A	600	PASS	-	Del	-	1	8	MSH6	child	14_22615183_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
72d039da-3270-11e6-9d19-c216987b3f23	21_15860320_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	21	15860320	CT	C	360	PASS	SAMSN1	Del	intronic	1	8	MSH6	child	21_15860320_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
72d512c4-3271-11e6-a812-e11198ba1142	9_77830962_CTAATC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	9	77830962	CTAAT	C	420	PASS	-	Del	-	4	1	EXO1	parent	9_77830962_CTAATC_EXO1	4	4	3	TAA	0	-	Microhomology-mediated
72db4004-3276-11e6-ab69-1c1607e9a829	9_136265024_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	136265024	AG	A	300	PASS	C9orf96	Del	intronic	1	8	MSH6	child	9_136265024_AGA_MSH6	1	1	1	G	7	G	Repeat-mediated
72dc9eea-3285-11e6-8fa3-1d15038949d4	4_25696010_CCA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	4	25696010	C	CA	360	PASS	-	Ins	-	1	2	POLM	child	4_25696010_CCA_POLM	1	1	-	-	-	-	Ins
72e23e8e-329b-11e6-b723-b29fcc638e3d	19_57525037_TCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	57525037	TC	T	610	PASS	-	Del	-	1	1	MSH6	child	19_57525037_TCT_MSH6	1	1	0	-	0	C	None
72e5ccd0-3281-11e6-8857-3d859cdf095d	18_59791632_CAC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	18	59791632	CA	C	600	PASS	PIGN	Del	intronic	1	7	POLE	child	18_59791632_CAC_POLE	1	1	1	A	6	A	Repeat-mediated
72fc1dc6-3292-11e6-8c3d-0ab4e7d0bdd7	3_135599930_CAC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	3	135599930	CA	C	300	PASS	-	Del	-	1	7	FANCC	child	3_135599930_CAC_FANCC	1	1	1	A	6	A	Repeat-mediated
72fcbd88-328a-11e6-8459-82090e01a414	12_69233089_TCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	69233089	TC	T	300	PASS	MDM2	Del	frameshift	1	7	MSH6	child	12_69233089_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
7305d564-3288-11e6-a284-4b89a2c71c31	4_175278346_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	175278346	AT	A	780	PASS	RP11-51M24.1	Del	intronic	1	9	MSH6	child	4_175278346_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
7310b5a8-326d-11e6-b306-b5204b47a305	2_70848010_CTTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	70848010	CTT	C	300	PASS	-	Del	-	2	3	MSH6	child	2_70848010_CTTC_MSH6	2	2	1	T	0	-	Microhomology-mediated
731a72e6-3277-11e6-92d2-c259c225ee11	3_78911458_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	78911458	GA	G	300	PASS	ROBO1	Del	intronic	1	8	MSH6	child	3_78911458_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
731a79e0-328f-11e6-8fd1-f2ac12ae24cf	X_121870617_GGC	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	X	121870617	G	GC	300	PASS	-	Ins	-	1	2	CHK2	child	X_121870617_GGC_CHK2	1	1	-	-	-	-	Ins
731dc024-3289-11e6-989a-645b51c54cdd	5_178335934_CTAAAACCCCTCGTGGCCTTTGGAATACCAAGTTTAGTGCTAAAGGGTGGAAGGCTGCCCTGCCGCACCGTTATCTAAGCCCAGGGCGTAAAACCCCTCGTGGCCTGGATGGAATCCAGGGCTCAGGGCGTAAAACCCCTCGTGGCCTGGATGGAATCCAGGGCTCAGGGCGTAAAACCCCTCGTGGCCTGGATGGAATCCAGGGCTCAGGGCGTAAAACCCCTCGTGGCCTGGATGGAATCCAGGGCTCAGGGCGC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	5	178335934	CTAAAACCCCTCGTGGCCTTTGGAATACCAAGTTTAGTGCTAAAGGGTGGAAGGCTGCCCTGCCGCACCGTTATCTAAGCCCAGGGCGTAAAACCCCTCGTGGCCTGGATGGAATCCAGGGCTCAGGGCGTAAAACCCCTCGTGGCCTGGATGGAATCCAGGGCTCAGGGCGTAAAACCCCTCGTGGCCTGGATGGAATCCAGGGCTCAGGGCGTAAAACCCCTCGTGGCCTGGATGGAATCCAGGGCTCAGGGCG	C	296	PASS	ZFP2	Del	intronic	255	1	EXO1	child	5_178335934_CTAAAACCCCTCGTGGCCTTTGGAATACCAAGTTTAGTGCTAAAGGGTGGAAGGCTGCCCTGCCGCACCGTTATCTAAGCCCAGGGCGTAAAACCCCTCGTGGCCTGGATGGAATCCAGGGCTCAGGGCGTAAAACCCCTCGTGGCCTGGATGGAATCCAGGGCTCAGGGCGTAAAACCCCTCGTGGCCTGGATGGAATCCAGGGCTCAGGGCGTAAAACCCCTCGTGGCCTGGATGGAATCCAGGGCTCAGGGCGC_EXO1	255	>=10	18	TAAAACCCCTCGTGGCCT	0	-	Microhomology-mediated
731f29bc-3277-11e6-83cd-a472a178171f	4_171516496_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	171516496	TA	T	300	PASS	-	Del	-	1	4	MSH6	child	4_171516496_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
732102a2-328e-11e6-8f31-bfe16f39e758	9_36580324_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	36580324	CT	C	480	PASS	MELK	Del	intronic	1	9	MSH6	child	9_36580324_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
7325a00c-32a0-11e6-bc66-17b4cc638e3d	8_106954685_TACT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	106954685	TAC	T	780	PASS	-	Del	-	2	7	MSH6	child	8_106954685_TACT_MSH6	2	2	2	AC	6	AC	Repeat-mediated
732bb788-3284-11e6-8b67-086ea2c71c31	1_10014281_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	10014281	CT	C	420	PASS	NMNAT1	Del	intronic	1	9	MSH6	child	1_10014281_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
732bf80e-326d-11e6-9d68-ac9acab49462	15_63229728_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	63229728	GT	G	360	PASS	-	Del	-	1	7	MSH6	child	15_63229728_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
7334693a-3277-11e6-8c34-46e27872c165	5_147264417_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	147264417	AT	A	780	PASS	SCGB3A2	Del	downstream	1	7	MSH6	child	5_147264417_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
73346b78-3255-11e6-b4d0-327a7872c165	11_130282119_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	130282119	CT	C	540	PASS	ADAMTS8	Del	intronic	1	9	MSH6	child	11_130282119_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
733877fa-329a-11e6-a0ea-135325c9da85	15_47639116_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	47639116	CT	C	480	PASS	SEMA6D	Del	intronic	1	9	MSH6	child	15_47639116_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
733b6386-3275-11e6-a71d-236235cec73b	X_10976813_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	10976813	TA	T	600	PASS	RP11-120D5.1	Del	intronic	1	9	MSH6	child	X_10976813_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
7344b68c-3254-11e6-bc65-c9667872c165	13_89907446_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	89907446	CA	C	720	PASS	-	Del	-	1	8	MSH6	child	13_89907446_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
735247fe-3275-11e6-88b6-40832aaffa45	1_177298596_GTG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	177298596	GT	G	480	PASS	-	Del	-	1	9	EXO1	child	1_177298596_GTG_EXO1	1	1	1	T	8	T	Repeat-mediated
7352d0d6-328c-11e6-aac2-75bb5d753391	4_156693144_TAT	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	4	156693144	TA	T	540	PASS	GUCY1B3	Del	intronic	1	1	POLE	child	4_156693144_TAT_POLE	1	1	0	-	0	A	None
73579982-3254-11e6-a4a7-35f212ae24cf	14_76752807_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	76752807	TA	T	480	PASS	RP11-516J2.1	Del	intronic	1	8	MSH6	child	14_76752807_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
7364faa0-329a-11e6-b74d-b59fcc638e3d	18_40898990_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	40898990	AT	A	360	PASS	-	Del	-	1	5	MSH6	child	18_40898990_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
73661d6c-3291-11e6-919e-92c36f39e758	2_155964384_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	155964384	T	TA	360	PASS	-	Ins	-	1	6	MSH6	child	2_155964384_TTA_MSH6	1	1	-	-	-	-	Ins
736962c0-3277-11e6-a391-f6d67d6a9fc7	6_2927477_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	2927477	AT	A	1200	PASS	-	Del	-	1	8	MSH6	child	6_2927477_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
73723c40-3274-11e6-afaa-a1dd79852e0e	6_67424796_TAT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	6	67424796	TA	T	360	PASS	-	Del	-	1	7	POLB	child	6_67424796_TAT_POLB	1	1	1	A	6	A	Repeat-mediated
7377bf9a-329b-11e6-9048-b49fcc638e3d	17_71002241_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	71002241	GA	G	600	PASS	SLC39A11	Del	intronic	1	8	MSH6	child	17_71002241_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
737a7040-3274-11e6-8889-c85efc77b11e	4_37726295_TAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	4	37726295	TA	T	540	PASS	-	Del	-	1	9	MSH6	parent	4_37726295_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
737cccd8-3278-11e6-a391-f6d67d6a9fc7	6_62782785_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	62782785	CT	C	518	PASS	KHDRBS2	Del	intronic	1	7	MSH6	child	6_62782785_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
7381c60c-32a0-11e6-aea7-956725c9da85	3_133014992_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	133014992	CT	C	540	PASS	TMEM108	Del	intronic	1	7	MSH6	child	3_133014992_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
738b423e-3275-11e6-a71d-236235cec73b	X_11307344_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	11307344	GT	G	720	PASS	ARHGAP6	Del	intronic	1	9	MSH6	child	X_11307344_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
7397a608-3277-11e6-a8d8-3e6075253f64	3_141520762_GAG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	3	141520762	GA	G	420	PASS	GRK7	Del	intronic	1	7	FANCC	child	3_141520762_GAG_FANCC	1	1	1	A	6	A	Repeat-mediated
73982ccc-329a-11e6-b74d-b59fcc638e3d	18_41009519_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	41009519	AT	A	660	PASS	-	Del	-	1	9	MSH6	child	18_41009519_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
73a8f9ce-3292-11e6-b77d-2eef6f39e758	6_135342045_GTTGCAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	135342045	GTTGCA	G	480	PASS	HBS1L	Del	intronic	5	1	MSH6	child	6_135342045_GTTGCAG_MSH6	5	5	0	-	0	-	None
73b21ea6-3296-11e6-b14c-5e337a852e0e	X_133837750_GGT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	X	133837750	G	GT	300	PASS	-	Ins	-	1	5	CHK2	child	X_133837750_GGT_CHK2	1	1	-	-	-	-	Ins
73b898a4-3272-11e6-b4ee-9405147bb207	10_117340760_TCT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	10	117340760	TC	T	600	PASS	ATRNL1	Del	intronic	1	1	MSH6	parent	10_117340760_TCT_MSH6	1	1	0	-	0	C	None
73bd89fe-329f-11e6-b696-dd6225c9da85	5_154576355_TACT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	154576355	TAC	T	300	PASS	-	Del	-	2	8	MSH6	child	5_154576355_TACT_MSH6	2	2	2	AC	7	AC	Repeat-mediated
73bdbaee-328d-11e6-8ac8-88d65d753391	3_150354584_ATA	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	3	150354584	AT	A	300	PASS	-	Del	-	1	7	POLE	child	3_150354584_ATA_POLE	1	1	1	T	6	T	Repeat-mediated
73bf9544-3283-11e6-8789-bb6f2aaffa45	11_105406611_CCT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	11	105406611	C	CT	600	PASS	RP11-94P11.4	Ins	upstream	1	5	POLE	child	11_105406611_CCT_POLE	1	1	-	-	-	-	Ins
73c27d00-326e-11e6-bc62-6d4742c4520d	16_47208941_GGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	47208941	G	GA	840	PASS	ITFG1	Ins	intronic	1	2	MSH6	child	16_47208941_GGA_MSH6	1	1	-	-	-	-	Ins
73c3029c-326f-11e6-8c6e-e9d52aaffa45	18_66659865_AACTTTATTATTTGGAAGGGGGAAGAAGAGGTCCTTGGCACTAGTTGGAATGGAAGCTCCAGGGGCAGAGGCTGGGGAGTTCTGGGGCTCCGCTCTCGCCAGGCAGTGTGGGCATGCTGGCCAGGGCAGGCAGCAGGTGTGAATATGTGTCAACCCAGGAGGAACGCAGCCTCATGTAGCCACTCGTCGTGGTCATGCAGCAGCACAGGTGTGTGGCTCATGGGTGAGAAGCCCTACGGCACAGAAGAAACAGCTGTCAGTGGCAGCCAGAGTGTGAGGTTCATGCCCTTGCAGACCTGGCTAAAAGCTGCCCACCAGAGGTCTGAGTCATTAGTAGGTGTCACTCAGAGCTGCATCCGCTTCTGAGCAAACTCGAAAATGTGACCCTGTCTCCAGCTGTCTGGCACCAGCCCTGCAGCTGCTGCTCAAAAGCTTTCAGGTCCACATCTGGTGCCACAGCAAAGTCTGAGCTGGCGCTTATAGTGGCAGTTGCCCATGTTATAAGCCATGCCACCCTCTAGCTTACTCAGGTTCACGGAGGTCACAGCCCCACCCTTTAGATAGGGGTTTGACTGCAGCCTCTGCCTTTCTATCTCCCAAAGGTTGAGATCCAGCTCATAGCCTCGTACAGCTTTCCTGCAGCTGTGCCCTCGCTGAAGCAGAGCCCTGGCCTAGCCTCTGAGTGCTGGTGACCCGCACCCAAGGGACTCTGCTAACTATCAAACACAGTGAAGGCATCAGTTGGCTCATGACAGATTGTCACATATTCTTTAGATGGTTTTAAGAAGGATACATACAGTTATAGTGAAATGCCTGCCTTCCATTTCTTCCCTCTTTTCCTGTAATAAAGATACACAGTGCTGAATGTTCTTTCTGTGTATATTTTTGGTCTTTTACTACATATTAGTGTACTCACAACAATATTTCATTACTTTATGCAAAATTTAAATGACCGATTTTATCCTATATAATTCTGCAGCTTGCTTTTGACACTAAAAATATTTTACAGATGTATGTATATTGATAAATGAAAGTCTAACTAGTTAATCTTAAATGTTATAGGAACCA	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	18	66659865	AACTTTATTATTTGGAAGGGGGAAGAAGAGGTCCTTGGCACTAGTTGGAATGGAAGCTCCAGGGGCAGAGGCTGGGGAGTTCTGGGGCTCCGCTCTCGCCAGGCAGTGTGGGCATGCTGGCCAGGGCAGGCAGCAGGTGTGAATATGTGTCAACCCAGGAGGAACGCAGCCTCATGTAGCCACTCGTCGTGGTCATGCAGCAGCACAGGTGTGTGGCTCATGGGTGAGAAGCCCTACGGCACAGAAGAAACAGCTGTCAGTGGCAGCCAGAGTGTGAGGTTCATGCCCTTGCAGACCTGGCTAAAAGCTGCCCACCAGAGGTCTGAGTCATTAGTAGGTGTCACTCAGAGCTGCATCCGCTTCTGAGCAAACTCGAAAATGTGACCCTGTCTCCAGCTGTCTGGCACCAGCCCTGCAGCTGCTGCTCAAAAGCTTTCAGGTCCACATCTGGTGCCACAGCAAAGTCTGAGCTGGCGCTTATAGTGGCAGTTGCCCATGTTATAAGCCATGCCACCCTCTAGCTTACTCAGGTTCACGGAGGTCACAGCCCCACCCTTTAGATAGGGGTTTGACTGCAGCCTCTGCCTTTCTATCTCCCAAAGGTTGAGATCCAGCTCATAGCCTCGTACAGCTTTCCTGCAGCTGTGCCCTCGCTGAAGCAGAGCCCTGGCCTAGCCTCTGAGTGCTGGTGACCCGCACCCAAGGGACTCTGCTAACTATCAAACACAGTGAAGGCATCAGTTGGCTCATGACAGATTGTCACATATTCTTTAGATGGTTTTAAGAAGGATACATACAGTTATAGTGAAATGCCTGCCTTCCATTTCTTCCCTCTTTTCCTGTAATAAAGATACACAGTGCTGAATGTTCTTTCTGTGTATATTTTTGGTCTTTTACTACATATTAGTGTACTCACAACAATATTTCATTACTTTATGCAAAATTTAAATGACCGATTTTATCCTATATAATTCTGCAGCTTGCTTTTGACACTAAAAATATTTTACAGATGTATGTATATTGATAAATGAAAGTCTAACTAGTTAATCTTAAATGTTATAGGAACC	A	540	PASS	CCDC102B	Del	intronic	1066	1	POLM	child	18_66659865_AACTTTATTATTTGGAAGGGGGAAGAAGAGGTCCTTGGCACTAGTTGGAATGGAAGCTCCAGGGGCAGAGGCTGGGGAGTTCTGGGGCTCCGCTCTCGCCAGGCAGTGTGGGCATGCTGGCCAGGGCAGGCAGCAGGTGTGAATATGTGTCAACCCAGGAGGAACGCAGCCTCATGTAGCCACTCGTCGTGGTCATGCAGCAGCACAGGTGTGTGGCTCATGGGTGAGAAGCCCTACGGCACAGAAGAAACAGCTGTCAGTGGCAGCCAGAGTGTGAGGTTCATGCCCTTGCAGACCTGGCTAAAAGCTGCCCACCAGAGGTCTGAGTCATTAGTAGGTGTCACTCAGAGCTGCATCCGCTTCTGAGCAAACTCGAAAATGTGACCCTGTCTCCAGCTGTCTGGCACCAGCCCTGCAGCTGCTGCTCAAAAGCTTTCAGGTCCACATCTGGTGCCACAGCAAAGTCTGAGCTGGCGCTTATAGTGGCAGTTGCCCATGTTATAAGCCATGCCACCCTCTAGCTTACTCAGGTTCACGGAGGTCACAGCCCCACCCTTTAGATAGGGGTTTGACTGCAGCCTCTGCCTTTCTATCTCCCAAAGGTTGAGATCCAGCTCATAGCCTCGTACAGCTTTCCTGCAGCTGTGCCCTCGCTGAAGCAGAGCCCTGGCCTAGCCTCTGAGTGCTGGTGACCCGCACCCAAGGGACTCTGCTAACTATCAAACACAGTGAAGGCATCAGTTGGCTCATGACAGATTGTCACATATTCTTTAGATGGTTTTAAGAAGGATACATACAGTTATAGTGAAATGCCTGCCTTCCATTTCTTCCCTCTTTTCCTGTAATAAAGATACACAGTGCTGAATGTTCTTTCTGTGTATATTTTTGGTCTTTTACTACATATTAGTGTACTCACAACAATATTTCATTACTTTATGCAAAATTTAAATGACCGATTTTATCCTATATAATTCTGCAGCTTGCTTTTGACACTAAAAATATTTTACAGATGTATGTATATTGATAAATGAAAGTCTAACTAGTTAATCTTAAATGTTATAGGAACCA_POLM	1066	>=10	3	ACT	0	-	Microhomology-mediated
73d34a02-328e-11e6-8e48-791e0e01a414	8_55442127_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	55442127	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	8_55442127_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
73e3057c-3271-11e6-a390-fc104530f757	1_40906731_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	1	40906731	AT	A	300	PASS	-	Del	-	1	7	FANCC	child	1_40906731_ATA_FANCC	1	1	1	T	6	T	Repeat-mediated
73eb922e-328e-11e6-bb1e-70e16f39e758	X_56705175_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	56705175	TA	T	591	PASS	-	Del	-	1	5	MSH6	child	X_56705175_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
73ef1ac8-329a-11e6-8069-175325c9da85	12_32568096_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	32568096	GT	G	950	PASS	-	Del	-	1	8	MSH6	child	12_32568096_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
73f18aee-3289-11e6-94b1-74090e01a414	17_9527423_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	9527423	AT	A	480	PASS	WDR16	Del	intronic	1	6	MSH6	child	17_9527423_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
73fa7bba-328c-11e6-b805-77090e01a414	2_210991238_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	210991238	TA	T	420	PASS	KANSL1L	Del	intronic	1	7	MSH6	child	2_210991238_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
740b8eb4-3278-11e6-a391-f6d67d6a9fc7	6_63183221_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	63183221	TA	T	540	PASS	-	Del	-	1	7	MSH6	child	6_63183221_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
741ae308-3284-11e6-9daa-026ea2c71c31	14_28085584_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	28085584	CA	C	480	PASS	LINC00645	Del	intronic	1	8	MSH6	child	14_28085584_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
741b0340-3272-11e6-b8ae-92c57872c165	14_22980642_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	22980642	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	14_22980642_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
741e49c4-3290-11e6-92db-6c56f0f7a29c	1_199163618_CAC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	1	199163618	CA	C	300	PASS	RP11-382E9.1	Del	intronic	1	9	NEIL1	child	1_199163618_CAC_NEIL1	1	1	1	A	8	A	Repeat-mediated
74285f00-3276-11e6-8703-f161e7d0bdd7	X_82294453_ACTCTA	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	X	82294453	ACTCT	A	420	PASS	-	Del	-	4	5	POLB	child	X_82294453_ACTCTA_POLB	4	4	4	CTCT	3	CT	Repeat-mediated
7428c376-32a0-11e6-bc66-17b4cc638e3d	8_107688816_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	107688816	AT	A	780	PASS	OXR1	Del	intronic	1	8	MSH6	child	8_107688816_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
742ea9c6-3291-11e6-9d97-efe56f39e758	4_188522603_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	188522603	TA	T	480	PASS	RP11-565A3.2	Del	intronic	1	9	MSH6	child	4_188522603_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
744187d0-3273-11e6-83ef-69fb06e9a829	18_73964866_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	73964866	CT	C	960	PASS	RP11-94B19.3	Del	upstream	1	8	MSH6	child	18_73964866_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
744735f0-3286-11e6-afcf-0311bce6aa09	9_80829769_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	80829769	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	9_80829769_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
7447cc12-3287-11e6-997d-e46e3adbad45	12_53673831_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	12	53673831	CT	C	900	PASS	ESPL1	Del	intronic	1	2	NUDT1	parent	12_53673831_CTC_NUDT1	1	1	1	T	1	T	Repeat-mediated
744c083c-327c-11e6-a791-f4a03adbad45	18_41891239_ATA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	18	41891239	AT	A	540	PASS	-	Del	-	1	9	NUDT1	child	18_41891239_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
744dd7ca-3254-11e6-b4d0-327a7872c165	11_63474951_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	63474951	CA	C	660	PASS	RTN3	Del	intronic	1	8	MSH6	child	11_63474951_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
744df7b4-3286-11e6-a5b3-3f1ebce6aa09	7_2393073_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	2393073	CT	C	300	PASS	EIF3B	Del	upstream	1	5	MSH6	child	7_2393073_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
74518acc-329b-11e6-ae71-0c5325c9da85	1_85008183_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	85008183	GT	G	840	PASS	-	Del	-	1	8	MSH6	child	1_85008183_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
745206e0-3283-11e6-9a0d-f803987b3f23	19_41345632_AAT	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	19	41345632	A	AT	308	PASS	CYP2A6	Ins	downstream	1	0	NEIL1	parent	19_41345632_AAT_NEIL1	1	1	-	-	-	-	Ins
745cd72c-328e-11e6-bfa2-581f0e01a414	7_104508929_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	104508929	CA	C	391	PASS	LHFPL3	Del	intronic	1	8	MSH6	child	7_104508929_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
745ce690-3270-11e6-a539-0e5542c4520d	7_104508929_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	104508929	CA	C	435	PASS	LHFPL3	Del	intronic	1	8	MSH6	child	7_104508929_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
7469dd32-328e-11e6-bcba-4aab4430f757	2_193914042_CAC	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	2	193914042	CA	C	420	PASS	-	Del	-	1	9	POLE	child	2_193914042_CAC_POLE	1	1	1	A	8	A	Repeat-mediated
746e50d0-3291-11e6-99d8-a1aee7d0bdd7	8_115807631_GTG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	8	115807631	GT	G	720	PASS	-	Del	-	1	5	FANCC	child	8_115807631_GTG_FANCC	1	1	1	T	4	T	Repeat-mediated
746ea948-328e-11e6-ace9-29a5e7d0bdd7	16_58723729_TGT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	16	58723729	TG	T	420	PASS	SLC38A7	Del	upstream	1	4	FANCC	child	16_58723729_TGT_FANCC	1	1	1	G	3	G	Repeat-mediated
749172e8-3289-11e6-a7cf-80090e01a414	15_25631878_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	25631878	GA	G	360	PASS	UBE3A	Del	intronic	1	7	MSH6	child	15_25631878_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
749bdef6-328c-11e6-9c89-8d090e01a414	1_190010335_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	190010335	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	1_190010335_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
749cd16c-32a0-11e6-bc66-17b4cc638e3d	8_107818027_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	107818027	AT	A	600	PASS	-	Del	-	1	9	MSH6	child	8_107818027_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
74a68f6e-3254-11e6-89d3-d29498816cf3	2_100936902_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	100936902	CT	C	360	PASS	LONRF2	Del	intronic	1	9	MSH6	child	2_100936902_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
74ae1fce-3257-11e6-acc5-308412ae24cf	5_74784161_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	74784161	AT	A	480	PASS	COL4A3BP	Del	intronic	1	8	MSH6	child	5_74784161_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
74c1c844-3270-11e6-b923-6726694da5d2	5_68454189_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	68454189	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	5_68454189_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
74c63cf2-326c-11e6-a0a8-b0f43cc9300a	1_32141113_ACA	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	1	32141113	AC	A	300	PASS	COL16A1	Del	intronic	1	6	POLM	parent	1_32141113_ACA_POLM	1	1	1	C	5	C	Repeat-mediated
74c92ff8-329d-11e6-aca6-b39fcc638e3d	2_234409254_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	234409254	CA	C	360	PASS	USP40	Del	intronic	1	8	MSH6	child	2_234409254_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
74cb91f4-329c-11e6-a5cf-e5abcc638e3d	9_15267788_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	15267788	CT	C	660	PASS	TTC39B	Del	intronic	1	9	MSH6	child	9_15267788_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
74e00546-326d-11e6-b9f4-5d1d694da5d2	14_76147687_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	76147687	AT	A	420	PASS	TTLL5	Del	intronic	1	5	MSH6	child	14_76147687_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
74e271e2-328a-11e6-aff5-85090e01a414	16_67080295_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	67080295	AT	A	677	PASS	CBFB	Del	intronic	1	9	MSH6	child	16_67080295_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
74e7829e-328b-11e6-b805-77090e01a414	2_147594152_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	147594152	GA	G	420	PASS	AC103881.1	Del	upstream	1	9	MSH6	child	2_147594152_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
74ecec84-3259-11e6-b25c-c08312ae24cf	6_33197843_TTA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	6	33197843	T	TA	480	PASS	-	Ins	-	1	7	POLB	child	6_33197843_TTA_POLB	1	1	-	-	-	-	Ins
74f08f5a-3273-11e6-8f33-a6d9cde16804	11_97744445_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	97744445	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	11_97744445_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
74f39500-3279-11e6-a391-f6d67d6a9fc7	6_137373384_TCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	137373384	TC	T	600	PASS	-	Del	-	1	4	MSH6	child	6_137373384_TCT_MSH6	1	1	1	C	3	C	Repeat-mediated
74f9cb78-3279-11e6-8a64-801e9a696edf	3_65085463_GTG	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	3	65085463	GT	G	300	PASS	-	Del	-	1	9	POLM	child	3_65085463_GTG_POLM	1	1	1	T	8	T	Repeat-mediated
7500c9ce-326e-11e6-acc7-e55219a91649	1_171290369_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	171290369	GA	G	300	PASS	FMO4	Del	intronic	1	8	MSH6	child	1_171290369_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
750fe382-3291-11e6-8b9f-eea73adbad45	3_16356212_CTC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	3	16356212	CT	C	300	PASS	RFTN1	Del	downstream	1	7	NEIL1	child	3_16356212_CTC_NEIL1	1	1	1	T	6	T	Repeat-mediated
751c12cc-3284-11e6-821e-69f1bbe6aa09	16_9720169_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	9720169	TA	T	480	PASS	-	Del	-	1	9	MSH6	child	16_9720169_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
75313536-3323-11e6-8d31-31bce7d0bdd7	1_225320104_ACA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	1	225320104	AC	A	360	PASS	DNAH14	Del	intronic	1	6	EXO1	child	1_225320104_ACA_EXO1	1	1	1	C	5	C	Repeat-mediated
7537a51e-3284-11e6-8b67-086ea2c71c31	1_10450227_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	10450227	GA	G	540	PASS	-	Del	-	1	9	MSH6	child	1_10450227_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
753c0882-3349-11e6-be18-768ca20b69d5	3_29563330_ACTA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	3	29563330	ACT	A	300	PASS	RBMS3	Del	intronic	2	2	FANCC	child	3_29563330_ACTA_FANCC	2	2	2	CT	1	CT	Repeat-mediated
75425e0c-329b-11e6-9048-b49fcc638e3d	17_71187432_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	71187432	CT	C	540	PASS	COG1	Del	upstream	1	7	MSH6	child	17_71187432_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
75542268-328c-11e6-9e01-8e5c694da5d2	12_4429983_AACA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	12	4429983	AAC	A	780	PASS	C12orf5	Del	upstream	2	2	POLM	child	12_4429983_AACA_POLM	2	2	2	AC	1	AC	Repeat-mediated
755b12a4-3286-11e6-a21c-b819bce6aa09	X_27867006_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	27867006	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	X_27867006_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
756270a2-3287-11e6-9766-8c8ca2c71c31	22_34800751_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	22	34800751	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	22_34800751_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
75671bc0-329b-11e6-b723-b29fcc638e3d	19_57861599_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	57861599	CT	C	1200	PASS	ZNF304	Del	upstream	1	9	MSH6	child	19_57861599_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
756a95e8-3282-11e6-9cfc-ec8590e2c2e6	1_181426221_AAT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	1	181426221	A	AT	420	PASS	CACNA1E	Ins	intronic	1	5	NUDT1	child	1_181426221_AAT_NUDT1	1	1	-	-	-	-	Ins
75728b8c-3277-11e6-998e-ba48fa52e078	8_141187198_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	141187198	CT	C	480	PASS	TRAPPC9	Del	intronic	1	6	MSH6	child	8_141187198_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
75772e9e-3277-11e6-9ac6-2f1c25864c47	6_152518794_CTC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	6	152518794	CT	C	720	PASS	SYNE1	Del	intronic	1	8	POLB	child	6_152518794_CTC_POLB	1	1	1	T	7	T	Repeat-mediated
7583e0e8-3273-11e6-9309-bdc34a47a305	8_143706087_AAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	143706087	A	AC	960	PASS	-	Ins	-	1	3	MSH6	child	8_143706087_AAC_MSH6	1	1	-	-	-	-	Ins
759cde66-3275-11e6-9074-69cc19a91649	X_24752742_CTC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	X	24752742	CT	C	420	PASS	POLA1	Del	intronic	1	9	EXO1	child	X_24752742_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
75a07760-329d-11e6-aca6-b39fcc638e3d	2_234721411_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	234721411	CA	C	600	PASS	-	Del	-	1	9	MSH6	child	2_234721411_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
75a08918-3274-11e6-9970-2347694da5d2	9_33320949_GTCTG	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	9	33320949	GTCT	G	360	PASS	NFX1	Del	intronic	3	2	NUDT1	child	9_33320949_GTCTG_NUDT1	3	3	3	TCT	1	TCT	Repeat-mediated
75aabc48-3289-11e6-87f2-0048d5dcf142	14_58014061_CTC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	14	58014061	CT	C	420	PASS	-	Del	-	1	7	NUDT1	child	14_58014061_CTC_NUDT1	1	1	1	T	6	T	Repeat-mediated
75adadde-3290-11e6-bfa2-581f0e01a414	7_74016921_AAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	74016921	A	AG	300	PASS	GTF2IRD1	Ins	3prime_UTR_variant	1	1	MSH6	child	7_74016921_AAG_MSH6	1	1	-	-	-	-	Ins
75bf93ae-3287-11e6-a5b3-3f1ebce6aa09	7_95087873_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	95087873	CT	C	540	PASS	-	Del	-	1	7	MSH6	child	7_95087873_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
75cdaed4-3274-11e6-a5d0-4fd14a47a305	2_182967704_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	182967704	AT	A	480	PASS	PPP1R1C	Del	intronic	1	7	MSH6	child	2_182967704_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
75cdf714-328c-11e6-8106-81c36f39e758	19_44314795_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	44314795	CT	C	360	PASS	LYPD5	Del	intronic	1	8	MSH6	child	19_44314795_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
75e03e3c-3274-11e6-8e5a-ca301daa6045	18_75608404_GAG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	18	75608404	GA	G	300	PASS	-	Del	-	1	9	EXO1	child	18_75608404_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
75e412a6-325a-11e6-91d3-a68412ae24cf	7_134022850_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	134022850	C	CA	540	PASS	-	Ins	-	1	8	MSH6	child	7_134022850_CCA_MSH6	1	1	-	-	-	-	Ins
75e5a11c-3254-11e6-a4a7-35f212ae24cf	14_77258707_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	77258707	CA	C	660	PASS	ANGEL1	Del	intronic	1	8	MSH6	child	14_77258707_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
76007cca-3291-11e6-aaa2-31b34430f757	4_183101084_ATA	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	4	183101084	AT	A	540	PASS	TENM3	Del	intronic	1	5	POLE	child	4_183101084_ATA_POLE	1	1	1	T	4	T	Repeat-mediated
76033606-3276-11e6-8e2a-7f03630e6611	X_107166366_AATCAGAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	X	107166366	A	ATCAGAT	420	PASS	MID2	Ins	intronic	6	0	FANCC	child	X_107166366_AATCAGAT_FANCC	6	6	-	-	-	-	Ins
7604f622-3284-11e6-8ebc-68f1bbe6aa09	18_11781530_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	11781530	CA	C	660	PASS	GNAL	Del	intronic	1	6	MSH6	child	18_11781530_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
7608f9b4-329a-11e6-b723-b29fcc638e3d	19_29201621_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	29201621	TA	T	660	PASS	AC005307.3	Del	intronic	1	9	MSH6	child	19_29201621_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
761b2be8-3259-11e6-9d15-298312ae24cf	X_66187503_TTA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	66187503	T	TA	480	PASS	-	Ins	-	1	6	MSH6	child	X_66187503_TTA_MSH6	1	1	-	-	-	-	Ins
761b9530-327f-11e6-aba2-2800bce6aa09	18_2395086_CTTC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	18	2395086	CTT	C	540	PASS	-	Del	-	2	3	POLM	child	18_2395086_CTTC_POLM	2	2	1	T	0	-	Microhomology-mediated
762540ac-328a-11e6-a19d-3c763adbad45	4_168175946_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	4	168175946	CT	C	660	PASS	-	Del	-	1	3	NUDT1	parent	4_168175946_CTC_NUDT1	1	1	1	T	2	T	Repeat-mediated
762bb6f6-3273-11e6-8f33-a6d9cde16804	11_98024969_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	98024969	GT	G	420	PASS	-	Del	-	1	9	MSH6	child	11_98024969_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
762e4d9a-3286-11e6-b093-c9c7b0dab373	2_170469842_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	170469842	AT	A	660	PASS	PPIG	Del	intronic	1	6	MSH6	child	2_170469842_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
764725e0-334e-11e6-be18-768ca20b69d5	3_180469074_AAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	3	180469074	A	AT	540	PASS	-	Ins	-	1	6	FANCC	child	3_180469074_AAT_FANCC	1	1	-	-	-	-	Ins
76481b2a-328c-11e6-8106-81c36f39e758	19_44436921_ATCTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	44436921	ATCT	A	420	PASS	ZNF45	Del	intronic	3	1	MSH6	child	19_44436921_ATCTA_MSH6	3	3	1	T	0	-	Microhomology-mediated
764894d4-3281-11e6-8cf9-a42236fc2f7d	17_45639773_CTTGC	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	17	45639773	CTTG	C	355	PASS	NPEPPS	Del	intronic	3	2	NUDT1	child	17_45639773_CTTGC_NUDT1	3	3	3	TTG	1	TTG	Repeat-mediated
764c21a0-329d-11e6-bc66-17b4cc638e3d	8_4712834_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	4712834	GA	G	567	PASS	CSMD1	Del	intronic	1	6	MSH6	child	8_4712834_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
764c233c-3287-11e6-a5b3-3f1ebce6aa09	7_95323860_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	95323860	GT	G	540	PASS	-	Del	-	1	9	MSH6	child	7_95323860_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
764fc76c-32a0-11e6-aea7-956725c9da85	3_133931463_TGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	133931463	TG	T	660	PASS	RYK	Del	intronic	1	6	MSH6	child	3_133931463_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
76503dec-3286-11e6-b093-c9c7b0dab373	2_170540378_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	170540378	GA	G	300	PASS	CCDC173	Del	intronic	1	9	MSH6	child	2_170540378_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
7651a39c-328d-11e6-a80b-87090e01a414	11_128227000_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	128227000	C	CA	540	PASS	-	Ins	-	1	7	MSH6	child	11_128227000_CCA_MSH6	1	1	-	-	-	-	Ins
765c91a8-3323-11e6-917a-b666694da5d2	11_127987527_GAG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	11	127987527	GA	G	780	PASS	-	Del	-	1	9	EXO1	child	11_127987527_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
765f7ddc-3328-11e6-8b1e-ddf006e9a829	20_18867997_CATC	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	20	18867997	CAT	C	300	PASS	-	Del	-	2	1	POLE	child	20_18867997_CATC_POLE	2	2	1	A	0	-	Microhomology-mediated
76695aa6-3278-11e6-9d67-093b98ba1142	4_138344975_GTG	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	4	138344975	GT	G	480	PASS	-	Del	-	1	7	POLM	child	4_138344975_GTG_POLM	1	1	1	T	6	T	Repeat-mediated
767a4d3c-3284-11e6-be43-0a6ea2c71c31	10_9879586_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	9879586	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	10_9879586_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
767e8a2a-3273-11e6-94cc-1ec335cec73b	19_38541111_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	38541111	CA	C	780	PASS	SIPA1L3	Del	intronic	1	7	MSH6	child	19_38541111_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
76812fca-3320-11e6-8b89-aa119a696edf	14_39418116_TAATAAAT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	14	39418116	TAATAAA	T	441	PASS	LINC00639	Del	upstream	6	2	CHK2	child	14_39418116_TAATAAAT_CHK2	6	6	6	AATAAA	1	AATAAA	Repeat-mediated
768660b4-3279-11e6-9484-e5b5cc638e3d	6_119731943_TAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	6	119731943	TA	T	360	PASS	-	Del	-	1	9	EXO1	child	6_119731943_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
768ac0ee-328f-11e6-ad16-6b56f0f7a29c	10_105891964_TAT	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	10	105891964	TA	T	540	PASS	WDR96	Del	intronic	1	9	NEIL1	child	10_105891964_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
768bab74-325a-11e6-8340-da9012ae24cf	6_139076915_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	139076915	CT	C	540	PASS	-	Del	-	1	4	MSH6	child	6_139076915_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
76a793ae-329e-11e6-8c2e-3f6625c9da85	22_31331573_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	22	31331573	CA	C	600	PASS	MORC2	Del	intronic	1	5	MSH6	child	22_31331573_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
76ab0b12-328d-11e6-bfa2-581f0e01a414	7_49075243_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	49075243	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	7_49075243_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
76ab50c8-3273-11e6-a390-fc104530f757	1_184301395_ATCTCCCACTGGCTA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	1	184301395	ATCTCCCACTGGCT	A	360	PASS	RP11-382D12.1	Del	intronic	13	1	FANCC	child	1_184301395_ATCTCCCACTGGCTA_FANCC	13	>=10	2	TC	0	-	Microhomology-mediated
76ab5d08-3295-11e6-b7af-6ffe6ca5563b	5_135035966_CAGGC	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	5	135035966	CAGG	C	540	PASS	-	Del	-	3	1	POLB	child	5_135035966_CAGGC_POLB	3	3	2	AG	0	-	Microhomology-mediated
76b5e3f0-328f-11e6-9432-c0e56f39e758	5_58631433_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	58631433	CT	C	480	PASS	PDE4D	Del	intronic	1	9	MSH6	child	5_58631433_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
76b65eb0-3272-11e6-bfb2-2749c225ee11	12_8849717_CTTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	8849717	CTT	C	540	PASS	RIMKLB	Del	upstream	2	4	MSH6	child	12_8849717_CTTC_MSH6	2	2	2	TT	2	T	Repeat-mediated
76bbdefc-328c-11e6-88c1-95c36f39e758	14_75425821_AGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	75425821	AG	A	540	PASS	PGF	Del	upstream	1	5	MSH6	child	14_75425821_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
76c6f8ec-326d-11e6-acc7-e55219a91649	1_87390484_TGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	87390484	TG	T	600	PASS	HS2ST1	Del	intronic	1	7	MSH6	child	1_87390484_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
76cb0c04-328e-11e6-ae83-5ae3191589db	6_38113473_TGCCGGGAATGTGTTTCTAAGT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	6	38113473	TGCCGGGAATGTGTTTCTAAG	T	660	PASS	ZFAND3	Del	intronic	20	1	FANCC	child	6_38113473_TGCCGGGAATGTGTTTCTAAGT_FANCC	20	>=10	3	GCC	0	-	Microhomology-mediated
76ccdfc2-32a0-11e6-bc2c-2a5e25c9da85	4_25271345_GGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	25271345	G	GT	600	PASS	PI4K2B	Ins	intronic	1	7	MSH6	child	4_25271345_GGT_MSH6	1	1	-	-	-	-	Ins
76db08e2-3285-11e6-b2eb-d63a9ecd0b3a	21_32788637_AAT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	21	32788637	A	AT	360	PASS	TIAM1	Ins	intronic	1	6	POLB	child	21_32788637_AAT_POLB	1	1	-	-	-	-	Ins
76dd1b6e-328a-11e6-807d-afc430158702	19_6290823_GAG	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	19	6290823	GA	G	300	PASS	-	Del	-	1	7	POLM	child	19_6290823_GAG_POLM	1	1	1	A	6	A	Repeat-mediated
76eb5d2c-3259-11e6-8cd9-139b7872c165	3_151534549_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	151534549	CT	C	300	PASS	AADAC	Del	intronic	1	9	MSH6	child	3_151534549_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
77043602-328c-11e6-b6a6-1f1e0e01a414	4_3276133_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	3276133	GT	G	300	PASS	-	Del	-	1	2	MSH6	child	4_3276133_GTG_MSH6	1	1	1	T	1	T	Repeat-mediated
771d147a-3272-11e6-bbeb-70bd19a91649	20_35669733_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	20	35669733	AT	A	360	PASS	RBL1	Del	intronic	1	9	MSH6	child	20_35669733_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
772dfb1c-326f-11e6-a073-e3d0d7fd0a58	13_58481184_CTC	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	13	58481184	CT	C	660	PASS	-	Del	-	1	8	NUDT1	child	13_58481184_CTC_NUDT1	1	1	1	T	7	T	Repeat-mediated
7730765a-3272-11e6-9850-b83e75253f64	12_108023199_CAC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	12	108023199	CA	C	480	PASS	BTBD11	Del	intronic	1	9	FANCC	child	12_108023199_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
7731c908-3270-11e6-8e5c-87d3d7fd0a58	1_100497212_GAG	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	1	100497212	GA	G	420	PASS	SLC35A3	Del	downstream	1	8	POLB	child	1_100497212_GAG_POLB	1	1	1	A	7	A	Repeat-mediated
77362b52-3283-11e6-ba13-7508694da5d2	8_137630597_GCG	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	8	137630597	GC	G	300	PASS	RP11-30J20.1	Del	intronic	1	1	NEIL1	child	8_137630597_GCG_NEIL1	1	1	0	-	0	C	None
773ec20a-3254-11e6-a304-347a7872c165	1_53367088_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	53367088	GA	G	480	PASS	ECHDC2	Del	intronic	1	8	MSH6	child	1_53367088_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
77402268-328f-11e6-a454-be257a852e0e	17_3129111_TAT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	17	3129111	TA	T	360	PASS	-	Del	-	1	2	CHK2	child	17_3129111_TAT_CHK2	1	1	1	A	1	A	Repeat-mediated
774a5d6c-328c-11e6-b9c4-751d0e01a414	5_15988082_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	15988082	CT	C	360	PASS	-	Del	-	1	7	MSH6	child	5_15988082_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
774b0e4c-32a0-11e6-bc66-17b4cc638e3d	8_108600394_TCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	108600394	TC	T	420	PASS	-	Del	-	1	5	MSH6	child	8_108600394_TCT_MSH6	1	1	1	C	4	C	Repeat-mediated
774b53de-3278-11e6-9484-e5b5cc638e3d	6_42250475_TATAGT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	6	42250475	TATAG	T	300	PASS	TRERF1	Del	intronic	4	2	EXO1	child	6_42250475_TATAGT_EXO1	4	4	4	ATAG	1	ATAG	Repeat-mediated
774bb224-3292-11e6-919e-92c36f39e758	2_228909299_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	228909299	C	CA	847	PASS	SPHKAP	Ins	intronic	1	7	MSH6	child	2_228909299_CCA_MSH6	1	1	-	-	-	-	Ins
774c8680-3275-11e6-b2b6-6589a20b69d5	8_128474316_AGA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	8	128474316	AG	A	480	PASS	-	Del	-	1	6	POLB	child	8_128474316_AGA_POLB	1	1	1	G	5	G	Repeat-mediated
77621b7c-3292-11e6-bc33-715238e8a824	2_69938007_TTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	2	69938007	T	TC	420	PASS	AC092431.3	Ins	intronic	1	1	FANCC	child	2_69938007_TTC_FANCC	1	1	-	-	-	-	Ins
776266b6-3276-11e6-abaf-4642cab49462	6_162502954_GGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	162502954	G	GA	420	PASS	PARK2	Ins	intronic	1	1	MSH6	child	6_162502954_GGA_MSH6	1	1	-	-	-	-	Ins
77696afe-326e-11e6-bfba-13bf4a47a305	9_3107299_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	3107299	GA	G	360	PASS	-	Del	-	1	7	MSH6	child	9_3107299_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
776ff6c0-326f-11e6-b5b8-e0c24a47a305	X_41954721_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	41954721	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	X_41954721_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
77722040-327d-11e6-a360-ea8590e2c2e6	11_106317157_CTC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	11	106317157	CT	C	540	PASS	-	Del	-	1	7	NUDT1	child	11_106317157_CTC_NUDT1	1	1	1	T	6	T	Repeat-mediated
7782c052-3288-11e6-b930-8f14987b3f23	4_109190183_TTA	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	4	109190183	T	TA	527	PASS	-	Ins	-	1	5	NEIL1	parent	4_109190183_TTA_NEIL1	1	1	-	-	-	-	Ins
778b9e3e-3288-11e6-993a-93e95d753391	12_70990025_GGAAG	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	12	70990025	GGAA	G	360	PASS	PTPRB	Del	inframe	3	2	POLE	child	12_70990025_GGAAG_POLE	3	3	3	GAA	1	GAA	Repeat-mediated
778f76a6-3348-11e6-a997-309d38e8a824	4_15250248_CAC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	4	15250248	CA	C	480	PASS	-	Del	-	1	8	FANCC	child	4_15250248_CAC_FANCC	1	1	1	A	7	A	Repeat-mediated
77913976-3287-11e6-b32c-fd87a2c71c31	5_136343826_CGC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	136343826	CG	C	420	PASS	SPOCK1	Del	intronic	1	6	MSH6	child	5_136343826_CGC_MSH6	1	1	1	G	5	G	Repeat-mediated
7791fc96-328f-11e6-b8e6-91c36f39e758	11_121915077_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	121915077	G	GT	600	PASS	-	Ins	-	1	7	MSH6	child	11_121915077_GGT_MSH6	1	1	-	-	-	-	Ins
779235ae-328e-11e6-b9c4-751d0e01a414	5_150453778_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	150453778	AT	A	480	PASS	TNIP1	Del	intronic	1	8	MSH6	child	5_150453778_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
779ccd22-3273-11e6-8f33-a6d9cde16804	11_98336973_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	98336973	GT	G	480	PASS	-	Del	-	1	7	MSH6	child	11_98336973_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
779d26fc-328f-11e6-9432-c0e56f39e758	5_58909059_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	58909059	GA	G	480	PASS	PDE4D	Del	intronic	1	7	MSH6	child	5_58909059_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
779fd242-3291-11e6-b78c-8cb4e7d0bdd7	6_28316082_TAT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	6	28316082	TA	T	480	PASS	ZKSCAN3	Del	upstream	1	7	FANCC	child	6_28316082_TAT_FANCC	1	1	1	A	6	A	Repeat-mediated
77aad85a-329f-11e6-a04f-c66a25c9da85	6_16777899_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	16777899	GA	G	780	PASS	-	Del	-	1	9	MSH6	child	6_16777899_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
77bf4a06-3272-11e6-bfb2-2749c225ee11	12_9069105_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	9069105	CA	C	540	PASS	PHC1	Del	intronic	1	9	MSH6	child	12_9069105_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
77cabb8e-3281-11e6-9748-b96f2aaffa45	14_81269033_AAAGA	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	14	81269033	AAAG	A	480	PASS	CEP128	Del	intronic	3	1	POLE	child	14_81269033_AAAGA_POLE	3	3	2	AA	0	-	Microhomology-mediated
77cc1236-3272-11e6-8fc6-c022c7271a47	4_18514713_GAG	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	4	18514713	GA	G	540	PASS	-	Del	-	1	9	POLB	child	4_18514713_GAG_POLB	1	1	1	A	8	A	Repeat-mediated
77cda73e-329c-11e6-a5cf-e5abcc638e3d	9_15876738_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	15876738	CT	C	720	PASS	CCDC171	Del	intronic	1	9	MSH6	child	9_15876738_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
77d04926-3292-11e6-b25c-c77219a91649	8_71800892_ATA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	8	71800892	AT	A	780	PASS	-	Del	-	1	8	NEIL1	child	8_71800892_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
77d9707a-3254-11e6-81f9-42f212ae24cf	17_45704920_CGC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	17	45704920	CG	C	600	PASS	NPEPPS	Del	downstream	1	7	MSH6	child	17_45704920_CGC_MSH6	1	1	1	G	6	G	Repeat-mediated
77e16d2e-3287-11e6-bb85-03a66f39e758	4_81563509_GAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	4	81563509	GA	G	300	PASS	C4orf22	Del	intronic	1	4	EXO1	child	4_81563509_GAG_EXO1	1	1	1	A	3	A	Repeat-mediated
77e190d0-3320-11e6-bdbd-c43f07e9a829	17_28672456_ATCA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	17	28672456	ATC	A	300	PASS	-	Del	-	2	2	POLE	child	17_28672456_ATCA_POLE	2	2	2	TC	1	TC	Repeat-mediated
77ebeb4a-3292-11e6-b14c-5e337a852e0e	X_16164542_ATA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	X	16164542	AT	A	300	PASS	GRPR	Del	intronic	1	9	CHK2	child	X_16164542_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
77f2258a-328a-11e6-9c89-8d090e01a414	1_62829347_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	62829347	CA	C	300	PASS	-	Del	-	1	7	MSH6	child	1_62829347_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
77f4b22e-3284-11e6-9f05-70ef1da8ec0e	10_67820330_AGAGTTCAAACCA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	10	67820330	AGAGTTCAAACC	A	720	PASS	CTNNA3	Del	intronic	11	1	EXO1	child	10_67820330_AGAGTTCAAACCA_EXO1	11	>=10	0	-	0	-	None
77f51b0e-329a-11e6-b085-e50098ba1142	4_188840083_TAT	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	4	188840083	TA	T	780	PASS	-	Del	-	1	7	CHK2	child	4_188840083_TAT_CHK2	1	1	1	A	6	A	Repeat-mediated
77f54094-3280-11e6-9066-1ba854de4fc4	14_28061112_GAG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	14	28061112	GA	G	480	PASS	-	Del	-	1	9	FANCC	child	14_28061112_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
77ff2590-326d-11e6-bc62-6d4742c4520d	16_67018327_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	67018327	GT	G	360	PASS	CES4A	Del	upstream	1	9	MSH6	child	16_67018327_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
780560d2-3271-11e6-9850-b83e75253f64	12_47268341_GGAG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	12	47268341	GGA	G	360	PASS	-	Del	-	2	6	FANCC	child	12_47268341_GGAG_FANCC	2	2	2	GA	5	GA	Repeat-mediated
780a60fe-3281-11e6-a5e9-0107694da5d2	7_85119774_CATC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	7	85119774	CAT	C	360	PASS	LINC00972	Del	downstream	2	1	NEIL1	child	7_85119774_CATC_NEIL1	2	2	1	A	0	-	Microhomology-mediated
780a90f6-3321-11e6-881c-c18230158702	10_67946589_CAC	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	10	67946589	CA	C	540	PASS	CTNNA3	Del	intronic	1	8	POLE	child	10_67946589_CAC_POLE	1	1	1	A	7	A	Repeat-mediated
780d9314-3290-11e6-9d24-ade56f39e758	7_124311651_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	124311651	TA	T	780	PASS	-	Del	-	1	6	MSH6	child	7_124311651_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
780e126a-328d-11e6-927f-cebe38e8a824	7_64528240_CCT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	7	64528240	C	CT	484	PASS	-	Ins	-	1	1	NUDT1	parent	7_64528240_CCT_NUDT1	1	1	-	-	-	-	Ins
780ed1c8-3256-11e6-8d5e-9bf112ae24cf	9_106159748_CCT	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	9	106159748	C	CT	480	PASS	RP11-436F21.1	Ins	intronic	1	6	POLB	child	9_106159748_CCT_POLB	1	1	-	-	-	-	Ins
7813e8f4-3272-11e6-b8ae-92c57872c165	14_23656804_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	23656804	AT	A	540	PASS	SLC7A8	Del	upstream	1	9	MSH6	child	14_23656804_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
7826256a-328a-11e6-b805-77090e01a414	2_78061464_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	78061464	TA	T	360	PASS	-	Del	-	1	8	MSH6	child	2_78061464_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
782fb0ee-3280-11e6-9066-1ba854de4fc4	14_28268097_GAG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	14	28268097	GA	G	300	PASS	-	Del	-	1	8	FANCC	child	14_28268097_GAG_FANCC	1	1	1	A	7	A	Repeat-mediated
783f0558-3271-11e6-9309-bdc34a47a305	8_123822185_AGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	123822185	AG	A	300	PASS	ZHX2	Del	intronic	1	7	MSH6	child	8_123822185_AGA_MSH6	1	1	1	G	6	G	Repeat-mediated
783fc932-32a0-11e6-a04f-c66a25c9da85	6_74950164_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	74950164	AT	A	600	PASS	RP11-554D15.1	Del	intronic	1	9	MSH6	child	6_74950164_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
7849cab0-328f-11e6-9d97-efe56f39e758	4_56973628_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	56973628	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	4_56973628_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
784bae18-3279-11e6-a391-f6d67d6a9fc7	6_138269239_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	138269239	TA	T	900	PASS	RP11-10J5.1	Del	upstream	1	8	MSH6	child	6_138269239_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
78525e8e-3274-11e6-9ef9-d85a25c9da85	3_141315812_CATC	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	3	141315812	CAT	C	900	PASS	RASA2	Del	intronic	2	2	POLM	child	3_141315812_CATC_POLM	2	2	2	AT	1	AT	Repeat-mediated
7853213a-328c-11e6-88c1-95c36f39e758	14_75749477_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	75749477	TA	T	600	PASS	FOS	Del	downstream	1	8	MSH6	child	14_75749477_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
78589fb2-3281-11e6-8767-7cd94dc77248	6_25660172_CCA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	6	25660172	C	CA	660	PASS	SCGN	Ins	intronic	1	7	NUDT1	child	6_25660172_CCA_NUDT1	1	1	-	-	-	-	Ins
785e1f78-328b-11e6-a4b4-e6cd191589db	17_49907738_TTTC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	17	49907738	T	TTC	600	PASS	CA10	Ins	intronic	2	5	FANCC	child	17_49907738_TTTC_FANCC	2	2	-	-	-	-	Ins
7860e556-328f-11e6-8e48-791e0e01a414	8_128914007_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	128914007	TA	T	360	PASS	PVT1	Del	intronic	1	3	MSH6	child	8_128914007_TAT_MSH6	1	1	1	A	2	A	Repeat-mediated
7866d264-3289-11e6-8353-a446fd44d094	1_44755985_AGAAGGCCCAGGCTTGA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	1	44755985	AGAAGGCCCAGGCTTG	A	600	PASS	ERI3	Del	intronic	15	1	FANCC	child	1_44755985_AGAAGGCCCAGGCTTGA_FANCC	15	>=10	2	GA	0	-	Microhomology-mediated
787690aa-328e-11e6-bec1-ca1d0e01a414	X_98004693_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	98004693	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	X_98004693_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
7889334a-3324-11e6-9432-0b923cfdbd24	9_128407192_GAG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	9	128407192	GA	G	420	PASS	MAPKAP1	Del	intronic	1	5	EXO1	child	9_128407192_GAG_EXO1	1	1	1	A	4	A	Repeat-mediated
788cc350-329a-11e6-8d0f-075325c9da85	14_55672951_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	55672951	TA	T	600	PASS	-	Del	-	1	8	MSH6	child	14_55672951_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
78917294-328e-11e6-bec1-ca1d0e01a414	X_98054430_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	98054430	TA	T	360	PASS	-	Del	-	1	7	MSH6	child	X_98054430_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
78929e2e-3281-11e6-9436-c28569062303	11_32577044_CAC	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	11	32577044	CA	C	900	PASS	-	Del	-	1	8	POLE	parent	11_32577044_CAC_POLE	1	1	1	A	7	A	Repeat-mediated
78955bbc-326f-11e6-8f14-87641565c797	19_44884307_TGT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	19	44884307	TG	T	540	PASS	ZNF285	Del	downstream	1	6	POLM	child	19_44884307_TGT_POLM	1	1	1	G	5	G	Repeat-mediated
789fe51e-3274-11e6-9d2c-d6a1cc638e3d	18_57876325_CTC	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	18	57876325	CT	C	600	PASS	-	Del	-	1	7	NEIL1	child	18_57876325_CTC_NEIL1	1	1	1	T	6	T	Repeat-mediated
78a392a0-3273-11e6-8f10-bfc27872c165	4_169649857_GTG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	4	169649857	GT	G	360	PASS	PALLD	Del	intronic	1	7	EXO1	parent	4_169649857_GTG_EXO1	1	1	1	T	6	T	Repeat-mediated
78a800de-329f-11e6-b696-dd6225c9da85	5_156361442_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	156361442	GT	G	480	PASS	TIMD4	Del	intronic	1	8	MSH6	child	5_156361442_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
78aafb3e-3256-11e6-a304-347a7872c165	1_203301213_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	203301213	CT	C	660	PASS	-	Del	-	1	9	MSH6	child	1_203301213_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
78ae0076-329d-11e6-b549-1e5325c9da85	10_83749860_GGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	83749860	G	GT	660	PASS	NRG3	Ins	intronic	1	2	MSH6	child	10_83749860_GGT_MSH6	1	1	-	-	-	-	Ins
78b03edc-326f-11e6-bfba-13bf4a47a305	9_107630648_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	107630648	CA	C	360	PASS	ABCA1	Del	intronic	1	8	MSH6	child	9_107630648_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
78b5a57c-3281-11e6-a363-a68d191589db	2_163477713_ATA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	2	163477713	AT	A	600	PASS	KCNH7	Del	intronic	1	9	POLM	child	2_163477713_ATA_POLM	1	1	1	T	8	T	Repeat-mediated
78c570b0-3272-11e6-83ef-69fb06e9a829	18_3918516_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	3918516	GA	G	660	PASS	DLGAP1	Del	intronic	1	7	MSH6	child	18_3918516_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
78d99f78-3258-11e6-885f-d1947872c165	4_164201931_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	164201931	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	4_164201931_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
78dd4f20-328e-11e6-b9c4-751d0e01a414	5_150679979_TGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	150679979	TG	T	480	PASS	SLC36A3	Del	intronic	1	7	MSH6	child	5_150679979_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
78e3b96a-3274-11e6-a2a4-305390e2c2e6	3_115547670_TAT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	3	115547670	TA	T	840	PASS	LSAMP	Del	intronic	1	8	POLB	child	3_115547670_TAT_POLB	1	1	1	A	7	A	Repeat-mediated
78e78c42-334c-11e6-840b-09aab0dab373	1_201814141_AAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	1	201814141	A	AT	480	PASS	IPO9	Ins	intronic	1	7	FANCC	child	1_201814141_AAT_FANCC	1	1	-	-	-	-	Ins
78f7cc8a-328c-11e6-a928-04c835cec73b	3_188782965_TTA	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	3	188782965	T	TA	540	PASS	TPRG1	Ins	intronic	1	8	POLE	child	3_188782965_TTA_POLE	1	1	-	-	-	-	Ins
78fab560-328e-11e6-8e48-791e0e01a414	8_57131643_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	57131643	CA	C	300	PASS	CHCHD7	Del	downstream	1	9	MSH6	child	8_57131643_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
790d95f2-3277-11e6-ab69-1c1607e9a829	9_84327551_CCAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	84327551	C	CAT	540	PASS	RP11-154D17.1	Ins	intronic	2	0	MSH6	child	9_84327551_CCAT_MSH6	2	2	-	-	-	-	Ins
790f85e2-3272-11e6-94cc-1ec335cec73b	19_4205247_CCAAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	4205247	CCAA	C	420	PASS	ANKRD24	Del	intronic	3	5	MSH6	child	19_4205247_CCAAC_MSH6	3	3	3	CAA	4	CAA	Repeat-mediated
7912c090-32a4-11e6-aea7-956725c9da85	3_195250181_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	195250181	C	CA	540	PASS	PPP1R2	Ins	intronic	1	1	MSH6	child	3_195250181_CCA_MSH6	1	1	-	-	-	-	Ins
7914ae52-3257-11e6-acc5-308412ae24cf	5_75899796_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	75899796	TA	T	780	PASS	IQGAP2	Del	intronic	1	8	MSH6	child	5_75899796_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
7916645e-329d-11e6-aca6-b39fcc638e3d	2_235580897_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	235580897	AT	A	360	PASS	-	Del	-	1	7	MSH6	child	2_235580897_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
7917501c-3257-11e6-a7ac-209a7872c165	22_22468033_ACA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	22	22468033	AC	A	960	PASS	-	Del	-	1	5	MSH6	child	22_22468033_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
791cf356-3292-11e6-b25c-c77219a91649	8_72548133_GCATTTTTTACTG	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	8	72548133	GCATTTTTTACT	G	420	PASS	-	Del	-	11	1	NEIL1	child	8_72548133_GCATTTTTTACTG_NEIL1	11	>=10	6	CATTTT	1	T	Microhomology-mediated
7929c3e6-3284-11e6-9170-b6936f39e758	12_53391200_GAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	12	53391200	GA	G	323	PASS	-	Del	-	1	9	EXO1	child	12_53391200_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
792a5926-3290-11e6-9401-04ed6f39e758	3_33712853_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	33712853	CA	C	600	PASS	CLASP2	Del	intronic	1	8	MSH6	child	3_33712853_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
792fe120-3295-11e6-9401-04ed6f39e758	3_191553361_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	191553361	T	TA	480	PASS	-	Ins	-	1	1	MSH6	child	3_191553361_TTA_MSH6	1	1	-	-	-	-	Ins
793140fe-328d-11e6-a83a-f948aa5f95ce	1_96105781_ACA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	1	96105781	AC	A	480	PASS	RP11-286B14.1	Del	intronic	1	4	POLM	child	1_96105781_ACA_POLM	1	1	1	C	3	C	Repeat-mediated
79348ece-3325-11e6-bd60-7fd335cec73b	8_61312180_CAC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	8	61312180	CA	C	480	PASS	RP11-163N6.2	Del	downstream	1	7	CHK2	child	8_61312180_CAC_CHK2	1	1	1	A	6	A	Repeat-mediated
7938dcfe-329e-11e6-a5cf-e5abcc638e3d	9_9795410_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	9795410	A	AT	900	PASS	PTPRD	Ins	intronic	1	1	MSH6	child	9_9795410_AAT_MSH6	1	1	-	-	-	-	Ins
793b13ac-3258-11e6-acc5-308412ae24cf	5_152653832_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	152653832	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	5_152653832_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
793ba800-3323-11e6-98e4-0c20d8fd0a58	X_50611913_ATA	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	X	50611913	AT	A	660	PASS	-	Del	-	1	9	CHK2	parent	X_50611913_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
793e4c5e-328d-11e6-b6a6-1f1e0e01a414	4_61265651_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	61265651	GA	G	360	PASS	-	Del	-	1	6	MSH6	child	4_61265651_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
79405c8e-32a0-11e6-a04f-c66a25c9da85	6_75365805_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	75365805	AT	A	420	PASS	RP11-554D15.1	Del	intronic	1	6	MSH6	child	6_75365805_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
79421f14-326f-11e6-b5b8-e0c24a47a305	X_43189704_TTCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	43189704	TTC	T	420	PASS	-	Del	-	2	8	MSH6	child	X_43189704_TTCT_MSH6	2	2	2	TC	7	TC	Repeat-mediated
794c850e-3291-11e6-92cf-bf2a0e01a414	6_168572154_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	168572154	AT	A	420	PASS	-	Del	-	1	5	MSH6	child	6_168572154_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
794e02a6-328e-11e6-8952-77c36f39e758	10_64857456_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	64857456	A	AT	360	PASS	-	Ins	-	1	2	MSH6	child	10_64857456_AAT_MSH6	1	1	-	-	-	-	Ins
795de460-326f-11e6-b89d-b2d6b0dab373	4_2008612_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	2008612	TA	T	960	PASS	NELFA	Del	intronic	1	6	MSH6	child	4_2008612_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
79637004-328a-11e6-9255-fc4d90e2c2e6	6_146258764_GAG	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	6	146258764	GA	G	720	PASS	SHPRH	Del	intronic	1	8	POLE	child	6_146258764_GAG_POLE	1	1	1	A	7	A	Repeat-mediated
7965dd38-3255-11e6-bf41-357a7872c165	10_133124299_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	133124299	AT	A	600	PASS	-	Del	-	1	8	MSH6	child	10_133124299_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
796d209e-329f-11e6-94ca-0aaecc638e3d	X_123591236_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	123591236	TA	T	600	PASS	TENM1	Del	intronic	1	7	MSH6	child	X_123591236_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
7982d39a-328a-11e6-821d-8c090e01a414	13_94293428_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	94293428	GA	G	480	PASS	GPC6	Del	intronic	1	9	MSH6	child	13_94293428_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
79845920-3287-11e6-8d3f-2a9c20e7b7a8	18_4345282_CTAC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	18	4345282	CTA	C	420	PASS	DLGAP1	Del	intronic	2	1	POLE	child	18_4345282_CTAC_POLE	2	2	1	T	0	-	Microhomology-mediated
798e18ca-3291-11e6-b77d-2eef6f39e758	6_66482517_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	66482517	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	6_66482517_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
7991320e-3290-11e6-b81f-4ee66f39e758	8_48448251_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	48448251	TA	T	780	PASS	SPIDR	Del	intronic	1	9	MSH6	child	8_48448251_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
7994964c-326d-11e6-b306-b5204b47a305	2_73585842_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	73585842	CT	C	420	PASS	-	Del	-	1	7	MSH6	child	2_73585842_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
799e1d04-3293-11e6-8c3d-0ab4e7d0bdd7	3_34278174_TTG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	3	34278174	T	TG	300	PASS	AC018359.1	Ins	intronic	1	3	FANCC	child	3_34278174_TTG_FANCC	1	1	-	-	-	-	Ins
799e3d62-328d-11e6-b8e6-91c36f39e758	11_128385005_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	128385005	AT	A	720	PASS	ETS1	Del	intronic	1	8	MSH6	child	11_128385005_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
79a04ba2-3292-11e6-b77d-2eef6f39e758	6_137200210_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	137200210	CT	C	360	PASS	PEX7	Del	intronic	1	8	MSH6	child	6_137200210_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
79b10d56-327f-11e6-a8de-13fc028949d4	12_2674695_TTTGGTGTTGGGGCT	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	12	2674695	TTTGGTGTTGGGGC	T	460	PASS	CACNA1C	Del	intronic	13	1	POLM	child	12_2674695_TTTGGTGTTGGGGCT_POLM	13	>=10	3	TTG	0	-	Microhomology-mediated
79b73ccc-3283-11e6-8fa3-1d15038949d4	4_83350244_ATCA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	4	83350244	ATC	A	420	PASS	HNRNPDL	Del	intronic	2	2	POLM	child	4_83350244_ATCA_POLM	2	2	2	TC	1	TC	Repeat-mediated
79bc4454-328a-11e6-a19d-3c763adbad45	4_169649857_GTG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	4	169649857	GT	G	480	PASS	PALLD	Del	intronic	1	7	NUDT1	parent	4_169649857_GTG_NUDT1	1	1	1	T	6	T	Repeat-mediated
79beb994-32a0-11e6-bc66-17b4cc638e3d	8_109585945_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	109585945	CT	C	600	PASS	-	Del	-	1	7	MSH6	child	8_109585945_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
79c12d56-328b-11e6-b805-77090e01a414	2_149344613_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	149344613	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	2_149344613_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
79c4770e-3290-11e6-92cf-bf2a0e01a414	6_107719179_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	107719179	TA	T	300	PASS	PDSS2	Del	intronic	1	7	MSH6	child	6_107719179_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
79cc92c4-3324-11e6-8ba1-c7a030158702	21_45967463_TAT	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	21	45967463	TA	T	300	PASS	TSPEAR	Del	intronic	1	6	POLE	child	21_45967463_TAT_POLE	1	1	1	A	5	A	Repeat-mediated
79d98bb0-329c-11e6-b723-b29fcc638e3d	19_43482941_TTTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	43482941	T	TTG	300	PASS	-	Ins	-	2	0	MSH6	child	19_43482941_TTTG_MSH6	2	2	-	-	-	-	Ins
79dbce40-3290-11e6-9230-fb250e01a414	3_169456027_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	169456027	CA	C	480	PASS	-	Del	-	1	8	MSH6	child	3_169456027_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
79e03022-3284-11e6-be43-0a6ea2c71c31	10_11204570_TGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	11204570	TG	T	540	PASS	CELF2	Del	intronic	1	8	MSH6	child	10_11204570_TGT_MSH6	1	1	1	G	7	G	Repeat-mediated
79e07766-328a-11e6-8459-82090e01a414	12_70270255_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	70270255	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	12_70270255_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
79eb63f2-3257-11e6-89d3-d29498816cf3	2_180081047_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	180081047	C	CA	477	PASS	SESTD1	Ins	intronic	1	1	MSH6	child	2_180081047_CCA_MSH6	1	1	-	-	-	-	Ins
79f53860-326f-11e6-b89d-b2d6b0dab373	4_2090843_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	2090843	GT	G	360	PASS	POLN	Del	intronic	1	8	MSH6	child	4_2090843_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
79f66d32-326c-11e6-a740-f74aa78019ab	15_41694403_CTATC	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	15	41694403	CTAT	C	540	PASS	NDUFAF1	Del	5prime_UTR_variant	3	3	POLM	parent	15_41694403_CTATC_POLM	3	3	3	TAT	2	TAT	Repeat-mediated
7a0233ba-3285-11e6-a8af-066ea2c71c31	15_72205501_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	72205501	GT	G	720	PASS	MYO9A	Del	intronic	1	7	MSH6	child	15_72205501_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
7a0b68c6-3326-11e6-ba0a-ab9864f80bad	5_2777686_CCG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	5	2777686	C	CG	360	PASS	-	Ins	-	1	3	EXO1	child	5_2777686_CCG_EXO1	1	1	-	-	-	-	Ins
7a13d9fa-3256-11e6-885f-d1947872c165	4_25238976_TGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	25238976	TG	T	300	PASS	PI4K2B	Del	intronic	1	1	MSH6	child	4_25238976_TGT_MSH6	1	1	0	-	0	G	None
7a163aa6-3328-11e6-9f5d-eba78a20d9eb	8_112825612_GAG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	8	112825612	GA	G	840	PASS	-	Del	-	1	8	EXO1	child	8_112825612_GAG_EXO1	1	1	1	A	7	A	Repeat-mediated
7a19906c-3291-11e6-a366-d0257a852e0e	2_144045940_GAG	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	2	144045940	GA	G	300	PASS	ARHGAP15	Del	intronic	1	9	CHK2	child	2_144045940_GAG_CHK2	1	1	1	A	8	A	Repeat-mediated
7a1e5a1e-327a-11e6-ab1d-16d9ecf1e924	20_44570102_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	44570102	AT	A	720	PASS	PCIF1	Del	intronic	1	8	MSH6	child	20_44570102_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
7a1f29ea-3288-11e6-b9eb-c78fa2c71c31	6_54848535_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	54848535	GA	G	600	PASS	-	Del	-	1	7	MSH6	child	6_54848535_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
7a275a56-3289-11e6-a100-84090e01a414	18_14441510_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	14441510	TA	T	399	PASS	-	Del	-	1	7	MSH6	child	18_14441510_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
7a2bb2ea-327f-11e6-8a95-4ae6b41afd22	X_65197887_ATA	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	X	65197887	AT	A	660	PASS	-	Del	-	1	5	POLM	child	X_65197887_ATA_POLM	1	1	1	T	4	T	Repeat-mediated
7a2edfcc-3286-11e6-a0f6-76a56f39e758	7_15858949_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	7	15858949	TA	T	660	PASS	-	Del	-	1	1	EXO1	child	7_15858949_TAT_EXO1	1	1	0	-	0	A	None
7a350728-328e-11e6-b6a6-1f1e0e01a414	4_127128383_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	127128383	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	4_127128383_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
7a38be48-329a-11e6-a0ea-135325c9da85	15_50022061_AAGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	50022061	AAG	A	360	PASS	-	Del	-	2	1	MSH6	child	15_50022061_AAGA_MSH6	2	2	1	A	0	-	Microhomology-mediated
7a3ac982-3320-11e6-9b79-b58f0cfb5812	1_50101871_ACTA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	1	50101871	ACT	A	600	PASS	AGBL4	Del	intronic	2	2	POLE	child	1_50101871_ACTA_POLE	2	2	2	CT	1	CT	Repeat-mediated
7a416452-3278-11e6-a391-f6d67d6a9fc7	6_65122793_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	65122793	TA	T	420	PASS	EYS	Del	intronic	1	9	MSH6	child	6_65122793_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
7a4b8cbc-3272-11e6-8f33-a6d9cde16804	11_10760140_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	10760140	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	11_10760140_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
7a4bbff6-3291-11e6-9c89-8d090e01a414	1_239694098_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	239694098	C	CA	540	PASS	-	Ins	-	1	8	MSH6	child	1_239694098_CCA_MSH6	1	1	-	-	-	-	Ins
7a500d50-3277-11e6-909e-86e86de4ab00	3_4046600_TCTCCCTTATTAGAATGTAAGTAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	3	4046600	TCTCCCTTATTAGAATGTAAGTA	T	480	PASS	SUMF1	Del	intronic	22	1	EXO1	child	3_4046600_TCTCCCTTATTAGAATGTAAGTAT_EXO1	22	>=10	2	CT	0	-	Microhomology-mediated
7a5ad76a-326f-11e6-8fd5-a434cab49462	9_107762045_CTC	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	9	107762045	CT	C	600	PASS	-	Del	-	1	9	POLM	parent	9_107762045_CTC_POLM	1	1	1	T	8	T	Repeat-mediated
7a60cbf6-3275-11e6-9ac6-2f1c25864c47	6_9132474_CAC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	6	9132474	CA	C	420	PASS	RP11-354I10.1	Del	intronic	1	5	POLB	child	6_9132474_CAC_POLB	1	1	1	A	4	A	Repeat-mediated
7a62ada4-329d-11e6-bc66-17b4cc638e3d	8_5596886_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	5596886	AT	A	420	PASS	-	Del	-	1	7	MSH6	child	8_5596886_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
7a6ea4cc-3286-11e6-8b67-086ea2c71c31	1_186860243_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	186860243	TA	T	360	PASS	PLA2G4A	Del	intronic	1	8	MSH6	child	1_186860243_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
7a6ecfb0-329a-11e6-ae71-0c5325c9da85	1_28695098_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	28695098	AT	A	540	PASS	PHACTR4	Del	upstream	1	9	MSH6	child	1_28695098_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
7a7e3cea-329d-11e6-b696-dd6225c9da85	5_26287068_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	26287068	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	5_26287068_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
7a86cab0-329b-11e6-ae71-0c5325c9da85	1_86118567_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	86118567	AT	A	900	PASS	ZNHIT6	Del	3prime_UTR_variant	1	8	MSH6	child	1_86118567_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
7a900d2c-328d-11e6-8770-3e160e01a414	9_130888643_TGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	130888643	TG	T	300	PASS	PTGES2	Del	intronic	1	8	MSH6	child	9_130888643_TGT_MSH6	1	1	1	G	7	G	Repeat-mediated
7a90dcea-3290-11e6-b805-77090e01a414	2_223245200_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	223245200	C	CA	300	PASS	-	Ins	-	1	9	MSH6	child	2_223245200_CCA_MSH6	1	1	-	-	-	-	Ins
7a94fdda-328a-11e6-9c89-8d090e01a414	1_63262787_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	63262787	GA	G	300	PASS	ATG4C	Del	intronic	1	9	MSH6	child	1_63262787_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
7a9cb4b6-3286-11e6-9d41-22c435cec73b	5_7643137_GAG	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	5	7643137	GA	G	540	PASS	ADCY2	Del	intronic	1	2	POLE	child	5_7643137_GAG_POLE	1	1	1	A	1	A	Repeat-mediated
7a9df8e2-329c-11e6-aca6-b39fcc638e3d	2_175691623_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	175691623	CT	C	600	PASS	CHN1	Del	intronic	1	6	MSH6	child	2_175691623_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
7aa059ce-3289-11e6-a8ac-a28ea2c71c31	3_186279287_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	186279287	TA	T	480	PASS	TBCCD1	Del	intronic	1	6	MSH6	child	3_186279287_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
7aa1f2cc-3287-11e6-9bc8-5079a178171f	15_81745314_GTG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	15	81745314	GT	G	360	PASS	CTD-2034I4.1	Del	intronic	1	9	FANCC	child	15_81745314_GTG_FANCC	1	1	1	T	8	T	Repeat-mediated
7aa86382-328c-11e6-9892-02ba5d753391	5_175390144_CAGC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	5	175390144	CAG	C	333	PASS	THOC3	Del	intronic	2	1	POLE	child	5_175390144_CAGC_POLE	2	2	1	A	0	-	Microhomology-mediated
7aa86aaa-3276-11e6-82ea-418d12ae24cf	7_36334871_CAC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	7	36334871	CA	C	300	PASS	EEPD1	Del	intronic	1	8	EXO1	child	7_36334871_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
7ab36b64-327e-11e6-85d6-b940d5957ca3	10_65712520_ACA	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	10	65712520	AC	A	300	PASS	RP11-170M17.1	Del	intronic	1	3	NEIL1	child	10_65712520_ACA_NEIL1	1	1	1	C	2	C	Repeat-mediated
7ab512fa-328a-11e6-94b1-74090e01a414	17_60608252_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	60608252	CT	C	540	PASS	TLK2	Del	intronic	1	9	MSH6	child	17_60608252_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
7ab61390-325c-11e6-8cd9-139b7872c165	3_166024046_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	166024046	C	CA	540	PASS	-	Ins	-	1	8	MSH6	child	3_166024046_CCA_MSH6	1	1	-	-	-	-	Ins
7ab7c3f0-3272-11e6-bbeb-70bd19a91649	20_37079790_TGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	20	37079790	TG	T	360	PASS	SNHG11	Del	downstream	1	7	MSH6	child	20_37079790_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
7abc15e2-3275-11e6-879d-c5bc6de4ab00	14_91738910_CCGTGAGAGTCG	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	14	91738910	C	CGTGAGAGTCG	420	PASS	CCDC88C	Ins	3prime_UTR_variant	10	0	POLB	child	14_91738910_CCGTGAGAGTCG_POLB	10	>=10	-	-	-	-	Ins
7ad5461e-3286-11e6-afcf-0311bce6aa09	9_83571262_TCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	83571262	TC	T	540	PASS	-	Del	-	1	6	MSH6	child	9_83571262_TCT_MSH6	1	1	1	C	5	C	Repeat-mediated
7ad59b2a-3275-11e6-af88-fed9cde16804	3_39673210_GGACCT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	3	39673210	G	GACCT	780	PASS	-	Ins	-	4	0	NEIL1	child	3_39673210_GGACCT_NEIL1	4	4	-	-	-	-	Ins
7ad647e8-3255-11e6-ad95-79832aaffa45	15_75080775_CCTC	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	15	75080775	CCT	C	720	PASS	CSK	Del	intronic	2	2	POLM	child	15_75080775_CCTC_POLM	2	2	2	CT	1	CT	Repeat-mediated
7ae8364c-334a-11e6-8b31-52813cfdbd24	7_105469900_AAAACA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	7	105469900	AAAAC	A	540	PASS	ATXN7L1	Del	intronic	4	3	FANCC	child	7_105469900_AAAACA_FANCC	4	4	4	AAAC	2	AAAC	Repeat-mediated
7af7675c-3273-11e6-83ef-69fb06e9a829	18_75287227_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	75287227	TA	T	600	PASS	-	Del	-	1	8	MSH6	child	18_75287227_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
7afb947c-3272-11e6-b55a-12b538e8a824	9_113294925_GTG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	9	113294925	GT	G	540	PASS	SVEP1	Del	intronic	1	6	NUDT1	child	9_113294925_GTG_NUDT1	1	1	1	T	5	T	Repeat-mediated
7b0ab2a8-3287-11e6-b32c-fd87a2c71c31	5_137553053_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	137553053	AT	A	660	PASS	CDC23	Del	upstream	1	9	MSH6	child	5_137553053_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
7b0cea2e-3254-11e6-89d3-d29498816cf3	2_103864036_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	103864036	AT	A	660	PASS	-	Del	-	1	8	MSH6	child	2_103864036_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
7b0d5872-328d-11e6-9297-a3a9cdacbbbf	10_13467736_AGAGATA	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	10	13467736	AGAGAT	A	300	PASS	-	Del	-	5	1	POLB	child	10_13467736_AGAGATA_POLB	5	5	0	-	0	-	None
7b1404f0-3270-11e6-a0a7-943dc225ee11	1_105266949_ACA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	1	105266949	AC	A	480	PASS	-	Del	-	1	1	EXO1	parent	1_105266949_ACA_EXO1	1	1	0	-	0	C	None
7b16b748-3286-11e6-ac69-110e987b3f23	X_62972920_CCA	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	X	62972920	C	CA	480	PASS	ARHGEF9	Ins	intronic	1	6	NEIL1	parent	X_62972920_CCA_NEIL1	1	1	-	-	-	-	Ins
7b177b04-328d-11e6-9c89-8d090e01a414	1_247165611_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	247165611	TA	T	300	PASS	ZNF695	Del	intronic	1	9	MSH6	child	1_247165611_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
7b1ff3d8-3274-11e6-972b-b65bfc77b11e	1_93778014_TAT	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	1	93778014	TA	T	600	PASS	RP4-717I23.3	Del	intronic	1	8	CHK2	child	1_93778014_TAT_CHK2	1	1	1	A	7	A	Repeat-mediated
7b2a062c-3295-11e6-9993-7f46fa52e078	8_132477357_GCG	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	8	132477357	GC	G	300	PASS	-	Del	-	1	3	NUDT1	child	8_132477357_GCG_NUDT1	1	1	1	C	2	C	Repeat-mediated
7b2a594a-328d-11e6-bfa2-581f0e01a414	7_50167035_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	50167035	GA	G	360	PASS	C7orf72	Del	intronic	1	9	MSH6	child	7_50167035_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
7b402880-3286-11e6-901a-b6959cdf095d	X_78258862_GGA	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	X	78258862	G	GA	900	PASS	-	Ins	-	1	7	POLE	child	X_78258862_GGA_POLE	1	1	-	-	-	-	Ins
7b48e6e6-326d-11e6-b306-b5204b47a305	2_74111013_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	74111013	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	2_74111013_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
7b518a18-3285-11e6-8b67-086ea2c71c31	1_90111404_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	90111404	CA	C	540	PASS	LRRC8C	Del	intronic	1	5	MSH6	child	1_90111404_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
7b559d42-328a-11e6-b805-77090e01a414	2_78895113_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	78895113	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	2_78895113_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
7b55a250-3286-11e6-9a94-1d822aaffa45	6_153835283_ATA	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	6	153835283	AT	A	600	PASS	-	Del	-	1	8	POLE	child	6_153835283_ATA_POLE	1	1	1	T	7	T	Repeat-mediated
7b56be52-3258-11e6-a304-347a7872c165	1_82506094_GGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	82506094	G	GT	660	PASS	-	Ins	-	1	7	MSH6	child	1_82506094_GGT_MSH6	1	1	-	-	-	-	Ins
7b5d48ba-328c-11e6-b805-77090e01a414	2_212988216_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	212988216	AT	A	360	PASS	ERBB4	Del	intronic	1	6	MSH6	child	2_212988216_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
7b5dd154-3291-11e6-b81f-4ee66f39e758	8_124353157_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	124353157	TA	T	660	PASS	ATAD2	Del	intronic	1	7	MSH6	child	8_124353157_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
7b5e6aa2-3259-11e6-91d3-a68412ae24cf	7_67632306_TTTA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	67632306	T	TTA	300	PASS	RP5-945F2.3	Ins	intronic	2	5	MSH6	child	7_67632306_TTTA_MSH6	2	2	-	-	-	-	Ins
7b64816a-326f-11e6-a576-d8f3eab8d062	17_33532716_CTC	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	17	33532716	CT	C	360	PASS	-	Del	-	1	8	NUDT1	child	17_33532716_CTC_NUDT1	1	1	1	T	7	T	Repeat-mediated
7b6daaa2-3273-11e6-83ef-69fb06e9a829	18_75413710_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	75413710	AG	A	480	PASS	-	Del	-	1	1	MSH6	child	18_75413710_AGA_MSH6	1	1	0	-	0	G	None
7b74a8ea-3253-11e6-89d3-d29498816cf3	2_1091201_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	1091201	AT	A	540	PASS	SNTG2	Del	intronic	1	7	MSH6	child	2_1091201_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
7b74c638-328d-11e6-b9c4-751d0e01a414	5_79087178_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	79087178	GA	G	420	PASS	CMYA5	Del	intronic	1	7	MSH6	child	5_79087178_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
7b74cb2a-3273-11e6-a390-fc104530f757	1_185852859_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	1	185852859	AT	A	540	PASS	HMCN1	Del	intronic	1	4	FANCC	child	1_185852859_ATA_FANCC	1	1	1	T	3	T	Repeat-mediated
7b7e4cbc-3288-11e6-8b67-086ea2c71c31	1_107958935_GGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	107958935	G	GA	420	PASS	NTNG1	Ins	intronic	1	9	MSH6	child	1_107958935_GGA_MSH6	1	1	-	-	-	-	Ins
7b83a98e-3286-11e6-8b67-086ea2c71c31	1_187374590_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	187374590	GA	G	300	PASS	-	Del	-	1	7	MSH6	child	1_187374590_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
7b885c54-3286-11e6-9317-6ba56f39e758	8_14976240_GAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	8	14976240	GA	G	360	PASS	SGCZ	Del	intronic	1	9	EXO1	child	8_14976240_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
7b88966c-3289-11e6-b9eb-c78fa2c71c31	6_162345774_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	162345774	TA	T	360	PASS	PARK2	Del	intronic	1	8	MSH6	child	6_162345774_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
7b96b894-3286-11e6-a5b3-3f1ebce6aa09	7_4612045_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	4612045	GA	G	360	PASS	-	Del	-	1	4	MSH6	child	7_4612045_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
7b96be82-3279-11e6-8026-e974e7d0bdd7	2_69824851_AATA	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	2	69824851	AAT	A	300	PASS	AAK1	Del	intronic	2	1	FANCC	parent	2_69824851_AATA_FANCC	2	2	0	-	0	-	None
7b96fe12-3254-11e6-81f9-42f212ae24cf	17_46383242_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	17	46383242	CA	C	420	PASS	SKAP1	Del	intronic	1	9	MSH6	child	17_46383242_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
7b9d1812-3289-11e6-a32d-75090e01a414	14_33173892_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	33173892	TA	T	480	PASS	AKAP6	Del	intronic	1	7	MSH6	child	14_33173892_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
7b9da18e-3256-11e6-9d5a-0c8112ae24cf	9_44213842_TAAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	44213842	TAA	T	276	PASS	-	Del	-	2	3	MSH6	child	9_44213842_TAAT_MSH6	2	2	1	A	0	-	Microhomology-mediated
7ba4e6e4-329f-11e6-91d0-016425c9da85	7_119378165_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	119378165	GA	G	420	PASS	RP11-328J2.1	Del	intronic	1	8	MSH6	child	7_119378165_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
7ba8a570-3328-11e6-8247-7bd4cde16804	20_20293841_ATCA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	20	20293841	ATC	A	660	PASS	C20orf26	Del	intronic	2	5	EXO1	child	20_20293841_ATCA_EXO1	2	2	2	TC	4	TC	Repeat-mediated
7bad19f4-3272-11e6-83ef-69fb06e9a829	18_4650885_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	4650885	GA	G	271	PASS	-	Del	-	1	7	MSH6	child	18_4650885_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
7bb23828-3270-11e6-bfba-13bf4a47a305	9_38587376_AAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	38587376	A	AT	334	PASS	ANKRD18A	Ins	intronic	1	6	MSH6	child	9_38587376_AAT_MSH6	1	1	-	-	-	-	Ins
7bb5c824-329a-11e6-8069-175325c9da85	12_38252903_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	38252903	GT	G	960	PASS	-	Del	-	1	5	MSH6	child	12_38252903_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
7bbaf786-328b-11e6-a7cf-80090e01a414	15_85391135_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	85391135	CA	C	300	PASS	ALPK3	Del	intronic	1	8	MSH6	child	15_85391135_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
7bbafbf4-3287-11e6-a5b3-3f1ebce6aa09	7_97154677_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	97154677	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	7_97154677_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
7bc232ba-328d-11e6-b6a6-1f1e0e01a414	4_61816878_TGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	61816878	TG	T	300	PASS	-	Del	-	1	1	MSH6	child	4_61816878_TGT_MSH6	1	1	0	-	0	G	None
7bcc0714-3291-11e6-b77d-2eef6f39e758	6_67005162_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	67005162	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	6_67005162_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
7bd1ae1c-3287-11e6-9546-b5936f39e758	15_70862663_CCA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	15	70862663	C	CA	540	PASS	-	Ins	-	1	5	EXO1	child	15_70862663_CCA_EXO1	1	1	-	-	-	-	Ins
7bd46efa-326d-11e6-92dd-fda8977b3f23	10_72094948_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	72094948	GA	G	720	PASS	LRRC20	Del	intronic	1	5	MSH6	child	10_72094948_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
7bd5df7a-328f-11e6-9297-a3a9cdacbbbf	10_72361596_AAAAAAAAAAAGAGAAAGAAAAAAAAG	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	10	72361596	A	AAAAAAAAAAGAGAAAGAAAAAAAAG	300	PASS	PRF1	Ins	intronic	25	0	POLB	child	10_72361596_AAAAAAAAAAAGAGAAAGAAAAAAAAG_POLB	25	>=10	-	-	-	-	Ins
7bd9a6d0-3255-11e6-8fbd-68832aaffa45	12_102992376_ATA	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	12	102992376	AT	A	300	PASS	-	Del	-	1	9	POLM	child	12_102992376_ATA_POLM	1	1	1	T	8	T	Repeat-mediated
7be1205a-3272-11e6-abaf-4642cab49462	6_57658590_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	57658590	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	6_57658590_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
7bfc3710-3276-11e6-b48f-cc371daa6045	9_83181143_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	9	83181143	AT	A	780	PASS	-	Del	-	1	3	EXO1	child	9_83181143_ATA_EXO1	1	1	1	T	2	T	Repeat-mediated
7bfcf424-3272-11e6-8f10-bfc27872c165	4_86685271_CAATC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	4	86685271	CAAT	C	540	PASS	ARHGAP24	Del	intronic	3	1	EXO1	parent	4_86685271_CAATC_EXO1	3	3	0	-	0	-	None
7c0655b2-32a1-11e6-a04f-c66a25c9da85	6_143366114_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	143366114	AT	A	780	PASS	-	Del	-	1	8	MSH6	child	6_143366114_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
7c071204-326f-11e6-9309-bdc34a47a305	8_22155058_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	22155058	TA	T	600	PASS	PIWIL2	Del	intronic	1	9	MSH6	child	8_22155058_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
7c082342-3323-11e6-b456-3b4d07e9a829	8_20637529_CAC	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	8	20637529	CA	C	540	PASS	-	Del	-	1	7	POLE	child	8_20637529_CAC_POLE	1	1	1	A	6	A	Repeat-mediated
7c154dfe-3271-11e6-b5b8-e0c24a47a305	X_149345264_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	149345264	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	X_149345264_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
7c216a30-3285-11e6-8b67-086ea2c71c31	1_90301734_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	90301734	AT	A	660	PASS	LRRC8D	Del	intronic	1	9	MSH6	child	1_90301734_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
7c28873c-325a-11e6-885f-d1947872c165	4_113503616_CCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	113503616	C	CT	480	PASS	C4orf21	Ins	intronic	1	8	MSH6	child	4_113503616_CCT_MSH6	1	1	-	-	-	-	Ins
7c330c78-3275-11e6-a924-afbd7d6a9fc7	2_181741146_CAC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	2	181741146	CA	C	420	PASS	-	Del	-	1	7	EXO1	child	2_181741146_CAC_EXO1	1	1	1	A	6	A	Repeat-mediated
7c346c12-3324-11e6-8ba1-c7a030158702	21_47142423_GTG	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	21	47142423	GT	G	360	PASS	PCBP3	Del	intronic	1	9	POLE	child	21_47142423_GTG_POLE	1	1	1	T	8	T	Repeat-mediated
7c36c996-3282-11e6-906b-a52236fc2f7d	15_91884100_GAG	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	15	91884100	GA	G	540	PASS	-	Del	-	1	7	NUDT1	child	15_91884100_GAG_NUDT1	1	1	1	A	6	A	Repeat-mediated
7c3addd8-3273-11e6-af89-7600ebb8d062	5_151900179_TAT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	5	151900179	TA	T	360	PASS	-	Del	-	1	7	NUDT1	child	5_151900179_TAT_NUDT1	1	1	1	A	6	A	Repeat-mediated
7c3c0f2a-3258-11e6-aed0-182fee3c4f5d	20_43574371_TGAT	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	20	43574371	TGA	T	480	PASS	TOMM34	Del	intronic	2	3	POLB	child	20_43574371_TGAT_POLB	2	2	2	GA	2	GA	Repeat-mediated
7c46579a-326d-11e6-adc2-b7204b47a305	18_73795697_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	73795697	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	18_73795697_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
7c494244-3276-11e6-92d2-c259c225ee11	3_11560519_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	11560519	AT	A	300	PASS	ATG7	Del	intronic	1	7	MSH6	child	3_11560519_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
7c4c1382-3287-11e6-b611-f56e3adbad45	11_60293985_AATGA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	11	60293985	AATG	A	660	PASS	MS4A13	Del	intronic	3	1	NUDT1	parent	11_60293985_AATGA_NUDT1	3	3	2	AT	0	-	Microhomology-mediated
7c5223e0-3286-11e6-afcf-0311bce6aa09	9_84175845_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	84175845	GA	G	720	PASS	-	Del	-	1	8	MSH6	child	9_84175845_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
7c52c2e2-328f-11e6-8f31-bfe16f39e758	9_125561985_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	125561985	TA	T	600	PASS	OR1K1	Del	upstream	1	6	MSH6	child	9_125561985_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
7c5fcb72-328a-11e6-bbaf-7c090e01a414	19_44314795_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	44314795	CT	C	300	PASS	LYPD5	Del	intronic	1	8	MSH6	child	19_44314795_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
7c6077fc-3271-11e6-acc7-e55219a91649	1_191198999_TTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	191198999	T	TC	300	PASS	RP11-309H21.2	Ins	upstream	1	1	MSH6	child	1_191198999_TTC_MSH6	1	1	-	-	-	-	Ins
7c61ead6-3278-11e6-92d2-c259c225ee11	3_158091385_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	158091385	CT	C	600	PASS	RSRC1	Del	intronic	1	8	MSH6	child	3_158091385_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
7c6ebc64-3284-11e6-9f3c-743e51c54cdd	15_46745399_ATA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	15	46745399	AT	A	420	PASS	-	Del	-	1	7	EXO1	child	15_46745399_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
7c6fddb4-3325-11e6-98e4-0c20d8fd0a58	X_127711599_CAC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	X	127711599	CA	C	540	PASS	RP1-30E17.2	Del	intronic	1	8	CHK2	parent	X_127711599_CAC_CHK2	1	1	1	A	7	A	Repeat-mediated
7c71d018-3296-11e6-a5e0-15ac3adbad45	1_165069580_AATGTAGTAAG	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	1	165069580	A	ATGTAGTAAG	360	PASS	-	Ins	-	9	0	NEIL1	child	1_165069580_AATGTAGTAAG_NEIL1	9	9	-	-	-	-	Ins
7c73e740-3278-11e6-a391-f6d67d6a9fc7	6_65953506_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	65953506	CT	C	480	PASS	EYS	Del	intronic	1	7	MSH6	child	6_65953506_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
7c765af2-3291-11e6-a366-d0257a852e0e	2_144581353_CTC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	2	144581353	CT	C	420	PASS	AC079584.2	Del	downstream	1	9	CHK2	child	2_144581353_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
7c7e088c-326f-11e6-b4bf-85eb97ba1142	2_41314081_ATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	2	41314081	AT	A	420	PASS	-	Del	-	1	8	EXO1	parent	2_41314081_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
7c85f7ba-3286-11e6-be43-0a6ea2c71c31	10_38296583_AAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	38296583	A	AT	812	PASS	ZNF33A	Ins	upstream	1	1	MSH6	child	10_38296583_AAT_MSH6	1	1	-	-	-	-	Ins
7c9441b2-3259-11e6-885f-d1947872c165	4_37193698_GGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	37193698	G	GA	689	PASS	-	Ins	-	1	6	MSH6	child	4_37193698_GGA_MSH6	1	1	-	-	-	-	Ins
7c95bc72-326d-11e6-b306-b5204b47a305	2_74382164_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	74382164	TA	T	360	PASS	MOB1A	Del	3prime_UTR_variant	1	9	MSH6	child	2_74382164_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
7c96806c-3286-11e6-a8af-066ea2c71c31	15_38312371_AAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	38312371	A	AT	360	PASS	RP11-1008C21.1	Ins	intronic	1	7	MSH6	child	15_38312371_AAT_MSH6	1	1	-	-	-	-	Ins
7c9db11e-3274-11e6-b375-e026147bb207	21_10959553_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	21	10959553	AT	A	207	PASS	TPTE	Del	intronic	1	9	MSH6	parent	21_10959553_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
7c9fa0ba-3273-11e6-975f-8246cab49462	16_67080295_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	67080295	AT	A	480	PASS	CBFB	Del	intronic	1	9	MSH6	child	16_67080295_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
7ca3e330-3284-11e6-8b67-086ea2c71c31	1_12355716_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	12355716	CA	C	480	PASS	VPS13D	Del	intronic	1	8	MSH6	child	1_12355716_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
7ca91746-329e-11e6-b696-dd6225c9da85	5_87779369_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	87779369	GA	G	660	PASS	CTC-498M16.4	Del	intronic	1	8	MSH6	child	5_87779369_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
7cad9d10-328b-11e6-a7cf-80090e01a414	15_85428661_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	85428661	GA	G	660	PASS	SLC28A1	Del	intronic	1	9	MSH6	child	15_85428661_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
7caebd9c-3328-11e6-81bd-c0e680635058	20_37423693_TCTCT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	20	37423693	TCTC	T	420	PASS	-	Del	-	3	2	CHK2	child	20_37423693_TCTCT_CHK2	3	3	3	CTC	1	CTC	Repeat-mediated
7cc2355a-329e-11e6-8c2e-3f6625c9da85	22_32133466_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	22	32133466	CA	C	540	PASS	PRR14L	Del	intronic	1	8	MSH6	child	22_32133466_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
7cc4e2d6-3286-11e6-afcf-0311bce6aa09	9_84294420_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	84294420	GA	G	600	PASS	TLE1	Del	intronic	1	8	MSH6	child	9_84294420_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
7ccc9a4e-3259-11e6-8cd9-139b7872c165	3_152921221_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	152921221	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	3_152921221_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
7cd22144-327c-11e6-9cfc-ec8590e2c2e6	1_20766158_TGAAT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	1	20766158	TGAA	T	780	PASS	-	Del	-	3	4	NUDT1	child	1_20766158_TGAAT_NUDT1	3	3	3	GAA	3	GAA	Repeat-mediated
7cd59c62-328f-11e6-8f31-bfe16f39e758	9_125645269_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	125645269	GA	G	420	PASS	RC3H2	Del	intronic	1	1	MSH6	child	9_125645269_GAG_MSH6	1	1	0	-	0	A	None
7cda1b16-3285-11e6-8b67-086ea2c71c31	1_90539996_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	90539996	CA	C	540	PASS	-	Del	-	1	7	MSH6	child	1_90539996_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
7cdd5546-3277-11e6-a71d-236235cec73b	X_118444330_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	118444330	CT	C	420	PASS	RP5-1139I1.1	Del	intronic	1	8	MSH6	child	X_118444330_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
7ce6746e-3277-11e6-a391-f6d67d6a9fc7	6_4678542_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	4678542	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	6_4678542_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
7cf3d2c0-3278-11e6-92d2-c259c225ee11	3_158273934_GCG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	158273934	GC	G	480	PASS	-	Del	-	1	7	MSH6	child	3_158273934_GCG_MSH6	1	1	1	C	6	C	Repeat-mediated
7cf525c0-3292-11e6-9230-fb250e01a414	3_98812666_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	98812666	T	TA	480	PASS	-	Ins	-	1	8	MSH6	child	3_98812666_TTA_MSH6	1	1	-	-	-	-	Ins
7cf59a2e-328c-11e6-bba4-c0bdcc638e3d	9_122508555_CAC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	9	122508555	CA	C	329	PASS	-	Del	-	1	9	NUDT1	child	9_122508555_CAC_NUDT1	1	1	1	A	8	A	Repeat-mediated
7cf87534-3253-11e6-b895-bae612ae24cf	2_140733640_GATG	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	2	140733640	GAT	G	420	PASS	-	Del	-	2	5	POLB	child	2_140733640_GATG_POLB	2	2	2	AT	4	AT	Repeat-mediated
7d057238-329a-11e6-b74d-b59fcc638e3d	18_43823052_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	43823052	AT	A	600	PASS	C18orf25	Del	intronic	1	9	MSH6	child	18_43823052_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
7d0c9f64-328a-11e6-821d-8c090e01a414	13_95184198_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	95184198	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	13_95184198_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
7d22ed26-3322-11e6-9b97-aa021daa6045	19_11721247_TCT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	19	11721247	TC	T	780	PASS	ZNF627	Del	intronic	1	2	EXO1	child	19_11721247_TCT_EXO1	1	1	1	C	1	C	Repeat-mediated
7d2eaa9e-328c-11e6-bec1-ca1d0e01a414	X_11973704_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	11973704	CA	C	780	PASS	-	Del	-	1	7	MSH6	child	X_11973704_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
7d32e3e4-3281-11e6-a6ac-c98169062303	17_65852428_TAT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	17	65852428	TA	T	297	PASS	BPTF	Del	intronic	1	8	FANCC	child	17_65852428_TAT_FANCC	1	1	1	A	7	A	Repeat-mediated
7d370416-329e-11e6-a5cf-e5abcc638e3d	9_10831120_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	10831120	C	CA	600	PASS	-	Ins	-	1	4	MSH6	child	9_10831120_CCA_MSH6	1	1	-	-	-	-	Ins
7d3e0698-326d-11e6-9793-9a8fb0dab373	13_81830548_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	81830548	AT	A	420	PASS	RP11-452B18.2	Del	intronic	1	6	MSH6	child	13_81830548_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
7d4273a0-328a-11e6-aff5-85090e01a414	16_68822376_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	68822376	CT	C	300	PASS	CDH1	Del	intronic	1	5	MSH6	child	16_68822376_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
7d484bec-326f-11e6-b9a6-d04066a58581	15_41976372_ATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	15	41976372	AT	A	540	PASS	MGA	Del	intronic	1	1	EXO1	parent	15_41976372_ATA_EXO1	1	1	0	-	0	T	None
7d5093a8-3254-11e6-9f9d-2c7a7872c165	12_63121780_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	63121780	TA	T	780	PASS	PPM1H	Del	intronic	1	9	MSH6	child	12_63121780_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
7d525a1c-329f-11e6-aea7-956725c9da85	3_61940961_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	61940961	CT	C	720	PASS	PTPRG	Del	intronic	1	9	MSH6	child	3_61940961_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
7d5f7762-3284-11e6-99f7-076ea2c71c31	12_10693843_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	10693843	TA	T	540	PASS	-	Del	-	1	9	MSH6	child	12_10693843_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
7d5f9738-328e-11e6-8490-d04c1087d53a	2_221590696_GAG	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	2	221590696	GA	G	720	PASS	-	Del	-	1	7	POLE	child	2_221590696_GAG_POLE	1	1	1	A	6	A	Repeat-mediated
7d6131e6-328a-11e6-821d-8c090e01a414	13_95278149_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	95278149	AT	A	600	PASS	GPR180	Del	intronic	1	7	MSH6	child	13_95278149_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
7d61ecda-3271-11e6-b439-e34b3cfdbd24	2_32288376_TGAGAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	2	32288376	TGAGA	T	960	PASS	SPAST	Del	upstream	4	3	MSH6	parent	2_32288376_TGAGAT_MSH6	4	4	3	GAG	0	-	Microhomology-mediated
7d65626c-329d-11e6-a5cf-e5abcc638e3d	9_98777634_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	98777634	AT	A	540	PASS	ERCC6L2	Del	downstream	1	7	MSH6	child	9_98777634_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
7d6b05e6-3289-11e6-b805-77090e01a414	2_21091121_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	21091121	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	2_21091121_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
7d6c25fa-3290-11e6-9401-04ed6f39e758	3_35349625_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	35349625	GA	G	540	PASS	-	Del	-	1	5	MSH6	child	3_35349625_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
7d70c6ce-3294-11e6-84ea-9945fa52e078	7_94300843_AAGA	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	7	94300843	AAG	A	420	PASS	PEG10	Del	downstream	2	4	NUDT1	child	7_94300843_AAGA_NUDT1	2	2	2	AG	3	AG	Repeat-mediated
7d75f3be-3277-11e6-92d2-c259c225ee11	3_81681294_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	81681294	CT	C	660	PASS	GBE1	Del	intronic	1	7	MSH6	child	3_81681294_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
7d7cf37c-328a-11e6-a80b-87090e01a414	11_74012175_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	74012175	GT	G	300	PASS	P4HA3	Del	intronic	1	9	MSH6	child	11_74012175_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
7d89d86a-3273-11e6-b89d-b2d6b0dab373	4_69123451_AAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	69123451	A	AT	420	PASS	-	Ins	-	1	4	MSH6	child	4_69123451_AAT_MSH6	1	1	-	-	-	-	Ins
7d8bd034-328c-11e6-b43c-7ec36f39e758	16_57772867_TGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	57772867	TG	T	360	PASS	KATNB1	Del	intronic	1	6	MSH6	child	16_57772867_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
7d92a280-328a-11e6-b805-77090e01a414	2_79603946_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	79603946	AT	A	480	PASS	CTNNA2	Del	intronic	1	6	MSH6	child	2_79603946_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
7d960798-326e-11e6-acc7-e55219a91649	1_174258092_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	174258092	AT	A	660	PASS	RABGAP1L	Del	intronic	1	6	MSH6	child	1_174258092_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
7d9b21fe-3275-11e6-acf7-070eebb8d062	6_136573371_TGAGT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	6	136573371	TGAG	T	600	PASS	BCLAF1	Del	downstream	3	2	NUDT1	child	6_136573371_TGAGT_NUDT1	3	3	3	GAG	1	GAG	Repeat-mediated
7d9fa580-3270-11e6-b89d-b2d6b0dab373	4_65363241_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	65363241	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	4_65363241_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
7da1f182-3257-11e6-aa0b-72f912ae24cf	8_129743145_TAT	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	8	129743145	TA	T	540	PASS	-	Del	-	1	1	POLB	child	8_129743145_TAT_POLB	1	1	0	-	0	A	None
7da2da0e-3291-11e6-99d8-a1aee7d0bdd7	8_120120451_CTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	8	120120451	CT	C	420	PASS	COLEC10	Del	downstream	1	2	FANCC	child	8_120120451_CTC_FANCC	1	1	1	T	1	T	Repeat-mediated
7dace808-329d-11e6-bc2c-2a5e25c9da85	4_39723747_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	39723747	TA	T	840	PASS	UBE2K	Del	intronic	1	8	MSH6	child	4_39723747_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
7dafccd4-3271-11e6-8418-1c5942c4520d	3_145335996_ATGACA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	145335996	ATGAC	A	600	PASS	-	Del	-	4	1	MSH6	child	3_145335996_ATGACA_MSH6	4	4	3	TGA	0	-	Microhomology-mediated
7dc36644-329a-11e6-b74d-b59fcc638e3d	18_44025037_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	44025037	AT	A	540	PASS	RNF165	Del	intronic	1	7	MSH6	child	18_44025037_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
7dcbe4be-328a-11e6-afaf-7f6251c54cdd	6_136712969_CATAC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	6	136712969	CATA	C	260	PASS	MAP7	Del	intronic	3	2	EXO1	child	6_136712969_CATAC_EXO1	3	3	3	ATA	1	ATA	Repeat-mediated
7dcc8848-3252-11e6-b4e1-b8e612ae24cf	18_75810243_TAT	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	18	75810243	TA	T	600	PASS	-	Del	-	1	5	POLB	child	18_75810243_TAT_POLB	1	1	1	A	4	A	Repeat-mediated
7de1926a-3257-11e6-885f-d1947872c165	4_94732119_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	94732119	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	4_94732119_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
7de92f66-3284-11e6-97d5-6cf1bbe6aa09	17_9528013_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	9528013	CT	C	300	PASS	WDR16	Del	intronic	1	8	MSH6	child	17_9528013_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
7dec0cee-3271-11e6-b5b8-e0c24a47a305	X_150034761_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	150034761	CA	C	300	PASS	CD99L2	Del	intronic	1	9	MSH6	child	X_150034761_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
7df5df22-3289-11e6-821d-8c090e01a414	13_31375061_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	31375061	CT	C	540	PASS	LINC00398	Del	upstream	1	9	MSH6	child	13_31375061_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
7dfa911c-3292-11e6-abf5-7bdad8b4fa2c	17_73987916_TCAGGAGTTCGAGACCAGCCTAGCCAACATGGCGAAACCCCATCCCTACTAAAAGTACAAAACTTAGCTGGGCGTGGTGGT	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	17	73987916	TCAGGAGTTCGAGACCAGCCTAGCCAACATGGCGAAACCCCATCCCTACTAAAAGTACAAAACTTAGCTGGGCGTGGTGG	T	360	PASS	TEN1	Del	intronic	79	1	NUDT1	child	17_73987916_TCAGGAGTTCGAGACCAGCCTAGCCAACATGGCGAAACCCCATCCCTACTAAAAGTACAAAACTTAGCTGGGCGTGGTGGT_NUDT1	79	>=10	2	CA	0	-	Microhomology-mediated
7dfb4c3a-3272-11e6-9522-b51a987b3f23	12_57300070_GTG	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	12	57300070	GT	G	300	PASS	-	Del	-	1	4	NUDT1	child	12_57300070_GTG_NUDT1	1	1	1	T	3	T	Repeat-mediated
7e039cd4-3284-11e6-99f7-076ea2c71c31	12_10914619_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	10914619	GT	G	540	PASS	RP13-81N3.2	Del	intronic	1	7	MSH6	child	12_10914619_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
7e08d1b0-328c-11e6-8256-94c36f39e758	17_46918189_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	46918189	GA	G	420	PASS	CALCOCO2	Del	intronic	1	9	MSH6	child	17_46918189_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
7e1e8a8c-329b-11e6-b129-195325c9da85	16_74997149_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	74997149	CA	C	720	PASS	WDR59	Del	intronic	1	9	MSH6	child	16_74997149_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
7e259bfe-3284-11e6-94be-6cfa4430f757	12_45882949_ATATTA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	12	45882949	ATATT	A	840	PASS	RP11-352M15.1	Del	intronic	4	1	EXO1	child	12_45882949_ATATTA_EXO1	4	4	1	T	0	-	Microhomology-mediated
7e2a5c28-3277-11e6-8c34-46e27872c165	5_150453778_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	150453778	AT	A	540	PASS	TNIP1	Del	intronic	1	8	MSH6	child	5_150453778_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
7e33c816-328c-11e6-ac7a-a3c36f39e758	18_64682295_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	64682295	GA	G	660	PASS	-	Del	-	1	6	MSH6	child	18_64682295_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
7e36bb3e-3273-11e6-aa3b-ca60a178171f	13_94735361_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	94735361	GT	G	720	PASS	GPC6	Del	intronic	1	7	MSH6	child	13_94735361_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
7e430d72-329a-11e6-aca6-b39fcc638e3d	2_48966952_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	48966952	TA	T	594	PASS	STON1-GTF2A1L	Del	intronic	1	9	MSH6	child	2_48966952_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
7e50a10a-3270-11e6-aa37-4a68a78019ab	6_1750114_GTAGTGCCGTGGCATGATCGTAGCTCACTGCAGCCTTGAACTCCTGGACTCAAGTGATCCTCCAGCTTCAGCCTTCCAAGTAGATGGGACTACAGGCATGCATCACCACACTTGGCTAATGCTTTTAATTTTTAGTATACAAAAATACTAAAAATGTATGTATGGGCTACATTGTTCCTGGCCTCAAGAAATCTTCCTGCCTTGGCCTCCCAAAGGGCTGGGACTAAAGGACTGAGCCACCAGCCTCAAATTATTAATACCTCATATTTCAAGTTGTGTCCAATTTCATTGTTATAATGAAGCAGAAGTTTCCTCTTAACTTTATTATTTTTCTTGATTTCAGAGGGTTTCAAAAAAAGGAGTGTTGAATGAAAATGTCCTTATATTTAGTCATTTAAAAATATATTTCTTGAAGATGGCTGAATAGGAACAGCTCCACTCTGGAGCTGCCAGTGAGATCAACGCAGAAGGCAGGTGATTTCTGCATTTCCAACTGAGGTACCTGGCTCAG	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	6	1750114	GTAGTGCCGTGGCATGATCGTAGCTCACTGCAGCCTTGAACTCCTGGACTCAAGTGATCCTCCAGCTTCAGCCTTCCAAGTAGATGGGACTACAGGCATGCATCACCACACTTGGCTAATGCTTTTAATTTTTAGTATACAAAAATACTAAAAATGTATGTATGGGCTACATTGTTCCTGGCCTCAAGAAATCTTCCTGCCTTGGCCTCCCAAAGGGCTGGGACTAAAGGACTGAGCCACCAGCCTCAAATTATTAATACCTCATATTTCAAGTTGTGTCCAATTTCATTGTTATAATGAAGCAGAAGTTTCCTCTTAACTTTATTATTTTTCTTGATTTCAGAGGGTTTCAAAAAAAGGAGTGTTGAATGAAAATGTCCTTATATTTAGTCATTTAAAAATATATTTCTTGAAGATGGCTGAATAGGAACAGCTCCACTCTGGAGCTGCCAGTGAGATCAACGCAGAAGGCAGGTGATTTCTGCATTTCCAACTGAGGTACCTGGCTCA	G	600	PASS	GMDS	Del	intronic	509	1	POLM	parent	6_1750114_GTAGTGCCGTGGCATGATCGTAGCTCACTGCAGCCTTGAACTCCTGGACTCAAGTGATCCTCCAGCTTCAGCCTTCCAAGTAGATGGGACTACAGGCATGCATCACCACACTTGGCTAATGCTTTTAATTTTTAGTATACAAAAATACTAAAAATGTATGTATGGGCTACATTGTTCCTGGCCTCAAGAAATCTTCCTGCCTTGGCCTCCCAAAGGGCTGGGACTAAAGGACTGAGCCACCAGCCTCAAATTATTAATACCTCATATTTCAAGTTGTGTCCAATTTCATTGTTATAATGAAGCAGAAGTTTCCTCTTAACTTTATTATTTTTCTTGATTTCAGAGGGTTTCAAAAAAAGGAGTGTTGAATGAAAATGTCCTTATATTTAGTCATTTAAAAATATATTTCTTGAAGATGGCTGAATAGGAACAGCTCCACTCTGGAGCTGCCAGTGAGATCAACGCAGAAGGCAGGTGATTTCTGCATTTCCAACTGAGGTACCTGGCTCAG_POLM	509	>=10	1	T	0	-	Microhomology-mediated
7e5d8bd8-328c-11e6-8eed-44ee5d753391	6_9498278_TAT	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	6	9498278	TA	T	480	PASS	-	Del	-	1	1	POLE	child	6_9498278_TAT_POLE	1	1	0	-	0	A	None
7e5dfa6c-3289-11e6-a5b3-3f1ebce6aa09	7_134022850_CCA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	134022850	C	CA	540	PASS	-	Ins	-	1	8	MSH6	child	7_134022850_CCA_MSH6	1	1	-	-	-	-	Ins
7e60ca14-3291-11e6-bb4c-05a29b6d3b88	3_78964835_GTG	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	3	78964835	GT	G	300	PASS	ROBO1	Del	intronic	1	8	POLB	child	3_78964835_GTG_POLB	1	1	1	T	7	T	Repeat-mediated
7e67aab6-328f-11e6-9432-c0e56f39e758	5_61226988_GTTAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	61226988	GTTA	G	540	PASS	-	Del	-	3	6	MSH6	child	5_61226988_GTTAG_MSH6	3	3	3	TTA	5	TTA	Repeat-mediated
7e6a6d94-3255-11e6-89d3-d29498816cf3	2_211274853_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	211274853	CT	C	660	PASS	-	Del	-	1	9	MSH6	child	2_211274853_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
7e70040e-328f-11e6-8e48-791e0e01a414	8_130816409_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	130816409	GA	G	420	PASS	-	Del	-	1	8	MSH6	child	8_130816409_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
7e775af0-329a-11e6-b549-1e5325c9da85	10_35492313_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	35492313	CT	C	360	PASS	CREM	Del	intronic	1	7	MSH6	child	10_35492313_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
7e77fa92-3285-11e6-ac69-110e987b3f23	X_115833065_ATGA	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	X	115833065	ATG	A	300	PASS	RP11-232D9.3	Del	upstream	2	6	NEIL1	parent	X_115833065_ATGA_NEIL1	2	2	2	TG	5	TG	Repeat-mediated
7e7aeb96-329c-11e6-a5cf-e5abcc638e3d	9_17437815_ATGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	17437815	ATG	A	840	PASS	CNTLN	Del	intronic	2	6	MSH6	child	9_17437815_ATGA_MSH6	2	2	2	TG	5	TG	Repeat-mediated
7e824770-328c-11e6-a75f-859bcdacbbbf	9_103509504_AAGT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	9	103509504	A	AGT	600	PASS	-	Ins	-	2	0	FANCC	child	9_103509504_AAGT_FANCC	2	2	-	-	-	-	Ins
7e846ce0-3281-11e6-9d06-ad2236fc2f7d	16_54706719_GAG	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	16	54706719	GA	G	360	PASS	-	Del	-	1	8	NUDT1	child	16_54706719_GAG_NUDT1	1	1	1	A	7	A	Repeat-mediated
7e8550d4-3276-11e6-92d2-c259c225ee11	3_11954467_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	11954467	AT	A	344	PASS	-	Del	-	1	6	MSH6	child	3_11954467_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
7e8c730a-3271-11e6-abaf-4642cab49462	6_2652505_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	2652505	CA	C	540	PASS	-	Del	-	1	9	MSH6	child	6_2652505_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
7e8f4d20-3279-11e6-92d2-c259c225ee11	3_24243160_GGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	24243160	G	GA	300	PASS	THRB	Ins	intronic	1	2	MSH6	child	3_24243160_GGA_MSH6	1	1	-	-	-	-	Ins
7e971ee4-3272-11e6-bfb2-2749c225ee11	12_10421752_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	10421752	CT	C	540	PASS	KLRD1	Del	intronic	1	9	MSH6	child	12_10421752_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
7e9d8bf8-3286-11e6-b32c-fd87a2c71c31	5_27832594_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	27832594	GA	G	600	PASS	-	Del	-	1	7	MSH6	child	5_27832594_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
7e9d91ba-3282-11e6-b652-59be9b6d3b88	1_197726117_TTAT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	1	197726117	TTA	T	600	PASS	DENND1B	Del	intronic	2	7	POLE	child	1_197726117_TTAT_POLE	2	2	2	TA	6	TA	Repeat-mediated
7e9ed87e-3258-11e6-8340-da9012ae24cf	6_4148936_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	4148936	CT	C	474	PASS	RP3-400B16.1	Del	intronic	1	9	MSH6	child	6_4148936_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
7eadcddc-328c-11e6-b68c-9fa420e7b7a8	8_66639827_CATC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	8	66639827	CAT	C	540	PASS	PDE7A	Del	intronic	2	1	POLE	child	8_66639827_CATC_POLE	2	2	1	A	0	-	Microhomology-mediated
7ebc06be-3277-11e6-b7b5-ce91a78019ab	5_61176151_ATA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	5	61176151	AT	A	540	PASS	CTD-2244C20.2	Del	intronic	1	8	NEIL1	child	5_61176151_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
7ed37644-3288-11e6-8404-8e1fbce6aa09	8_134318935_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	134318935	CT	C	660	PASS	-	Del	-	1	8	MSH6	child	8_134318935_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
7ede9756-3281-11e6-b9fb-4420bce6aa09	9_82083358_GTG	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	9	82083358	GT	G	600	PASS	-	Del	-	1	4	POLM	child	9_82083358_GTG_POLM	1	1	1	T	3	T	Repeat-mediated
7ee0b616-3282-11e6-845d-6b29bce6aa09	X_77620576_ATA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	X	77620576	AT	A	720	PASS	-	Del	-	1	9	POLM	child	X_77620576_ATA_POLM	1	1	1	T	8	T	Repeat-mediated
7ee148ba-3322-11e6-894d-4bcc12ae24cf	11_123896358_TAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	11	123896358	TA	T	780	PASS	OR10G8	Del	upstream	1	5	EXO1	child	11_123896358_TAT_EXO1	1	1	1	A	4	A	Repeat-mediated
7ee48210-3277-11e6-82ea-418d12ae24cf	7_101353660_TAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	7	101353660	TA	T	300	PASS	-	Del	-	1	7	EXO1	child	7_101353660_TAT_EXO1	1	1	1	A	6	A	Repeat-mediated
7eed21c2-3277-11e6-92d2-c259c225ee11	3_82244552_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	82244552	GA	G	600	PASS	RP11-260O18.1	Del	intronic	1	9	MSH6	child	3_82244552_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
7ef70d30-3255-11e6-89d3-d29498816cf3	2_211565933_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	211565933	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	2_211565933_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
7ef8ad4e-3272-11e6-abaf-4642cab49462	6_58507826_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	58507826	AT	A	616	PASS	RP11-143A22.1	Del	intronic	1	9	MSH6	child	6_58507826_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
7efa8774-3289-11e6-b611-f56e3adbad45	11_122997818_CCT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	11	122997818	C	CT	600	PASS	CLMP	Ins	intronic	1	8	NUDT1	parent	11_122997818_CCT_NUDT1	1	1	-	-	-	-	Ins
7f071322-329d-11e6-94ca-0aaecc638e3d	X_47500595_AGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	47500595	AG	A	720	PASS	ELK1	Del	intronic	1	8	MSH6	child	X_47500595_AGA_MSH6	1	1	1	G	7	G	Repeat-mediated
7f079408-3290-11e6-8ca9-847019a91649	9_26160410_CAC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	9	26160410	CA	C	420	PASS	-	Del	-	1	7	NEIL1	child	9_26160410_CAC_NEIL1	1	1	1	A	6	A	Repeat-mediated
7f11d09e-3272-11e6-a862-bc9becf1e924	1_14234326_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	14234326	AT	A	420	PASS	-	Del	-	1	8	MSH6	child	1_14234326_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
7f1dd166-32a2-11e6-b970-398625c9da85	20_7718398_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	7718398	AT	A	480	PASS	-	Del	-	1	6	MSH6	child	20_7718398_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
7f22e672-3326-11e6-9459-771c630e6611	4_4969872_AAG	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	4	4969872	A	AG	480	PASS	-	Ins	-	1	2	CHK2	child	4_4969872_AAG_CHK2	1	1	-	-	-	-	Ins
7f230af6-3288-11e6-ba61-6079a178171f	2_189619297_TAT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	2	189619297	TA	T	300	PASS	DIRC1	Del	intronic	1	3	FANCC	child	2_189619297_TAT_FANCC	1	1	1	A	2	A	Repeat-mediated
7f28edda-3289-11e6-84d3-e3cd191589db	15_47252348_TATAGCATTCT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	15	47252348	TATAGCATTC	T	420	PASS	-	Del	-	9	1	FANCC	child	15_47252348_TATAGCATTCT_FANCC	9	9	3	ATA	0	-	Microhomology-mediated
7f2b15a2-3288-11e6-ba61-6079a178171f	2_189619765_TTTTGAT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	2	189619765	TTTTGA	T	360	PASS	DIRC1	Del	intronic	5	1	FANCC	child	2_189619765_TTTTGAT_FANCC	5	5	4	TTTG	0	-	Microhomology-mediated
7f3bd942-325a-11e6-8340-da9012ae24cf	6_141182182_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	141182182	GT	G	600	PASS	-	Del	-	1	7	MSH6	child	6_141182182_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
7f40d328-329d-11e6-b696-dd6225c9da85	5_27733952_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	27733952	CT	C	420	PASS	-	Del	-	1	7	MSH6	child	5_27733952_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
7f50647e-328d-11e6-bb2d-24a320e7b7a8	X_74964980_GGT	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	X	74964980	G	GT	540	PASS	-	Ins	-	1	7	POLE	child	X_74964980_GGT_POLE	1	1	-	-	-	-	Ins
7f551ed6-328a-11e6-8580-eccd191589db	16_58605568_GAAGGGAGAAAAAGACAGTTAAAATAATAGGAGGCCGGGCATAGTGGCTCATGCCTGTGATCCCAGCACTTTGGGAGGCTGAGGCGAGTGGATCACTTGAGGTCAGGAGTTTGAGAGCAAAA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	16	58605568	GAAGGGAGAAAAAGACAGTTAAAATAATAGGAGGCCGGGCATAGTGGCTCATGCCTGTGATCCCAGCACTTTGGGAGGCTGAGGCGAGTGGATCACTTGAGGTCAGGAGTTTGAGA	GCAAAA	540	PASS	CNOT1	Complex	intronic	115	0	FANCC	child	16_58605568_GAAGGGAGAAAAAGACAGTTAAAATAATAGGAGGCCGGGCATAGTGGCTCATGCCTGTGATCCCAGCACTTTGGGAGGCTGAGGCGAGTGGATCACTTGAGGTCAGGAGTTTGAGAGCAAAA_FANCC	110	>=10	-	-	-	-	Complex
7f564f5c-3291-11e6-9d97-efe56f39e758	4_190578242_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	190578242	GT	G	588	PASS	RP11-462G22.1	Del	upstream	1	1	MSH6	child	4_190578242_GTG_MSH6	1	1	0	-	0	T	None
7f568890-3288-11e6-b9eb-c78fa2c71c31	6_56972200_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	56972200	TA	T	840	PASS	ZNF451	Del	3prime_UTR_variant	1	8	MSH6	child	6_56972200_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
7f62012c-3272-11e6-ba3c-6216cd638e3d	7_29435125_CAC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	7	29435125	CA	C	420	PASS	CHN2	Del	intronic	1	9	NEIL1	child	7_29435125_CAC_NEIL1	1	1	1	A	8	A	Repeat-mediated
7f62b652-3273-11e6-94cc-1ec335cec73b	19_39864440_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	39864440	TA	T	660	PASS	SAMD4B	Del	intronic	1	7	MSH6	child	19_39864440_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
7f688fc4-3254-11e6-acd5-c91dee3c4f5d	4_68069420_CAC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	4	68069420	CA	C	660	PASS	-	Del	-	1	9	POLB	child	4_68069420_CAC_POLB	1	1	1	A	8	A	Repeat-mediated
7f69ef32-328a-11e6-a729-f0a020e7b7a8	9_132110931_CCTC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	9	132110931	CCT	C	540	PASS	RP11-65J3.1	Del	downstream	2	3	POLE	child	9_132110931_CCTC_POLE	2	2	2	CT	2	CT	Repeat-mediated
7f6c2858-327e-11e6-9f94-65e7b41afd22	8_15789237_TAT	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	8	15789237	TA	T	660	PASS	-	Del	-	1	7	POLM	child	8_15789237_TAT_POLM	1	1	1	A	6	A	Repeat-mediated
7f7126c8-3292-11e6-961b-e659e84777f6	1_222311034_TAGT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	1	222311034	TAG	T	300	PASS	RP11-400N13.1	Del	intronic	2	6	CHK2	child	1_222311034_TAGT_CHK2	2	2	2	AG	5	AG	Repeat-mediated
7f77b0dc-329d-11e6-ae71-0c5325c9da85	1_212030137_AGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	212030137	AG	A	600	PASS	-	Del	-	1	2	MSH6	child	1_212030137_AGA_MSH6	1	1	1	G	1	G	Repeat-mediated
7f81d2f6-3270-11e6-b62b-e162a78019ab	8_61330808_AATAACAGTA	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	8	61330808	AATAACAGT	A	480	PASS	RP11-163N6.2	Del	upstream	8	2	POLM	parent	8_61330808_AATAACAGTA_POLM	8	8	8	ATAACAGT	1	ATAACAGT	Repeat-mediated
7f845aaa-3273-11e6-86e1-8d021ea8ec0e	X_18301851_AAGA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	X	18301851	AAG	A	360	PASS	SCML2	Del	intronic	2	1	POLB	child	X_18301851_AAGA_POLB	2	2	0	-	0	-	None
7f92a814-3258-11e6-acc5-308412ae24cf	5_154311838_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	154311838	TA	T	660	PASS	GEMIN5	Del	intronic	1	7	MSH6	child	5_154311838_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
7f9eb5b0-3284-11e6-a0a8-096ea2c71c31	11_13092494_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	13092494	TA	T	660	PASS	CTC-497E21.5	Del	intronic	1	7	MSH6	child	11_13092494_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
7f9ff1a2-329b-11e6-8069-175325c9da85	12_96861585_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	96861585	GA	G	720	PASS	RP11-510I5.4	Del	intronic	1	9	MSH6	child	12_96861585_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
7fa89c70-327e-11e6-90bd-91d3eab8d062	6_53429970_CTC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	6	53429970	CT	C	960	PASS	RP1-27K12.2	Del	intronic	1	8	FANCC	parent	6_53429970_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
7facae12-3285-11e6-b093-c9c7b0dab373	2_85298815_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	85298815	AT	A	420	PASS	RP11-60H5.1	Del	upstream	1	9	MSH6	child	2_85298815_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
7fbb3256-3290-11e6-8612-7b73fc77b11e	5_113247347_GAGAG	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	5	113247347	GAGA	G	420	PASS	-	Del	-	3	2	POLE	child	5_113247347_GAGAG_POLE	3	3	3	AGA	1	AGA	Repeat-mediated
7fd50ae6-326d-11e6-b9f4-5d1d694da5d2	14_78173398_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	78173398	TA	T	660	PASS	ALKBH1	Del	intronic	1	7	MSH6	child	14_78173398_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
7fec4636-3289-11e6-821d-8c090e01a414	13_31725883_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	31725883	CA	C	360	PASS	HSPH1	Del	splice_region	1	6	MSH6	child	13_31725883_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
7fecd870-3280-11e6-8049-10fc028949d4	1_62444369_ATA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	1	62444369	AT	A	840	PASS	INADL	Del	intronic	1	8	POLM	child	1_62444369_ATA_POLM	1	1	1	T	7	T	Repeat-mediated
7ff8cd5a-3290-11e6-92cf-bf2a0e01a414	6_108735150_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	108735150	CA	C	360	PASS	LACE1	Del	intronic	1	8	MSH6	child	6_108735150_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
80009f7a-3287-11e6-9bb4-ea6e3adbad45	13_78463133_GAG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	13	78463133	GA	G	660	PASS	-	Del	-	1	7	NUDT1	parent	13_78463133_GAG_NUDT1	1	1	1	A	6	A	Repeat-mediated
8005fa9e-3325-11e6-95a6-476ac042253c	3_49976266_GAGTGCAGTGGCGCTATCTCGACTCACTGCAG	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	3	49976266	GAGTGCAGTGGCGCTATCTCGACTCACTGCA	G	331	PASS	RBM6	Del	upstream	30	1	CHK2	child	3_49976266_GAGTGCAGTGGCGCTATCTCGACTCACTGCAG_CHK2	30	>=10	2	AG	0	-	Microhomology-mediated
8008b0e8-3282-11e6-a2c9-149290e2c2e6	3_21695263_GGA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	3	21695263	G	GA	480	PASS	ZNF385D	Ins	intronic	1	8	NUDT1	child	3_21695263_GGA_NUDT1	1	1	-	-	-	-	Ins
80099552-3274-11e6-a5d0-4fd14a47a305	2_187120013_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	187120013	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	2_187120013_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
801615a6-329d-11e6-94ca-0aaecc638e3d	X_47831325_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	47831325	AT	A	321	PASS	ZNF182	Del	downstream	1	8	MSH6	child	X_47831325_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
801e5de6-3258-11e6-8cd9-139b7872c165	3_69758827_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	69758827	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	3_69758827_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
8021ee4e-328e-11e6-8e48-791e0e01a414	8_58660398_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	58660398	CA	C	420	PASS	CTD-2339F6.1	Del	intronic	1	7	MSH6	child	8_58660398_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
8022c0e6-3273-11e6-8f33-a6d9cde16804	11_101512806_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	101512806	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	11_101512806_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
80240bb2-326f-11e6-b89d-b2d6b0dab373	4_3276133_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	3276133	GT	G	300	PASS	-	Del	-	1	2	MSH6	child	4_3276133_GTG_MSH6	1	1	1	T	1	T	Repeat-mediated
80252e7c-3290-11e6-a400-33b64430f757	22_37185137_TAT	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	22	37185137	TA	T	300	PASS	-	Del	-	1	1	POLE	child	22_37185137_TAT_POLE	1	1	0	-	0	A	None
802ae9ee-3285-11e6-ae56-63a635cec73b	12_133161352_CTGC	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	12	133161352	CTG	C	300	PASS	FBRSL1	Del	3prime_UTR_variant	2	1	POLE	child	12_133161352_CTGC_POLE	2	2	1	T	0	-	Microhomology-mediated
8033546e-3288-11e6-8b67-086ea2c71c31	1_109658323_TTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	109658323	T	TG	300	PASS	KIAA1324	Ins	intronic	1	6	MSH6	child	1_109658323_TTG_MSH6	1	1	-	-	-	-	Ins
804c7078-3271-11e6-8b9c-cffdd8b4fa2c	11_31154067_CTC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	11	31154067	CT	C	480	PASS	-	Del	-	1	9	MSH6	parent	11_31154067_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
8057d9fa-3289-11e6-a80b-87090e01a414	11_14806306_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	14806306	AT	A	600	PASS	PDE3B	Del	intronic	1	9	MSH6	child	11_14806306_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
80610b9c-3270-11e6-a539-0e5542c4520d	7_107729548_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	107729548	CT	C	420	PASS	LAMB4	Del	intronic	1	8	MSH6	child	7_107729548_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
80623952-3290-11e6-baa7-a96919a91649	2_217381834_TAT	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	2	217381834	TA	T	360	PASS	-	Del	-	1	7	NEIL1	child	2_217381834_TAT_NEIL1	1	1	1	A	6	A	Repeat-mediated
80669782-3276-11e6-83cd-a472a178171f	4_106545381_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	106545381	GA	G	540	PASS	ARHGEF38	Del	intronic	1	8	MSH6	child	4_106545381_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
8067e0e0-327d-11e6-8723-889be7d0bdd7	2_140866581_CTC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	2	140866581	CT	C	780	PASS	AC073928.2	Del	intronic	1	7	NUDT1	child	2_140866581_CTC_NUDT1	1	1	1	T	6	T	Repeat-mediated
8069ce44-328e-11e6-9337-20a5e7d0bdd7	14_87442435_CAC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	14	87442435	CA	C	660	PASS	RP11-736P16.1	Del	intronic	1	7	FANCC	child	14_87442435_CAC_FANCC	1	1	1	A	6	A	Repeat-mediated
8070eb14-3277-11e6-b0ed-7298a20b69d5	6_140800431_ATA	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	6	140800431	AT	A	300	PASS	-	Del	-	1	9	NUDT1	child	6_140800431_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
8072b098-329a-11e6-8d0f-075325c9da85	14_56987146_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	56987146	TA	T	480	PASS	RP11-624J12.1	Del	intronic	1	5	MSH6	child	14_56987146_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
8075e68a-3274-11e6-869c-1303630e6611	19_50469688_CTC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	19	50469688	CT	C	600	PASS	-	Del	-	1	9	CHK2	child	19_50469688_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
807cf6a2-329a-11e6-bda6-065325c9da85	13_57873649_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	57873649	TA	T	840	PASS	-	Del	-	1	8	MSH6	child	13_57873649_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
80803e3a-328a-11e6-8eee-76090e01a414	10_79814382_CGC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	79814382	CG	C	300	PASS	RPS24	Del	frameshift	1	6	MSH6	child	10_79814382_CGC_MSH6	1	1	1	G	5	G	Repeat-mediated
8081635a-3258-11e6-8cd9-139b7872c165	3_70010886_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	70010886	CA	C	420	PASS	MITF	Del	intronic	1	8	MSH6	child	3_70010886_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
808962f4-328e-11e6-baa7-a96919a91649	2_12413863_CTC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	2	12413863	CT	C	360	PASS	AC096559.1	Del	intronic	1	7	NEIL1	child	2_12413863_CTC_NEIL1	1	1	1	T	6	T	Repeat-mediated
809add1e-326f-11e6-b923-6726694da5d2	5_2463426_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	2463426	TA	T	300	PASS	-	Del	-	1	6	MSH6	child	5_2463426_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
80a45d20-3275-11e6-998e-ba48fa52e078	8_35203360_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	35203360	GA	G	540	PASS	UNC5D	Del	intronic	1	8	MSH6	child	8_35203360_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
80b042be-3290-11e6-9401-04ed6f39e758	3_36622954_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	36622954	TA	T	540	PASS	-	Del	-	1	9	MSH6	child	3_36622954_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
80beb542-3277-11e6-8c34-46e27872c165	5_151167763_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	151167763	GT	G	840	PASS	G3BP1	Del	intronic	1	9	MSH6	child	5_151167763_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
80c39060-326f-11e6-8f14-87641565c797	19_46383972_TAT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	19	46383972	TA	T	360	PASS	IRF2BP1	Del	downstream	1	9	POLM	child	19_46383972_TAT_POLM	1	1	1	A	8	A	Repeat-mediated
80caa9de-3271-11e6-bbd0-e88a64f80bad	16_69977153_GGT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	16	69977153	G	GT	460	PASS	WWP2	Ins	downstream	1	5	EXO1	parent	16_69977153_GGT_EXO1	1	1	-	-	-	-	Ins
80cae7c4-3270-11e6-9eec-5017987b3f23	10_4429826_TAT	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	10	4429826	TA	T	600	PASS	LINC00703	Del	intronic	1	8	POLB	child	10_4429826_TAT_POLB	1	1	1	A	7	A	Repeat-mediated
80caeb72-3291-11e6-9c89-8d090e01a414	1_241222681_GGTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	241222681	G	GTA	360	PASS	RGS7	Ins	intronic	2	3	MSH6	child	1_241222681_GGTA_MSH6	2	2	-	-	-	-	Ins
80cceeea-3255-11e6-89d3-d29498816cf3	2_212336229_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	212336229	CA	C	480	PASS	ERBB4	Del	intronic	1	9	MSH6	child	2_212336229_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
80d23c50-3292-11e6-8c3d-0ab4e7d0bdd7	3_141459471_ATA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	3	141459471	AT	A	420	PASS	RNF7	Del	intronic	1	8	FANCC	child	3_141459471_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
80d26700-328f-11e6-9d97-efe56f39e758	4_58340198_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	58340198	AT	A	660	PASS	-	Del	-	1	6	MSH6	child	4_58340198_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
80d5866e-3254-11e6-b4d0-327a7872c165	11_65329131_ACA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	65329131	AC	A	714	PASS	LTBP3	Del	upstream	1	7	MSH6	child	11_65329131_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
80df4a04-3296-11e6-8ff8-970ab51afd22	X_150247336_TAT	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	X	150247336	TA	T	300	PASS	-	Del	-	1	1	NEIL1	child	X_150247336_TAT_NEIL1	1	1	0	-	0	A	None
80e27ae2-3289-11e6-a32d-75090e01a414	14_34807587_ACA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	34807587	AC	A	420	PASS	-	Del	-	1	1	MSH6	child	14_34807587_ACA_MSH6	1	1	0	-	0	C	None
80e5d574-3271-11e6-aebf-545f42c4520d	5_13183768_ATA	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	5	13183768	AT	A	420	PASS	CTC-305H11.1	Del	downstream	1	4	POLB	child	5_13183768_ATA_POLB	1	1	1	T	3	T	Repeat-mediated
80ebe7d2-3273-11e6-8fda-8f271daa6045	X_108967504_GTG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	X	108967504	GT	G	300	PASS	ACSL4	Del	intronic	1	7	NUDT1	child	X_108967504_GTG_NUDT1	1	1	1	T	6	T	Repeat-mediated
80f02408-328e-11e6-8feb-ac6919a91649	19_6192604_CTGC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	19	6192604	CTG	C	420	PASS	ACSBG2	Del	intronic	2	2	NEIL1	child	19_6192604_CTGC_NEIL1	2	2	2	TG	1	TG	Repeat-mediated
80f239f4-3285-11e6-8b67-086ea2c71c31	1_91890568_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	91890568	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	1_91890568_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
80f25048-3284-11e6-a722-38d09b6d3b88	3_48101838_TAT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	3	48101838	TA	T	360	PASS	MAP4	Del	intronic	1	9	EXO1	child	3_48101838_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
80fb0efc-326d-11e6-92dd-fda8977b3f23	10_73377296_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	73377296	GA	G	300	PASS	CDH23	Del	intronic	1	9	MSH6	child	10_73377296_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
80ff164e-3274-11e6-b332-88ba7d6a9fc7	15_86519851_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	86519851	GT	G	300	PASS	-	Del	-	1	8	MSH6	child	15_86519851_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
8116a7ce-3255-11e6-9f9d-2c7a7872c165	12_127688603_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	127688603	GA	G	540	PASS	-	Del	-	1	9	MSH6	child	12_127688603_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
81187f70-3289-11e6-94b1-74090e01a414	17_12629798_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	12629798	TA	T	480	PASS	MYOCD	Del	intronic	1	8	MSH6	child	17_12629798_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
81195a22-328d-11e6-a80b-87090e01a414	11_132137823_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	132137823	G	GT	660	PASS	NTM	Ins	intronic	1	7	MSH6	child	11_132137823_GGT_MSH6	1	1	-	-	-	-	Ins
8129ff22-3287-11e6-b32c-fd87a2c71c31	5_139092216_TGAGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	139092216	TGAG	T	540	PASS	CTB-35F21.1	Del	intronic	3	3	MSH6	child	5_139092216_TGAGT_MSH6	3	3	3	GAG	2	GAG	Repeat-mediated
8132327e-3290-11e6-9d97-efe56f39e758	4_128828568_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	128828568	AT	A	600	PASS	-	Del	-	1	6	MSH6	child	4_128828568_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
8135ed28-329b-11e6-b549-1e5325c9da85	10_99319744_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	99319744	GT	G	660	PASS	UBTD1	Del	intronic	1	8	MSH6	child	10_99319744_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
81397dc6-3345-11e6-840b-09aab0dab373	1_11923641_ATA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	1	11923641	AT	A	600	PASS	NPPB	Del	upstream	1	9	FANCC	child	1_11923641_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
8152a722-328e-11e6-8e48-791e0e01a414	8_59119635_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	59119635	CT	C	300	PASS	-	Del	-	1	7	MSH6	child	8_59119635_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
815b12f2-329a-11e6-a0ea-135325c9da85	15_51566993_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	51566993	AT	A	420	PASS	CYP19A1	Del	intronic	1	9	MSH6	child	15_51566993_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
8161533c-3278-11e6-8629-39703cfdbd24	4_149561958_CTC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	4	149561958	CT	C	660	PASS	-	Del	-	1	5	CHK2	child	4_149561958_CTC_CHK2	1	1	1	T	4	T	Repeat-mediated
81615c1a-328c-11e6-b8e6-91c36f39e758	11_64848742_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	64848742	CA	C	420	PASS	CDCA5	Del	intronic	1	8	MSH6	child	11_64848742_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
8163b444-3271-11e6-b89d-b2d6b0dab373	4_136061231_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	136061231	AT	A	420	PASS	-	Del	-	1	5	MSH6	child	4_136061231_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
81661b5c-3272-11e6-bbeb-70bd19a91649	20_40677449_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	20	40677449	GT	G	300	PASS	-	Del	-	1	8	MSH6	child	20_40677449_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
816ea014-3273-11e6-83ef-69fb06e9a829	18_77355747_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	77355747	AT	A	600	PASS	-	Del	-	1	8	MSH6	child	18_77355747_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
8173237c-328d-11e6-88c1-95c36f39e758	14_41271672_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	41271672	A	AT	720	PASS	-	Ins	-	1	8	MSH6	child	14_41271672_AAT_MSH6	1	1	-	-	-	-	Ins
8188156c-3291-11e6-b81f-4ee66f39e758	8_126253076_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	126253076	CA	C	600	PASS	NSMCE2	Del	intronic	1	8	MSH6	child	8_126253076_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
81896636-3289-11e6-94b1-74090e01a414	17_12699532_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	12699532	GT	G	360	PASS	ARHGAP44	Del	intronic	1	9	MSH6	child	17_12699532_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
818e0a6c-329b-11e6-b129-195325c9da85	16_75457414_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	75457414	GT	G	840	PASS	CFDP1	Del	intronic	1	9	MSH6	child	16_75457414_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
8191efd2-3274-11e6-84df-cb0cebb8d062	14_89437905_ACA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	14	89437905	AC	A	720	PASS	-	Del	-	1	1	EXO1	child	14_89437905_ACA_EXO1	1	1	0	-	0	C	None
819afe30-3254-11e6-b4d0-327a7872c165	11_65503871_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	65503871	CT	C	720	PASS	-	Del	-	1	9	MSH6	child	11_65503871_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
819dee56-3254-11e6-bc65-c9667872c165	13_94312406_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	94312406	GA	G	300	PASS	GPC6	Del	intronic	1	8	MSH6	child	13_94312406_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
81aa3f54-3285-11e6-8b67-086ea2c71c31	1_92156466_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	92156466	CT	C	420	PASS	TGFBR3	Del	intronic	1	9	MSH6	child	1_92156466_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
81b1a7e8-329a-11e6-b723-b29fcc638e3d	19_32767964_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	32767964	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	19_32767964_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
81b2be80-3290-11e6-9432-c0e56f39e758	5_136590092_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	136590092	CA	C	540	PASS	SPOCK1	Del	intronic	1	9	MSH6	child	5_136590092_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
81b8c5c4-328f-11e6-bb1e-70e16f39e758	X_91431983_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	91431983	GT	G	480	PASS	PCDH11X	Del	intronic	1	9	MSH6	child	X_91431983_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
81be6752-326e-11e6-9d68-ac9acab49462	15_83536559_TGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	83536559	TG	T	300	PASS	HOMER2	Del	intronic	1	6	MSH6	child	15_83536559_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
81bea046-3273-11e6-83ef-69fb06e9a829	18_77474278_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	77474278	GA	G	668	PASS	CTDP1	Del	intronic	1	7	MSH6	child	18_77474278_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
81c19c7a-3272-11e6-975f-8246cab49462	16_8444643_TTTCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	8444643	TTTC	T	300	PASS	-	Del	-	3	1	MSH6	child	16_8444643_TTTCT_MSH6	3	3	0	-	0	-	None
81c23bbc-326d-11e6-b2ac-b6204b47a305	17_53142108_ACA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	53142108	AC	A	360	PASS	STXBP4	Del	intronic	1	3	MSH6	child	17_53142108_ACA_MSH6	1	1	1	C	2	C	Repeat-mediated
81d75d8e-3273-11e6-a15b-aa11cd638e3d	13_110644455_TTA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	13	110644455	T	TA	480	PASS	-	Ins	-	1	8	CHK2	child	13_110644455_TTA_CHK2	1	1	-	-	-	-	Ins
81d7a8a8-329a-11e6-b549-1e5325c9da85	10_36458855_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	36458855	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	10_36458855_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
81db0b74-329f-11e6-94ca-0aaecc638e3d	X_126446654_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	126446654	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	X_126446654_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
81e3ebfa-328f-11e6-9432-c0e56f39e758	5_62246280_TCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	62246280	TC	T	480	PASS	-	Del	-	1	6	MSH6	child	5_62246280_TCT_MSH6	1	1	1	C	5	C	Repeat-mediated
81e4914e-3277-11e6-972b-b65bfc77b11e	1_39569219_CCATCA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	1	39569219	C	CATCA	840	PASS	MACF1	Ins	intronic	4	1	CHK2	child	1_39569219_CCATCA_CHK2	4	4	-	-	-	-	Ins
81f10ca8-3277-11e6-bc24-bc6e3cfdbd24	6_91805405_CTC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	6	91805405	CT	C	360	PASS	-	Del	-	1	8	MSH6	parent	6_91805405_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
81f7d18c-3286-11e6-a21c-b819bce6aa09	X_34842067_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	34842067	GA	G	780	PASS	-	Del	-	1	7	MSH6	child	X_34842067_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
81fd30b2-328d-11e6-84e9-d36dfd44d094	2_113722753_ATA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	2	113722753	AT	A	600	PASS	-	Del	-	1	9	POLM	child	2_113722753_ATA_POLM	1	1	1	T	8	T	Repeat-mediated
81fd7660-3285-11e6-ae72-519738e8a824	5_147567596_TCT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	5	147567596	TC	T	900	PASS	-	Del	-	1	1	POLE	parent	5_147567596_TCT_POLE	1	1	0	-	0	C	None
82026316-32a1-11e6-a04f-c66a25c9da85	6_145123526_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	145123526	AT	A	840	PASS	UTRN	Del	intronic	1	8	MSH6	child	6_145123526_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
8203e52c-3285-11e6-8b67-086ea2c71c31	1_92254701_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	92254701	TA	T	420	PASS	TGFBR3	Del	intronic	1	5	MSH6	child	1_92254701_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
8205d518-3284-11e6-97d5-6cf1bbe6aa09	17_11083582_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	11083582	TA	T	420	PASS	-	Del	-	1	7	MSH6	child	17_11083582_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
820808f8-328c-11e6-8952-77c36f39e758	10_62373829_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	62373829	CA	C	360	PASS	ANK3	Del	intronic	1	9	MSH6	child	10_62373829_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
821b7eb2-328f-11e6-8e48-791e0e01a414	8_131527547_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	131527547	CA	C	540	PASS	-	Del	-	1	9	MSH6	child	8_131527547_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
8223e0e8-327b-11e6-82a3-016048d16a24	10_20998648_GAG	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	10	20998648	GA	G	360	PASS	-	Del	-	1	3	POLM	child	10_20998648_GAG_POLM	1	1	1	A	2	A	Repeat-mediated
822ff1ec-326e-11e6-acc7-e55219a91649	1_175963707_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	175963707	CA	C	300	PASS	RFWD2	Del	intronic	1	7	MSH6	child	1_175963707_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
8231980e-327c-11e6-a25d-ed8590e2c2e6	13_49023861_TAT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	13	49023861	TA	T	480	PASS	RB1	Del	intronic	1	9	NUDT1	child	13_49023861_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
82375fa0-3272-11e6-81c8-19f506e9a829	2_117619318_CTC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	2	117619318	CT	C	420	PASS	-	Del	-	1	9	FANCC	child	2_117619318_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
823c0650-3320-11e6-a0da-d5be12ae24cf	19_29205784_TAATTCTGGGACTTGATTCTTGAATGGCATTTCTGGACCTGTCCTGGGTCAGAGGGAGGGAAGCCCACTGCCCTGAAGGGTGAGTCCCAGGCCAGGCAGCATTCACCACCAACTGAGTCGAGAGACCTGGGGCCTTACAGGAACATCAGCAATAGTCTGGCAGTAGTCCTTGTGGCCTGGGATGGTGGTAGCTACAGGGTGAGGCTCCTCTGCTTTTGGAAAGCGGACAGAAGAGTGGGAAGGACTGCATCTTGTGGTTTGAGTGTCAGCTCAGCCACAGTACAACAGAACACCAGGTAGACGTCTAAGGCTTTGACTCTAGTCCCTGACTTCAAGATGACACCTCTGGATCCACCTGGAGCCTGGGGGACCTCATCACCCTGAAGGGAAGGACACAGGCCTGGCTGGCTTTGTCACTTGCTGACTGTTAAGCCCCAGGTTCTTGAGCAAACATAGGCAGTAGCCAGGATGTGGTTACAGTAGGCCTTGGGTGAGT	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	19	29205784	TAATTCTGGGACTTGATTCTTGAATGGCATTTCTGGACCTGTCCTGGGTCAGAGGGAGGGAAGCCCACTGCCCTGAAGGGTGAGTCCCAGGCCAGGCAGCATTCACCACCAACTGAGTCGAGAGACCTGGGGCCTTACAGGAACATCAGCAATAGTCTGGCAGTAGTCCTTGTGGCCTGGGATGGTGGTAGCTACAGGGTGAGGCTCCTCTGCTTTTGGAAAGCGGACAGAAGAGTGGGAAGGACTGCATCTTGTGGTTTGAGTGTCAGCTCAGCCACAGTACAACAGAACACCAGGTAGACGTCTAAGGCTTTGACTCTAGTCCCTGACTTCAAGATGACACCTCTGGATCCACCTGGAGCCTGGGGGACCTCATCACCCTGAAGGGAAGGACACAGGCCTGGCTGGCTTTGTCACTTGCTGACTGTTAAGCCCCAGGTTCTTGAGCAAACATAGGCAGTAGCCAGGATGTGGTTACAGTAGGCCTTGGGTGAG	T	840	PASS	AC005307.3	Del	intronic	494	1	POLE	child	19_29205784_TAATTCTGGGACTTGATTCTTGAATGGCATTTCTGGACCTGTCCTGGGTCAGAGGGAGGGAAGCCCACTGCCCTGAAGGGTGAGTCCCAGGCCAGGCAGCATTCACCACCAACTGAGTCGAGAGACCTGGGGCCTTACAGGAACATCAGCAATAGTCTGGCAGTAGTCCTTGTGGCCTGGGATGGTGGTAGCTACAGGGTGAGGCTCCTCTGCTTTTGGAAAGCGGACAGAAGAGTGGGAAGGACTGCATCTTGTGGTTTGAGTGTCAGCTCAGCCACAGTACAACAGAACACCAGGTAGACGTCTAAGGCTTTGACTCTAGTCCCTGACTTCAAGATGACACCTCTGGATCCACCTGGAGCCTGGGGGACCTCATCACCCTGAAGGGAAGGACACAGGCCTGGCTGGCTTTGTCACTTGCTGACTGTTAAGCCCCAGGTTCTTGAGCAAACATAGGCAGTAGCCAGGATGTGGTTACAGTAGGCCTTGGGTGAGT_POLE	494	>=10	1	A	0	-	Microhomology-mediated
824d2f44-328e-11e6-919e-92c36f39e758	2_202497832_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	202497832	AT	A	420	PASS	TMEM237	Del	intronic	1	8	MSH6	child	2_202497832_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
82586d9a-3271-11e6-abaf-4642cab49462	6_3232899_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	3232899	CT	C	420	PASS	TUBB2B	Del	upstream	1	8	MSH6	child	6_3232899_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
825a21d2-326f-11e6-a539-0e5542c4520d	7_34589867_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	34589867	TA	T	720	PASS	-	Del	-	1	8	MSH6	child	7_34589867_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
825c17de-327a-11e6-8de8-fc8b5d753391	10_4650897_AAC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	10	4650897	A	AC	420	PASS	-	Ins	-	1	2	FANCC	parent	10_4650897_AAC_FANCC	1	1	-	-	-	-	Ins
825d1e54-3275-11e6-afb6-12832aaffa45	8_121466031_TTATATATAAATAT	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	8	121466031	TTATATATAAATA	T	540	PASS	MTBP	Del	intronic	12	1	CHK2	child	8_121466031_TTATATATAAATAT_CHK2	12	>=10	3	TAT	0	-	Microhomology-mediated
825e911a-3286-11e6-b32c-fd87a2c71c31	5_29628878_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	29628878	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	5_29628878_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
82605e3a-3283-11e6-bb60-c21d694da5d2	6_50876548_AGATTGGTATTTGA	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	6	50876548	AGATTGGTATTTG	A	300	PASS	-	Del	-	12	1	NEIL1	child	6_50876548_AGATTGGTATTTGA_NEIL1	12	>=10	0	-	0	-	None
826e5174-3284-11e6-85df-bb936f39e758	14_77310077_CTCTGTCACCCAGGCTGGAGTGCAGTGGCGTTGTGATCTCAGCTCACTGCAATCTCCACCTCCCAGATTCAAGCATTTCTCGTGCCTCAGCCTCCTGAGTAGCTGGGACCACAGGTGTGCGCCATCATGCCTAATTTTTGTATTCTTAGTAGAGACAGGGTTTTGCCATATTGGCCAGACTGGTCTCGAACTCCTGACCTCAGGTGATCCACTCGCCTTGGCCTGTAAAAGTTCTGGGATTATAGGCATGAGCCACAGTACCCAGGCTCCTTTTCTTTTTTTAAAAACAGGATCTTGGC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	14	77310077	CTCTGTCACCCAGGCTGGAGTGCAGTGGCGTTGTGATCTCAGCTCACTGCAATCTCCACCTCCCAGATTCAAGCATTTCTCGTGCCTCAGCCTCCTGAGTAGCTGGGACCACAGGTGTGCGCCATCATGCCTAATTTTTGTATTCTTAGTAGAGACAGGGTTTTGCCATATTGGCCAGACTGGTCTCGAACTCCTGACCTCAGGTGATCCACTCGCCTTGGCCTGTAAAAGTTCTGGGATTATAGGCATGAGCCACAGTACCCAGGCTCCTTTTCTTTTTTTAAAAACAGGATCTTGG	C	300	PASS	C14orf166B	Del	intronic	297	1	EXO1	child	14_77310077_CTCTGTCACCCAGGCTGGAGTGCAGTGGCGTTGTGATCTCAGCTCACTGCAATCTCCACCTCCCAGATTCAAGCATTTCTCGTGCCTCAGCCTCCTGAGTAGCTGGGACCACAGGTGTGCGCCATCATGCCTAATTTTTGTATTCTTAGTAGAGACAGGGTTTTGCCATATTGGCCAGACTGGTCTCGAACTCCTGACCTCAGGTGATCCACTCGCCTTGGCCTGTAAAAGTTCTGGGATTATAGGCATGAGCCACAGTACCCAGGCTCCTTTTCTTTTTTTAAAAACAGGATCTTGGC_EXO1	297	>=10	28	TCTGTCACCCAGGCTGGAGTGCAGTGGC	0	-	Microhomology-mediated
82710912-3286-11e6-b84c-a2a0fc1f1540	1_117600676_GTG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	1	117600676	GT	G	300	PASS	TTF2	Del	upstream	1	9	FANCC	child	1_117600676_GTG_FANCC	1	1	1	T	8	T	Repeat-mediated
82754fe6-329e-11e6-91d0-016425c9da85	7_65071959_TGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	65071959	TG	T	1043	PASS	-	Del	-	1	7	MSH6	child	7_65071959_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
82769a62-3290-11e6-a043-93e7977b3f23	3_68565934_CTC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	3	68565934	CT	C	300	PASS	FAM19A1	Del	intronic	1	9	NEIL1	child	3_68565934_CTC_NEIL1	1	1	1	T	8	T	Repeat-mediated
827dfc26-3290-11e6-b81f-4ee66f39e758	8_51300055_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	51300055	AT	A	420	PASS	SNTG1	Del	intronic	1	9	MSH6	child	8_51300055_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
827f21e0-3291-11e6-99d8-a1aee7d0bdd7	8_122693143_TAT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	8	122693143	TA	T	780	PASS	RP11-3G20.1	Del	intronic	1	7	FANCC	child	8_122693143_TAT_FANCC	1	1	1	A	6	A	Repeat-mediated
8281bd76-3276-11e6-acb5-bbf1bbe6aa09	7_152633255_TAGGT	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	7	152633255	TAGG	T	300	PASS	-	Del	-	3	1	POLB	child	7_152633255_TAGGT_POLB	3	3	2	AG	0	-	Microhomology-mediated
82906cfe-3271-11e6-8141-e0f3eab8d062	16_57273097_CCCAAG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	16	57273097	C	CCAAG	720	PASS	RSPRY1	Ins	3prime_UTR_variant	4	0	NUDT1	child	16_57273097_CCCAAG_NUDT1	4	4	-	-	-	-	Ins
829d73a8-3290-11e6-b81f-4ee66f39e758	8_51354545_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	51354545	GA	G	660	PASS	SNTG1	Del	intronic	1	9	MSH6	child	8_51354545_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
82a1593c-3326-11e6-841a-c49690e2c2e6	6_128753853_AATA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	6	128753853	AAT	A	480	PASS	PTPRK	Del	intronic	2	1	POLE	child	6_128753853_AATA_POLE	2	2	0	-	0	-	None
82a86166-3324-11e6-af9a-d45da78019ab	12_108651733_TTG	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	12	108651733	T	TG	420	PASS	-	Ins	-	1	4	POLE	child	12_108651733_TTG_POLE	1	1	-	-	-	-	Ins
82b091d0-3287-11e6-b2c0-5aa538e8a824	19_19840541_TAT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	19	19840541	TA	T	840	PASS	ZNF14	Del	intronic	1	9	NUDT1	parent	19_19840541_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
82b17a52-3271-11e6-b5d9-38f41da8ec0e	15_58101801_ATGA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	15	58101801	ATG	A	300	PASS	-	Del	-	2	7	FANCC	child	15_58101801_ATGA_FANCC	2	2	2	TG	6	TG	Repeat-mediated
82bb6ea4-3325-11e6-8b24-4ab97d6a9fc7	4_69499542_ATA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	4	69499542	AT	A	360	PASS	-	Del	-	1	7	EXO1	child	4_69499542_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
82c01248-328e-11e6-b9c4-751d0e01a414	5_153352713_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	153352713	CA	C	250	PASS	-	Del	-	1	6	MSH6	child	5_153352713_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
82c2b032-3254-11e6-aedc-3df212ae24cf	19_39092357_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	19	39092357	GT	G	660	PASS	MAP4K1	Del	intronic	1	9	MSH6	child	19_39092357_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
82c30b82-3253-11e6-81f9-42f212ae24cf	17_799283_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	17	799283	CA	C	510	PASS	NXN	Del	intronic	1	7	MSH6	child	17_799283_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
82c3155c-3328-11e6-8c6b-3c0f42c4520d	4_177286301_GGT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	4	177286301	G	GT	480	PASS	-	Ins	-	1	6	EXO1	child	4_177286301_GGT_EXO1	1	1	-	-	-	-	Ins
82c742d8-3276-11e6-998e-ba48fa52e078	8_53684692_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	53684692	CA	C	660	PASS	-	Del	-	1	9	MSH6	child	8_53684692_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
82c9f804-3274-11e6-9065-cc4890e2c2e6	1_236727251_TAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	1	236727251	TA	T	300	PASS	HEATR1	Del	intronic	1	7	MSH6	parent	1_236727251_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
82cbfeee-329f-11e6-a04f-c66a25c9da85	6_18392098_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	18392098	CA	C	360	PASS	RNF144B	Del	intronic	1	9	MSH6	child	6_18392098_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
82d43c00-328e-11e6-bd84-429305ad5bc4	1_85241223_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	85241223	A	AT	480	PASS	-	Ins	-	1	1	MSH6	child	1_85241223_AAT_MSH6	1	1	-	-	-	-	Ins
82d50ece-328d-11e6-bfa2-581f0e01a414	7_52411781_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	52411781	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	7_52411781_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
82d8308a-3275-11e6-88b6-40832aaffa45	1_182012068_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	182012068	AT	A	660	PASS	-	Del	-	1	5	EXO1	child	1_182012068_ATA_EXO1	1	1	1	T	4	T	Repeat-mediated
82da578e-3275-11e6-84df-cb0cebb8d062	14_58479737_GGA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	14	58479737	G	GA	540	PASS	C14orf37	Ins	intronic	1	6	EXO1	child	14_58479737_GGA_EXO1	1	1	-	-	-	-	Ins
82e0fafc-3276-11e6-8c46-ff5e90e2c2e6	4_64080665_CTC	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	4	64080665	CT	C	420	PASS	-	Del	-	1	7	POLB	child	4_64080665_CTC_POLB	1	1	1	T	6	T	Repeat-mediated
82e3615a-328c-11e6-919e-92c36f39e758	2_65945486_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	65945486	TA	T	480	PASS	AC074391.1	Del	intronic	1	8	MSH6	child	2_65945486_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
82e424aa-3273-11e6-83ef-69fb06e9a829	18_77691859_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	77691859	CA	C	300	PASS	PQLC1	Del	intronic	1	8	MSH6	child	18_77691859_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
82e4414c-3291-11e6-80ab-78dad8b4fa2c	19_15097175_CAC	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	19	15097175	CA	C	420	PASS	SLC1A6	Del	intronic	1	9	NUDT1	child	19_15097175_CAC_NUDT1	1	1	1	A	8	A	Repeat-mediated
82ea57d6-326d-11e6-acc7-e55219a91649	1_91529707_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	91529707	GA	G	300	PASS	-	Del	-	1	7	MSH6	child	1_91529707_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
82f21328-328f-11e6-bec1-ca1d0e01a414	X_16045739_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	16045739	T	TA	540	PASS	-	Ins	-	1	7	MSH6	child	X_16045739_TTA_MSH6	1	1	-	-	-	-	Ins
82f7ed22-329c-11e6-aca6-b39fcc638e3d	2_178041457_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	178041457	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	2_178041457_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
82fbe360-3278-11e6-b021-16ab4430f757	3_119166952_ATCCCA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	3	119166952	ATCCC	A	420	PASS	TMEM39A	Del	intronic	4	1	EXO1	child	3_119166952_ATCCCA_EXO1	4	4	1	T	0	-	Microhomology-mediated
82fe0a5a-328c-11e6-aa75-90c36f39e758	13_82104004_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	82104004	TA	T	360	PASS	-	Del	-	1	8	MSH6	child	13_82104004_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
8304eabc-3284-11e6-9daa-026ea2c71c31	14_34702134_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	34702134	TA	T	600	PASS	-	Del	-	1	9	MSH6	child	14_34702134_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
8307c868-3284-11e6-b8a8-aac02daed38e	8_84764903_GCTCAG	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	8	84764903	GCTCA	G	360	PASS	-	Del	-	4	1	POLB	child	8_84764903_GCTCAG_POLB	4	4	0	-	0	-	None
83088546-327f-11e6-97a4-78cfaa716c52	5_125180417_GAG	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	5	125180417	GA	G	537	PASS	-	Del	-	1	7	POLB	parent	5_125180417_GAG_POLB	1	1	1	A	6	A	Repeat-mediated
830b664a-3292-11e6-9401-04ed6f39e758	3_179318442_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	179318442	TA	T	660	PASS	NDUFB5	Del	upstream	1	8	MSH6	child	3_179318442_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
8311c1fc-3274-11e6-8607-751ad9b4fa2c	22_40806781_GCG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	22	40806781	GC	G	660	PASS	MKL1	Del	3prime_UTR_variant	1	9	MSH6	child	22_40806781_GCG_MSH6	1	1	1	C	8	C	Repeat-mediated
8312851c-3277-11e6-8c34-46e27872c165	5_151675251_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	151675251	AT	A	780	PASS	-	Del	-	1	7	MSH6	child	5_151675251_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
83141986-3277-11e6-9e0f-7959cab49462	7_135793435_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	135793435	CT	C	420	PASS	AC009784.3	Del	intronic	1	8	MSH6	child	7_135793435_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
831a9efc-3289-11e6-8459-82090e01a414	12_13665272_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	13665272	TA	T	840	PASS	-	Del	-	1	6	MSH6	child	12_13665272_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
831bd074-32a2-11e6-aea7-956725c9da85	3_59895327_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	59895327	A	AT	660	PASS	FHIT	Ins	intronic	1	8	MSH6	child	3_59895327_AAT_MSH6	1	1	-	-	-	-	Ins
831bfb9c-3254-11e6-89d3-d29498816cf3	2_107803089_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	107803089	GA	G	360	PASS	-	Del	-	1	7	MSH6	child	2_107803089_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
8339d06c-3255-11e6-89d3-d29498816cf3	2_213298236_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	213298236	TA	T	420	PASS	ERBB4	Del	intronic	1	5	MSH6	child	2_213298236_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
8342103c-326f-11e6-bfba-13bf4a47a305	9_111055218_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	111055218	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	9_111055218_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
834e7b7e-326f-11e6-bf40-308964f80bad	4_72035041_ATA	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	4	72035041	AT	A	360	PASS	-	Del	-	1	7	POLM	parent	4_72035041_ATA_POLM	1	1	1	T	6	T	Repeat-mediated
8353d874-3325-11e6-b0c6-e1e369062303	5_58592942_GAAGAATTG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	5	58592942	GAAGAATT	G	480	PASS	PDE4D	Del	intronic	7	1	EXO1	child	5_58592942_GAAGAATTG_EXO1	7	7	3	AAG	0	-	Microhomology-mediated
8357bd4e-329a-11e6-b549-1e5325c9da85	10_36847087_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	36847087	GT	G	660	PASS	-	Del	-	1	7	MSH6	child	10_36847087_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
836032fc-328c-11e6-a70a-47793adbad45	3_80131189_CCA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	3	80131189	C	CA	1020	PASS	-	Ins	-	1	5	NUDT1	parent	3_80131189_CCA_NUDT1	1	1	-	-	-	-	Ins
83606822-329f-11e6-94ca-0aaecc638e3d	X_126980997_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	126980997	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	X_126980997_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
8376a9f6-328c-11e6-919e-92c36f39e758	2_66372663_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	66372663	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	2_66372663_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
837af728-32a4-11e6-a04f-c66a25c9da85	6_158622933_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	158622933	C	CA	660	PASS	GTF2H5	Ins	downstream	1	6	MSH6	child	6_158622933_CCA_MSH6	1	1	-	-	-	-	Ins
837c603a-326e-11e6-acc7-e55219a91649	1_176327037_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	176327037	CA	C	420	PASS	-	Del	-	1	5	MSH6	child	1_176327037_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
83820914-3281-11e6-90fa-7e3c204bbf9c	17_72970177_GGCTGGAGTGCAGTGGCACAATCTCAGCTCACTGCAAACTCCACCTCCTGGGTTCAAGCAATTCTCTTGCCTCAGCCGCCCGAGTAGCTGGGTCTACAGGGGCCCGCCACCACCCCCAGCTAATTTTTTTTTGTTTTTAGTAGAGATAGAGTTTCACCATGTTGTCCAGGCTGGTCTTGAACTCCTGACCTCAAATGATCCGCCTGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCATGCCCAGCCCTATTATTTATTTATTTATTCATTCATTCATTCATGCATGCATGCATGCATTTTGCAGACGAGGTTTCACTCTGTTGCCCATG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	17	72970177	GGCTGGAGTGCAGTGGCACAATCTCAGCTCACTGCAAACTCCACCTCCTGGGTTCAAGCAATTCTCTTGCCTCAGCCGCCCGAGTAGCTGGGTCTACAGGGGCCCGCCACCACCCCCAGCTAATTTTTTTTTGTTTTTAGTAGAGATAGAGTTTCACCATGTTGTCCAGGCTGGTCTTGAACTCCTGACCTCAAATGATCCGCCTGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCATGCCCAGCCCTATTATTTATTTATTTATTCATTCATTCATTCATGCATGCATGCATGCATTTTGCAGACGAGGTTTCACTCTGTTGCCCAT	G	286	PASS	HID1	Del	upstream	339	1	EXO1	child	17_72970177_GGCTGGAGTGCAGTGGCACAATCTCAGCTCACTGCAAACTCCACCTCCTGGGTTCAAGCAATTCTCTTGCCTCAGCCGCCCGAGTAGCTGGGTCTACAGGGGCCCGCCACCACCCCCAGCTAATTTTTTTTTGTTTTTAGTAGAGATAGAGTTTCACCATGTTGTCCAGGCTGGTCTTGAACTCCTGACCTCAAATGATCCGCCTGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCATGCCCAGCCCTATTATTTATTTATTTATTCATTCATTCATTCATGCATGCATGCATGCATTTTGCAGACGAGGTTTCACTCTGTTGCCCATG_EXO1	339	>=10	15	GCTGGAGTGCAGTGG	0	-	Microhomology-mediated
839fee3a-3271-11e6-b89d-b2d6b0dab373	4_136641828_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	136641828	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	4_136641828_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
83ad0dd4-3291-11e6-b77d-2eef6f39e758	6_68654012_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	68654012	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	6_68654012_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
83b526c4-3271-11e6-b799-add079852e0e	11_55528348_AAGA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	11	55528348	AAG	A	340	PASS	-	Del	-	2	2	FANCC	child	11_55528348_AAGA_FANCC	2	2	2	AG	1	AG	Repeat-mediated
83b98976-3285-11e6-a8af-066ea2c71c31	15_73265266_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	73265266	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	15_73265266_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
83c31580-329a-11e6-a5cf-205325c9da85	11_40290216_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	40290216	CA	C	540	PASS	LRRC4C	Del	intronic	1	8	MSH6	child	11_40290216_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
83c86220-329e-11e6-91d0-016425c9da85	7_65288132_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	65288132	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	7_65288132_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
83cdeb46-328f-11e6-b2c7-1b63694da5d2	9_131596831_GGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGGGAGTGGATCATCTGAGGTCAGGAGTTGGAGACTAGCCTGACCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCAGGCGTGGTTGTACATGCCTGTAATCCCAGTTACCCAACTACTCAGGAGGCTAAGGGAGGAGAATCGCTTGAACCCTGGAGGTGGAGGTTGCAGTGTGCTGAGATTGCGCCACTGCACTCCCACCTAGGCGACAGAGTGAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAAAAAGGCCAGGAGCAG	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	9	131596831	GGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGGGAGTGGATCATCTGAGGTCAGGAGTTGGAGACTAGCCTGACCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCAGGCGTGGTTGTACATGCCTGTAATCCCAGTTACCCAACTACTCAGGAGGCTAAGGGAGGAGAATCGCTTGAACCCTGGAGGTGGAGGTTGCAGTGTGCTGAGATTGCGCCACTGCACTCCCACCTAGGCGACAGAGTGAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAAAAAGGCCAGGAGCA	G	300	PASS	C9orf114	Del	upstream	313	1	POLM	child	9_131596831_GGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGGGAGTGGATCATCTGAGGTCAGGAGTTGGAGACTAGCCTGACCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCAGGCGTGGTTGTACATGCCTGTAATCCCAGTTACCCAACTACTCAGGAGGCTAAGGGAGGAGAATCGCTTGAACCCTGGAGGTGGAGGTTGCAGTGTGCTGAGATTGCGCCACTGCACTCCCACCTAGGCGACAGAGTGAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAAAAAGGCCAGGAGCAG_POLM	313	>=10	37	GTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCC	0	-	Microhomology-mediated
83d006ac-328e-11e6-aa75-90c36f39e758	13_109491768_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	109491768	A	AT	360	PASS	MYO16	Ins	intronic	1	8	MSH6	child	13_109491768_AAT_MSH6	1	1	-	-	-	-	Ins
83d8d148-3279-11e6-a391-f6d67d6a9fc7	6_141150640_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	141150640	CT	C	720	PASS	-	Del	-	1	9	MSH6	child	6_141150640_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
83ee7d98-3258-11e6-971b-98a02aaffa45	5_166964421_CTC	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	5	166964421	CT	C	840	PASS	TENM2	Del	intronic	1	2	POLM	child	5_166964421_CTC_POLM	1	1	1	T	1	T	Repeat-mediated
83f43eea-3253-11e6-a4a7-35f212ae24cf	14_19518390_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	19518390	AT	A	250	PASS	CTD-2311B13.1	Del	downstream	1	8	MSH6	child	14_19518390_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
83f8bd4e-3285-11e6-b093-c9c7b0dab373	2_86291286_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	86291286	CT	C	720	PASS	POLR1A	Del	intronic	1	9	MSH6	child	2_86291286_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
83fa9ef0-32a0-11e6-bc66-17b4cc638e3d	8_113362843_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	113362843	CA	C	660	PASS	CSMD3	Del	intronic	1	9	MSH6	child	8_113362843_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
83fd6924-3290-11e6-b81f-4ee66f39e758	8_52141098_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	52141098	AT	A	600	PASS	-	Del	-	1	9	MSH6	child	8_52141098_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
8406e9cc-328b-11e6-8459-82090e01a414	12_127562689_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	127562689	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	12_127562689_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
840f4702-3290-11e6-9230-fb250e01a414	3_171619058_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	171619058	TA	T	360	PASS	TMEM212-AS1	Del	upstream	1	8	MSH6	child	3_171619058_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
840f777c-3286-11e6-afcf-0311bce6aa09	9_87729194_GTCG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	87729194	GTC	G	420	PASS	-	Del	-	2	8	MSH6	child	9_87729194_GTCG_MSH6	2	2	2	TC	7	TC	Repeat-mediated
840fee42-328a-11e6-b805-77090e01a414	2_81889376_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	81889376	CT	C	420	PASS	-	Del	-	1	7	MSH6	child	2_81889376_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
841689f8-3278-11e6-81cf-37408a20d9eb	8_110440788_TAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	8	110440788	TA	T	360	PASS	PKHD1L1	Del	intronic	1	8	EXO1	child	8_110440788_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
8417f80e-3284-11e6-97d5-6cf1bbe6aa09	17_11825614_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	11825614	AT	A	540	PASS	DNAH9	Del	intronic	1	8	MSH6	child	17_11825614_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
8420a432-3323-11e6-bb27-954af7d33ce3	21_31885038_TACTAAAGCTTCTAGAATTTTATAGGAT	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	21	31885038	TACTAAAGCTTCTAGAATTTTATAGGA	T	540	PASS	-	Del	-	26	1	CHK2	child	21_31885038_TACTAAAGCTTCTAGAATTTTATAGGAT_CHK2	26	>=10	0	-	0	-	None
842ad6d4-3272-11e6-8f62-6fa664f80bad	7_45136154_TACT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	7	45136154	TAC	T	480	PASS	TBRG4	Del	downstream	2	5	EXO1	parent	7_45136154_TACT_EXO1	2	2	2	AC	4	AC	Repeat-mediated
842c1d64-3326-11e6-a8ef-bb593dc9300a	2_231604219_CCT	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	2	231604219	C	CT	480	PASS	CAB39	Ins	intronic	1	7	CHK2	child	2_231604219_CCT_CHK2	1	1	-	-	-	-	Ins
842cfc98-3254-11e6-9f9d-2c7a7872c165	12_64756526_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	64756526	TA	T	540	PASS	C12orf56	Del	intronic	1	7	MSH6	child	12_64756526_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
842dc4fa-3283-11e6-bb60-c21d694da5d2	6_51530483_GTCG	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	6	51530483	GTC	G	300	PASS	PKHD1	Del	intronic	2	2	NEIL1	child	6_51530483_GTCG_NEIL1	2	2	2	TC	1	TC	Repeat-mediated
84406e3c-328a-11e6-b805-77090e01a414	2_81969021_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	81969021	GT	G	420	PASS	-	Del	-	1	9	MSH6	child	2_81969021_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
8443f3f8-3272-11e6-bfb2-2749c225ee11	12_11676714_ATGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	11676714	ATG	A	563	PASS	-	Del	-	2	7	MSH6	child	12_11676714_ATGA_MSH6	2	2	2	TG	6	TG	Repeat-mediated
844dc368-3256-11e6-a304-347a7872c165	1_205605316_ATTA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	205605316	ATT	A	300	PASS	ELK4	Del	upstream	2	9	MSH6	child	1_205605316_ATTA_MSH6	2	2	2	TT	7	T	Repeat-mediated
844f2f30-3285-11e6-8b67-086ea2c71c31	1_92784340_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	92784340	TA	T	480	PASS	RPAP2	Del	intronic	1	7	MSH6	child	1_92784340_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
846d7bc8-3278-11e6-bb6d-38aec042253c	3_106852188_ATA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	3	106852188	AT	A	360	PASS	LINC00882	Del	intronic	1	9	CHK2	child	3_106852188_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
8479f8e0-3286-11e6-a21c-b819bce6aa09	X_36230652_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	36230652	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	X_36230652_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
84884bfa-3292-11e6-9401-04ed6f39e758	3_179632738_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	179632738	TA	T	300	PASS	PEX5L	Del	intronic	1	9	MSH6	child	3_179632738_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
84942e66-328d-11e6-8770-3e160e01a414	9_131985391_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	131985391	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	9_131985391_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
84949f06-3321-11e6-aa01-c73272d7bc54	12_81122080_GATAAG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	12	81122080	GATAA	G	480	PASS	-	Del	-	4	1	EXO1	child	12_81122080_GATAAG_EXO1	4	4	3	ATA	0	-	Microhomology-mediated
8496a4a6-3284-11e6-83b0-2c6e0d016689	2_86012605_GCG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	2	86012605	GC	G	720	PASS	ATOH8	Del	intronic	1	3	EXO1	child	2_86012605_GCG_EXO1	1	1	1	C	2	C	Repeat-mediated
84a0a7d8-328b-11e6-aa75-90c36f39e758	13_20258868_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	20258868	GA	G	600	PASS	-	Del	-	1	4	MSH6	child	13_20258868_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
84a2a1de-3289-11e6-a32d-75090e01a414	14_35409693_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	35409693	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	14_35409693_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
84ab65a4-328d-11e6-8dad-8fe0191589db	21_31624862_CTC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	21	31624862	CT	C	480	PASS	-	Del	-	1	9	FANCC	child	21_31624862_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
84acd6f6-328c-11e6-b9c4-751d0e01a414	5_18139733_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	18139733	CT	C	360	PASS	-	Del	-	1	6	MSH6	child	5_18139733_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
84b7cc24-3290-11e6-919e-92c36f39e758	2_80976353_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	80976353	G	GT	660	PASS	AC084193.1	Ins	intronic	1	7	MSH6	child	2_80976353_GGT_MSH6	1	1	-	-	-	-	Ins
84c53638-329b-11e6-ae71-0c5325c9da85	1_88897511_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	88897511	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	1_88897511_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
84cbbede-3289-11e6-b805-77090e01a414	2_23662160_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	23662160	GT	G	260	PASS	KLHL29	Del	intronic	1	8	MSH6	child	2_23662160_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
84ce877e-3287-11e6-b0bc-c7a46f39e758	5_124894134_GAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	5	124894134	GA	G	300	PASS	RP11-756H20.1	Del	intronic	1	7	EXO1	child	5_124894134_GAG_EXO1	1	1	1	A	6	A	Repeat-mediated
84ce88a0-3273-11e6-ba3c-6216cd638e3d	7_95334776_CTC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	7	95334776	CT	C	420	PASS	-	Del	-	1	7	NEIL1	child	7_95334776_CTC_NEIL1	1	1	1	T	6	T	Repeat-mediated
84d6ab04-328a-11e6-a80b-87090e01a414	11_75794740_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	75794740	AT	A	720	PASS	UVRAG	Del	intronic	1	9	MSH6	child	11_75794740_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
84dae276-3291-11e6-90b7-60a39b6d3b88	12_48657443_TAT	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	12	48657443	TA	T	360	PASS	RP11-370I10.2	Del	intronic	1	7	NUDT1	child	12_48657443_TAT_NUDT1	1	1	1	A	6	A	Repeat-mediated
84db352e-3272-11e6-9b10-3e7da20b69d5	15_64506986_TGCCACCATGCCTGGCTAATTTTTGTATTTTTAGTAGAGACAGGGTTTCACCATGTTGGCCACACTGGTCTCAAACTCCTGACCTTGGGTGATCCGTCCTCCTCGGCCTCCCAAAATGCTAGGATTACAGGCATGAGCCACCATGCCTGGCCGAAACAGTTCATCGTTGTTGTTTTAAATTTATTTTCAGATTATTTTTGTAGAGATGGGGTCTATGTTGCCTACGCTGGTCTCAAACTCCTGGCCTCAAGTGACCCTCCCACCTCAGCCTCACAAAGTGCTGGGATTATAGACACGAT	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	15	64506986	TGCCACCATGCCTGGCTAATTTTTGTATTTTTAGTAGAGACAGGGTTTCACCATGTTGGCCACACTGGTCTCAAACTCCTGACCTTGGGTGATCCGTCCTCCTCGGCCTCCCAAAATGCTAGGATTACAGGCATGAGCCACCATGCCTGGCCGAAACAGTTCATCGTTGTTGTTTTAAATTTATTTTCAGATTATTTTTGTAGAGATGGGGTCTATGTTGCCTACGCTGGTCTCAAACTCCTGGCCTCAAGTGACCCTCCCACCTCAGCCTCACAAAGTGCTGGGATTATAGACACGA	T	360	PASS	CSNK1G1	Del	intronic	297	1	NUDT1	child	15_64506986_TGCCACCATGCCTGGCTAATTTTTGTATTTTTAGTAGAGACAGGGTTTCACCATGTTGGCCACACTGGTCTCAAACTCCTGACCTTGGGTGATCCGTCCTCCTCGGCCTCCCAAAATGCTAGGATTACAGGCATGAGCCACCATGCCTGGCCGAAACAGTTCATCGTTGTTGTTTTAAATTTATTTTCAGATTATTTTTGTAGAGATGGGGTCTATGTTGCCTACGCTGGTCTCAAACTCCTGGCCTCAAGTGACCCTCCCACCTCAGCCTCACAAAGTGCTGGGATTATAGACACGAT_NUDT1	297	>=10	15	GCCACCATGCCTGGC	0	-	Microhomology-mediated
84dc024a-3256-11e6-885f-d1947872c165	4_27862672_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	27862672	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	4_27862672_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
84e10cba-329f-11e6-94ca-0aaecc638e3d	X_127514724_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	127514724	TA	T	720	PASS	RP1-30E17.2	Del	intronic	1	8	MSH6	child	X_127514724_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
84e24436-3286-11e6-a21c-b819bce6aa09	X_36836143_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	36836143	GA	G	540	PASS	-	Del	-	1	8	MSH6	child	X_36836143_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
84e45b6a-329d-11e6-ae71-0c5325c9da85	1_212936718_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	212936718	GA	G	720	PASS	NSL1	Del	intronic	1	9	MSH6	child	1_212936718_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
84f0a17a-3277-11e6-a862-bc9becf1e924	1_79069188_CCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	79069188	C	CT	360	PASS	-	Ins	-	1	7	MSH6	child	1_79069188_CCT_MSH6	1	1	-	-	-	-	Ins
84f1eff8-326d-11e6-9793-9a8fb0dab373	13_84545935_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	84545935	GA	G	300	PASS	-	Del	-	1	8	MSH6	child	13_84545935_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
84f3be46-3326-11e6-9918-868d0322d171	7_144634097_ATA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	7	144634097	AT	A	840	PASS	-	Del	-	1	7	EXO1	child	7_144634097_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
84f9d1e0-328c-11e6-b9c4-751d0e01a414	5_18291900_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	18291900	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	5_18291900_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
84fbc43c-329b-11e6-a5cf-205325c9da85	11_105264500_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	105264500	CA	C	420	PASS	RP11-94P11.4	Del	intronic	1	4	MSH6	child	11_105264500_CAC_MSH6	1	1	1	A	3	A	Repeat-mediated
8505d6fc-3273-11e6-a3dd-600b4ec77248	2_4522105_AAAAACA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	2	4522105	AAAAAC	A	480	PASS	-	Del	-	5	1	EXO1	child	2_4522105_AAAAACA_EXO1	5	5	3	AAA	0	-	Microhomology-mediated
8506eef6-325b-11e6-8b28-55ad7872c165	20_62860797_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	62860797	TA	T	720	PASS	MYT1	Del	intronic	1	9	MSH6	child	20_62860797_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
851259dc-3277-11e6-a71d-236235cec73b	X_120207655_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	120207655	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	X_120207655_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
851934b6-3284-11e6-b1ba-6def1da8ec0e	1_49782605_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	1	49782605	TA	T	300	PASS	AGBL4	Del	intronic	1	8	EXO1	child	1_49782605_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
851bae34-3280-11e6-9d9d-e3b4e7d0bdd7	2_17310878_ACA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	2	17310878	AC	A	300	PASS	-	Del	-	1	1	FANCC	child	2_17310878_ACA_FANCC	1	1	0	-	0	C	None
851e69d4-3281-11e6-b9fb-4420bce6aa09	9_85287120_CTGTTTGTTC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	9	85287120	CTGTTTGTT	C	600	PASS	-	Del	-	8	5	POLM	child	9_85287120_CTGTTTGTTC_POLM	8	8	8	TGTTTGTT	3	TGTT	Repeat-mediated
8522b77c-3273-11e6-a730-4d5190e2c2e6	13_65744325_GTG	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	13	65744325	GT	G	300	PASS	-	Del	-	1	7	POLB	child	13_65744325_GTG_POLB	1	1	1	T	6	T	Repeat-mediated
8526e4f0-3282-11e6-9f9b-29bd9b6d3b88	11_21875212_AAT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	11	21875212	A	AT	360	PASS	-	Ins	-	1	6	EXO1	child	11_21875212_AAT_EXO1	1	1	-	-	-	-	Ins
8528b6c0-3284-11e6-b8a8-aac02daed38e	8_85647195_AATA	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	8	85647195	AAT	A	420	PASS	RALYL	Del	intronic	2	6	POLB	child	8_85647195_AATA_POLB	2	2	2	AT	5	AT	Repeat-mediated
852bd78c-3285-11e6-a0a8-096ea2c71c31	11_107450324_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	107450324	TA	T	480	PASS	-	Del	-	1	9	MSH6	child	11_107450324_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
852c8f8a-3283-11e6-baa3-81ed1da8ec0e	X_31030179_GAG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	X	31030179	GA	G	360	PASS	-	Del	-	1	5	EXO1	child	X_31030179_GAG_EXO1	1	1	1	A	4	A	Repeat-mediated
85303ae2-3286-11e6-afcf-0311bce6aa09	9_88319865_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	88319865	GA	G	600	PASS	AGTPBP1	Del	intronic	1	8	MSH6	child	9_88319865_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
8530532a-3253-11e6-89d3-d29498816cf3	2_5595279_TACT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	5595279	TAC	T	540	PASS	-	Del	-	2	6	MSH6	child	2_5595279_TACT_MSH6	2	2	2	AC	5	AC	Repeat-mediated
853e2686-3284-11e6-9546-b5936f39e758	15_61670423_TCT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	15	61670423	TC	T	360	PASS	RP11-507B12.2	Del	intronic	1	6	EXO1	child	15_61670423_TCT_EXO1	1	1	1	C	5	C	Repeat-mediated
8540be3e-3273-11e6-b8ae-92c57872c165	14_91938976_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	91938976	AT	A	420	PASS	SMEK1	Del	intronic	1	8	MSH6	child	14_91938976_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
854e89b8-3275-11e6-8d20-7365cde16804	5_170963143_GAG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	5	170963143	GA	G	420	PASS	-	Del	-	1	6	MSH6	parent	5_170963143_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
8550afba-329b-11e6-ae71-0c5325c9da85	1_88982816_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	88982816	TA	T	644	PASS	-	Del	-	1	9	MSH6	child	1_88982816_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
8554529e-3289-11e6-aa70-b0b3cc638e3d	19_16183514_TCAGGAGTTCGAGACCAGCCTGGCAAAACCCTGTCTCTACAAAAAATACAAAAATTAACTGGGCTTGGTGGCATGAGCCTGTAATCCCAGCTACTAGGGAGGTTGAGGCAGGAGAAGCACTTGAGCCAGGGAGGTGGAAGTTGCAGTGAGCTGAGATCCAGCCACTACACTCCAGCCTAGGCAACAGAGCAAGACTCTGTCTCAAAAAATATATCAAAACAAATTGTAACACGCCCAACACATTCTAAATGCCAGATAGCCCCCTGTCGGCCTTATCCCTGTCCTCACATGTTCTTGCCCAAACATTTCCCCCAAAAAAGTAGTCAAAACCCCAAACCAAACAAAAAAACCCCAAACCAGCCAGGTGGGGTGGCTCATGCCTGTTGTCCCAGCTACTCGGGAGGCTGAAGTGGGAGGATCCCTTGAGCCT	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	19	16183514	TCAGGAGTTCGAGACCAGCCTGGCAAAACCCTGTCTCTACAAAAAATACAAAAATTAACTGGGCTTGGTGGCATGAGCCTGTAATCCCAGCTACTAGGGAGGTTGAGGCAGGAGAAGCACTTGAGCCAGGGAGGTGGAAGTTGCAGTGAGCTGAGATCCAGCCACTACACTCCAGCCTAGGCAACAGAGCAAGACTCTGTCTCAAAAAATATATCAAAACAAATTGTAACACGCCCAACACATTCTAAATGCCAGATAGCCCCCTGTCGGCCTTATCCCTGTCCTCACATGTTCTTGCCCAAACATTTCCCCCAAAAAAGTAGTCAAAACCCCAAACCAAACAAAAAAACCCCAAACCAGCCAGGTGGGGTGGCTCATGCCTGTTGTCCCAGCTACTCGGGAGGCTGAAGTGGGAGGATCCCTTGAGCC	T	300	PASS	TPM4	Del	upstream	428	1	NUDT1	child	19_16183514_TCAGGAGTTCGAGACCAGCCTGGCAAAACCCTGTCTCTACAAAAAATACAAAAATTAACTGGGCTTGGTGGCATGAGCCTGTAATCCCAGCTACTAGGGAGGTTGAGGCAGGAGAAGCACTTGAGCCAGGGAGGTGGAAGTTGCAGTGAGCTGAGATCCAGCCACTACACTCCAGCCTAGGCAACAGAGCAAGACTCTGTCTCAAAAAATATATCAAAACAAATTGTAACACGCCCAACACATTCTAAATGCCAGATAGCCCCCTGTCGGCCTTATCCCTGTCCTCACATGTTCTTGCCCAAACATTTCCCCCAAAAAAGTAGTCAAAACCCCAAACCAAACAAAAAAACCCCAAACCAGCCAGGTGGGGTGGCTCATGCCTGTTGTCCCAGCTACTCGGGAGGCTGAAGTGGGAGGATCCCTTGAGCCT_NUDT1	428	>=10	22	CAGGAGTTCGAGACCAGCCTGG	0	-	Microhomology-mediated
8558dc5c-3274-11e6-be3d-925130158702	1_227781952_TTA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	1	227781952	T	TA	480	PASS	ZNF678	Ins	intronic	1	1	POLB	child	1_227781952_TTA_POLB	1	1	-	-	-	-	Ins
8563308e-3284-11e6-a0a8-096ea2c71c31	11_15515947_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	15515947	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	11_15515947_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
85639800-325a-11e6-8340-da9012ae24cf	6_143623320_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	143623320	AT	A	283	PASS	AIG1	Del	intronic	1	7	MSH6	child	6_143623320_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
856a22a4-3270-11e6-a539-0e5542c4520d	7_109359908_ACA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	109359908	AC	A	292	PASS	-	Del	-	1	5	MSH6	child	7_109359908_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
856c6648-3321-11e6-98d8-e3f9cf737e61	17_45464046_CAC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	17	45464046	CA	C	360	PASS	EFCAB13	Del	intronic	1	9	EXO1	child	17_45464046_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
858110e6-3323-11e6-92f7-2fa7f7be831b	7_6036222_ATA	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	7	6036222	AT	A	300	PASS	PMS2	Del	intronic	1	1	CHK2	child	7_6036222_ATA_CHK2	1	1	0	-	0	T	None
8586ff80-329f-11e6-91d0-016425c9da85	7_122147158_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	122147158	TA	T	720	PASS	CADPS2	Del	intronic	1	8	MSH6	child	7_122147158_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
8589808a-3271-11e6-b923-6726694da5d2	5_150215737_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	150215737	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	5_150215737_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
858ef944-328e-11e6-bfa2-581f0e01a414	7_107724925_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	107724925	AT	A	540	PASS	LAMB4	Del	intronic	1	6	MSH6	child	7_107724925_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
859e0522-3277-11e6-9e0f-7959cab49462	7_136468761_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	136468761	CT	C	600	PASS	-	Del	-	1	9	MSH6	child	7_136468761_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
85a44018-328b-11e6-b4fe-93c36f39e758	12_1018421_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	1018421	CT	C	420	PASS	WNK1	Del	3prime_UTR_variant	1	8	MSH6	child	12_1018421_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
85a79770-3288-11e6-a21c-b819bce6aa09	X_56484601_GGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	56484601	G	GT	300	PASS	-	Ins	-	1	6	MSH6	child	X_56484601_GGT_MSH6	1	1	-	-	-	-	Ins
85a79bb0-329e-11e6-8c2e-3f6625c9da85	22_34108204_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	22	34108204	GA	G	540	PASS	LARGE	Del	intronic	1	9	MSH6	child	22_34108204_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
85adf360-3272-11e6-8f33-a6d9cde16804	11_14770380_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	14770380	TA	T	720	PASS	PDE3B	Del	intronic	1	7	MSH6	child	11_14770380_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
85b49ff8-3272-11e6-b8ae-92c57872c165	14_27459796_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	27459796	AT	A	420	PASS	RP11-384J4.2	Del	intronic	1	5	MSH6	child	14_27459796_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
85b7a018-3286-11e6-afcf-0311bce6aa09	9_88550530_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	88550530	AT	A	480	PASS	-	Del	-	1	6	MSH6	child	9_88550530_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
85ba0ef0-328d-11e6-b9c4-751d0e01a414	5_81173774_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	81173774	CA	C	360	PASS	-	Del	-	1	6	MSH6	child	5_81173774_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
85bb11c2-3276-11e6-83cd-a472a178171f	4_108255913_ACA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	108255913	AC	A	540	PASS	-	Del	-	1	5	MSH6	child	4_108255913_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
85c36cb8-328b-11e6-8fa6-65cc977b3f23	15_25370767_ATA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	15	25370767	AT	A	660	PASS	-	Del	-	1	9	NEIL1	child	15_25370767_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
85c4aa86-32a1-11e6-a04f-c66a25c9da85	6_146330228_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	146330228	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	6_146330228_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
85cc4ec4-3348-11e6-a997-309d38e8a824	4_19591829_GTCACCG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	4	19591829	GTCACC	G	540	PASS	RP11-608O21.1	Del	intronic	5	1	FANCC	child	4_19591829_GTCACCG_FANCC	5	5	1	T	0	-	Microhomology-mediated
85cef88c-3293-11e6-b963-13387a852e0e	3_24442880_CTC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	3	24442880	CT	C	360	PASS	THRB	Del	intronic	1	7	CHK2	child	3_24442880_CTC_CHK2	1	1	1	T	6	T	Repeat-mediated
85d08b3e-3284-11e6-a0a8-096ea2c71c31	11_15802047_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	15802047	GA	G	1020	PASS	-	Del	-	1	7	MSH6	child	11_15802047_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
85d11b60-3277-11e6-a2b7-2d8b671699ea	21_23075821_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	21	23075821	T	TA	480	PASS	-	Ins	-	1	6	MSH6	child	21_23075821_TTA_MSH6	1	1	-	-	-	-	Ins
85dce5c4-3283-11e6-9126-22f0137bb207	14_68759934_GGT	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	14	68759934	G	GT	360	PASS	RAD51B	Ins	intronic	1	7	FANCC	child	14_68759934_GGT_FANCC	1	1	-	-	-	-	Ins
85e12b1e-3271-11e6-8418-1c5942c4520d	3_148718869_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	148718869	CA	C	300	PASS	GYG1	Del	intronic	1	7	MSH6	child	3_148718869_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
85e2e0fc-3286-11e6-8404-8e1fbce6aa09	8_4434670_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	4434670	GT	G	600	PASS	CSMD1	Del	intronic	1	8	MSH6	child	8_4434670_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
85e5bfda-3276-11e6-ab69-1c1607e9a829	9_140856725_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	140856725	CT	C	480	PASS	CACNA1B	Del	intronic	1	9	MSH6	child	9_140856725_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
85eeb6f4-3289-11e6-85b3-df4bcf376b51	15_55468345_CAGC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	15	55468345	CAG	C	360	PASS	RSL24D1	Del	downstream	2	2	NUDT1	child	15_55468345_CAGC_NUDT1	2	2	2	AG	1	AG	Repeat-mediated
85f69062-3271-11e6-aca7-e2b6dcd214c4	5_32265578_ATA	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	5	32265578	AT	A	660	PASS	MTMR12	Del	intronic	1	2	POLM	child	5_32265578_ATA_POLM	1	1	1	T	1	T	Repeat-mediated
85f732e4-3274-11e6-8607-751ad9b4fa2c	22_41242842_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	22	41242842	CA	C	600	PASS	ST13	Del	intronic	1	7	MSH6	child	22_41242842_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
85f8876a-32a2-11e6-b970-398625c9da85	20_9985075_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	9985075	CA	C	360	PASS	RP5-839B4.8	Del	intronic	1	8	MSH6	child	20_9985075_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
85f90df4-329b-11e6-b74d-b59fcc638e3d	18_29177698_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	29177698	C	CT	720	PASS	TTR	Ins	intronic	1	1	MSH6	child	18_29177698_CCT_MSH6	1	1	-	-	-	-	Ins
860237a4-3254-11e6-8831-5505ee3c4f5d	1_235788536_CCTTC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	1	235788536	CCTT	C	720	PASS	GNG4	Del	intronic	3	2	POLB	child	1_235788536_CCTTC_POLB	3	3	3	CTT	1	CTT	Repeat-mediated
8602da54-3256-11e6-89d3-d29498816cf3	2_67284987_GGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	67284987	G	GA	300	PASS	-	Ins	-	1	8	MSH6	child	2_67284987_GGA_MSH6	1	1	-	-	-	-	Ins
86061af6-3270-11e6-9d19-c216987b3f23	21_19943962_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	21	19943962	TA	T	360	PASS	AL109763.2	Del	intronic	1	9	MSH6	child	21_19943962_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
86082082-3291-11e6-9401-04ed6f39e758	3_110090381_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	110090381	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	3_110090381_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
86088a28-3277-11e6-8c34-46e27872c165	5_152314791_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	152314791	TA	T	600	PASS	AC091969.1	Del	intronic	1	9	MSH6	child	5_152314791_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
860b51da-3273-11e6-9a64-c45720e7b7a8	16_4178739_AAT	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	16	4178739	A	AT	480	PASS	-	Ins	-	1	5	NUDT1	child	16_4178739_AAT_NUDT1	1	1	-	-	-	-	Ins
8610be4a-3287-11e6-9c2b-e85751c54cdd	9_114680815_CTC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	9	114680815	CT	C	840	PASS	UGCG	Del	intronic	1	8	EXO1	child	9_114680815_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
86143706-3281-11e6-a1d1-b18df4b7c17d	1_163697052_GAG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	1	163697052	GA	G	300	PASS	-	Del	-	1	9	FANCC	child	1_163697052_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
8616864a-3287-11e6-a21c-b819bce6aa09	X_93174059_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	93174059	GA	G	720	PASS	-	Del	-	1	8	MSH6	child	X_93174059_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
861718fa-329e-11e6-bc2c-2a5e25c9da85	4_104825332_TGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	104825332	TG	T	840	PASS	-	Del	-	1	1	MSH6	child	4_104825332_TGT_MSH6	1	1	0	-	0	G	None
861a0796-3270-11e6-aa96-e6b97872c165	15_81345621_ACCTA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	15	81345621	ACCT	A	600	PASS	-	Del	-	3	1	NEIL1	child	15_81345621_ACCTA_NEIL1	3	3	2	CC	0	-	Microhomology-mediated
8621ed46-3287-11e6-bb85-03a66f39e758	4_84588280_GACG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	4	84588280	GAC	G	300	PASS	RP11-767N15.1	Del	downstream	2	2	EXO1	child	4_84588280_GACG_EXO1	2	2	2	AC	1	AC	Repeat-mediated
86221982-3292-11e6-9432-c0e56f39e758	5_103344697_GGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	103344697	G	GA	600	PASS	-	Ins	-	1	3	MSH6	child	5_103344697_GGA_MSH6	1	1	-	-	-	-	Ins
863a0ba6-3287-11e6-a21c-b819bce6aa09	X_93221930_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	93221930	AT	A	540	PASS	-	Del	-	1	8	MSH6	child	X_93221930_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
863a9512-3273-11e6-a862-bc9becf1e924	1_69762064_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	69762064	GT	G	720	PASS	-	Del	-	1	9	MSH6	child	1_69762064_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
863bf446-3289-11e6-b093-c9c7b0dab373	2_184129210_GGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	184129210	G	GT	550	PASS	-	Ins	-	1	1	MSH6	child	2_184129210_GGT_MSH6	1	1	-	-	-	-	Ins
86418824-3325-11e6-ba0a-ab9864f80bad	5_132466843_AGA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	5	132466843	AG	A	300	PASS	-	Del	-	1	1	EXO1	child	5_132466843_AGA_EXO1	1	1	0	-	0	G	None
86429aa8-3293-11e6-9ea6-6ee2977b3f23	8_102670061_AAC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	8	102670061	A	AC	480	PASS	GRHL2	Ins	intronic	1	1	NEIL1	child	8_102670061_AAC_NEIL1	1	1	-	-	-	-	Ins
86440af0-3270-11e6-99d7-8212987b3f23	10_114345150_CTC	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	10	114345150	CT	C	660	PASS	VTI1A	Del	intronic	1	9	NUDT1	child	10_114345150_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
86462f30-3273-11e6-abaf-4642cab49462	6_135270800_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	135270800	CA	C	420	PASS	ALDH8A1	Del	intronic	1	9	MSH6	child	6_135270800_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
86479734-3323-11e6-bc94-01ed0322d171	16_63693106_TTA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	16	63693106	T	TA	780	PASS	-	Ins	-	1	0	EXO1	child	16_63693106_TTA_EXO1	1	1	-	-	-	-	Ins
864b2912-326f-11e6-b5b8-e0c24a47a305	X_47488889_TCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	47488889	TC	T	480	PASS	CFP	Del	intronic	1	7	MSH6	child	X_47488889_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
864bb14e-326e-11e6-bfba-13bf4a47a305	9_7876528_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	7876528	AT	A	540	PASS	-	Del	-	1	3	MSH6	child	9_7876528_ATA_MSH6	1	1	1	T	2	T	Repeat-mediated
864be556-3287-11e6-9766-8c8ca2c71c31	22_39231933_GCG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	22	39231933	GC	G	780	PASS	NPTXR	Del	intronic	1	7	MSH6	child	22_39231933_GCG_MSH6	1	1	1	C	6	C	Repeat-mediated
864fc64a-3272-11e6-bfb2-2749c225ee11	12_12152745_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	12152745	AT	A	480	PASS	-	Del	-	1	7	MSH6	child	12_12152745_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
8655dc20-328a-11e6-b805-77090e01a414	2_82717255_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	82717255	AT	A	540	PASS	AC010105.1	Del	intronic	1	9	MSH6	child	2_82717255_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
865df4da-3282-11e6-b857-6115038949d4	5_12472603_CAC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	5	12472603	CA	C	480	PASS	-	Del	-	1	6	POLM	child	5_12472603_CAC_POLM	1	1	1	A	5	A	Repeat-mediated
865ec05c-3284-11e6-a8af-066ea2c71c31	15_27229368_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	27229368	CT	C	540	PASS	GABRG3	Del	intronic	1	9	MSH6	child	15_27229368_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
8667fd7c-328c-11e6-bec1-ca1d0e01a414	X_14639459_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	14639459	TA	T	300	PASS	GLRA2	Del	intronic	1	4	MSH6	child	X_14639459_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
8668e22e-3290-11e6-b77d-2eef6f39e758	6_7078009_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	7078009	GA	G	540	PASS	-	Del	-	1	8	MSH6	child	6_7078009_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
866c54f0-328f-11e6-9d24-ade56f39e758	7_65399746_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	65399746	TA	T	780	PASS	VKORC1L1	Del	intronic	1	8	MSH6	child	7_65399746_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
866fa200-3289-11e6-b30e-eb4590e2c2e6	8_134975582_CAGC	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	8	134975582	CAG	C	540	PASS	-	Del	-	2	3	POLE	child	8_134975582_CAGC_POLE	2	2	2	AG	2	AG	Repeat-mediated
8677d538-3289-11e6-94b1-74090e01a414	17_13793665_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	13793665	CA	C	360	PASS	-	Del	-	1	6	MSH6	child	17_13793665_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
867f5d10-3295-11e6-9985-7c540d016689	6_84538422_TAGT	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	6	84538422	TAG	T	720	PASS	-	Del	-	2	2	NUDT1	child	6_84538422_TAGT_NUDT1	2	2	2	AG	1	AG	Repeat-mediated
8682d8a0-3290-11e6-92cf-bf2a0e01a414	6_110402076_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	110402076	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	6_110402076_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
868b6c9c-3284-11e6-9e78-7d3e51c54cdd	2_40579135_AAGA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	2	40579135	AAG	A	420	PASS	SLC8A1	Del	intronic	2	1	EXO1	child	2_40579135_AAGA_EXO1	2	2	0	-	0	-	None
86941634-3271-11e6-8d14-21dfd7fd0a58	19_1572423_GTG	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	19	1572423	GT	G	600	PASS	MEX3D	Del	upstream	1	9	NEIL1	child	19_1572423_GTG_NEIL1	1	1	1	T	8	T	Repeat-mediated
8694cdf8-3286-11e6-afcf-0311bce6aa09	9_88810612_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	88810612	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	9_88810612_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
8697aede-328f-11e6-94e1-63e1191589db	3_153739478_CAC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	3	153739478	CA	C	360	PASS	-	Del	-	1	9	FANCC	child	3_153739478_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
869be068-3270-11e6-b5b8-e0c24a47a305	X_63960732_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	63960732	GA	G	360	PASS	-	Del	-	1	5	MSH6	child	X_63960732_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
869ee360-3272-11e6-83ef-69fb06e9a829	18_8403574_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	8403574	TA	T	420	PASS	PTPRM	Del	intronic	1	9	MSH6	child	18_8403574_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
86a89eea-328c-11e6-b9c4-751d0e01a414	5_18722537_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	18722537	CA	C	900	PASS	CTD-2023M8.1	Del	intronic	1	9	MSH6	child	5_18722537_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
86ad1d60-3275-11e6-8c15-5448694da5d2	5_83691341_CTC	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	5	83691341	CT	C	660	PASS	-	Del	-	1	9	NEIL1	child	5_83691341_CTC_NEIL1	1	1	1	T	8	T	Repeat-mediated
86b3121e-328a-11e6-a32d-75090e01a414	14_95546886_TAGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	95546886	TAG	T	360	PASS	-	Del	-	2	2	MSH6	child	14_95546886_TAGT_MSH6	2	2	2	AG	1	AG	Repeat-mediated
86b8794a-3274-11e6-9dd4-a3463adbad45	15_83885245_CTTGTTAC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	15	83885245	CTTGTTA	C	360	PASS	-	Del	-	6	2	CHK2	child	15_83885245_CTTGTTAC_CHK2	6	6	6	TTGTTA	1	TTGTTA	Repeat-mediated
86bdca0e-32a0-11e6-bc66-17b4cc638e3d	8_114472007_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	114472007	TA	T	420	PASS	-	Del	-	1	7	MSH6	child	8_114472007_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
86c7c0d8-328f-11e6-9230-fb250e01a414	3_108580489_ATCTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	108580489	ATCT	A	360	PASS	-	Del	-	3	2	MSH6	child	3_108580489_ATCTA_MSH6	3	3	3	TCT	1	TCT	Repeat-mediated
86c8e9c6-329f-11e6-94ca-0aaecc638e3d	X_128282273_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	128282273	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	X_128282273_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
86c973ea-3327-11e6-9f5d-eba78a20d9eb	8_57555494_GAG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	8	57555494	GA	G	660	PASS	RP11-17A4.4	Del	intronic	1	8	EXO1	child	8_57555494_GAG_EXO1	1	1	1	A	7	A	Repeat-mediated
86d0c124-328a-11e6-aff5-85090e01a414	16_70135823_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	70135823	GA	G	417	PASS	-	Del	-	1	9	MSH6	child	16_70135823_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
86d28f1c-327c-11e6-b10f-b842a20b69d5	9_98009764_AAT	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	9	98009764	A	AT	660	PASS	FANCC	Ins	frameshift	1	1	FANCC	parent	9_98009764_AAT_FANCC	1	1	-	-	-	-	Ins
86d4594a-3278-11e6-92d2-c259c225ee11	3_161933258_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	161933258	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	3_161933258_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
86d5bd82-3276-11e6-83cd-a472a178171f	4_108721736_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	108721736	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	4_108721736_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
86e5702c-3273-11e6-a862-bc9becf1e924	1_70012488_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	70012488	GT	G	420	PASS	-	Del	-	1	8	MSH6	child	1_70012488_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
86e6b550-3272-11e6-b8ae-92c57872c165	14_27848856_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	27848856	AT	A	540	PASS	-	Del	-	1	7	MSH6	child	14_27848856_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
86ecf43e-3285-11e6-99f7-076ea2c71c31	12_97509033_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	97509033	TA	T	488	PASS	RP11-541G9.1	Del	intronic	1	9	MSH6	child	12_97509033_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
86f56f86-3273-11e6-abaf-4642cab49462	6_135501240_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	135501240	GA	G	360	PASS	MYB	Del	upstream	1	9	MSH6	child	6_135501240_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
86fb338e-3292-11e6-8d18-13cc0d01a414	20_52541363_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	20	52541363	TA	T	540	PASS	-	Del	-	1	8	MSH6	child	20_52541363_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
86ff9fe0-3289-11e6-a7cf-80090e01a414	15_29655794_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	29655794	TA	T	360	PASS	FAM189A1	Del	intronic	1	7	MSH6	child	15_29655794_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
8706355e-3256-11e6-bb62-81f712ae24cf	X_127785471_ATA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	X	127785471	AT	A	540	PASS	-	Del	-	1	9	POLB	child	X_127785471_ATA_POLB	1	1	1	T	8	T	Repeat-mediated
87070748-3276-11e6-abaf-4642cab49462	6_167657465_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	167657465	C	CA	393	PASS	RP11-568A7.3	Ins	upstream	1	8	MSH6	child	6_167657465_CCA_MSH6	1	1	-	-	-	-	Ins
870e5ee6-3288-11e6-a8ac-a28ea2c71c31	3_81867544_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	81867544	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	3_81867544_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
871b1546-3279-11e6-a391-f6d67d6a9fc7	6_141829044_CTGC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	141829044	CTG	C	360	PASS	-	Del	-	2	7	MSH6	child	6_141829044_CTGC_MSH6	2	2	2	TG	6	TG	Repeat-mediated
871b601a-3322-11e6-894d-4bcc12ae24cf	11_125613033_TACT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	11	125613033	TAC	T	540	PASS	PATE1	Del	upstream	2	6	EXO1	child	11_125613033_TACT_EXO1	2	2	2	AC	5	AC	Repeat-mediated
8724137c-3273-11e6-a5d0-4fd14a47a305	2_97888602_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	97888602	AT	A	561	PASS	ANKRD36	Del	intronic	1	7	MSH6	child	2_97888602_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
8728ba18-329a-11e6-bda6-065325c9da85	13_59826539_TGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	59826539	TG	T	540	PASS	-	Del	-	1	7	MSH6	child	13_59826539_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
872d5be0-3290-11e6-9d97-efe56f39e758	4_129933164_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	129933164	GT	G	420	PASS	SCLT1	Del	intronic	1	7	MSH6	child	4_129933164_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
87337040-3270-11e6-b89d-b2d6b0dab373	4_68078160_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	68078160	CA	C	660	PASS	-	Del	-	1	8	MSH6	child	4_68078160_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
873f30fa-3276-11e6-83cd-a472a178171f	4_108834396_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	108834396	AT	A	540	PASS	SGMS2	Del	3prime_UTR_variant	1	8	MSH6	child	4_108834396_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
8743b196-3273-11e6-9dfc-541498ba1142	8_119623552_GAG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	8	119623552	GA	G	600	PASS	SAMD12	Del	intronic	1	8	EXO1	parent	8_119623552_GAG_EXO1	1	1	1	A	7	A	Repeat-mediated
874628bc-326f-11e6-b923-6726694da5d2	5_4952022_ACA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	4952022	AC	A	480	PASS	-	Del	-	1	6	MSH6	child	5_4952022_ACA_MSH6	1	1	1	C	5	C	Repeat-mediated
8747ec60-3256-11e6-9d15-298312ae24cf	X_24345291_AGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	24345291	AG	A	840	PASS	-	Del	-	1	6	MSH6	child	X_24345291_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
87529a18-328b-11e6-8952-77c36f39e758	10_1860681_ATGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	1860681	ATG	A	600	PASS	-	Del	-	2	7	MSH6	child	10_1860681_ATGA_MSH6	2	2	2	TG	6	TG	Repeat-mediated
87581928-328d-11e6-9dfc-339fe7d0bdd7	5_82400231_GAG	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	5	82400231	GA	G	780	PASS	XRCC4	Del	intronic	1	7	POLM	child	5_82400231_GAG_POLM	1	1	1	A	6	A	Repeat-mediated
87597a72-3277-11e6-998e-ba48fa52e078	8_146130791_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	146130791	GT	G	480	PASS	ZNF250	Del	upstream	1	8	MSH6	child	8_146130791_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
875ad954-3294-11e6-b14c-5e337a852e0e	X_124877237_CAC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	X	124877237	CA	C	360	PASS	-	Del	-	1	8	CHK2	child	X_124877237_CAC_CHK2	1	1	1	A	7	A	Repeat-mediated
875c2b3a-3346-11e6-b5ef-938f38e8a824	13_100530387_TAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	13	100530387	TA	T	480	PASS	CLYBL	Del	intronic	1	9	FANCC	child	13_100530387_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
875d135e-3285-11e6-99f7-076ea2c71c31	12_97665273_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	97665273	CA	C	780	PASS	RP11-541G9.2	Del	downstream	1	6	MSH6	child	12_97665273_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
876c146e-3279-11e6-a71d-236235cec73b	X_138950112_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	138950112	T	TA	360	PASS	ATP11C	Ins	intronic	1	6	MSH6	child	X_138950112_TTA_MSH6	1	1	-	-	-	-	Ins
877a78ee-3272-11e6-a5d0-4fd14a47a305	2_12130501_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	12130501	AT	A	420	PASS	AC096559.1	Del	intronic	1	9	MSH6	child	2_12130501_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
877a9e28-3290-11e6-9432-c0e56f39e758	5_137711075_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	137711075	AT	A	465	PASS	KDM3B	Del	intronic	1	9	MSH6	child	5_137711075_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
877c79d4-3275-11e6-ab69-1c1607e9a829	9_77373324_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	77373324	GA	G	720	PASS	TRPM6	Del	intronic	1	8	MSH6	child	9_77373324_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
877e072a-329a-11e6-ae71-0c5325c9da85	1_31333120_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	31333120	CT	C	1080	PASS	-	Del	-	1	5	MSH6	child	1_31333120_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
8781c09c-3289-11e6-821d-8c090e01a414	13_33356450_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	33356450	AT	A	660	PASS	PDS5B	Del	downstream	1	6	MSH6	child	13_33356450_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
87862de8-3253-11e6-a03d-40f212ae24cf	18_1525096_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	18	1525096	TA	T	480	PASS	RP11-476K15.1	Del	intronic	1	8	MSH6	child	18_1525096_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
87945506-3273-11e6-bfb2-2749c225ee11	12_79136925_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	79136925	GT	G	300	PASS	-	Del	-	1	9	MSH6	child	12_79136925_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
879b460c-3293-11e6-9230-fb250e01a414	3_170779954_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	170779954	G	GT	660	PASS	TNIK	Ins	3prime_UTR_variant	1	7	MSH6	child	3_170779954_GGT_MSH6	1	1	-	-	-	-	Ins
879ee7e6-3291-11e6-b81f-4ee66f39e758	8_127933632_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	127933632	AT	A	600	PASS	PCAT1	Del	intronic	1	9	MSH6	child	8_127933632_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
87a14be6-328a-11e6-a75f-859bcdacbbbf	9_9540658_GTG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	9	9540658	GT	G	360	PASS	PTPRD	Del	intronic	1	4	FANCC	child	9_9540658_GTG_FANCC	1	1	1	T	3	T	Repeat-mediated
87a25ae8-3287-11e6-9a8e-d2b1f6dffcf6	1_81290396_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	1	81290396	CT	C	1020	PASS	-	Del	-	1	7	NUDT1	parent	1_81290396_CTC_NUDT1	1	1	1	T	6	T	Repeat-mediated
87aa8a98-3254-11e6-a304-347a7872c165	1_58004523_ACA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	58004523	AC	A	660	PASS	DAB1	Del	intronic	1	7	MSH6	child	1_58004523_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
87bcef40-3276-11e6-9e25-e58e2aaffa45	4_104004988_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	4	104004988	AT	A	660	PASS	BDH2	Del	intronic	1	7	EXO1	child	4_104004988_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
87c56322-329a-11e6-9048-b49fcc638e3d	17_29144663_AGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGAAGGTGGATCATGAGGTCAACAGATGGAGACCATCCTGGCCAACGTGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCTGGGTGTGGTGGCAGGCGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATGGCTTGAACCCAGGAGGCAGAGGTTGCAATGAGCCGAGATGGCGCCACTGCACTCCAGCATGGCGACAGAGTGAGACTCCATCCCAAAAAAAAAAAAAAAAAAAAAAAGTTAACTGCAGTTGTCTGTAAGTAGTAGGTTATTTTAAAACTATTTCATCTGGGCTGAGTGTGGTGGCTCATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	29144663	AGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGAAGGTGGATCATGAGGTCAACAGATGGAGACCATCCTGGCCAACGTGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCTGGGTGTGGTGGCAGGCGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATGGCTTGAACCCAGGAGGCAGAGGTTGCAATGAGCCGAGATGGCGCCACTGCACTCCAGCATGGCGACAGAGTGAGACTCCATCCCAAAAAAAAAAAAAAAAAAAAAAAGTTAACTGCAGTTGTCTGTAAGTAGTAGGTTATTTTAAAACTATTTCATCTGGGCTGAGTGTGGTGGCTCAT	A	300	PASS	CRLF3	Del	intronic	354	1	MSH6	child	17_29144663_AGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGAAGGTGGATCATGAGGTCAACAGATGGAGACCATCCTGGCCAACGTGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCTGGGTGTGGTGGCAGGCGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATGGCTTGAACCCAGGAGGCAGAGGTTGCAATGAGCCGAGATGGCGCCACTGCACTCCAGCATGGCGACAGAGTGAGACTCCATCCCAAAAAAAAAAAAAAAAAAAAAAAGTTAACTGCAGTTGTCTGTAAGTAGTAGGTTATTTTAAAACTATTTCATCTGGGCTGAGTGTGGTGGCTCATA_MSH6	354	>=10	31	GCCTGTAATCCCAGCACTTTGGGAGGCCGAG	0	-	Microhomology-mediated
87c5e678-334c-11e6-9f94-b3873cfdbd24	6_112746071_TAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	6	112746071	TA	T	660	PASS	-	Del	-	1	8	FANCC	child	6_112746071_TAT_FANCC	1	1	1	A	7	A	Repeat-mediated
87cf320a-328e-11e6-9721-bd9fb868caf4	18_50040521_GGTA	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	18	50040521	G	GTA	360	PASS	DCC	Ins	intronic	2	5	POLB	child	18_50040521_GGTA_POLB	2	2	-	-	-	-	Ins
87d0d524-3293-11e6-8cb7-9de5d0959d89	10_105700972_GTG	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	10	105700972	GT	G	420	PASS	-	Del	-	1	8	POLB	child	10_105700972_GTG_POLB	1	1	1	T	7	T	Repeat-mediated
87d19426-3281-11e6-8cf9-a42236fc2f7d	17_49512614_TTGATAAACT	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	17	49512614	TTGATAAAC	T	480	PASS	RP11-1018N14.5	Del	upstream	8	1	NUDT1	child	17_49512614_TTGATAAACT_NUDT1	8	8	2	TG	0	-	Microhomology-mediated
87da9b96-3274-11e6-bde9-8c1aead19ece	10_65712520_ACA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	10	65712520	AC	A	300	PASS	RP11-170M17.1	Del	intronic	1	3	NEIL1	child	10_65712520_ACA_NEIL1	1	1	1	C	2	C	Repeat-mediated
87e32394-326d-11e6-9f48-94df41c4520d	12_73009982_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	73009982	AT	A	420	PASS	TRHDE	Del	intronic	1	7	MSH6	child	12_73009982_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
87e626cc-3275-11e6-9074-69cc19a91649	X_33068537_TAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	X	33068537	TA	T	300	PASS	DMD	Del	intronic	1	7	EXO1	child	X_33068537_TAT_EXO1	1	1	1	A	6	A	Repeat-mediated
87ee13b2-3286-11e6-afcf-0311bce6aa09	9_89526803_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	89526803	CA	C	480	PASS	-	Del	-	1	8	MSH6	child	9_89526803_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
87ef2f2a-326f-11e6-bfba-13bf4a47a305	9_112488912_CATC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	112488912	CAT	C	300	PASS	PALM2	Del	intronic	2	4	MSH6	child	9_112488912_CATC_MSH6	2	2	2	AT	3	AT	Repeat-mediated
87f6d016-3258-11e6-b4fa-e69a7872c165	21_16094372_TTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	21	16094372	T	TC	480	PASS	-	Ins	-	1	1	MSH6	child	21_16094372_TTC_MSH6	1	1	-	-	-	-	Ins
8806ffb6-3273-11e6-8e5a-ca301daa6045	18_6395449_AGA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	18	6395449	AG	A	360	PASS	L3MBTL4	Del	intronic	1	7	EXO1	child	18_6395449_AGA_EXO1	1	1	1	G	6	G	Repeat-mediated
88115490-328a-11e6-9c89-8d090e01a414	1_66323369_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	66323369	AT	A	300	PASS	PDE4B	Del	intronic	1	8	MSH6	child	1_66323369_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
881766c4-3270-11e6-b5b8-e0c24a47a305	X_64547444_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	64547444	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	X_64547444_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
8824d74e-329a-11e6-8069-175325c9da85	12_41852405_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	41852405	AT	A	480	PASS	PDZRN4	Del	intronic	1	7	MSH6	child	12_41852405_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
8825b2cc-329a-11e6-a0ea-135325c9da85	15_52774917_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	52774917	TA	T	480	PASS	MYO5A	Del	intronic	1	7	MSH6	child	15_52774917_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
882bfc88-328e-11e6-9230-fb250e01a414	3_43482957_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	43482957	GA	G	300	PASS	ANO10	Del	intronic	1	8	MSH6	child	3_43482957_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
883086a2-3272-11e6-83ef-69fb06e9a829	18_8835988_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	8835988	CT	C	780	PASS	SOGA2	Del	downstream	1	6	MSH6	child	18_8835988_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
8835e1fc-3285-11e6-9efa-64528e4678dd	6_88666833_TAT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	6	88666833	TA	T	720	PASS	-	Del	-	1	6	EXO1	child	6_88666833_TAT_EXO1	1	1	1	A	5	A	Repeat-mediated
88377b08-3289-11e6-a80b-87090e01a414	11_17056222_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	17056222	GA	G	300	PASS	-	Del	-	1	5	MSH6	child	11_17056222_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
884247a6-3273-11e6-b539-d702ebb8d062	7_90461807_GTG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	7	90461807	GT	G	660	PASS	CDK14	Del	intronic	1	9	NUDT1	child	7_90461807_GTG_NUDT1	1	1	1	T	8	T	Repeat-mediated
88456a3c-326c-11e6-b9f4-5d1d694da5d2	14_19094853_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	19094853	CA	C	360	PASS	-	Del	-	1	7	MSH6	child	14_19094853_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
8850aba0-3284-11e6-a8af-066ea2c71c31	15_28165209_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	28165209	GA	G	600	PASS	OCA2	Del	intronic	1	7	MSH6	child	15_28165209_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
88573852-3285-11e6-b1ba-6def1da8ec0e	1_144849102_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	1	144849102	TA	T	280	PASS	PDE4DIP	Del	downstream	1	6	EXO1	child	1_144849102_TAT_EXO1	1	1	1	A	5	A	Repeat-mediated
886e7ff8-3285-11e6-9162-c3af90e2c2e6	2_143086705_ATA	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	2	143086705	AT	A	540	PASS	-	Del	-	1	9	POLE	child	2_143086705_ATA_POLE	1	1	1	T	8	T	Repeat-mediated
886ecee8-329b-11e6-b549-1e5325c9da85	10_101041693_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	101041693	GA	G	840	PASS	-	Del	-	1	9	MSH6	child	10_101041693_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
887402da-3275-11e6-8d20-7365cde16804	5_171897305_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	5	171897305	AT	A	420	PASS	-	Del	-	1	9	MSH6	parent	5_171897305_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
8879facc-329e-11e6-b696-dd6225c9da85	5_91240016_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	91240016	AT	A	600	PASS	-	Del	-	1	7	MSH6	child	5_91240016_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
887a195e-3270-11e6-a539-0e5542c4520d	7_110459185_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	110459185	GA	G	328	PASS	IMMP2L	Del	intronic	1	9	MSH6	child	7_110459185_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
887fa372-329a-11e6-8d0f-075325c9da85	14_58777130_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	58777130	CA	C	900	PASS	ARID4A	Del	intronic	1	5	MSH6	child	14_58777130_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
888547ee-329c-11e6-aca6-b39fcc638e3d	2_179095847_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	179095847	CA	C	540	PASS	OSBPL6	Del	intronic	1	5	MSH6	child	2_179095847_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
889132e2-3293-11e6-9d97-efe56f39e758	4_161963357_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	161963357	T	TA	480	PASS	-	Ins	-	1	8	MSH6	child	4_161963357_TTA_MSH6	1	1	-	-	-	-	Ins
889bb272-3323-11e6-8301-82209a696edf	18_46192107_CCT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	18	46192107	C	CT	960	PASS	CTIF	Ins	intronic	1	1	EXO1	child	18_46192107_CCT_EXO1	1	1	-	-	-	-	Ins
88a1a294-3275-11e6-ad99-592f98ba1142	1_160876953_TAT	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	1	160876953	TA	T	780	PASS	-	Del	-	1	7	NEIL1	child	1_160876953_TAT_NEIL1	1	1	1	A	6	A	Repeat-mediated
88a91d24-3272-11e6-b332-88ba7d6a9fc7	15_23290287_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	23290287	CA	C	299	PASS	-	Del	-	1	7	MSH6	child	15_23290287_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
88c1443a-3254-11e6-8508-6f1dee3c4f5d	5_95573372_ATA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	5	95573372	AT	A	480	PASS	-	Del	-	1	7	POLB	child	5_95573372_ATA_POLB	1	1	1	T	6	T	Repeat-mediated
88c39dfc-329f-11e6-bc2c-2a5e25c9da85	4_168971816_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	168971816	AT	A	840	PASS	-	Del	-	1	7	MSH6	child	4_168971816_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
88c6ecf0-326d-11e6-b306-b5204b47a305	2_79317804_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	79317804	AT	A	600	PASS	REG1B	Del	upstream	1	6	MSH6	child	2_79317804_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
88c9e198-329b-11e6-a0ea-135325c9da85	15_75712720_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	75712720	CT	C	660	PASS	SIN3A	Del	intronic	1	9	MSH6	child	15_75712720_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
88ca97ec-326d-11e6-9f48-94df41c4520d	12_73347950_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	73347950	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	12_73347950_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
88d020b0-329d-11e6-91d0-016425c9da85	7_5381502_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	5381502	CA	C	600	PASS	TNRC18	Del	intronic	1	9	MSH6	child	7_5381502_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
88d150ba-3271-11e6-a7ca-da712aaffa45	17_55553323_CACAGC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	17	55553323	CACAG	C	1080	PASS	MSI2	Del	intronic	4	1	CHK2	child	17_55553323_CACAGC_CHK2	4	4	3	ACA	0	-	Microhomology-mediated
88e4d22a-3271-11e6-b89d-b2d6b0dab373	4_138208570_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	138208570	CT	C	420	PASS	-	Del	-	1	8	MSH6	child	4_138208570_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
88e8f342-3270-11e6-b4bf-85eb97ba1142	2_141225529_TGAT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	2	141225529	TGA	T	660	PASS	LRP1B	Del	intronic	2	5	EXO1	parent	2_141225529_TGAT_EXO1	2	2	2	GA	4	GA	Repeat-mediated
88ed6964-32a1-11e6-91d0-016425c9da85	7_79419885_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	79419885	C	CA	600	PASS	-	Ins	-	1	7	MSH6	child	7_79419885_CCA_MSH6	1	1	-	-	-	-	Ins
88ef17c0-3290-11e6-9d24-ade56f39e758	7_128524001_AGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	128524001	AG	A	540	PASS	-	Del	-	1	5	MSH6	child	7_128524001_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
88f07156-3277-11e6-9ac6-2f1c25864c47	6_157948936_TTCT	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	6	157948936	TTC	T	480	PASS	ZDHHC14	Del	intronic	2	5	POLB	child	6_157948936_TTCT_POLB	2	2	2	TC	4	TC	Repeat-mediated
88fbb944-3286-11e6-b093-c9c7b0dab373	2_174795260_CTTTCTTATAACACCTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	174795260	CTTTCTTATAACACCT	C	1020	PASS	SP3	Del	intronic	15	1	MSH6	child	2_174795260_CTTTCTTATAACACCTC_MSH6	15	>=10	1	T	0	-	Microhomology-mediated
88fc58da-328c-11e6-919e-92c36f39e758	2_67658795_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	67658795	AT	A	600	PASS	-	Del	-	1	7	MSH6	child	2_67658795_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
89034dc2-3280-11e6-bf44-a4f9eff7a29c	3_129383914_TAT	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	3	129383914	TA	T	660	PASS	TMCC1	Del	intronic	1	7	POLB	parent	3_129383914_TAT_POLB	1	1	1	A	6	A	Repeat-mediated
891131b6-3254-11e6-aedc-3df212ae24cf	19_40114637_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	19	40114637	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	19_40114637_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
891d9c58-3277-11e6-a5d7-eb6be7d0bdd7	6_47394833_GTTTG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	6	47394833	GTTT	G	660	PASS	-	Del	-	3	5	EXO1	child	6_47394833_GTTTG_EXO1	3	3	2	TT	0	-	Microhomology-mediated
892391d0-326d-11e6-9f48-94df41c4520d	12_73732875_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	73732875	TA	T	360	PASS	-	Del	-	1	4	MSH6	child	12_73732875_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
8923e632-328e-11e6-bd84-429305ad5bc4	1_86209708_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	86209708	A	AT	720	PASS	COL24A1	Ins	intronic	1	8	MSH6	child	1_86209708_AAT_MSH6	1	1	-	-	-	-	Ins
8925afb2-3270-11e6-b89d-b2d6b0dab373	4_68619218_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	68619218	AT	A	300	PASS	GNRHR	Del	intronic	1	8	MSH6	child	4_68619218_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
8927aaf4-329a-11e6-b549-1e5325c9da85	10_38213054_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	38213054	CA	C	840	PASS	-	Del	-	1	9	MSH6	child	10_38213054_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
892a4010-3287-11e6-8bbd-f88da2c71c31	21_10621063_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	21	10621063	CT	C	614	PASS	-	Del	-	1	6	MSH6	child	21_10621063_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
892dd2c6-329f-11e6-91d0-016425c9da85	7_123357245_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	123357245	GA	G	540	PASS	WASL	Del	intronic	1	9	MSH6	child	7_123357245_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
89326a44-3325-11e6-9459-771c630e6611	4_151672588_ATA	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	4	151672588	AT	A	660	PASS	LRBA	Del	intronic	1	9	CHK2	child	4_151672588_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
8934271e-3292-11e6-a1ea-b9b6e7d0bdd7	11_107546615_ATA	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	11	107546615	AT	A	300	PASS	-	Del	-	1	9	NUDT1	child	11_107546615_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
894e22d6-328d-11e6-8eed-fae0191589db	22_34840292_GAG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	22	34840292	GA	G	660	PASS	-	Del	-	1	8	FANCC	child	22_34840292_GAG_FANCC	1	1	1	A	7	A	Repeat-mediated
89534ace-326d-11e6-b306-b5204b47a305	2_79603946_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	79603946	AT	A	460	PASS	CTNNA2	Del	intronic	1	6	MSH6	child	2_79603946_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
8956a20e-3255-11e6-89d3-d29498816cf3	2_216033740_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	216033740	CA	C	540	PASS	-	Del	-	1	9	MSH6	child	2_216033740_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
895e8334-326e-11e6-bc62-6d4742c4520d	16_54249117_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	54249117	C	CA	720	PASS	-	Ins	-	1	2	MSH6	child	16_54249117_CCA_MSH6	1	1	-	-	-	-	Ins
897eb006-3290-11e6-9eb4-6cb54430f757	3_55793603_CAC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	3	55793603	CA	C	600	PASS	ERC2	Del	intronic	1	7	POLE	child	3_55793603_CAC_POLE	1	1	1	A	6	A	Repeat-mediated
89872548-328f-11e6-bb1e-70e16f39e758	X_94590785_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	94590785	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	X_94590785_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
898773a6-3274-11e6-b332-88ba7d6a9fc7	15_87435982_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	87435982	GA	G	420	PASS	AGBL1	Del	intronic	1	9	MSH6	child	15_87435982_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
89883b88-3279-11e6-a391-f6d67d6a9fc7	6_142948442_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	142948442	CT	C	660	PASS	RP11-440G9.1	Del	intronic	1	7	MSH6	child	6_142948442_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
898e39f0-3320-11e6-8b89-aa119a696edf	14_44525016_ATA	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	14	44525016	AT	A	420	PASS	RP11-305B6.3	Del	intronic	1	4	CHK2	child	14_44525016_ATA_CHK2	1	1	1	T	3	T	Repeat-mediated
899a2aa2-329a-11e6-b723-b29fcc638e3d	19_34135486_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	34135486	AT	A	540	PASS	CHST8	Del	intronic	1	9	MSH6	child	19_34135486_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
899ca412-3254-11e6-a304-347a7872c165	1_58757729_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	58757729	CT	C	720	PASS	-	Del	-	1	7	MSH6	child	1_58757729_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
89a148ac-328e-11e6-a278-48230e01a414	21_21783984_CCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	21	21783984	C	CT	720	PASS	-	Ins	-	1	7	MSH6	child	21_21783984_CCT_MSH6	1	1	-	-	-	-	Ins
89a37df2-329d-11e6-a0ea-135325c9da85	15_64035464_TTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	64035464	T	TC	300	PASS	HERC1	Ins	intronic	1	1	MSH6	child	15_64035464_TTC_MSH6	1	1	-	-	-	-	Ins
89a3a1b6-328d-11e6-9721-bd9fb868caf4	18_23605670_CAC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	18	23605670	CA	C	600	PASS	SS18	Del	intronic	1	8	POLB	child	18_23605670_CAC_POLB	1	1	1	A	7	A	Repeat-mediated
89a7d366-3289-11e6-821d-8c090e01a414	13_34085374_TGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	34085374	TG	T	420	PASS	RP11-141M1.3	Del	intronic	1	6	MSH6	child	13_34085374_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
89a931fe-3291-11e6-8b9f-eea73adbad45	3_23699060_GAG	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	3	23699060	GA	G	420	PASS	-	Del	-	1	8	NEIL1	child	3_23699060_GAG_NEIL1	1	1	1	A	7	A	Repeat-mediated
89a9dec6-328a-11e6-b7fa-0f9612ae24cf	18_15257015_AAT	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	18	15257015	A	AT	361	PASS	-	Ins	-	1	7	CHK2	child	18_15257015_AAT_CHK2	1	1	-	-	-	-	Ins
89aa04ee-3282-11e6-a2e8-f2338e4678dd	15_23911104_GGT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	15	23911104	G	GT	360	PASS	-	Ins	-	1	1	EXO1	child	15_23911104_GGT_EXO1	1	1	-	-	-	-	Ins
89acdc7a-328a-11e6-a80b-87090e01a414	11_76807857_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	76807857	CA	C	660	PASS	CAPN5	Del	intronic	1	8	MSH6	child	11_76807857_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
89af4586-327c-11e6-9484-e5b5cc638e3d	6_158536115_TTA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	6	158536115	T	TA	300	PASS	SERAC1	Ins	intronic	1	7	EXO1	child	6_158536115_TTA_EXO1	1	1	-	-	-	-	Ins
89b34b80-3282-11e6-9da4-3e472a2d4995	1_198172062_GAG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	1	198172062	GA	G	300	PASS	NEK7	Del	intronic	1	7	EXO1	child	1_198172062_GAG_EXO1	1	1	1	A	6	A	Repeat-mediated
89bbffa4-328d-11e6-b8e6-91c36f39e758	11_133952692_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	133952692	AC	A	480	PASS	JAM3	Del	intronic	1	7	MSH6	child	11_133952692_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
89bdd260-329d-11e6-aca6-b39fcc638e3d	2_239919929_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	239919929	CT	C	420	PASS	-	Del	-	1	6	MSH6	child	2_239919929_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
89ccf0da-3287-11e6-95fb-1402b5d65427	10_89454315_AGAATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	10	89454315	AGAAT	A	600	PASS	PAPSS2	Del	intronic	4	1	NUDT1	parent	10_89454315_AGAATA_NUDT1	4	4	2	GA	0	-	Microhomology-mediated
89d23f9a-328c-11e6-8083-5acc977b3f23	16_65979465_CAC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	16	65979465	CA	C	480	PASS	-	Del	-	1	8	NEIL1	child	16_65979465_CAC_NEIL1	1	1	1	A	7	A	Repeat-mediated
89d9092e-3296-11e6-9411-bc1ec7271a47	19_9478440_ATA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	19	9478440	AT	A	660	PASS	ZNF559-ZNF177	Del	intronic	1	7	CHK2	child	19_9478440_ATA_CHK2	1	1	1	T	6	T	Repeat-mediated
89dcdfb4-3321-11e6-ae98-b2b5fa52e078	2_79625893_CAC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	2	79625893	CA	C	300	PASS	CTNNA2	Del	intronic	1	9	EXO1	child	2_79625893_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
89e8f8ee-3281-11e6-9b68-79e41da8ec0e	2_84279034_GAG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	2	84279034	GA	G	360	PASS	-	Del	-	1	7	EXO1	child	2_84279034_GAG_EXO1	1	1	1	A	6	A	Repeat-mediated
89f2b5f0-3277-11e6-9608-84e46de4ab00	7_135131470_GACG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	7	135131470	GAC	G	360	PASS	CNOT4	Del	intronic	2	7	EXO1	child	7_135131470_GACG_EXO1	2	2	2	AC	6	AC	Repeat-mediated
89f4b96a-328e-11e6-bec1-ca1d0e01a414	X_103976091_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	103976091	CT	C	561	PASS	IL1RAPL2	Del	intronic	1	9	MSH6	child	X_103976091_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
89f5480e-32a1-11e6-a04f-c66a25c9da85	6_147323540_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	147323540	CA	C	780	PASS	-	Del	-	1	8	MSH6	child	6_147323540_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
89f56032-3283-11e6-a8a4-f49d69062303	7_4640770_GTCAGGAGATCAAGACCATCCAGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGATGGCGGGCGCCTGTACTCCCAGCTACG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	7	4640770	GTCAGGAGATCAAGACCATCCAGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGATGGCGGGCGCCTGTACTCCCAGCTAC	G	720	PASS	-	Del	-	104	1	FANCC	child	7_4640770_GTCAGGAGATCAAGACCATCCAGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGATGGCGGGCGCCTGTACTCCCAGCTACG_FANCC	104	>=10	2	TC	0	-	Microhomology-mediated
89f76a7a-3270-11e6-8418-1c5942c4520d	3_53018281_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	53018281	GA	G	300	PASS	SFMBT1	Del	intronic	1	4	MSH6	child	3_53018281_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
89f7cb64-329d-11e6-bc2c-2a5e25c9da85	4_41585942_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	41585942	GT	G	660	PASS	LIMCH1	Del	intronic	1	9	MSH6	child	4_41585942_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
89f88fda-3285-11e6-99f7-076ea2c71c31	12_98702005_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	98702005	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	12_98702005_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
89faafb4-3347-11e6-b0ff-c495e84777f6	10_6585598_CGATGATCAAACAACCCAACT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	10	6585598	CGATGATCAAA	CAACCCAACT	420	PASS	PRKCQ	Complex	intronic	10	0	FANCC	child	10_6585598_CGATGATCAAACAACCCAACT_FANCC	1	1	-	-	-	-	Complex
89fb97bc-328e-11e6-bec1-ca1d0e01a414	X_103995558_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	103995558	TA	T	360	PASS	IL1RAPL2	Del	intronic	1	9	MSH6	child	X_103995558_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
8a0ffd6c-326e-11e6-b306-b5204b47a305	2_172013752_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	172013752	CA	C	480	PASS	TLK1	Del	intronic	1	4	MSH6	child	2_172013752_CAC_MSH6	1	1	1	A	3	A	Repeat-mediated
8a1aee80-328b-11e6-b805-77090e01a414	2_153294086_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	153294086	CT	C	660	PASS	FMNL2	Del	intronic	1	8	MSH6	child	2_153294086_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
8a246f0a-3290-11e6-92cf-bf2a0e01a414	6_111291471_CAGGC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	111291471	CAGG	C	480	PASS	GTF3C6	Del	downstream	3	1	MSH6	child	6_111291471_CAGGC_MSH6	3	3	2	AG	0	-	Microhomology-mediated
8a294cbe-3286-11e6-afcf-0311bce6aa09	9_90523470_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	90523470	CA	C	600	PASS	-	Del	-	1	6	MSH6	child	9_90523470_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
8a302b30-3257-11e6-885f-d1947872c165	4_98421211_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	98421211	CA	C	900	PASS	-	Del	-	1	7	MSH6	child	4_98421211_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
8a31a9be-3276-11e6-bc24-bc6e3cfdbd24	6_26409153_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	6	26409153	AT	A	480	PASS	BTN3A1	Del	intronic	1	7	MSH6	parent	6_26409153_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
8a321b04-329b-11e6-b549-1e5325c9da85	10_101328610_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	101328610	GA	G	540	PASS	-	Del	-	1	8	MSH6	child	10_101328610_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
8a370106-329f-11e6-bc2c-2a5e25c9da85	4_169348936_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	169348936	GA	G	600	PASS	DDX60L	Del	intronic	1	7	MSH6	child	4_169348936_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
8a382ea0-329a-11e6-a0ea-135325c9da85	15_53102659_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	53102659	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	15_53102659_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
8a3d4428-3289-11e6-b9eb-c78fa2c71c31	6_168189067_CGC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	168189067	CG	C	360	PASS	-	Del	-	1	6	MSH6	child	6_168189067_CGC_MSH6	1	1	1	G	5	G	Repeat-mediated
8a3ffb10-328d-11e6-a724-38ab4430f757	1_75381374_CTC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	1	75381374	CT	C	420	PASS	-	Del	-	1	8	POLE	child	1_75381374_CTC_POLE	1	1	1	T	7	T	Repeat-mediated
8a4254ac-3277-11e6-a391-f6d67d6a9fc7	6_7877115_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	7877115	CT	C	420	PASS	TXNDC5	Del	downstream	1	8	MSH6	child	6_7877115_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
8a45cadc-3327-11e6-8527-5503694da5d2	X_96372962_GGT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	X	96372962	G	GT	300	PASS	DIAPH2	Ins	intronic	1	9	EXO1	child	X_96372962_GGT_EXO1	1	1	-	-	-	-	Ins
8a4842b8-326d-11e6-adc2-b7204b47a305	18_77969935_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	77969935	TA	T	480	PASS	PARD6G	Del	intronic	1	9	MSH6	child	18_77969935_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
8a5272ca-328a-11e6-a7cf-80090e01a414	15_67149432_TCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	67149432	TC	T	360	PASS	-	Del	-	1	1	MSH6	child	15_67149432_TCT_MSH6	1	1	0	-	0	C	None
8a568d12-3256-11e6-acc5-308412ae24cf	5_12740716_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	12740716	AT	A	660	PASS	CT49	Del	intronic	1	9	MSH6	child	5_12740716_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
8a6018f6-3273-11e6-abaf-4642cab49462	6_136768812_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	136768812	GT	G	300	PASS	MAP7	Del	intronic	1	7	MSH6	child	6_136768812_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
8a76174e-3289-11e6-a32d-75090e01a414	14_36595201_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	36595201	AT	A	900	PASS	LINC00609	Del	intronic	1	8	MSH6	child	14_36595201_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
8a83d6da-328f-11e6-abc8-b5d7faf1a024	8_101815688_AAGT	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	8	101815688	A	AGT	540	PASS	-	Ins	-	2	8	POLM	child	8_101815688_AAGT_POLM	2	2	-	-	-	-	Ins
8a892348-328e-11e6-be52-ac74fd44d094	20_35651892_AGA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	20	35651892	AG	A	420	PASS	RBL1	Del	intronic	1	5	FANCC	child	20_35651892_AGA_FANCC	1	1	1	G	4	G	Repeat-mediated
8a8a0bf0-3284-11e6-821e-69f1bbe6aa09	16_16187654_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	16187654	CT	C	360	PASS	ABCC1	Del	intronic	1	8	MSH6	child	16_16187654_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
8a8a9ce0-327b-11e6-ab1d-16d9ecf1e924	20_52500693_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	52500693	C	CA	360	PASS	-	Ins	-	1	9	MSH6	child	20_52500693_CCA_MSH6	1	1	-	-	-	-	Ins
8a8c73c4-328c-11e6-8459-82090e01a414	12_51448882_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	51448882	C	CA	300	PASS	LETMD1	Ins	intronic	1	9	MSH6	child	12_51448882_CCA_MSH6	1	1	-	-	-	-	Ins
8a916f84-3271-11e6-8fc7-e8702aaffa45	9_121469997_AACAGAGATCAGA	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	9	121469997	AACAGAGATCAG	A	600	PASS	RP11-349E4.1	Del	upstream	11	1	POLM	child	9_121469997_AACAGAGATCAGA_POLM	11	>=10	2	AC	0	-	Microhomology-mediated
8a92b966-3271-11e6-b1f2-34f6620e6611	1_56097930_AACATAGAACACTTTGTGA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	1	56097930	AACATAGAACACTTTGTG	A	300	PASS	RP11-466L17.1	Del	intronic	17	1	CHK2	child	1_56097930_AACATAGAACACTTTGTGA_CHK2	17	>=10	5	ACATA	0	-	Microhomology-mediated
8a94d11c-3288-11e6-b9eb-c78fa2c71c31	6_64682434_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	64682434	CT	C	420	PASS	EYS	Del	intronic	1	9	MSH6	child	6_64682434_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
8a95b270-329d-11e6-ae71-0c5325c9da85	1_214370493_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	214370493	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	1_214370493_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
8a9b9848-3289-11e6-b9eb-c78fa2c71c31	6_168263074_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	168263074	TA	T	300	PASS	MLLT4	Del	intronic	1	1	MSH6	child	6_168263074_TAT_MSH6	1	1	0	-	0	A	None
8aa3b2a4-328d-11e6-919e-92c36f39e758	2_138839900_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	138839900	GT	G	420	PASS	-	Del	-	1	6	MSH6	child	2_138839900_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
8aa4457c-329a-11e6-bda6-065325c9da85	13_60870234_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	60870234	CA	C	500	PASS	-	Del	-	1	9	MSH6	child	13_60870234_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
8ab2648a-3322-11e6-a8ef-bb593dc9300a	2_185741743_TAT	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	2	185741743	TA	T	300	PASS	ZNF804A	Del	intronic	1	8	CHK2	child	2_185741743_TAT_CHK2	1	1	1	A	7	A	Repeat-mediated
8ab5ae18-3270-11e6-9c6e-9f402a2d4995	2_151465797_ATA	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	2	151465797	AT	A	300	PASS	AC104777.4	Del	upstream	1	8	POLB	child	2_151465797_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
8ab8c2aa-328a-11e6-8459-82090e01a414	12_75595063_AAAAAAAAAAAAAAAACA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	75595063	AAAAAAAAAAAAAAAAC	A	360	PASS	KCNC2	Del	intronic	16	1	MSH6	child	12_75595063_AAAAAAAAAAAAAAAACA_MSH6	16	>=10	0	-	0	-	None
8ac30d2a-325b-11e6-885f-d1947872c165	4_186269438_GGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	186269438	G	GA	480	PASS	SNX25	Ins	intronic	1	7	MSH6	child	4_186269438_GGA_MSH6	1	1	-	-	-	-	Ins
8ac552d4-329b-11e6-a5cf-205325c9da85	11_107044044_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	107044044	AT	A	600	PASS	-	Del	-	1	8	MSH6	child	11_107044044_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
8acb5636-328f-11e6-92cf-bf2a0e01a414	6_42972516_CAGC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	42972516	CAG	C	420	PASS	PPP2R5D	Del	intronic	2	2	MSH6	child	6_42972516_CAGC_MSH6	2	2	2	AG	1	AG	Repeat-mediated
8ad23082-3253-11e6-9f9d-2c7a7872c165	12_2223545_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	2223545	CT	C	300	PASS	CACNA1C	Del	intronic	1	9	MSH6	child	12_2223545_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
8adc2d1c-328a-11e6-a70a-47793adbad45	3_82006686_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	3	82006686	AT	A	600	PASS	-	Del	-	1	9	NUDT1	parent	3_82006686_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
8ae018e6-3271-11e6-b5b8-e0c24a47a305	X_153526265_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	153526265	AT	A	420	PASS	TKTL1	Del	intronic	1	9	MSH6	child	X_153526265_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
8ae53274-3288-11e6-940d-53a538e8a824	2_118560625_TAT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	2	118560625	TA	T	600	PASS	-	Del	-	1	9	NUDT1	parent	2_118560625_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
8ae802f4-3325-11e6-85fa-8f2b51c54cdd	7_131551379_GTG	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	7	131551379	GT	G	480	PASS	-	Del	-	1	1	CHK2	parent	7_131551379_GTG_CHK2	1	1	0	-	0	T	None
8aed0b26-326e-11e6-b2ac-b6204b47a305	17_39242552_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	39242552	T	TA	394	PASS	KRTAP4-7	Ins	downstream	1	6	MSH6	child	17_39242552_TTA_MSH6	1	1	-	-	-	-	Ins
8af5c428-32a0-11e6-aea7-956725c9da85	3_139840802_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	139840802	GA	G	960	PASS	CLSTN2	Del	intronic	1	7	MSH6	child	3_139840802_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
8b08599c-32a2-11e6-b696-dd6225c9da85	5_179694824_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	179694824	C	CA	300	PASS	MAPK9	Ins	intronic	1	7	MSH6	child	5_179694824_CCA_MSH6	1	1	-	-	-	-	Ins
8b0fde44-3287-11e6-a284-4b89a2c71c31	4_89670800_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	89670800	CT	C	720	PASS	FAM13A	Del	intronic	1	5	MSH6	child	4_89670800_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
8b10c220-328f-11e6-b6a6-1f1e0e01a414	4_188985237_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	188985237	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	4_188985237_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
8b1c3c72-3276-11e6-8c34-46e27872c165	5_78936651_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	78936651	CT	C	480	PASS	PAPD4	Del	intronic	1	8	MSH6	child	5_78936651_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
8b253714-3280-11e6-9f9b-29bd9b6d3b88	11_663055_AGAGTCCCAGCACTCTGGGAGGCTGACTGGGCGAATATCTTA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	11	663055	AGAGTCCCAGCACTCTGGGAGGCTGACTGGGCGAATATCTT	A	360	PASS	DEAF1	Del	intronic	40	1	EXO1	child	11_663055_AGAGTCCCAGCACTCTGGGAGGCTGACTGGGCGAATATCTTA_EXO1	40	>=10	3	GAG	0	-	Microhomology-mediated
8b26813a-3273-11e6-aa3b-ca60a178171f	13_97175827_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	97175827	CT	C	698	PASS	HS6ST3	Del	intronic	1	8	MSH6	child	13_97175827_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
8b38bf20-328d-11e6-b6a6-1f1e0e01a414	4_65450818_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	65450818	CT	C	360	PASS	-	Del	-	1	7	MSH6	child	4_65450818_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
8b3a2a7a-3285-11e6-9162-c3af90e2c2e6	2_144103132_ATA	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	2	144103132	AT	A	540	PASS	ARHGAP15	Del	intronic	1	9	POLE	child	2_144103132_ATA_POLE	1	1	1	T	8	T	Repeat-mediated
8b3a2f06-3290-11e6-b81f-4ee66f39e758	8_53869029_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	53869029	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	8_53869029_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
8b439a7a-329d-11e6-bc2c-2a5e25c9da85	4_41880098_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	41880098	GT	G	480	PASS	LINC00682	Del	downstream	1	8	MSH6	child	4_41880098_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
8b477170-329f-11e6-bc2c-2a5e25c9da85	4_169481057_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	169481057	GA	G	600	PASS	PALLD	Del	intronic	1	9	MSH6	child	4_169481057_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
8b484db0-334a-11e6-a997-309d38e8a824	4_164378587_TAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	4	164378587	TA	T	360	PASS	-	Del	-	1	9	FANCC	child	4_164378587_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
8b4c6540-3272-11e6-975f-8246cab49462	16_10209675_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	10209675	CT	C	300	PASS	GRIN2A	Del	intronic	1	9	MSH6	child	16_10209675_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
8b54640a-328d-11e6-9340-3a91e7d0bdd7	12_125842133_CCA	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	12	125842133	C	CA	780	PASS	TMEM132B	Ins	intronic	1	5	POLM	child	12_125842133_CCA_POLM	1	1	-	-	-	-	Ins
8b5f2b56-3292-11e6-9401-04ed6f39e758	3_181904256_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	181904256	CT	C	420	PASS	-	Del	-	1	6	MSH6	child	3_181904256_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
8b69d4a6-328e-11e6-b9c4-751d0e01a414	5_155958802_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	155958802	GA	G	360	PASS	SGCD	Del	intronic	1	9	MSH6	child	5_155958802_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
8b7414e0-3296-11e6-a2f7-5503d9b4fa2c	6_63456561_TTGT	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	6	63456561	TTG	T	600	PASS	-	Del	-	2	7	NUDT1	child	6_63456561_TTGT_NUDT1	2	2	2	TG	6	TG	Repeat-mediated
8b7809d2-3292-11e6-9d24-ade56f39e758	7_98417143_AAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	98417143	A	AG	420	PASS	-	Ins	-	1	1	MSH6	child	7_98417143_AAG_MSH6	1	1	-	-	-	-	Ins
8b784ce6-3254-11e6-8f56-7d832aaffa45	13_37454559_TTCTCT	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	13	37454559	TTCTC	T	600	PASS	SMAD9	Del	intronic	4	2	POLM	child	13_37454559_TTCTCT_POLM	4	4	0	-	0	-	None
8b78c676-328b-11e6-abb8-f3c9996ede67	12_101997494_AAGAATTGCTTAAGCCCAG	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	12	101997494	A	AGAATTGCTTAAGCCCAG	300	PASS	MYBPC1	Ins	intronic	17	0	CHK2	child	12_101997494_AAGAATTGCTTAAGCCCAG_CHK2	17	>=10	-	-	-	-	Ins
8b7bda4c-328a-11e6-ad64-7189a178171f	5_165919523_GTGTCAGATACATTTGTCAAAGCCCATAGCATATG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	5	165919523	GTGTCAGATACATTTGTCAAAGCCCATAGCATAT	G	360	PASS	-	Del	-	33	1	FANCC	child	5_165919523_GTGTCAGATACATTTGTCAAAGCCCATAGCATATG_FANCC	33	>=10	0	-	0	-	None
8b850f76-3259-11e6-a304-347a7872c165	1_173535791_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	173535791	A	AT	600	PASS	SLC9C2	Ins	intronic	1	6	MSH6	child	1_173535791_AAT_MSH6	1	1	-	-	-	-	Ins
8b8da842-328c-11e6-b4fe-93c36f39e758	12_61743676_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	61743676	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	12_61743676_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
8b95a3b8-3254-11e6-a70f-7c832aaffa45	17_16096083_GATG	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	17	16096083	GAT	G	540	PASS	NCOR1	Del	intronic	2	3	POLM	child	17_16096083_GATG_POLM	2	2	2	AT	2	AT	Repeat-mediated
8b9bd818-3273-11e6-aa3b-ca60a178171f	13_97366559_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	97366559	CA	C	780	PASS	HS6ST3	Del	intronic	1	9	MSH6	child	13_97366559_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
8b9e92a2-3272-11e6-94cc-1ec335cec73b	19_6908494_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	6908494	CT	C	360	PASS	EMR1	Del	intronic	1	7	MSH6	child	19_6908494_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
8b9eb162-328e-11e6-8e48-791e0e01a414	8_61790348_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	61790348	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	8_61790348_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
8baa61f6-3324-11e6-be22-69745e975b79	1_18557935_GGAC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	1	18557935	G	GAC	780	PASS	IGSF21	Ins	intronic	2	1	CHK2	parent	1_18557935_GGAC_CHK2	2	2	-	-	-	-	Ins
8baefb9a-3288-11e6-b9eb-c78fa2c71c31	6_65323193_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	65323193	CT	C	360	PASS	EYS	Del	intronic	1	7	MSH6	child	6_65323193_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
8bb49074-328c-11e6-ac7a-a3c36f39e758	18_67773932_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	67773932	GA	G	540	PASS	RTTN	Del	intronic	1	9	MSH6	child	18_67773932_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
8bb4c644-326d-11e6-9f48-94df41c4520d	12_74721282_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	74721282	GA	G	420	PASS	RP11-81H3.2	Del	intronic	1	8	MSH6	child	12_74721282_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
8bbe0460-3273-11e6-9b10-3e7da20b69d5	15_92195631_GAG	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	15	92195631	GA	G	420	PASS	RP11-692C24.2	Del	upstream	1	1	NUDT1	child	15_92195631_GAG_NUDT1	1	1	0	-	0	A	None
8bc08990-3298-11e6-ad17-c026c7271a47	9_37082584_TAT	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	9	37082584	TA	T	466	PASS	RP11-220I1.1	Del	intronic	1	6	CHK2	child	9_37082584_TAT_CHK2	1	1	1	A	5	A	Repeat-mediated
8bcdfdd6-3325-11e6-9c20-925172d7bc54	3_194885293_GGACCAGGCCAGAGGTGGCCAGATACCAGCAATACAG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	3	194885293	GGACCAGGCCAGAGGTGGCCAGATACCAGCAATACA	G	420	PASS	XXYLT1	Del	intronic	35	1	EXO1	child	3_194885293_GGACCAGGCCAGAGGTGGCCAGATACCAGCAATACAG_EXO1	35	>=10	4	GACC	0	-	Microhomology-mediated
8bdd7872-3273-11e6-aa3b-ca60a178171f	13_97544834_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	97544834	AT	A	660	PASS	-	Del	-	1	9	MSH6	child	13_97544834_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
8be252e6-3275-11e6-a71d-236235cec73b	X_18645903_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	18645903	CA	C	300	PASS	CDKL5	Del	intronic	1	9	MSH6	child	X_18645903_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
8be4185e-3290-11e6-b3a9-d5afe7d0bdd7	4_46051059_ATA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	4	46051059	AT	A	420	PASS	GABRG1	Del	intronic	1	8	FANCC	child	4_46051059_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
8be56104-32a0-11e6-aea7-956725c9da85	3_140251448_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	140251448	CA	C	540	PASS	CLSTN2	Del	intronic	1	9	MSH6	child	3_140251448_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
8bee18e6-328f-11e6-b4fe-93c36f39e758	12_108559180_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	108559180	G	GT	540	PASS	WSCD2	Ins	intronic	1	7	MSH6	child	12_108559180_GGT_MSH6	1	1	-	-	-	-	Ins
8bf1c6cc-3270-11e6-9d19-c216987b3f23	21_21546682_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	21	21546682	AT	A	420	PASS	-	Del	-	1	8	MSH6	child	21_21546682_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
8bf3c542-3272-11e6-b332-88ba7d6a9fc7	15_24073994_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	24073994	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	15_24073994_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
8bf50cc6-3273-11e6-bfb2-2749c225ee11	12_80398797_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	80398797	TA	T	720	PASS	-	Del	-	1	9	MSH6	child	12_80398797_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
8c0565f8-328c-11e6-ac7a-a3c36f39e758	18_67832936_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	67832936	TA	T	360	PASS	RTTN	Del	intronic	1	8	MSH6	child	18_67832936_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
8c0a67ae-3275-11e6-94fa-fb6bcde16804	9_107813197_GTCCG	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	9	107813197	GTCC	G	600	PASS	-	Del	-	3	1	POLB	child	9_107813197_GTCCG_POLB	3	3	1	T	0	-	Microhomology-mediated
8c0b7c7e-3285-11e6-b093-c9c7b0dab373	2_88446555_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	88446555	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	2_88446555_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
8c101dfe-3282-11e6-9607-56b01ac527ab	4_3088649_CTC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	4	3088649	CT	C	360	PASS	HTT	Del	intronic	1	8	FANCC	child	4_3088649_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
8c151240-328d-11e6-b9c4-751d0e01a414	5_82742343_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	82742343	GA	G	660	PASS	-	Del	-	1	9	MSH6	child	5_82742343_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
8c172650-3280-11e6-83f7-b4262eaed38e	15_34591219_CCAAAC	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	15	34591219	CCAAA	C	540	PASS	SLC12A6	Del	intronic	4	1	POLB	child	15_34591219_CCAAAC_POLB	4	4	2	CA	0	-	Microhomology-mediated
8c1bf842-3276-11e6-9e0f-7959cab49462	7_73045505_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	73045505	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	7_73045505_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
8c2072ae-3286-11e6-afcf-0311bce6aa09	9_91263451_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	91263451	TA	T	420	PASS	RP13-60M5.2	Del	intronic	1	8	MSH6	child	9_91263451_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
8c293328-329d-11e6-8069-175325c9da85	12_78154585_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	78154585	C	CA	480	PASS	-	Ins	-	1	1	MSH6	child	12_78154585_CCA_MSH6	1	1	-	-	-	-	Ins
8c2b4be8-329f-11e6-94ca-0aaecc638e3d	X_129943818_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	129943818	CA	C	420	PASS	ENOX2	Del	intronic	1	6	MSH6	child	X_129943818_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
8c2d9522-3297-11e6-9c5d-eaf997ba1142	12_96731808_GTG	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	12	96731808	GT	G	300	PASS	CDK17	Del	intronic	1	5	CHK2	child	12_96731808_GTG_CHK2	1	1	1	T	4	T	Repeat-mediated
8c316eca-3276-11e6-998e-ba48fa52e078	8_57125091_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	57125091	CT	C	660	PASS	PLAG1	Del	upstream	1	3	MSH6	child	8_57125091_CTC_MSH6	1	1	1	T	2	T	Repeat-mediated
8c38128a-328e-11e6-bfa2-581f0e01a414	7_109359908_ACA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	109359908	AC	A	337	PASS	-	Del	-	1	5	MSH6	child	7_109359908_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
8c3912e6-3286-11e6-a5b3-3f1ebce6aa09	7_8840517_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	8840517	TA	T	320	PASS	-	Del	-	1	9	MSH6	child	7_8840517_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
8c395666-329f-11e6-94ca-0aaecc638e3d	X_129986058_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	129986058	GA	G	720	PASS	ENOX2	Del	intronic	1	8	MSH6	child	X_129986058_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
8c3d0548-326f-11e6-b5b8-e0c24a47a305	X_49429103_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	49429103	TA	T	360	PASS	-	Del	-	1	6	MSH6	child	X_49429103_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
8c3f702e-328a-11e6-aac2-75bb5d753391	4_15479586_GAG	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	4	15479586	GA	G	660	PASS	CC2D2A	Del	intronic	1	9	POLE	child	4_15479586_GAG_POLE	1	1	1	A	8	A	Repeat-mediated
8c44db94-3290-11e6-b77d-2eef6f39e758	6_8134040_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	8134040	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	6_8134040_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
8c5e5674-328a-11e6-9c89-8d090e01a414	1_67711453_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	67711453	CT	C	420	PASS	IL23R	Del	intronic	1	8	MSH6	child	1_67711453_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
8c5eeae8-329a-11e6-8069-175325c9da85	12_42845078_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	42845078	GT	G	600	PASS	PPHLN1	Del	downstream	1	9	MSH6	child	12_42845078_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
8c672ef6-3281-11e6-a545-ae2236fc2f7d	14_83533537_CATC	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	14	83533537	CAT	C	480	PASS	-	Del	-	2	1	NUDT1	child	14_83533537_CATC_NUDT1	2	2	1	A	0	-	Microhomology-mediated
8c69a7f8-3286-11e6-b8a8-aac02daed38e	8_127135136_CCT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	8	127135136	C	CT	540	PASS	-	Ins	-	1	3	POLB	child	8_127135136_CCT_POLB	1	1	-	-	-	-	Ins
8c86896c-3273-11e6-975f-8246cab49462	16_70066571_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	70066571	CA	C	530	PASS	MIR1972-2	Del	downstream	1	9	MSH6	child	16_70066571_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
8c8d8b4c-328f-11e6-bec1-ca1d0e01a414	X_19147001_CCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	19147001	C	CT	300	PASS	-	Ins	-	1	8	MSH6	child	X_19147001_CCT_MSH6	1	1	-	-	-	-	Ins
8c90293c-329a-11e6-aca6-b39fcc638e3d	2_52949727_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	52949727	GA	G	300	PASS	AC010967.2	Del	downstream	1	9	MSH6	child	2_52949727_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
8c9418ea-3276-11e6-83cd-a472a178171f	4_110225270_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	110225270	TA	T	420	PASS	COL25A1	Del	upstream	1	8	MSH6	child	4_110225270_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
8c9bfaf6-3280-11e6-9e54-079882d12d16	12_16439566_GTG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	12	16439566	GT	G	540	PASS	-	Del	-	1	9	FANCC	child	12_16439566_GTG_FANCC	1	1	1	T	8	T	Repeat-mediated
8ca5107a-326f-11e6-aa5d-c85dcde16804	12_67544691_TAT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	12	67544691	TA	T	540	PASS	-	Del	-	1	9	NEIL1	child	12_67544691_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
8ca5f958-329d-11e6-aca6-b39fcc638e3d	2_240902467_CGC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	240902467	CG	C	600	PASS	NDUFA10	Del	intronic	1	7	MSH6	child	2_240902467_CGC_MSH6	1	1	1	G	6	G	Repeat-mediated
8ca8b018-3274-11e6-b539-d702ebb8d062	7_155705441_GCTGATTTTG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	7	155705441	GCTGATTTT	G	600	PASS	-	Del	-	8	1	NUDT1	child	7_155705441_GCTGATTTTG_NUDT1	8	8	3	CTG	0	-	Microhomology-mediated
8cbe421c-3273-11e6-bea5-e783a20b69d5	13_76867652_AGA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	13	76867652	AG	A	360	PASS	-	Del	-	1	1	EXO1	child	13_76867652_AGA_EXO1	1	1	0	-	0	G	None
8cbe4d56-3279-11e6-83cd-a472a178171f	4_124461172_AAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	124461172	A	AG	460	PASS	-	Ins	-	1	1	MSH6	child	4_124461172_AAG_MSH6	1	1	-	-	-	-	Ins
8cca5642-3282-11e6-bab4-eb3afc1f1540	1_158058637_TGCAT	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	1	158058637	TGCA	T	600	PASS	KIRREL	Del	intronic	3	2	FANCC	child	1_158058637_TGCAT_FANCC	3	3	3	GCA	1	GCA	Repeat-mediated
8cd5b9ec-328c-11e6-b43c-7ec36f39e758	16_60865562_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	60865562	TA	T	660	PASS	-	Del	-	1	8	MSH6	child	16_60865562_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
8ce090aa-3288-11e6-a284-4b89a2c71c31	4_183422937_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	183422937	CT	C	780	PASS	TENM3	Del	intronic	1	7	MSH6	child	4_183422937_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
8ce09d6e-3285-11e6-aa79-5da038e8a824	6_2945606_AGA	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	6	2945606	AG	A	840	PASS	SERPINB6	Del	downstream	1	1	POLE	parent	6_2945606_AGA_POLE	1	1	0	-	0	G	None
8ce64a1c-3270-11e6-b923-6726694da5d2	5_75362445_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	75362445	GA	G	460	PASS	-	Del	-	1	9	MSH6	child	5_75362445_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
8cec5972-327d-11e6-b1df-d11c0e01a414	7_96722746_CTC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	7	96722746	CT	C	480	PASS	-	Del	-	1	8	FANCC	parent	7_96722746_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
8ced975c-326d-11e6-9f48-94df41c4520d	12_75038823_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	75038823	GT	G	300	PASS	-	Del	-	1	4	MSH6	child	12_75038823_GTG_MSH6	1	1	1	T	3	T	Repeat-mediated
8cf4e920-3287-11e6-8d3f-2a9c20e7b7a8	18_11532269_CTC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	18	11532269	CT	C	480	PASS	-	Del	-	1	9	POLE	child	18_11532269_CTC_POLE	1	1	1	T	8	T	Repeat-mediated
8cfb06dc-3270-11e6-b5b8-e0c24a47a305	X_66300040_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	66300040	CT	C	300	PASS	-	Del	-	1	7	MSH6	child	X_66300040_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
8d005124-3283-11e6-ab71-a8f7b0dab373	1_192736984_AACA	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	1	192736984	AAC	A	480	PASS	-	Del	-	2	1	POLE	parent	1_192736984_AACA_POLE	2	2	1	A	0	-	Microhomology-mediated
8d01cc00-3285-11e6-a0a8-096ea2c71c31	11_109570524_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	109570524	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	11_109570524_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
8d05d330-329f-11e6-bc2c-2a5e25c9da85	4_169929534_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	169929534	CA	C	840	PASS	CBR4	Del	intronic	1	9	MSH6	child	4_169929534_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
8d0feefa-3273-11e6-bfb2-2749c225ee11	12_80805601_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	80805601	AT	A	540	PASS	-	Del	-	1	6	MSH6	child	12_80805601_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
8d18fbd0-3345-11e6-94cb-be633cfdbd24	16_10221309_AATCA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	16	10221309	AATC	A	360	PASS	GRIN2A	Del	intronic	3	1	FANCC	child	16_10221309_AATCA_FANCC	3	3	2	AT	0	-	Microhomology-mediated
8d2176c0-3291-11e6-9401-04ed6f39e758	3_112050437_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	112050437	CA	C	360	PASS	CD200	Del	upstream	1	8	MSH6	child	3_112050437_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
8d22932a-329b-11e6-ae71-0c5325c9da85	1_90884337_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	90884337	CA	C	660	PASS	-	Del	-	1	6	MSH6	child	1_90884337_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
8d23b200-3291-11e6-b81f-4ee66f39e758	8_129368916_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	129368916	GA	G	660	PASS	-	Del	-	1	7	MSH6	child	8_129368916_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
8d309a0c-3254-11e6-a4a7-35f212ae24cf	14_83649614_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	83649614	AT	A	420	PASS	-	Del	-	1	4	MSH6	child	14_83649614_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
8d30c8a2-3258-11e6-91d3-a68412ae24cf	7_157205560_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	157205560	AT	A	300	PASS	DNAJB6	Del	intronic	1	8	MSH6	child	7_157205560_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
8d3d8d42-328c-11e6-bec1-ca1d0e01a414	X_16414576_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	16414576	AT	A	720	PASS	-	Del	-	1	6	MSH6	child	X_16414576_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
8d3ed180-328b-11e6-b805-77090e01a414	2_153989244_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	153989244	AT	A	360	PASS	-	Del	-	1	7	MSH6	child	2_153989244_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
8d42f128-3323-11e6-ba3d-227d3adbad45	4_139087952_GAG	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	4	139087952	GA	G	600	PASS	SLC7A11	Del	3prime_UTR_variant	1	7	CHK2	child	4_139087952_GAG_CHK2	1	1	1	A	6	A	Repeat-mediated
8d44ddcc-3345-11e6-94cb-be633cfdbd24	16_10230153_TGAAGGCT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	16	10230153	TGAAGGC	T	420	PASS	GRIN2A	Del	intronic	6	1	FANCC	child	16_10230153_TGAAGGCT_FANCC	6	6	3	GAA	0	-	Microhomology-mediated
8d4e42c4-3280-11e6-b7ea-83299ecd0b3a	10_16658059_TAT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	10	16658059	TA	T	300	PASS	RSU1	Del	intronic	1	7	POLB	child	10_16658059_TAT_POLB	1	1	1	A	6	A	Repeat-mediated
8d527802-3254-11e6-b7c7-cd919b6d3b88	18_24534277_AGTA	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	18	24534277	AGT	A	420	PASS	CHST9	Del	intronic	2	3	POLM	child	18_24534277_AGTA_POLM	2	2	2	GT	2	GT	Repeat-mediated
8d5b3e10-3277-11e6-92d2-c259c225ee11	3_87323281_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	87323281	CA	C	480	PASS	POU1F1	Del	intronic	1	6	MSH6	child	3_87323281_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
8d6a8e76-3289-11e6-a32d-75090e01a414	14_37382184_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	37382184	CT	C	300	PASS	SLC25A21	Del	intronic	1	9	MSH6	child	14_37382184_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
8d708328-3273-11e6-a862-bc9becf1e924	1_72131897_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	72131897	AT	A	660	PASS	NEGR1	Del	intronic	1	8	MSH6	child	1_72131897_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
8d726296-329c-11e6-a5cf-e5abcc638e3d	9_21008715_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	21008715	TA	T	660	PASS	PTPLAD2	Del	intronic	1	8	MSH6	child	9_21008715_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
8d790a10-3288-11e6-a8ac-a28ea2c71c31	3_85270652_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	85270652	GA	G	300	PASS	CADM2	Del	intronic	1	5	MSH6	child	3_85270652_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
8d8ac95e-3287-11e6-9955-19979cdf095d	8_52835476_GGT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	8	52835476	G	GT	660	PASS	-	Ins	-	1	2	POLE	child	8_52835476_GGT_POLE	1	1	-	-	-	-	Ins
8d94ac6c-3287-11e6-aa79-5da038e8a824	6_156483144_CTC	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	6	156483144	CT	C	660	PASS	-	Del	-	1	7	POLE	parent	6_156483144_CTC_POLE	1	1	1	T	6	T	Repeat-mediated
8d959d8c-328e-11e6-bec1-ca1d0e01a414	X_105777712_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	105777712	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	X_105777712_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
8d98ee2a-334b-11e6-be18-768ca20b69d5	3_182611025_CTC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	3	182611025	CT	C	300	PASS	ATP11B	Del	intronic	1	9	FANCC	child	3_182611025_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
8da4ccd8-328b-11e6-8256-94c36f39e758	17_2370083_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	2370083	AT	A	480	PASS	METTL16	Del	intronic	1	9	MSH6	child	17_2370083_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
8db152ec-3276-11e6-998e-ba48fa52e078	8_57726406_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	57726406	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	8_57726406_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
8dba6ef6-328d-11e6-ad75-54ab4430f757	17_69521149_TACT	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	17	69521149	TAC	T	300	PASS	-	Del	-	2	3	POLE	child	17_69521149_TACT_POLE	2	2	2	AC	2	AC	Repeat-mediated
8dbc4fc4-3322-11e6-a947-acb5cde16804	15_95383200_CAC	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	15	95383200	CA	C	360	PASS	-	Del	-	1	8	POLE	child	15_95383200_CAC_POLE	1	1	1	A	7	A	Repeat-mediated
8dca9e16-3288-11e6-b242-94e95d753391	1_64737901_ATACTTCTTTTTTATCTTA	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	1	64737901	ATACTTCTTTTTTATCTT	A	480	PASS	-	Del	-	17	1	POLE	child	1_64737901_ATACTTCTTTTTTATCTTA_POLE	17	>=10	2	TA	0	-	Microhomology-mediated
8dd34cb2-3271-11e6-be8c-25f524864c47	12_58380081_ATA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	12	58380081	AT	A	420	PASS	-	Del	-	1	5	CHK2	child	12_58380081_ATA_CHK2	1	1	1	T	4	T	Repeat-mediated
8dd6592e-326d-11e6-b306-b5204b47a305	2_81969021_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	81969021	GT	G	420	PASS	-	Del	-	1	9	MSH6	child	2_81969021_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
8ddd2bdc-328b-11e6-bd84-429305ad5bc4	1_8551088_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	8551088	GA	G	720	PASS	RERE	Del	intronic	1	6	MSH6	child	1_8551088_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
8de1f4d2-3286-11e6-8b67-086ea2c71c31	1_194340033_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	194340033	CA	C	480	PASS	-	Del	-	1	8	MSH6	child	1_194340033_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
8de5dd96-3325-11e6-9f5d-eba78a20d9eb	8_24781217_CTC	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	8	24781217	CT	C	480	PASS	NEFM	Del	downstream	1	8	EXO1	child	8_24781217_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
8de86030-3284-11e6-a912-733e51c54cdd	13_56713855_GAG	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	13	56713855	GA	G	600	PASS	-	Del	-	1	8	EXO1	child	13_56713855_GAG_EXO1	1	1	1	A	7	A	Repeat-mediated
8deb5394-3284-11e6-870e-6af1bbe6aa09	19_9905874_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	9905874	CA	C	420	PASS	ZNF846	Del	upstream	1	9	MSH6	child	19_9905874_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
8df8fa54-328d-11e6-ae53-96c36f39e758	15_86584235_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	86584235	TA	T	480	PASS	-	Del	-	1	7	MSH6	child	15_86584235_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
8dfcecc8-3273-11e6-8f33-a6d9cde16804	11_106529629_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	106529629	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	11_106529629_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
8e075070-328a-11e6-8eee-76090e01a414	10_83601815_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	83601815	GA	G	360	PASS	-	Del	-	1	6	MSH6	child	10_83601815_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
8e1c150a-328a-11e6-9539-3490a178171f	3_70779973_ATA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	3	70779973	AT	A	360	PASS	-	Del	-	1	8	FANCC	child	3_70779973_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
8e2dca90-3279-11e6-a391-f6d67d6a9fc7	6_144247231_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	144247231	AT	A	420	PASS	ZC2HC1B	Del	intronic	1	9	MSH6	child	6_144247231_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
8e32980a-3296-11e6-bfe3-c11ec7271a47	2_23884047_CAC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	2	23884047	CA	C	382	PASS	KLHL29	Del	intronic	1	6	CHK2	child	2_23884047_CAC_CHK2	1	1	1	A	5	A	Repeat-mediated
8e340bfe-3273-11e6-8f33-a6d9cde16804	11_106664855_TACT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	106664855	TAC	T	360	PASS	GUCY1A2	Del	intronic	2	6	MSH6	child	11_106664855_TACT_MSH6	2	2	2	AC	5	AC	Repeat-mediated
8e392382-328c-11e6-bd84-429305ad5bc4	1_145791880_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	145791880	CA	C	272	PASS	GPR89A	Del	intronic	1	8	MSH6	child	1_145791880_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
8e393ea6-3270-11e6-a539-0e5542c4520d	7_112656793_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	112656793	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	7_112656793_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
8e3ca378-3272-11e6-a623-9985cdacbbbf	17_62194389_GTGAACCCGGGAGGCGGAGCTTGCAGTGAGCAGAGATCATGCCACTGCCCTCACTCCAGCCTCAACGACAGAGTGAGATTCCATCTCAAAAAATAAATAAATAATAAAAATTTTTAAAAAAATCAACAATGTGGCCAGGCGCAGTGGCTCATGCCTGTAACCCCAGCACTTTGGGAGGCCAAAGCAGGTGGATCACTTGAGGCCAGGAGTTTGAGACTCACCTGGGCAACATGGCGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCTGGGCGTATTGGCACATGGCTGTAATCCCAGCTACTCGGGAGGCTGAAGCACGAAAATCACTG	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	17	62194389	GTGAACCCGGGAGGCGGAGCTTGCAGTGAGCAGAGATCATGCCACTGCCCTCACTCCAGCCTCAACGACAGAGTGAGATTCCATCTCAAAAAATAAATAAATAATAAAAATTTTTAAAAAAATCAACAATGTGGCCAGGCGCAGTGGCTCATGCCTGTAACCCCAGCACTTTGGGAGGCCAAAGCAGGTGGATCACTTGAGGCCAGGAGTTTGAGACTCACCTGGGCAACATGGCGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCTGGGCGTATTGGCACATGGCTGTAATCCCAGCTACTCGGGAGGCTGAAGCACGAAAATCACT	G	326	PASS	ERN1	Del	intronic	331	1	NUDT1	child	17_62194389_GTGAACCCGGGAGGCGGAGCTTGCAGTGAGCAGAGATCATGCCACTGCCCTCACTCCAGCCTCAACGACAGAGTGAGATTCCATCTCAAAAAATAAATAAATAATAAAAATTTTTAAAAAAATCAACAATGTGGCCAGGCGCAGTGGCTCATGCCTGTAACCCCAGCACTTTGGGAGGCCAAAGCAGGTGGATCACTTGAGGCCAGGAGTTTGAGACTCACCTGGGCAACATGGCGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCTGGGCGTATTGGCACATGGCTGTAATCCCAGCTACTCGGGAGGCTGAAGCACGAAAATCACTG_NUDT1	331	>=10	18	TGAACCCGGGAGGCGGAG	0	-	Microhomology-mediated
8e3d5978-328e-11e6-b4fe-93c36f39e758	12_41703742_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	41703742	A	AT	300	PASS	PDZRN4	Ins	intronic	1	9	MSH6	child	12_41703742_AAT_MSH6	1	1	-	-	-	-	Ins
8e4405f4-325a-11e6-8340-da9012ae24cf	6_146158017_GCTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	146158017	GCT	G	540	PASS	-	Del	-	2	3	MSH6	child	6_146158017_GCTG_MSH6	2	2	2	CT	2	CT	Repeat-mediated
8e4901d8-328e-11e6-9d41-3ba5e7d0bdd7	11_74458108_CTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	11	74458108	CT	C	600	PASS	RNF169	Del	upstream	1	7	FANCC	child	11_74458108_CTC_FANCC	1	1	1	T	6	T	Repeat-mediated
8e4b9752-3272-11e6-b332-88ba7d6a9fc7	15_24851285_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	24851285	CA	C	840	PASS	PWRN1	Del	intronic	1	5	MSH6	child	15_24851285_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
8e4d0ea2-3281-11e6-9f44-a22236fc2f7d	18_69567813_TAT	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	18	69567813	TA	T	360	PASS	RP11-736G13.1	Del	intronic	1	7	NUDT1	child	18_69567813_TAT_NUDT1	1	1	1	A	6	A	Repeat-mediated
8e55452a-3288-11e6-8404-8e1fbce6aa09	8_141375843_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	141375843	AT	A	900	PASS	TRAPPC9	Del	intronic	1	6	MSH6	child	8_141375843_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
8e6cee0a-329c-11e6-a5cf-e5abcc638e3d	9_21418408_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	21418408	CA	C	540	PASS	-	Del	-	1	5	MSH6	child	9_21418408_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
8e73b598-3281-11e6-8857-3d859cdf095d	18_66937063_CAC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	18	66937063	CA	C	300	PASS	-	Del	-	1	4	POLE	child	18_66937063_CAC_POLE	1	1	1	A	3	A	Repeat-mediated
8e8a669a-328f-11e6-9432-c0e56f39e758	5_66268255_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	66268255	GT	G	600	PASS	MAST4	Del	intronic	1	7	MSH6	child	5_66268255_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
8e8e7e2c-328c-11e6-bec1-ca1d0e01a414	X_16755507_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	16755507	CA	C	420	PASS	SYAP1	Del	intronic	1	9	MSH6	child	X_16755507_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
8e90a4a2-329d-11e6-bc66-17b4cc638e3d	8_8152639_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	8152639	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	8_8152639_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
8ea1b890-3280-11e6-ab79-75e41da8ec0e	18_1137045_TAT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	18	1137045	TA	T	480	PASS	RP11-78F17.1	Del	intronic	1	4	EXO1	child	18_1137045_TAT_EXO1	1	1	1	A	3	A	Repeat-mediated
8ea62e9c-3259-11e6-8cd9-139b7872c165	3_158120046_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	158120046	GT	G	600	PASS	RSRC1	Del	intronic	1	6	MSH6	child	3_158120046_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
8ea73ba8-328f-11e6-bb1e-70e16f39e758	X_96600330_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	96600330	TA	T	1020	PASS	DIAPH2	Del	intronic	1	7	MSH6	child	X_96600330_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
8eab7004-326e-11e6-acc7-e55219a91649	1_179910255_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	179910255	CA	C	300	PASS	RP11-533E19.2	Del	intronic	1	8	MSH6	child	1_179910255_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
8eae7716-3289-11e6-821d-8c090e01a414	13_35354851_ACA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	35354851	AC	A	420	PASS	-	Del	-	1	3	MSH6	child	13_35354851_ACA_MSH6	1	1	1	C	2	C	Repeat-mediated
8eafc2ae-3254-11e6-a03d-40f212ae24cf	18_70454476_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	18	70454476	CA	C	480	PASS	NETO1	Del	intronic	1	6	MSH6	child	18_70454476_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
8eb622ea-3257-11e6-91d3-a68412ae24cf	7_77190731_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	77190731	GA	G	480	PASS	PTPN12	Del	intronic	1	5	MSH6	child	7_77190731_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
8eb967a6-329e-11e6-bc2c-2a5e25c9da85	4_107342121_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	107342121	AT	A	960	PASS	-	Del	-	1	5	MSH6	child	4_107342121_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
8ed1ea10-3271-11e6-abaf-4642cab49462	6_5986957_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	5986957	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	6_5986957_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
8ed30254-3287-11e6-95fb-1402b5d65427	10_93186607_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	10	93186607	AT	A	736	PASS	HECTD2	Del	intronic	1	9	NUDT1	parent	10_93186607_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
8ed51588-3289-11e6-aff5-85090e01a414	16_15985713_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	15985713	TA	T	420	PASS	FOPNL	Del	upstream	1	9	MSH6	child	16_15985713_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
8ed95740-328b-11e6-b4fe-93c36f39e758	12_3051782_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	3051782	GA	G	780	PASS	TULP3	Del	downstream	1	8	MSH6	child	12_3051782_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
8edef432-3292-11e6-887e-75dad8b4fa2c	13_115019835_CTC	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	13	115019835	CT	C	660	PASS	CDC16	Del	intronic	1	7	NUDT1	child	13_115019835_CTC_NUDT1	1	1	1	T	6	T	Repeat-mediated
8edff6b8-326d-11e6-9003-ae204b47a305	19_44314795_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	44314795	CT	C	420	PASS	LYPD5	Del	intronic	1	8	MSH6	child	19_44314795_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
8ee965c8-328f-11e6-bb1e-70e16f39e758	X_96713752_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	96713752	TA	T	420	PASS	DIAPH2	Del	intronic	1	8	MSH6	child	X_96713752_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
8eea5b9e-3254-11e6-a304-347a7872c165	1_60874025_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	60874025	AT	A	420	PASS	-	Del	-	1	5	MSH6	child	1_60874025_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
8eeb74a8-3258-11e6-a39a-dc8512ae24cf	8_51269222_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	51269222	CT	C	420	PASS	SNTG1	Del	intronic	1	7	MSH6	child	8_51269222_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
8eefbfb4-3270-11e6-a539-0e5542c4520d	7_112895580_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	112895580	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	7_112895580_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
8ef24144-3252-11e6-b895-bae612ae24cf	2_69495309_TAT	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	2	69495309	TA	T	300	PASS	-	Del	-	1	8	POLB	child	2_69495309_TAT_POLB	1	1	1	A	7	A	Repeat-mediated
8f00c372-3275-11e6-9e4c-96041ea8ec0e	5_125120263_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	5	125120263	AT	A	660	PASS	-	Del	-	1	6	FANCC	child	5_125120263_ATA_FANCC	1	1	1	T	5	T	Repeat-mediated
8f02118e-3273-11e6-bfb2-2749c225ee11	12_81324130_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	81324130	CT	C	960	PASS	LIN7A	Del	intronic	1	9	MSH6	child	12_81324130_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
8f0743c4-328d-11e6-ae53-96c36f39e758	15_86729425_CGC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	86729425	CG	C	540	PASS	AGBL1	Del	intronic	1	4	MSH6	child	15_86729425_CGC_MSH6	1	1	1	G	3	G	Repeat-mediated
8f079864-3284-11e6-9d58-b7936f39e758	17_50696403_GTG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	17	50696403	GT	G	300	PASS	-	Del	-	1	9	EXO1	child	17_50696403_GTG_EXO1	1	1	1	T	8	T	Repeat-mediated
8f1288f0-329d-11e6-91d0-016425c9da85	7_6090400_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	6090400	AT	A	400	PASS	EIF2AK1	Del	intronic	1	7	MSH6	child	7_6090400_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
8f16bcca-328b-11e6-b910-5ccc977b3f23	17_11433584_CCAC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	17	11433584	CCA	C	480	PASS	SHISA6	Del	intronic	2	8	NEIL1	child	17_11433584_CCAC_NEIL1	2	2	2	CA	7	CA	Repeat-mediated
8f21ff0e-3277-11e6-92d2-c259c225ee11	3_87684412_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	87684412	TA	T	660	PASS	-	Del	-	1	6	MSH6	child	3_87684412_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
8f24c778-3288-11e6-a5b3-3f1ebce6aa09	7_34955750_GGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	34955750	G	GA	370	PASS	-	Ins	-	1	8	MSH6	child	7_34955750_GGA_MSH6	1	1	-	-	-	-	Ins
8f24deea-3286-11e6-a5b3-3f1ebce6aa09	7_10269537_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	10269537	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	7_10269537_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
8f258946-3284-11e6-821e-69f1bbe6aa09	16_17921872_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	17921872	GA	G	420	PASS	CTD-3229J4.1	Del	downstream	1	8	MSH6	child	16_17921872_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
8f30b866-329d-11e6-bc2c-2a5e25c9da85	4_42460512_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	42460512	TA	T	540	PASS	ATP8A1	Del	intronic	1	9	MSH6	child	4_42460512_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
8f344088-3290-11e6-9d24-ade56f39e758	7_129457598_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	129457598	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	7_129457598_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
8f4429c8-329d-11e6-ae71-0c5325c9da85	1_215234848_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	215234848	GA	G	480	PASS	KCNK2	Del	intronic	1	8	MSH6	child	1_215234848_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
8f47c75e-3284-11e6-888b-2d6e0d016689	18_5964636_GGA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	18	5964636	G	GA	360	PASS	L3MBTL4	Ins	intronic	1	1	EXO1	child	18_5964636_GGA_EXO1	1	1	-	-	-	-	Ins
8f49230e-3277-11e6-8c34-46e27872c165	5_154876579_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	154876579	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	5_154876579_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
8f4d65ea-328b-11e6-a8ff-fbcd191589db	11_27536918_TTA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	11	27536918	T	TA	360	PASS	-	Ins	-	1	7	FANCC	child	11_27536918_TTA_FANCC	1	1	-	-	-	-	Ins
8f588d94-3272-11e6-abaf-4642cab49462	6_67013243_AATTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	67013243	AATT	A	360	PASS	-	Del	-	3	3	MSH6	child	6_67013243_AATTA_MSH6	3	3	3	ATT	2	ATT	Repeat-mediated
8f60850c-3287-11e6-a284-4b89a2c71c31	4_91668635_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	91668635	GA	G	539	PASS	CCSER1	Del	intronic	1	9	MSH6	child	4_91668635_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
8f61e9a6-3273-11e6-aafd-c7dee9d19ece	2_200654219_GAG	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	2	200654219	GA	G	300	PASS	-	Del	-	1	5	CHK2	child	2_200654219_GAG_CHK2	1	1	1	A	4	A	Repeat-mediated
8f62b9e2-3293-11e6-9280-9ce5d0959d89	11_118012749_CTAACTTC	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	11	118012749	CTAACTT	C	540	PASS	SCN4B	Del	intronic	6	1	POLB	child	11_118012749_CTAACTTC_POLB	6	6	3	TAA	0	-	Microhomology-mediated
8f6f29ba-328a-11e6-9c89-8d090e01a414	1_68545485_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	68545485	CT	C	780	PASS	-	Del	-	1	9	MSH6	child	1_68545485_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
8f799710-3271-11e6-8418-1c5942c4520d	3_151432450_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	151432450	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	3_151432450_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
8f7baaba-3289-11e6-821d-8c090e01a414	13_35519090_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	35519090	GT	G	540	PASS	NBEA	Del	intronic	1	6	MSH6	child	13_35519090_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
8f90a48a-328c-11e6-abc8-b5d7faf1a024	8_16076301_CTC	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	8	16076301	CT	C	360	PASS	MSR1	Del	upstream	1	9	POLM	child	8_16076301_CTC_POLM	1	1	1	T	8	T	Repeat-mediated
8f98e5d6-3283-11e6-9607-56b01ac527ab	4_94723530_AGTA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	4	94723530	AGT	A	480	PASS	-	Del	-	2	7	FANCC	child	4_94723530_AGTA_FANCC	2	2	2	GT	6	GT	Repeat-mediated
8f9d8050-328d-11e6-bfa2-581f0e01a414	7_55925681_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	55925681	GA	G	760	PASS	SEPT14	Del	intronic	1	9	MSH6	child	7_55925681_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
8fa18d82-3290-11e6-9432-c0e56f39e758	5_138907152_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	138907152	TA	T	840	PASS	UBE2D2	Del	intronic	1	7	MSH6	child	5_138907152_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
8fb6fa5a-328b-11e6-aa75-90c36f39e758	13_22151160_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	22151160	TA	T	540	PASS	MICU2	Del	intronic	1	6	MSH6	child	13_22151160_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
8fc88ed8-3285-11e6-be43-0a6ea2c71c31	10_99753621_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	99753621	CT	C	720	PASS	CRTAC1	Del	intronic	1	9	MSH6	child	10_99753621_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
8fcf34da-3326-11e6-91f6-970e147bb207	6_37784871_GCTG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	6	37784871	GCT	G	300	PASS	ZFAND3	Del	upstream	2	3	EXO1	child	6_37784871_GCTG_EXO1	2	2	2	CT	2	CT	Repeat-mediated
8fd41446-328b-11e6-aa75-90c36f39e758	13_22163753_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	22163753	CT	C	480	PASS	MICU2	Del	intronic	1	5	MSH6	child	13_22163753_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
8fd4bc3e-3290-11e6-b81f-4ee66f39e758	8_55222698_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	55222698	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	8_55222698_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
8fd562dc-329b-11e6-b549-1e5325c9da85	10_102356902_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	102356902	GT	G	660	PASS	-	Del	-	1	9	MSH6	child	10_102356902_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
8fdae9ba-3272-11e6-8418-1c5942c4520d	3_39344967_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	39344967	C	CA	360	PASS	-	Ins	-	1	9	MSH6	child	3_39344967_CCA_MSH6	1	1	-	-	-	-	Ins
8fdc0b9e-328e-11e6-92db-6c56f0f7a29c	1_15996705_ACCTA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	1	15996705	ACCT	A	360	PASS	DDI2	Del	downstream	3	1	NEIL1	child	1_15996705_ACCTA_NEIL1	3	3	1	C	0	-	Microhomology-mediated
8fdca99c-329c-11e6-aca6-b39fcc638e3d	2_181092231_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	181092231	TA	T	480	PASS	-	Del	-	1	9	MSH6	child	2_181092231_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
8fe12242-328d-11e6-8d77-b5d8191589db	7_105469900_AAAACA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	7	105469900	AAAAC	A	600	PASS	ATXN7L1	Del	intronic	4	3	FANCC	child	7_105469900_AAAACA_FANCC	4	4	4	AAAC	2	AAAC	Repeat-mediated
8fec8e9a-328b-11e6-b43c-7ec36f39e758	16_3567041_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	3567041	TA	T	540	PASS	CLUAP1	Del	intronic	1	7	MSH6	child	16_3567041_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
8feec946-329d-11e6-bc2c-2a5e25c9da85	4_42602698_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	42602698	CA	C	300	PASS	ATP8A1	Del	intronic	1	5	MSH6	child	4_42602698_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
8ff673dc-3291-11e6-bb4c-05a29b6d3b88	3_86862807_CTTAC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	3	86862807	CTTA	C	480	PASS	-	Del	-	3	2	POLB	child	3_86862807_CTTAC_POLB	3	3	3	TTA	1	TTA	Repeat-mediated
90047e08-3289-11e6-8459-82090e01a414	12_16994402_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	16994402	CA	C	900	PASS	-	Del	-	1	8	MSH6	child	12_16994402_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
90049fb0-329c-11e6-a5cf-e5abcc638e3d	9_22067716_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	22067716	CT	C	720	PASS	-	Del	-	1	8	MSH6	child	9_22067716_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
90096e5c-3277-11e6-a71d-236235cec73b	X_123982577_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	123982577	TA	T	720	PASS	TENM1	Del	intronic	1	9	MSH6	child	X_123982577_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
900a5dc2-328f-11e6-8954-6972fc77b11e	4_71994398_GTG	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	4	71994398	GT	G	480	PASS	-	Del	-	1	4	POLE	child	4_71994398_GTG_POLE	1	1	1	T	3	T	Repeat-mediated
90169b44-328c-11e6-b2c7-5ecc977b3f23	2_84849397_CTC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	2	84849397	CT	C	660	PASS	DNAH6	Del	intronic	1	7	NEIL1	child	2_84849397_CTC_NEIL1	1	1	1	T	6	T	Repeat-mediated
90184e16-328d-11e6-b805-77090e01a414	2_25233788_CCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	25233788	C	CT	300	PASS	-	Ins	-	1	7	MSH6	child	2_25233788_CCT_MSH6	1	1	-	-	-	-	Ins
90187a9a-3296-11e6-bce0-be1ec7271a47	18_21117055_CAGC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	18	21117055	CAG	C	300	PASS	NPC1	Del	intronic	2	2	CHK2	child	18_21117055_CAGC_CHK2	2	2	2	AG	1	AG	Repeat-mediated
90270408-3321-11e6-ba78-2321f46126f1	19_40534170_ATA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	19	40534170	AT	A	300	PASS	ZNF780B	Del	3prime_UTR_variant	1	9	POLE	child	19_40534170_ATA_POLE	1	1	1	T	8	T	Repeat-mediated
90315812-328c-11e6-92c7-35ab4430f757	15_23977822_ATA	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	15	23977822	AT	A	540	PASS	-	Del	-	1	7	POLE	child	15_23977822_ATA_POLE	1	1	1	T	6	T	Repeat-mediated
90412fe4-3287-11e6-b093-c9c7b0dab373	2_7316708_CCA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	7316708	C	CA	300	PASS	-	Ins	-	1	5	MSH6	child	2_7316708_CCA_MSH6	1	1	-	-	-	-	Ins
904264e4-3274-11e6-a5d0-4fd14a47a305	2_191472846_TCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	191472846	TC	T	600	PASS	-	Del	-	1	5	MSH6	child	2_191472846_TCT_MSH6	1	1	1	C	4	C	Repeat-mediated
9043ee38-328b-11e6-9996-bebd38e8a824	X_92114342_GAG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	X	92114342	GA	G	381	PASS	-	Del	-	1	9	NUDT1	parent	X_92114342_GAG_NUDT1	1	1	1	A	8	A	Repeat-mediated
904572ee-3295-11e6-b7af-6ffe6ca5563b	5_145967402_TAT	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	5	145967402	TA	T	660	PASS	PPP2R2B	Del	downstream	1	7	POLB	child	5_145967402_TAT_POLB	1	1	1	A	6	A	Repeat-mediated
904998ae-328d-11e6-9a04-1f6bfc77b11e	12_79463601_ATA	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	12	79463601	AT	A	300	PASS	SYT1	Del	intronic	1	5	POLE	child	12_79463601_ATA_POLE	1	1	1	T	4	T	Repeat-mediated
904f4532-3275-11e6-868e-6b89c042253c	12_19637020_GGT	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	12	19637020	G	GT	420	PASS	AEBP2	Ins	intronic	1	5	CHK2	child	12_19637020_GGT_CHK2	1	1	-	-	-	-	Ins
9062bae2-328c-11e6-ac7a-a3c36f39e758	18_68934921_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	68934921	TA	T	480	PASS	-	Del	-	1	7	MSH6	child	18_68934921_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
906558b2-328a-11e6-94b1-74090e01a414	17_65024172_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	65024172	TA	T	360	PASS	CACNG4	Del	intronic	1	9	MSH6	child	17_65024172_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
9065b638-3292-11e6-b77d-2eef6f39e758	6_143741757_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	143741757	GA	G	420	PASS	ADAT2	Del	downstream	1	7	MSH6	child	6_143741757_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
906be078-328b-11e6-9c89-8d090e01a414	1_145083594_TCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	145083594	TC	T	720	PASS	-	Del	-	1	4	MSH6	child	1_145083594_TCT_MSH6	1	1	1	C	3	C	Repeat-mediated
906c86b0-328e-11e6-ae83-5ae3191589db	6_47055661_GAG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	6	47055661	GA	G	420	PASS	-	Del	-	1	9	FANCC	child	6_47055661_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
906fd0fc-329a-11e6-9048-b49fcc638e3d	17_30641395_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	30641395	CT	C	600	PASS	RHBDL3	Del	intronic	1	8	MSH6	child	17_30641395_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
9085df6c-3292-11e6-9420-3d48a178171f	19_5955856_CAC	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	19	5955856	CA	C	480	PASS	RANBP3	Del	intronic	1	2	POLB	child	19_5955856_CAC_POLB	1	1	1	A	1	A	Repeat-mediated
908eb0c2-3253-11e6-bc65-c9667872c165	13_22682805_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	22682805	AT	A	540	PASS	-	Del	-	1	7	MSH6	child	13_22682805_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
90912c8a-328a-11e6-a80b-87090e01a414	11_77955053_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	77955053	CA	C	360	PASS	GAB2	Del	intronic	1	8	MSH6	child	11_77955053_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
90999c7c-3270-11e6-a539-0e5542c4520d	7_113622146_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	113622146	GA	G	300	PASS	-	Del	-	1	4	MSH6	child	7_113622146_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
90acf1ee-328b-11e6-8459-82090e01a414	12_130778351_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	130778351	AT	A	540	PASS	-	Del	-	1	7	MSH6	child	12_130778351_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
90ba3962-3277-11e6-92d2-c259c225ee11	3_88058649_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	88058649	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	3_88058649_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
90c0e572-3273-11e6-a8b6-76174530f757	12_50775579_TAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	12	50775579	TA	T	360	PASS	FAM186A	Del	intronic	1	6	EXO1	child	12_50775579_TAT_EXO1	1	1	1	A	5	A	Repeat-mediated
90c4a034-3275-11e6-83cd-a472a178171f	4_35569040_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	35569040	GA	G	660	PASS	-	Del	-	1	7	MSH6	child	4_35569040_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
90c4efaa-3278-11e6-a391-f6d67d6a9fc7	6_71283329_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	71283329	CT	C	540	PASS	C6orf57	Del	intronic	1	8	MSH6	child	6_71283329_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
90e507dc-328b-11e6-bd84-429305ad5bc4	1_9421603_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	9421603	AC	A	480	PASS	SPSB1	Del	intronic	1	7	MSH6	child	1_9421603_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
90e9fa8e-32a0-11e6-91d0-016425c9da85	7_17740510_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	17740510	A	AT	660	PASS	-	Ins	-	1	2	MSH6	child	7_17740510_AAT_MSH6	1	1	-	-	-	-	Ins
90ee2208-329b-11e6-9048-b49fcc638e3d	17_75095992_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	75095992	GT	G	780	PASS	SEC14L1	Del	intronic	1	9	MSH6	child	17_75095992_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
90f7cd06-328e-11e6-8490-d04c1087d53a	2_228824276_CATC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	2	228824276	CAT	C	300	PASS	-	Del	-	2	1	POLE	child	2_228824276_CATC_POLE	2	2	1	A	0	-	Microhomology-mediated
90f98e5c-329d-11e6-a5cf-e5abcc638e3d	9_104494750_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	104494750	TA	T	1020	PASS	GRIN3A	Del	intronic	1	4	MSH6	child	9_104494750_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
90fc486c-3271-11e6-9d19-c216987b3f23	21_41640496_CCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	21	41640496	C	CT	540	PASS	DSCAM	Ins	intronic	1	1	MSH6	child	21_41640496_CCT_MSH6	1	1	-	-	-	-	Ins
910c838a-328f-11e6-a0b5-40d57098ee92	3_84261451_TTA	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	3	84261451	T	TA	480	PASS	-	Ins	-	1	0	NUDT1	child	3_84261451_TTA_NUDT1	1	1	-	-	-	-	Ins
91105b50-3289-11e6-a284-4b89a2c71c31	4_79159500_AAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	79159500	A	AT	420	PASS	FRAS1	Ins	intronic	1	5	MSH6	child	4_79159500_AAT_MSH6	1	1	-	-	-	-	Ins
91194d38-3283-11e6-aa13-78428e4678dd	5_77607589_GAG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	5	77607589	GA	G	660	PASS	RNU6-183P	Del	downstream	1	9	EXO1	child	5_77607589_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
9122690c-3258-11e6-8cd9-139b7872c165	3_74844333_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	74844333	TA	T	712	PASS	-	Del	-	1	5	MSH6	child	3_74844333_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
91290e92-3276-11e6-bc24-bc6e3cfdbd24	6_27668153_TAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	6	27668153	TA	T	480	PASS	-	Del	-	1	9	MSH6	parent	6_27668153_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
912da352-3290-11e6-824e-0fb44430f757	7_89637334_CTC	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	7	89637334	CT	C	360	PASS	-	Del	-	1	2	POLE	child	7_89637334_CTC_POLE	1	1	1	T	1	T	Repeat-mediated
913140ba-3287-11e6-86e9-d4770d016689	X_23869087_TTTA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	X	23869087	T	TTA	540	PASS	APOO	Ins	intronic	2	5	EXO1	child	X_23869087_TTTA_EXO1	2	2	-	-	-	-	Ins
913c443a-328a-11e6-a19d-3c763adbad45	4_178589441_TAAT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	4	178589441	TAA	T	780	PASS	-	Del	-	2	4	NUDT1	parent	4_178589441_TAAT_NUDT1	2	2	2	AA	2	A	Repeat-mediated
9142f7cc-3270-11e6-9d19-c216987b3f23	21_22811066_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	21	22811066	CT	C	600	PASS	NCAM2	Del	intronic	1	9	MSH6	child	21_22811066_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
91462ab0-32a1-11e6-a04f-c66a25c9da85	6_149076998_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	149076998	AT	A	840	PASS	UST	Del	intronic	1	6	MSH6	child	6_149076998_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
914856a2-3286-11e6-83c9-bcc47d6a9fc7	20_4110630_TAT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	20	4110630	TA	T	420	PASS	-	Del	-	1	9	POLB	child	20_4110630_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
91528536-328c-11e6-8770-3e160e01a414	9_76268971_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	76268971	TA	T	360	PASS	-	Del	-	1	7	MSH6	child	9_76268971_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
915b7192-3295-11e6-b38a-97f8d8b4fa2c	4_85208938_TAT	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	4	85208938	TA	T	900	PASS	RP11-8L2.1	Del	intronic	1	9	NUDT1	child	4_85208938_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
916435fa-3274-11e6-af88-fed9cde16804	3_174531065_TAT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	3	174531065	TA	T	660	PASS	-	Del	-	1	8	NEIL1	child	3_174531065_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
91699c18-3254-11e6-81f9-42f212ae24cf	17_50313295_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	17	50313295	GA	G	720	PASS	-	Del	-	1	7	MSH6	child	17_50313295_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
9172e0e0-3293-11e6-92cf-bf2a0e01a414	6_137743961_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	137743961	T	TA	360	PASS	-	Ins	-	1	5	MSH6	child	6_137743961_TTA_MSH6	1	1	-	-	-	-	Ins
9182dc52-3275-11e6-a71d-236235cec73b	X_19944628_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	19944628	TA	T	300	PASS	CXorf23	Del	intronic	1	7	MSH6	child	X_19944628_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
9185b2d4-326f-11e6-bfba-13bf4a47a305	9_114829148_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	114829148	AT	A	480	PASS	SUSD1	Del	intronic	1	6	MSH6	child	9_114829148_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
9193726e-3276-11e6-83cd-a472a178171f	4_111408949_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	111408949	AT	A	660	PASS	ENPEP	Del	intronic	1	7	MSH6	child	4_111408949_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
91a449f0-328e-11e6-919e-92c36f39e758	2_205919616_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	205919616	GT	G	480	PASS	PARD3B	Del	intronic	1	8	MSH6	child	2_205919616_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
91a89640-3347-11e6-b0ff-c495e84777f6	10_55937827_AGGGTGATAATTGATTAATAATAAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	10	55937827	AGGGTGATAATTG	ATTAATAATAAT	480	PASS	PCDH15	Complex	intronic	12	0	FANCC	child	10_55937827_AGGGTGATAATTGATTAATAATAAT_FANCC	1	1	-	-	-	-	Complex
91acf184-326d-11e6-b9f4-5d1d694da5d2	14_83954953_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	83954953	TA	T	480	PASS	-	Del	-	1	9	MSH6	child	14_83954953_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
91aed296-328c-11e6-9c89-8d090e01a414	1_197668062_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	197668062	CA	C	300	PASS	DENND1B	Del	intronic	1	7	MSH6	child	1_197668062_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
91b5806e-3278-11e6-b10b-af9a12ae24cf	20_10801992_AAACCATA	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	20	10801992	AAACCAT	A	360	PASS	-	Del	-	6	1	NEIL1	child	20_10801992_AAACCATA_NEIL1	6	6	2	AA	0	-	Microhomology-mediated
91b5abd0-332b-11e6-91f6-970e147bb207	6_170674810_CCA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	6	170674810	C	CA	300	PASS	FAM120B	Ins	intronic	1	1	EXO1	child	6_170674810_CCA_EXO1	1	1	-	-	-	-	Ins
91b629c8-3292-11e6-b81f-4ee66f39e758	8_37596535_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	37596535	G	GT	540	PASS	ERLIN2	Ins	intronic	1	9	MSH6	child	8_37596535_GGT_MSH6	1	1	-	-	-	-	Ins
91c16fd0-3257-11e6-885f-d1947872c165	4_100446794_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	100446794	CA	C	360	PASS	C4orf17	Del	intronic	1	8	MSH6	child	4_100446794_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
91cf4422-3287-11e6-b093-c9c7b0dab373	2_8006557_AAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	8006557	A	AT	420	PASS	-	Ins	-	1	6	MSH6	child	2_8006557_AAT_MSH6	1	1	-	-	-	-	Ins
91d31f3c-3284-11e6-a8af-066ea2c71c31	15_31112761_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	31112761	AT	A	600	PASS	-	Del	-	1	9	MSH6	child	15_31112761_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
91df2402-3271-11e6-abaf-4642cab49462	6_6750756_TAAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	6750756	TAA	T	420	PASS	-	Del	-	2	4	MSH6	child	6_6750756_TAAT_MSH6	2	2	2	AA	2	A	Repeat-mediated
91ead01a-334b-11e6-8b31-52813cfdbd24	7_3210904_TTA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	7	3210904	T	TA	300	PASS	-	Ins	-	1	3	FANCC	child	7_3210904_TTA_FANCC	1	1	-	-	-	-	Ins
91eff07e-329f-11e6-bc2c-2a5e25c9da85	4_170781935_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	170781935	TA	T	600	PASS	-	Del	-	1	6	MSH6	child	4_170781935_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
91f1ed96-329c-11e6-a5cf-e5abcc638e3d	9_22440134_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	22440134	CA	C	600	PASS	-	Del	-	1	8	MSH6	child	9_22440134_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
91f4d8e2-3285-11e6-99f7-076ea2c71c31	12_101201222_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	101201222	AT	A	300	PASS	ANO4	Del	intronic	1	8	MSH6	child	12_101201222_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
91fe0758-328c-11e6-a0b5-40d57098ee92	3_16385997_CCTTC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	3	16385997	CCTT	C	540	PASS	RFTN1	Del	intronic	3	2	NUDT1	child	3_16385997_CCTTC_NUDT1	3	3	3	CTT	1	CTT	Repeat-mediated
9204269e-3325-11e6-841a-c49690e2c2e6	6_56434176_GAG	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	6	56434176	GA	G	540	PASS	DST	Del	intronic	1	8	POLE	child	6_56434176_GAG_POLE	1	1	1	A	7	A	Repeat-mediated
92092788-3290-11e6-9230-fb250e01a414	3_174858321_ACA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	174858321	AC	A	420	PASS	NAALADL2	Del	intronic	1	1	MSH6	child	3_174858321_ACA_MSH6	1	1	0	-	0	C	None
920b1b2a-3285-11e6-9546-b5936f39e758	15_81554111_GAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	15	81554111	GA	G	720	PASS	IL16	Del	intronic	1	9	EXO1	child	15_81554111_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
920eab70-3292-11e6-9d24-ade56f39e758	7_100172384_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	100172384	C	CA	420	PASS	LRCH4	Ins	3prime_UTR_variant	1	1	MSH6	child	7_100172384_CCA_MSH6	1	1	-	-	-	-	Ins
9215c51e-328c-11e6-8f4b-33ab4430f757	13_29659917_CTC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	13	29659917	CT	C	480	PASS	MTUS2	Del	intronic	1	7	POLE	child	13_29659917_CTC_POLE	1	1	1	T	6	T	Repeat-mediated
921df9c6-327f-11e6-94df-1cfc028949d4	14_24220869_CAC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	14	24220869	CA	C	300	PASS	-	Del	-	1	8	POLM	child	14_24220869_CAC_POLM	1	1	1	A	7	A	Repeat-mediated
92202052-329d-11e6-a5cf-e5abcc638e3d	9_104969836_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	104969836	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	9_104969836_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
92287e9a-3320-11e6-84e3-a2cceab8d062	2_63978794_TCTCT	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	2	63978794	TCTC	T	1020	PASS	-	Del	-	3	1	CHK2	parent	2_63978794_TCTCT_CHK2	3	3	2	CT	0	-	Microhomology-mediated
922f8da6-326d-11e6-92dd-fda8977b3f23	10_75911857_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	75911857	AT	A	360	PASS	AP3M1	Del	upstream	1	9	MSH6	child	10_75911857_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
9232b588-3292-11e6-b3a9-d5afe7d0bdd7	4_30683429_GGA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	4	30683429	G	GA	300	PASS	-	Ins	-	1	7	FANCC	child	4_30683429_GGA_FANCC	1	1	-	-	-	-	Ins
923ad65e-3289-11e6-8459-82090e01a414	12_17744157_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	17744157	CT	C	420	PASS	RP11-871F6.3	Del	upstream	1	7	MSH6	child	12_17744157_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
923af950-326f-11e6-b5b8-e0c24a47a305	X_52070061_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	52070061	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	X_52070061_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
923b5952-3258-11e6-8cd9-139b7872c165	3_75356051_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	75356051	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	3_75356051_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
9241cc48-3284-11e6-99f7-076ea2c71c31	12_16557794_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	16557794	AT	A	540	PASS	-	Del	-	1	6	MSH6	child	12_16557794_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
9246c79e-32a1-11e6-bc2c-2a5e25c9da85	4_101732127_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	101732127	G	GA	660	PASS	-	Ins	-	1	8	MSH6	child	4_101732127_GGA_MSH6	1	1	-	-	-	-	Ins
92482da8-3299-11e6-8de1-2d9afaf1a024	7_100009752_AGA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	7	100009752	AG	A	480	PASS	ZCWPW1	Del	intronic	1	4	CHK2	child	7_100009752_AGA_CHK2	1	1	1	G	3	G	Repeat-mediated
924a6fdc-3258-11e6-8cd9-139b7872c165	3_75364831_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	75364831	CT	C	720	PASS	-	Del	-	1	8	MSH6	child	3_75364831_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
9252116e-3290-11e6-bc00-90df977b3f23	X_137972642_CAC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	X	137972642	CA	C	600	PASS	FGF13	Del	intronic	1	9	NEIL1	child	X_137972642_CAC_NEIL1	1	1	1	A	8	A	Repeat-mediated
92560dd2-3286-11e6-bc08-5710147bb207	3_117920810_GAG	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	3	117920810	GA	G	300	PASS	RP11-384F7.1	Del	intronic	1	2	FANCC	child	3_117920810_GAG_FANCC	1	1	1	A	1	A	Repeat-mediated
925c31a0-3275-11e6-83cd-a472a178171f	4_36230061_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	36230061	CT	C	540	PASS	ARAP2	Del	intronic	1	9	MSH6	child	4_36230061_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
92676fec-3280-11e6-af96-5cfe684da5d2	13_107057823_CCTTCT	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	13	107057823	C	CTTCT	420	PASS	-	Ins	-	4	0	NEIL1	child	13_107057823_CCTTCT_NEIL1	4	4	-	-	-	-	Ins
92877530-3294-11e6-a5e0-15ac3adbad45	1_223057218_CAC	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	1	223057218	CA	C	360	PASS	-	Del	-	1	5	NEIL1	child	1_223057218_CAC_NEIL1	1	1	1	A	4	A	Repeat-mediated
9291fb82-3284-11e6-a8af-066ea2c71c31	15_31339919_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	31339919	TA	T	420	PASS	TRPM1	Del	intronic	1	6	MSH6	child	15_31339919_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
92923046-3277-11e6-a862-bc9becf1e924	1_83378136_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	83378136	A	AT	540	PASS	RP4-601K24.1	Ins	intronic	1	5	MSH6	child	1_83378136_AAT_MSH6	1	1	-	-	-	-	Ins
9294129c-3328-11e6-bff4-e70b694da5d2	3_171838357_TGT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	3	171838357	TG	T	660	PASS	FNDC3B	Del	intronic	1	9	EXO1	child	3_171838357_TGT_EXO1	1	1	1	G	8	G	Repeat-mediated
92945f24-3286-11e6-bb85-03a66f39e758	4_13091897_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	4	13091897	TA	T	420	PASS	-	Del	-	1	6	EXO1	child	4_13091897_TAT_EXO1	1	1	1	A	5	A	Repeat-mediated
92957b9a-3284-11e6-a912-733e51c54cdd	13_58013769_GAG	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	13	58013769	GA	G	540	PASS	-	Del	-	1	9	EXO1	child	13_58013769_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
929592f8-3291-11e6-ab3c-d6e1eff7a29c	21_34714716_CAC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	21	34714716	CA	C	425	PASS	IFNAR1	Del	intronic	1	8	NEIL1	child	21_34714716_CAC_NEIL1	1	1	1	A	7	A	Repeat-mediated
929855d8-3273-11e6-826a-adb6fa52e078	17_70055548_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	17	70055548	GA	G	420	PASS	SOX9-AS1	Del	intronic	1	9	MSH6	child	17_70055548_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
929ae204-329a-11e6-bda6-065325c9da85	13_63130375_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	63130375	CA	C	660	PASS	-	Del	-	1	8	MSH6	child	13_63130375_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
92acc118-3272-11e6-abaf-4642cab49462	6_67667652_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	67667652	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	6_67667652_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
92ad9dba-3289-11e6-9b74-edcd191589db	10_37649083_TAT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	10	37649083	TA	T	300	PASS	ANKRD30A	Del	intronic	1	8	FANCC	child	10_37649083_TAT_FANCC	1	1	1	A	7	A	Repeat-mediated
92b1f3a2-3346-11e6-bb83-9c61147bb207	14_97468222_CTC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	14	97468222	CT	C	360	PASS	-	Del	-	1	9	FANCC	child	14_97468222_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
92bb42a8-329d-11e6-94ca-0aaecc638e3d	X_54140851_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	54140851	GT	G	480	PASS	FAM120C	Del	intronic	1	9	MSH6	child	X_54140851_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
92c5366e-3324-11e6-aa06-7ca120e7b7a8	7_67768791_CATAGC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	7	67768791	CATAG	C	540	PASS	-	Del	-	4	3	CHK2	child	7_67768791_CATAGC_CHK2	4	4	4	ATAG	2	ATAG	Repeat-mediated
92c5f62e-328b-11e6-aa75-90c36f39e758	13_22889010_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	22889010	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	13_22889010_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
92ca73c0-3290-11e6-9230-fb250e01a414	3_175082498_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	175082498	CT	C	300	PASS	NAALADL2	Del	intronic	1	8	MSH6	child	3_175082498_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
92cfcdf2-329f-11e6-aea7-956725c9da85	3_68032453_TCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	68032453	TC	T	360	PASS	-	Del	-	1	1	MSH6	child	3_68032453_TCT_MSH6	1	1	0	-	0	C	None
92d286cc-325a-11e6-971b-98a02aaffa45	5_167537212_TTA	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	5	167537212	T	TA	540	PASS	TENM2	Ins	intronic	1	1	POLM	child	5_167537212_TTA_POLM	1	1	-	-	-	-	Ins
92d30afa-328e-11e6-bc12-79ae12ae24cf	8_117128475_CAC	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	8	117128475	CA	C	360	PASS	LINC00536	Del	intronic	1	8	CHK2	child	8_117128475_CAC_CHK2	1	1	1	A	7	A	Repeat-mediated
92e639ac-328b-11e6-a2c2-fa8aa178171f	8_130874734_TGAT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	8	130874734	TGA	T	300	PASS	FAM49B	Del	intronic	2	3	FANCC	child	8_130874734_TGAT_FANCC	2	2	2	GA	2	GA	Repeat-mediated
92eadadc-326f-11e6-8a6f-43b190e2c2e6	11_37270062_GTG	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	11	37270062	GT	G	420	PASS	-	Del	-	1	9	POLB	child	11_37270062_GTG_POLB	1	1	1	T	8	T	Repeat-mediated
92ed19c6-3276-11e6-9e0f-7959cab49462	7_73995350_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	73995350	TG	T	420	PASS	GTF2IRD1	Del	intronic	1	8	MSH6	child	7_73995350_TGT_MSH6	1	1	1	G	7	G	Repeat-mediated
92f1bbb4-3287-11e6-9bc8-5079a178171f	15_84485401_TAT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	15	84485401	TA	T	900	PASS	ADAMTSL3	Del	intronic	1	2	FANCC	child	15_84485401_TAT_FANCC	1	1	1	A	1	A	Repeat-mediated
92f4e5d2-3273-11e6-8f10-bfc27872c165	4_177256206_CTC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	4	177256206	CT	C	360	PASS	SPCS3	Del	downstream	1	9	EXO1	parent	4_177256206_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
92f5e12a-327e-11e6-97a4-78cfaa716c52	5_20193096_GAG	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	5	20193096	GA	G	540	PASS	CDH18	Del	intronic	1	2	POLB	parent	5_20193096_GAG_POLB	1	1	1	A	1	A	Repeat-mediated
92ffb86a-3285-11e6-9e78-7d3e51c54cdd	2_116030362_CTC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	2	116030362	CT	C	660	PASS	DPP10	Del	intronic	1	5	EXO1	child	2_116030362_CTC_EXO1	1	1	1	T	4	T	Repeat-mediated
9302f94e-328f-11e6-9432-c0e56f39e758	5_67936963_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	67936963	CT	C	660	PASS	-	Del	-	1	8	MSH6	child	5_67936963_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
9303abf0-3285-11e6-b093-c9c7b0dab373	2_90452356_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	90452356	CT	C	283	PASS	-	Del	-	1	1	MSH6	child	2_90452356_CTC_MSH6	1	1	0	-	0	T	None
93058950-3273-11e6-aafd-c7dee9d19ece	2_201624704_AATTTGTCATTA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	2	201624704	AATTTGTCATT	A	300	PASS	-	Del	-	10	1	CHK2	child	2_201624704_AATTTGTCATTA_CHK2	10	>=10	0	-	0	-	None
93094ee6-327d-11e6-809e-fbdaeff7a29c	12_110782353_TACT	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	12	110782353	TAC	T	1080	PASS	ATP2A2	Del	intronic	2	5	POLB	parent	12_110782353_TACT_POLB	2	2	2	AC	4	AC	Repeat-mediated
93147664-328b-11e6-8106-81c36f39e758	19_3731920_TCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	3731920	TC	T	960	PASS	TJP3	Del	intronic	1	6	MSH6	child	19_3731920_TCT_MSH6	1	1	1	C	5	C	Repeat-mediated
931a5e4e-3272-11e6-881e-8d938a20d9eb	15_85321964_CTCTTC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	15	85321964	CTCTT	C	420	PASS	ZNF592	Del	upstream	4	1	CHK2	child	15_85321964_CTCTTC_CHK2	4	4	3	TCT	0	-	Microhomology-mediated
931e00be-3270-11e6-b923-6726694da5d2	5_76570836_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	76570836	CA	C	300	PASS	PDE8B	Del	intronic	1	8	MSH6	child	5_76570836_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
932181ac-3276-11e6-8717-f13d8a20d9eb	6_90884282_GAG	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	6	90884282	GA	G	600	PASS	BACH2	Del	intronic	1	8	CHK2	child	6_90884282_GAG_CHK2	1	1	1	A	7	A	Repeat-mediated
93268248-3289-11e6-9021-40b47098ee92	13_54749556_CTTC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	13	54749556	CTT	C	480	PASS	-	Del	-	2	3	NUDT1	child	13_54749556_CTTC_NUDT1	2	2	1	T	0	-	Microhomology-mediated
932e2714-329d-11e6-b696-dd6225c9da85	5_32079691_TCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	32079691	TC	T	720	PASS	PDZD2	Del	intronic	1	5	MSH6	child	5_32079691_TCT_MSH6	1	1	1	C	4	C	Repeat-mediated
9335169e-3277-11e6-a8d8-3e6075253f64	3_147919829_TTTCT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	3	147919829	TTTC	T	840	PASS	RP11-501O2.4	Del	intronic	3	3	FANCC	child	3_147919829_TTTCT_FANCC	3	3	3	TTC	2	TTC	Repeat-mediated
933b4c02-3255-11e6-8a2a-3af212ae24cf	16_27974329_CCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	16	27974329	C	CT	660	PASS	GSG1L	Ins	intronic	1	2	MSH6	child	16_27974329_CCT_MSH6	1	1	-	-	-	-	Ins
934a89f4-3275-11e6-a71d-236235cec73b	X_20801654_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	20801654	GA	G	360	PASS	-	Del	-	1	5	MSH6	child	X_20801654_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
934cc250-3284-11e6-9daa-026ea2c71c31	14_40931000_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	40931000	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	14_40931000_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
934de6fa-3291-11e6-8d00-b1b0e7d0bdd7	5_126329375_GAG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	5	126329375	GA	G	360	PASS	MARCH3	Del	intronic	1	8	FANCC	child	5_126329375_GAG_FANCC	1	1	1	A	7	A	Repeat-mediated
93514834-328e-11e6-bec1-ca1d0e01a414	X_107708846_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	107708846	AT	A	360	PASS	COL4A5	Del	intronic	1	7	MSH6	child	X_107708846_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
9351692a-3277-11e6-9d67-093b98ba1142	4_56732804_GATG	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	4	56732804	GAT	G	300	PASS	EXOC1	Del	intronic	2	1	POLM	child	4_56732804_GATG_POLM	2	2	1	A	0	-	Microhomology-mediated
93519d3e-3324-11e6-8b24-4ab97d6a9fc7	4_5455350_GCG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	4	5455350	GC	G	600	PASS	STK32B	Del	intronic	1	1	EXO1	child	4_5455350_GCG_EXO1	1	1	0	-	0	C	None
935a1ece-3288-11e6-a7ff-5779a178171f	10_60817607_CCGT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	10	60817607	C	CGT	540	PASS	-	Ins	-	2	6	FANCC	child	10_60817607_CCGT_FANCC	2	2	-	-	-	-	Ins
935da89a-328e-11e6-8f3c-a6a9cdacbbbf	1_115587296_TAT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	1	115587296	TA	T	360	PASS	TSPAN2	Del	downstream	1	6	POLB	child	1_115587296_TAT_POLB	1	1	1	A	5	A	Repeat-mediated
93754a6e-3288-11e6-b9eb-c78fa2c71c31	6_67996009_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	67996009	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	6_67996009_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
9381979c-328d-11e6-ac7a-a3c36f39e758	18_55212042_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	55212042	C	CA	360	PASS	FECH	Ins	downstream	1	7	MSH6	child	18_55212042_CCA_MSH6	1	1	-	-	-	-	Ins
938244c8-3254-11e6-81f9-42f212ae24cf	17_50941633_TCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	17	50941633	TC	T	420	PASS	-	Del	-	1	4	MSH6	child	17_50941633_TCT_MSH6	1	1	1	C	3	C	Repeat-mediated
9382fd1a-328f-11e6-81d1-7ea5e7d0bdd7	3_196048550_TGTGT	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	3	196048550	TGTG	T	300	PASS	TM4SF19	Del	downstream	3	2	POLM	child	3_196048550_TGTGT_POLM	3	3	3	GTG	1	GTG	Repeat-mediated
938aa6fa-3285-11e6-b930-8f14987b3f23	4_88674409_GCG	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	4	88674409	GC	G	420	PASS	-	Del	-	1	6	NEIL1	parent	4_88674409_GCG_NEIL1	1	1	1	C	5	C	Repeat-mediated
939d78fa-327d-11e6-8723-889be7d0bdd7	2_149175377_GTG	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	2	149175377	GT	G	540	PASS	MBD5	Del	intronic	1	9	NUDT1	child	2_149175377_GTG_NUDT1	1	1	1	T	8	T	Repeat-mediated
939f6536-328a-11e6-b805-77090e01a414	2_85755786_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	85755786	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	2_85755786_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
93ad028e-328c-11e6-919e-92c36f39e758	2_70382931_CAAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	70382931	CAA	C	300	PASS	C2orf42	Del	intronic	2	9	MSH6	child	2_70382931_CAAC_MSH6	2	2	2	AA	7	A	Repeat-mediated
93b7cab6-3296-11e6-8fa8-1766a178171f	4_86443164_TTAAAAAAT	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	4	86443164	TTAAAAAA	T	420	PASS	ARHGAP24	Del	intronic	7	1	NEIL1	child	4_86443164_TTAAAAAAT_NEIL1	7	7	0	-	0	-	None
93bec088-329a-11e6-aca6-b39fcc638e3d	2_54731613_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	54731613	GA	G	420	PASS	SPTBN1	Del	intronic	1	8	MSH6	child	2_54731613_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
93c538b2-3274-11e6-8d20-7365cde16804	5_82862402_CTC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	5	82862402	CT	C	300	PASS	VCAN	Del	intronic	1	9	MSH6	parent	5_82862402_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
93c5ac64-329e-11e6-b696-dd6225c9da85	5_95134319_CATC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	95134319	CAT	C	780	PASS	RHOBTB3	Del	downstream	2	2	MSH6	child	5_95134319_CATC_MSH6	2	2	2	AT	1	AT	Repeat-mediated
93c642a6-3275-11e6-86e1-8d021ea8ec0e	X_133402740_ATA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	X	133402740	AT	A	300	PASS	-	Del	-	1	2	POLB	child	X_133402740_ATA_POLB	1	1	1	T	1	T	Repeat-mediated
93c6e5e2-3326-11e6-9eb4-dd99cf737e61	8_101318345_ATA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	8	101318345	AT	A	420	PASS	RNF19A	Del	upstream	1	5	EXO1	child	8_101318345_ATA_EXO1	1	1	1	T	4	T	Repeat-mediated
93cd2948-3286-11e6-a32f-5b79a178171f	11_62513884_AGGTTTCACCATCTTGGCCAGGCTGGTCTTGAACTCCTGACCTTGTGATCCACCAGACTGAGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCGTGCCTGGCCTGGTTGTTTTTTTTTTGTTTGTTTTTTGTTTTTTGAGATGGAGTCTCGCTCTGTTCCCCAGGCTGGAATGCAGTGGTGTGATCTTGGCTTGCTACAACCTCTGCCTCCCAGGTTCAAGCAATTCTCCTGGCTTGGCCGCCAAGCAATTAGCTGGGACCACAGGTGTGTGCACACTGACATGCCTGCCTAATTTTTGTATTTTTAGTAGAGACAGA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	11	62513884	AGGTTTCACCATCTTGGCCAGGCTGGTCTTGAACTCCTGACCTTGTGATCCACCAGACTGAGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCGTGCCTGGCCTGGTTGTTTTTTTTTTGTTTGTTTTTTGTTTTTTGAGATGGAGTCTCGCTCTGTTCCCCAGGCTGGAATGCAGTGGTGTGATCTTGGCTTGCTACAACCTCTGCCTCCCAGGTTCAAGCAATTCTCCTGGCTTGGCCGCCAAGCAATTAGCTGGGACCACAGGTGTGTGCACACTGACATGCCTGCCTAATTTTTGTATTTTTAGTAGAGACAG	A	300	PASS	ZBTB3	Del	downstream	321	1	FANCC	child	11_62513884_AGGTTTCACCATCTTGGCCAGGCTGGTCTTGAACTCCTGACCTTGTGATCCACCAGACTGAGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCGTGCCTGGCCTGGTTGTTTTTTTTTTGTTTGTTTTTTGTTTTTTGAGATGGAGTCTCGCTCTGTTCCCCAGGCTGGAATGCAGTGGTGTGATCTTGGCTTGCTACAACCTCTGCCTCCCAGGTTCAAGCAATTCTCCTGGCTTGGCCGCCAAGCAATTAGCTGGGACCACAGGTGTGTGCACACTGACATGCCTGCCTAATTTTTGTATTTTTAGTAGAGACAGA_FANCC	321	>=10	42	GGTTTCACCATCTTGGCCAGGCTGGTCTTGAACTCCTGACCT	0	-	Microhomology-mediated
93d13c8e-3256-11e6-acc5-308412ae24cf	5_15622013_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	15622013	AT	A	360	PASS	FBXL7	Del	intronic	1	9	MSH6	child	5_15622013_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
93d60b8c-329d-11e6-8069-175325c9da85	12_80132477_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	80132477	A	AT	600	PASS	RP11-530C5.1	Ins	intronic	1	7	MSH6	child	12_80132477_AAT_MSH6	1	1	-	-	-	-	Ins
93de2d8a-3293-11e6-b27b-6becb41afd22	17_67902221_GAG	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	17	67902221	GA	G	300	PASS	AC003051.1	Del	downstream	1	8	NEIL1	child	17_67902221_GAG_NEIL1	1	1	1	A	7	A	Repeat-mediated
93e2c8e4-328f-11e6-bd84-429305ad5bc4	1_245023324_TTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	245023324	T	TG	300	PASS	HNRNPU	Ins	intronic	1	2	MSH6	child	1_245023324_TTG_MSH6	1	1	-	-	-	-	Ins
93e82210-3273-11e6-8f62-6fa664f80bad	7_120424569_ATGA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	7	120424569	ATG	A	720	PASS	TSPAN12	Del	downstream	2	4	EXO1	parent	7_120424569_ATGA_EXO1	2	2	2	TG	3	TG	Repeat-mediated
93f421f2-3276-11e6-83cd-a472a178171f	4_112087532_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	112087532	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	4_112087532_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
93f7f04a-326f-11e6-ae6c-8cc5620e6611	14_57241567_CAAAAATGTTGCTTGGGGC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	14	57241567	CAAAAATGTTGCTTGGGG	C	840	PASS	-	Del	-	17	1	EXO1	parent	14_57241567_CAAAAATGTTGCTTGGGGC_EXO1	17	>=10	4	AAAA	0	-	Microhomology-mediated
93fc0a24-3272-11e6-8f33-a6d9cde16804	11_20068613_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	20068613	AT	A	780	PASS	NAV2	Del	intronic	1	9	MSH6	child	11_20068613_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
93ff04a0-3276-11e6-901f-2d6266a58581	3_71963030_AAAT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	3	71963030	A	AAT	420	PASS	-	Ins	-	2	5	NUDT1	child	3_71963030_AAAT_NUDT1	2	2	-	-	-	-	Ins
940451aa-3292-11e6-8669-5f48a178171f	15_22566506_AGA	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	15	22566506	AG	A	360	PASS	-	Del	-	1	2	NEIL1	child	15_22566506_AGA_NEIL1	1	1	1	G	1	G	Repeat-mediated
94049654-328a-11e6-b805-77090e01a414	2_85825693_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	85825693	TA	T	420	PASS	TMEM150A	Del	3prime_UTR_variant	1	8	MSH6	child	2_85825693_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
940e0256-3281-11e6-b503-d18f38e8a824	14_59041607_ATGTA	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	14	59041607	ATGT	A	840	PASS	-	Del	-	3	2	POLE	parent	14_59041607_ATGTA_POLE	3	3	3	TGT	1	TGT	Repeat-mediated
94145c26-3297-11e6-8876-266aa178171f	3_72117307_ATA	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	3	72117307	AT	A	300	PASS	LINC00877	Del	intronic	1	8	NEIL1	child	3_72117307_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
9414c486-326f-11e6-9309-bdc34a47a305	8_28663764_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	28663764	CA	C	300	PASS	INTS9	Del	intronic	1	8	MSH6	child	8_28663764_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
9419382a-328f-11e6-8e48-791e0e01a414	8_137198160_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	137198160	TA	T	300	PASS	-	Del	-	1	5	MSH6	child	8_137198160_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
941a6f70-3257-11e6-9d5a-0c8112ae24cf	9_132379961_TGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	132379961	TG	T	420	PASS	C9orf50	Del	intronic	1	1	MSH6	child	9_132379961_TGT_MSH6	1	1	0	-	0	G	None
941cdb90-3255-11e6-aedc-3df212ae24cf	19_23595056_CCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	19	23595056	C	CT	420	PASS	CTB-175P5.4	Ins	upstream	1	3	MSH6	child	19_23595056_CCT_MSH6	1	1	-	-	-	-	Ins
941d4722-3289-11e6-8b67-086ea2c71c31	1_227524984_TTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	227524984	T	TG	660	PASS	-	Ins	-	1	3	MSH6	child	1_227524984_TTG_MSH6	1	1	-	-	-	-	Ins
94231a62-328e-11e6-bec1-ca1d0e01a414	X_107960701_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	107960701	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	X_107960701_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
9424b936-3283-11e6-b857-6115038949d4	5_84902955_GAG	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	5	84902955	GA	G	420	PASS	-	Del	-	1	4	POLM	child	5_84902955_GAG_POLM	1	1	1	A	3	A	Repeat-mediated
9425c72c-326f-11e6-92dd-fda8977b3f23	10_83053796_GGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	83053796	G	GT	540	PASS	-	Ins	-	1	6	MSH6	child	10_83053796_GGT_MSH6	1	1	-	-	-	-	Ins
94384990-329e-11e6-b696-dd6225c9da85	5_95265894_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	95265894	GA	G	900	PASS	ELL2	Del	intronic	1	8	MSH6	child	5_95265894_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
943c3be2-3323-11e6-ada1-2957fc77b11e	5_43448944_CAC	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	5	43448944	CA	C	420	PASS	C5orf28	Del	intronic	1	9	POLE	child	5_43448944_CAC_POLE	1	1	1	A	8	A	Repeat-mediated
944324b2-3291-11e6-9432-c0e56f39e758	5_21058855_CCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	21058855	C	CT	360	PASS	-	Ins	-	1	6	MSH6	child	5_21058855_CCT_MSH6	1	1	-	-	-	-	Ins
9446710a-329e-11e6-9c44-d26625c9da85	21_18882974_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	21	18882974	AT	A	360	PASS	CXADR	Del	upstream	1	6	MSH6	child	21_18882974_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
94468fc8-3258-11e6-885f-d1947872c165	4_170802239_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	170802239	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	4_170802239_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
944c77f6-328c-11e6-a7cf-80090e01a414	15_44808071_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	44808071	C	CA	360	PASS	CTDSPL2	Ins	intronic	1	8	MSH6	child	15_44808071_CCA_MSH6	1	1	-	-	-	-	Ins
944dffca-3284-11e6-821e-69f1bbe6aa09	16_19386278_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	19386278	CT	C	420	PASS	CTA-363E6.2	Del	intronic	1	8	MSH6	child	16_19386278_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
9452d4ce-3288-11e6-a284-4b89a2c71c31	4_185290947_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	185290947	CA	C	300	PASS	RP11-290F5.1	Del	nc_variant	1	9	MSH6	child	4_185290947_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
94558998-329d-11e6-94ca-0aaecc638e3d	X_54401640_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	54401640	CT	C	420	PASS	-	Del	-	1	8	MSH6	child	X_54401640_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
94588988-3273-11e6-98e1-30573cfdbd24	9_35270584_GTG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	9	35270584	GT	G	300	PASS	UNC13B	Del	intronic	1	9	MSH6	parent	9_35270584_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
94595ffa-328e-11e6-a278-48230e01a414	21_24500902_GGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	21	24500902	G	GA	480	PASS	AP001255.2	Ins	intronic	1	7	MSH6	child	21_24500902_GGA_MSH6	1	1	-	-	-	-	Ins
945bad72-328a-11e6-9c89-8d090e01a414	1_69890174_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	69890174	CT	C	480	PASS	-	Del	-	1	6	MSH6	child	1_69890174_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
9464686a-3274-11e6-946d-9c2bc7271a47	2_136584470_AAACA	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	2	136584470	AAAC	A	540	PASS	LCT	Del	intronic	3	2	POLB	child	2_136584470_AAACA_POLB	3	3	3	AAC	1	AAC	Repeat-mediated
9465ee8c-3284-11e6-a722-38d09b6d3b88	3_52565685_TGGGTGGGT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	3	52565685	TGGGTGGG	T	660	PASS	NT5DC2	Del	intronic	7	2	EXO1	child	3_52565685_TGGGTGGGT_EXO1	7	7	7	GGGTGGG	1	GGGTGGG	Repeat-mediated
946754e6-3277-11e6-92d2-c259c225ee11	3_88908151_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	88908151	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	3_88908151_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
94698114-328e-11e6-919e-92c36f39e758	2_206641185_GCG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	206641185	GC	G	540	PASS	NRP2	Del	frameshift	1	4	MSH6	child	2_206641185_GCG_MSH6	1	1	1	C	3	C	Repeat-mediated
946e5428-3275-11e6-b96a-e20a1ea8ec0e	7_96913723_TAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	7	96913723	TA	T	360	PASS	-	Del	-	1	6	FANCC	child	7_96913723_TAT_FANCC	1	1	1	A	5	A	Repeat-mediated
947099de-3286-11e6-a8af-066ea2c71c31	15_45988731_TTTCCTGCCTGCC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	45988731	T	TTCCTGCCTGCC	300	PASS	-	Ins	-	11	0	MSH6	child	15_45988731_TTTCCTGCCTGCC_MSH6	11	>=10	-	-	-	-	Ins
948aebea-3272-11e6-8325-b737c225ee11	1_247650391_GTG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	1	247650391	GT	G	480	PASS	-	Del	-	1	7	NUDT1	child	1_247650391_GTG_NUDT1	1	1	1	T	6	T	Repeat-mediated
94953d00-3274-11e6-a5d0-4fd14a47a305	2_192887732_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	192887732	CT	C	300	PASS	TMEFF2	Del	intronic	1	9	MSH6	child	2_192887732_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
949608b2-328c-11e6-ac7a-a3c36f39e758	18_69951177_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	69951177	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	18_69951177_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
949f80d8-329e-11e6-8c2e-3f6625c9da85	22_36997442_TCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	22	36997442	TC	T	1140	PASS	CACNG2	Del	intronic	1	1	MSH6	child	22_36997442_TCT_MSH6	1	1	0	-	0	C	None
94abcd82-3296-11e6-a24b-ac3c7a852e0e	6_138888396_CTGGAACTATAGGCACACACCACCACACTTGACTACTTTTTCTATTTTTTTGTAGAGACAAGGTTTCGTCGTGTTCCCCAGGCTGGTCTTGAACTCCTGGGCTCAAGTGTTATGCCCACTTCGGCCTCCGAAAATGTTGGGATAACAAGCATGAGCCACCACGCCTGGCCCAGGAAGCTATTCCTAAGTCCCACCAATTTAAGGATTTTATTATCAGAAATAGATCACAGCTATTTACATGGAAACAGGATCTTGACTTTTGACCTAGCTGCTTTTGGTTTTTCATGTCATTTTTCTCCACTGTAATATCTGGTCATTAGTAATCTAATTATGTGCAAGGATCCTGCTTTCTGCAACTATTTTATTAGGAGAAAAACTGGGATGAAATTACTTTAAATAGATCCAACTCCCACACTCAAAAATTGATTATCTAGTATATGGATTATTCATTACCCTTGATGCCTAGTATGGTCATTCTCTGGCCATTTTTGTAGTGGCTGAGAAGGGAGGACACTGACATTCAAATGATTCAAAGCTGGTAACATTACTAGTCTGTACGATAAAGTCCAGAAGGAAAGGATGAAACATTGTTCAAAGCAAGGCTTTGCATGTCAATTACCTTCTCTATCTGCTGACCTGCCAATACCAGGATCATCAATCACGCTTCTGCCCAGCTAAATGGAGAGCTGGGGATACAACAAAACAAGCTCTGCTCAATGAGAAGACGGACACCCCATATGATTCCACCTCTTTTAGTTTTATTTGAGTGAGCAAGAAAGGGAAAGCACAGAATAAATACTACTAGTCATTAGTTTTCCTCAAGGACCTTCCACAGTGCTGGAAAAGCAGCAGGCACTCATTAAATCTTGTTCAGTTAAATGCTAACAGTTAGAAGACCATGCAAAACATGAAAATGTTCCAGATAAAGTTCCTTTATGCGGACCTTCTCATCTAGGTCATCGTGTTGCACTTTTTCACAATTATCCTACATTTTCTCTTTAACCCCCCTGCTTTAGATGTCTTATTTGCTTCTCCATTTAAGCATGAACTCCATGACTTCAGGGCCTGAGTGCTATCTTTCTTTGTATCCTGCACATAGTATTCAGTAATGATTCCACCAATAAATGCTCTCACAACTTCACGTGAAAAGTTACATATTGTCTTATCTACCACTGCATTCCACTTTTTTACTATAAAGAAGACACTGATTCACACCCTTGATTTGTATGGCTAATTAAGTCAAAACATCATCTACTACTCCTCCTGAGTA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	6	138888396	CTGGAACTATAGGCACACACCACCACACTTGACTACTTTTTCTATTTTTTTGTAGAGACAAGGTTTCGTCGTGTTCCCCAGGCTGGTCTTGAACTCCTGGGCTCAAGTGTTATGCCCACTTCGGCCTCCGAAAATGTTGGGATAACAAGCATGAGCCACCACGCCTGGCCCAGGAAGCTATTCCTAAGTCCCACCAATTTAAGGATTTTATTATCAGAAATAGATCACAGCTATTTACATGGAAACAGGATCTTGACTTTTGACCTAGCTGCTTTTGGTTTTTCATGTCATTTTTCTCCACTGTAATATCTGGTCATTAGTAATCTAATTATGTGCAAGGATCCTGCTTTCTGCAACTATTTTATTAGGAGAAAAACTGGGATGAAATTACTTTAAATAGATCCAACTCCCACACTCAAAAATTGATTATCTAGTATATGGATTATTCATTACCCTTGATGCCTAGTATGGTCATTCTCTGGCCATTTTTGTAGTGGCTGAGAAGGGAGGACACTGACATTCAAATGATTCAAAGCTGGTAACATTACTAGTCTGTACGATAAAGTCCAGAAGGAAAGGATGAAACATTGTTCAAAGCAAGGCTTTGCATGTCAATTACCTTCTCTATCTGCTGACCTGCCAATACCAGGATCATCAATCACGCTTCTGCCCAGCTAAATGGAGAGCTGGGGATACAACAAAACAAGCTCTGCTCAATGAGAAGACGGACACCCCATATGATTCCACCTCTTTTAGTTTTATTTGAGTGAGCAAGAAAGGGAAAGCACAGAATAAATACTACTAGTCATTAGTTTTCCTCAAGGACCTTCCACAGTGCTGGAAAAGCAGCAGGCACTCATTAAATCTTGTTCAGTTAAATGCTAACAGTTAGAAGACCATGCAAAACATGAAAATGTTCCAGATAAAGTTCCTTTATGCGGACCTTCTCATCTAGGTCATCGTGTTGCACTTTTTCACAATTATCCTACATTTTCTCTTTAACCCCCCTGCTTTAGATGTCTTATTTGCTTCTCCATTTAAGCATGAACTCCATGACTTCAGGGCCTGAGTGCTATCTTTCTTTGTATCCTGCACATAGTATTCAGTAATGATTCCACCAATAAATGCTCTCACAACTTCACGTGAAAAGTTACATATTGTCTTATCTACCACTGCATTCCACTTTTTTACTATAAAGAAGACACTGATTCACACCCTTGATTTGTATGGCTAATTAAGTCAAAACATCATCTACTACT	CCTCCTGAGTA	360	PASS	NHSL1	Complex	intronic	1258	0	CHK2	child	6_138888396_CTGGAACTATAGGCACACACCACCACACTTGACTACTTTTTCTATTTTTTTGTAGAGACAAGGTTTCGTCGTGTTCCCCAGGCTGGTCTTGAACTCCTGGGCTCAAGTGTTATGCCCACTTCGGCCTCCGAAAATGTTGGGATAACAAGCATGAGCCACCACGCCTGGCCCAGGAAGCTATTCCTAAGTCCCACCAATTTAAGGATTTTATTATCAGAAATAGATCACAGCTATTTACATGGAAACAGGATCTTGACTTTTGACCTAGCTGCTTTTGGTTTTTCATGTCATTTTTCTCCACTGTAATATCTGGTCATTAGTAATCTAATTATGTGCAAGGATCCTGCTTTCTGCAACTATTTTATTAGGAGAAAAACTGGGATGAAATTACTTTAAATAGATCCAACTCCCACACTCAAAAATTGATTATCTAGTATATGGATTATTCATTACCCTTGATGCCTAGTATGGTCATTCTCTGGCCATTTTTGTAGTGGCTGAGAAGGGAGGACACTGACATTCAAATGATTCAAAGCTGGTAACATTACTAGTCTGTACGATAAAGTCCAGAAGGAAAGGATGAAACATTGTTCAAAGCAAGGCTTTGCATGTCAATTACCTTCTCTATCTGCTGACCTGCCAATACCAGGATCATCAATCACGCTTCTGCCCAGCTAAATGGAGAGCTGGGGATACAACAAAACAAGCTCTGCTCAATGAGAAGACGGACACCCCATATGATTCCACCTCTTTTAGTTTTATTTGAGTGAGCAAGAAAGGGAAAGCACAGAATAAATACTACTAGTCATTAGTTTTCCTCAAGGACCTTCCACAGTGCTGGAAAAGCAGCAGGCACTCATTAAATCTTGTTCAGTTAAATGCTAACAGTTAGAAGACCATGCAAAACATGAAAATGTTCCAGATAAAGTTCCTTTATGCGGACCTTCTCATCTAGGTCATCGTGTTGCACTTTTTCACAATTATCCTACATTTTCTCTTTAACCCCCCTGCTTTAGATGTCTTATTTGCTTCTCCATTTAAGCATGAACTCCATGACTTCAGGGCCTGAGTGCTATCTTTCTTTGTATCCTGCACATAGTATTCAGTAATGATTCCACCAATAAATGCTCTCACAACTTCACGTGAAAAGTTACATATTGTCTTATCTACCACTGCATTCCACTTTTTTACTATAAAGAAGACACTGATTCACACCCTTGATTTGTATGGCTAATTAAGTCAAAACATCATCTACTACTCCTCCTGAGTA_CHK2	1248	>=10	-	-	-	-	Complex
94adf4c6-3274-11e6-b747-d9deed3c4f5d	X_81014141_AGA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	X	81014141	AG	A	480	PASS	-	Del	-	1	2	MSH6	parent	X_81014141_AGA_MSH6	1	1	1	G	1	G	Repeat-mediated
94c20f50-3347-11e6-a9cc-a0a270cce0de	2_107671499_ATA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	2	107671499	AT	A	420	PASS	-	Del	-	1	9	FANCC	child	2_107671499_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
94c43850-3272-11e6-aebf-545f42c4520d	5_112123091_TTAAAGT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	5	112123091	TTAAAG	T	720	PASS	APC	Del	intronic	5	1	POLB	child	5_112123091_TTAAAGT_POLB	5	5	3	TAA	0	-	Microhomology-mediated
94c57464-3276-11e6-83cd-a472a178171f	4_112289585_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	112289585	AT	A	538	PASS	-	Del	-	1	7	MSH6	child	4_112289585_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
94c68cc4-3275-11e6-9e0f-7959cab49462	7_9414179_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	9414179	GA	G	600	PASS	-	Del	-	1	8	MSH6	child	7_9414179_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
94cad5a8-3325-11e6-931e-f67da78019ab	3_42156703_GTG	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	3	42156703	GT	G	780	PASS	TRAK1	Del	intronic	1	4	POLE	child	3_42156703_GTG_POLE	1	1	1	T	3	T	Repeat-mediated
94d645d8-3275-11e6-ab69-1c1607e9a829	9_81399195_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	81399195	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	9_81399195_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
94e35948-3258-11e6-8340-da9012ae24cf	6_9397745_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	9397745	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	6_9397745_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
94ea51c4-328c-11e6-8e48-791e0e01a414	8_8211490_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	8211490	GA	G	300	PASS	SGK223	Del	intronic	1	9	MSH6	child	8_8211490_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
94ee5144-3277-11e6-a5d0-4fd14a47a305	2_193998605_GGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	193998605	G	GA	300	PASS	-	Ins	-	1	8	MSH6	child	2_193998605_GGA_MSH6	1	1	-	-	-	-	Ins
94ef8ebc-3289-11e6-a5b3-3f1ebce6aa09	7_142952140_GGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	142952140	G	GA	600	PASS	-	Ins	-	1	8	MSH6	child	7_142952140_GGA_MSH6	1	1	-	-	-	-	Ins
94f5a37c-3277-11e6-92d2-c259c225ee11	3_89080455_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	89080455	AT	A	540	PASS	-	Del	-	1	3	MSH6	child	3_89080455_ATA_MSH6	1	1	1	T	2	T	Repeat-mediated
9500911a-3277-11e6-bc24-bc6e3cfdbd24	6_98102337_GAG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	6	98102337	GA	G	720	PASS	-	Del	-	1	9	MSH6	parent	6_98102337_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
950cb662-3294-11e6-957b-aef8d8b4fa2c	8_23338829_CTGC	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	8	23338829	CTG	C	360	PASS	CTC-756D1.2	Del	intronic	2	1	NUDT1	child	8_23338829_CTGC_NUDT1	2	2	1	T	0	-	Microhomology-mediated
950eb170-329d-11e6-b549-1e5325c9da85	10_92599201_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	92599201	G	GA	960	PASS	HTR7	Ins	intronic	1	8	MSH6	child	10_92599201_GGA_MSH6	1	1	-	-	-	-	Ins
95180fe4-3285-11e6-99f7-076ea2c71c31	12_102230013_TGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	102230013	TG	T	540	PASS	RNA5SP369	Del	upstream	1	6	MSH6	child	12_102230013_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
9518fdd4-328d-11e6-b6a6-1f1e0e01a414	4_68078160_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	68078160	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	4_68078160_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
951ba394-3275-11e6-ab69-1c1607e9a829	9_81526296_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	81526296	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	9_81526296_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
951dfcd8-3276-11e6-92d2-c259c225ee11	3_18990009_TTCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	18990009	TTC	T	300	PASS	-	Del	-	2	1	MSH6	child	3_18990009_TTCT_MSH6	2	2	0	-	0	-	None
95284414-3284-11e6-870e-6af1bbe6aa09	19_11242372_ACA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	11242372	AC	A	480	PASS	LDLR	Del	3prime_UTR_variant	1	5	MSH6	child	19_11242372_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
9532f5e6-3273-11e6-a390-fc104530f757	1_193413907_TGATAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	1	193413907	TGATA	T	710	PASS	-	Del	-	4	1	FANCC	child	1_193413907_TGATAT_FANCC	4	4	1	G	0	-	Microhomology-mediated
9536b184-32a2-11e6-bc66-17b4cc638e3d	8_79958164_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	79958164	C	CA	420	PASS	-	Ins	-	1	9	MSH6	child	8_79958164_CCA_MSH6	1	1	-	-	-	-	Ins
95391d02-3289-11e6-b805-77090e01a414	2_26393716_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	26393716	CT	C	300	PASS	GAREML	Del	upstream	1	2	MSH6	child	2_26393716_CTC_MSH6	1	1	1	T	1	T	Repeat-mediated
953b02a6-3285-11e6-a8af-066ea2c71c31	15_75260665_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	75260665	AT	A	258	PASS	-	Del	-	1	9	MSH6	child	15_75260665_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
953ea4fe-328c-11e6-b43c-7ec36f39e758	16_63862842_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	63862842	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	16_63862842_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
95491efa-3284-11e6-873a-cd2d36fc2f7d	8_50633018_CTC	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	8	50633018	CT	C	300	PASS	-	Del	-	1	8	NUDT1	child	8_50633018_CTC_NUDT1	1	1	1	T	7	T	Repeat-mediated
9549f4f2-329c-11e6-a5cf-e5abcc638e3d	9_23515749_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	23515749	CA	C	600	PASS	-	Del	-	1	8	MSH6	child	9_23515749_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
954e8850-328d-11e6-8b82-18a5e7d0bdd7	15_20462835_CGCCCAGGCTGGAGTGCAGTGGCGTGATCTCGGCTCACTGCAAGCTCTGCCTCCCAGGTTCACGCCATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTATAGGCACCCGCCACCACGCCCAGCTAATTTTTTGTATTTTTAGTAGAGACAGGGTTTCACCGTTTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCCGCCCACCTCAGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACTGTGCCTGGCTCTATTATTATTTTTTTAAGAGTCAGGATCTCACTCTGTTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	15	20462835	CGCCCAGGCTGGAGTGCAGTGGCGTGATCTCGGCTCACTGCAAGCTCTGCCTCCCAGGTTCACGCCATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTATAGGCACCCGCCACCACGCCCAGCTAATTTTTTGTATTTTTAGTAGAGACAGGGTTTCACCGTTTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCCGCCCACCTCAGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACTGTGCCTGGCTCTATTATTATTTTTTTAAGAGTCAGGATCTCACTCTGTT	C	264	PASS	-	Del	-	299	1	FANCC	child	15_20462835_CGCCCAGGCTGGAGTGCAGTGGCGTGATCTCGGCTCACTGCAAGCTCTGCCTCCCAGGTTCACGCCATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTATAGGCACCCGCCACCACGCCCAGCTAATTTTTTGTATTTTTAGTAGAGACAGGGTTTCACCGTTTTAGCCAGGATGGTCTCGATCTCCTGACCTCATGATCCGCCCACCTCAGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACTGTGCCTGGCTCTATTATTATTTTTTTAAGAGTCAGGATCTCACTCTGTTC_FANCC	299	>=10	21	GCCCAGGCTGGAGTGCAGTGG	0	-	Microhomology-mediated
9550de9c-3289-11e6-821d-8c090e01a414	13_37005368_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	37005368	TA	T	480	PASS	CCNA1	Del	upstream	1	7	MSH6	child	13_37005368_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
95513c52-3284-11e6-8ebc-68f1bbe6aa09	18_25414485_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	25414485	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	18_25414485_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
95571ef0-3276-11e6-998e-ba48fa52e078	8_60313635_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	60313635	GT	G	480	PASS	-	Del	-	1	9	MSH6	child	8_60313635_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
95580f26-3272-11e6-b332-88ba7d6a9fc7	15_26205673_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	26205673	AT	A	480	PASS	RP11-1084I9.1	Del	intronic	1	9	MSH6	child	15_26205673_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
955d13d4-326f-11e6-a16f-981f1daa6045	19_33003423_TCT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	19	33003423	TC	T	660	PASS	-	Del	-	1	5	NUDT1	child	19_33003423_TCT_NUDT1	1	1	1	C	4	C	Repeat-mediated
9560c882-3272-11e6-b8ae-92c57872c165	14_32038392_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	32038392	GT	G	420	PASS	NUBPL	Del	intronic	1	8	MSH6	child	14_32038392_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
956628f0-3285-11e6-be43-0a6ea2c71c31	10_101506264_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	101506264	TA	T	540	PASS	CUTC	Del	intronic	1	8	MSH6	child	10_101506264_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
9579b708-3285-11e6-90da-f3a469062303	6_103977728_TAT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	6	103977728	TA	T	360	PASS	-	Del	-	1	8	FANCC	child	6_103977728_TAT_FANCC	1	1	1	A	7	A	Repeat-mediated
957c8920-3284-11e6-8ebc-68f1bbe6aa09	18_25517286_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	25517286	GT	G	360	PASS	-	Del	-	1	8	MSH6	child	18_25517286_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
957f2644-3289-11e6-aff5-85090e01a414	16_17105948_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	17105948	GA	G	780	PASS	-	Del	-	1	8	MSH6	child	16_17105948_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
9580ec98-329a-11e6-bda6-065325c9da85	13_64030269_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	64030269	AC	A	720	PASS	-	Del	-	1	5	MSH6	child	13_64030269_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
95820658-326f-11e6-9d68-ac9acab49462	15_44808071_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	44808071	C	CA	720	PASS	CTDSPL2	Ins	intronic	1	8	MSH6	child	15_44808071_CCA_MSH6	1	1	-	-	-	-	Ins
958de11a-328f-11e6-8e48-791e0e01a414	8_137585869_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	137585869	GT	G	300	PASS	RP11-30J20.1	Del	intronic	1	9	MSH6	child	8_137585869_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
959861c0-329a-11e6-a5cf-205325c9da85	11_45061803_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	45061803	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	11_45061803_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
95a4f87a-326f-11e6-acf0-009e38e8a824	13_80223801_TAGT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	13	80223801	TAG	T	480	PASS	-	Del	-	2	2	NEIL1	child	13_80223801_TAGT_NEIL1	2	2	2	AG	1	AG	Repeat-mediated
95aae470-328c-11e6-b43c-7ec36f39e758	16_63968605_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	63968605	TA	T	600	PASS	RP11-21L1.1	Del	upstream	1	4	MSH6	child	16_63968605_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
95c30860-3292-11e6-9230-fb250e01a414	3_105387365_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	105387365	T	TA	360	PASS	CBLB	Ins	intronic	1	7	MSH6	child	3_105387365_TTA_MSH6	1	1	-	-	-	-	Ins
95c3c6e4-328b-11e6-927f-cebe38e8a824	7_103875299_GTG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	7	103875299	GT	G	600	PASS	-	Del	-	1	9	NUDT1	parent	7_103875299_GTG_NUDT1	1	1	1	T	8	T	Repeat-mediated
95c748ba-3294-11e6-b77d-2eef6f39e758	6_103402421_CCTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	103402421	C	CTG	840	PASS	-	Ins	-	2	7	MSH6	child	6_103402421_CCTG_MSH6	2	2	-	-	-	-	Ins
95d0a762-329d-11e6-b696-dd6225c9da85	5_32399214_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	32399214	TA	T	420	PASS	ZFR	Del	intronic	1	8	MSH6	child	5_32399214_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
95d8ec8a-327d-11e6-8d42-cc2c0625f869	10_108177105_GAG	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	10	108177105	GA	G	420	PASS	-	Del	-	1	8	POLB	parent	10_108177105_GAG_POLB	1	1	1	A	7	A	Repeat-mediated
95dbcfca-3284-11e6-a1ac-fd6da2c71c31	13_36774374_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	36774374	CT	C	540	PASS	SOHLH2	Del	intronic	1	7	MSH6	child	13_36774374_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
95dc9288-328a-11e6-b0c4-e9b2cc638e3d	18_35062268_GGAA	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	18	35062268	G	GAA	420	PASS	CELF4	Ins	intronic	2	3	NUDT1	child	18_35062268_GGAA_NUDT1	2	2	-	-	-	-	Ins
95de796c-329a-11e6-8069-175325c9da85	12_45488453_GAAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	45488453	GAA	G	660	PASS	-	Del	-	2	9	MSH6	child	12_45488453_GAAG_MSH6	2	2	2	AA	7	A	Repeat-mediated
95e09b76-329e-11e6-b696-dd6225c9da85	5_95777332_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	95777332	GA	G	480	PASS	-	Del	-	1	7	MSH6	child	5_95777332_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
95ef0e6e-329d-11e6-91d0-016425c9da85	7_6968544_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	6968544	GA	G	540	PASS	-	Del	-	1	8	MSH6	child	7_6968544_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
95ef436a-3325-11e6-bd6e-9bc7cde16804	6_74566102_ATA	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	6	74566102	AT	A	420	PASS	-	Del	-	1	8	CHK2	child	6_74566102_ATA_CHK2	1	1	1	T	7	T	Repeat-mediated
95f527d0-326c-11e6-9793-9a8fb0dab373	13_22025974_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	22025974	CA	C	300	PASS	ZDHHC20	Del	intronic	1	9	MSH6	child	13_22025974_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
95f919fa-329c-11e6-b549-1e5325c9da85	10_24286923_TTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	24286923	T	TC	360	PASS	KIAA1217	Ins	intronic	1	5	MSH6	child	10_24286923_TTC_MSH6	1	1	-	-	-	-	Ins
95f97640-329f-11e6-a04f-c66a25c9da85	6_22105808_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	22105808	CT	C	600	PASS	CASC15	Del	intronic	1	8	MSH6	child	6_22105808_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
9619912e-328f-11e6-baa7-a96919a91649	2_121951287_CTTTCTTC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	2	121951287	CTTTCTT	C	360	PASS	-	Del	-	6	1	NEIL1	child	2_121951287_CTTTCTTC_NEIL1	6	6	3	TTT	0	-	Microhomology-mediated
96201182-328c-11e6-b9c4-751d0e01a414	5_23036433_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	23036433	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	5_23036433_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
9622f3ac-328c-11e6-8e48-791e0e01a414	8_8407425_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	8407425	TA	T	420	PASS	-	Del	-	1	1	MSH6	child	8_8407425_TAT_MSH6	1	1	0	-	0	A	None
9627f88c-3289-11e6-821d-8c090e01a414	13_37233774_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	37233774	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	13_37233774_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
9631e8ac-328d-11e6-ae53-96c36f39e758	15_87666428_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	87666428	CA	C	540	PASS	-	Del	-	1	9	MSH6	child	15_87666428_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
96328c38-3276-11e6-bf4d-b5224ec77248	8_34289456_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	8	34289456	AT	A	480	PASS	-	Del	-	1	8	EXO1	child	8_34289456_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
9650f67a-3288-11e6-a284-4b89a2c71c31	4_185795894_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	185795894	TA	T	660	PASS	-	Del	-	1	8	MSH6	child	4_185795894_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
9655b278-326f-11e6-b89d-b2d6b0dab373	4_7942345_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	7942345	AT	A	360	PASS	AFAP1	Del	upstream	1	9	MSH6	child	4_7942345_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
965ae9fc-326d-11e6-9f48-94df41c4520d	12_77855365_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	77855365	CA	C	348	PASS	RP1-34H18.1	Del	intronic	1	8	MSH6	child	12_77855365_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
96604dee-328a-11e6-9c68-85ccfaf1a024	17_17230202_CTTTGATCTGGTC	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	17	17230202	CTTTGATCTGGT	C	960	PASS	NT5M	Del	intronic	11	1	POLM	child	17_17230202_CTTTGATCTGGTC_POLM	11	>=10	1	T	0	-	Microhomology-mediated
9661b5fe-3293-11e6-9524-ab4c0d016689	5_16325225_GTCATGTTTTCCTATCCATGTTTGTG	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	5	16325225	GTCATGTTTTCCTATCCATGTTTGT	G	540	PASS	-	Del	-	24	1	NUDT1	child	5_16325225_GTCATGTTTTCCTATCCATGTTTGTG_NUDT1	24	>=10	0	-	0	-	None
9663be00-3322-11e6-89bb-56bf70cce0de	13_55096524_TTA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	13	55096524	T	TA	420	PASS	-	Ins	-	1	6	POLE	child	13_55096524_TTA_POLE	1	1	-	-	-	-	Ins
966d8b2c-3257-11e6-a7ac-209a7872c165	22_28905738_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	22	28905738	GT	G	540	PASS	TTC28	Del	intronic	1	9	MSH6	child	22_28905738_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
968aaff6-3273-11e6-b8ae-92c57872c165	14_95523418_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	95523418	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	14_95523418_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
9692d958-328f-11e6-92cf-bf2a0e01a414	6_45740249_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	45740249	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	6_45740249_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
9696c324-328f-11e6-bb1e-70e16f39e758	X_99662504_CGC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	99662504	CG	C	720	PASS	PCDH19	Del	frameshift	1	7	MSH6	child	X_99662504_CGC_MSH6	1	1	1	G	6	G	Repeat-mediated
96a33a6e-3280-11e6-9e64-e3262eaed38e	16_21335956_TTGAT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	16	21335956	TTGA	T	780	PASS	-	Del	-	3	3	POLB	child	16_21335956_TTGAT_POLB	3	3	3	TGA	2	TGA	Repeat-mediated
96a46d30-3325-11e6-b5f3-2a299a696edf	5_153673602_CAC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	5	153673602	CA	C	420	PASS	GALNT10	Del	intronic	1	8	CHK2	child	5_153673602_CAC_CHK2	1	1	1	A	7	A	Repeat-mediated
96a98e8a-3296-11e6-804d-4bf497ba1142	8_92892358_AGA	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	8	92892358	AG	A	300	PASS	RP11-122C21.1	Del	intronic	1	1	POLB	child	8_92892358_AGA_POLB	1	1	0	-	0	G	None
96ba4690-3286-11e6-abe7-b84190e2c2e6	9_68499849_ACAGA	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	9	68499849	ACAG	A	480	PASS	-	Del	-	3	2	POLE	child	9_68499849_ACAGA_POLE	3	3	3	CAG	1	CAG	Repeat-mediated
96c172ee-3295-11e6-a18f-4ded97ba1142	9_88102445_AAGCACTGTG	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	9	88102445	A	AGCACTGTG	300	PASS	-	Ins	-	8	1	POLB	child	9_88102445_AAGCACTGTG_POLB	8	8	-	-	-	-	Ins
96cdcc24-328b-11e6-aff5-85090e01a414	16_28884686_TTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	28884686	T	TG	1080	PASS	SH2B1	Ins	intronic	1	5	MSH6	child	16_28884686_TTG_MSH6	1	1	-	-	-	-	Ins
96d28fc0-329a-11e6-b549-1e5325c9da85	10_44686010_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	44686010	TA	T	593	PASS	-	Del	-	1	9	MSH6	child	10_44686010_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
96db06f4-325a-11e6-91d3-a68412ae24cf	7_142952140_GGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	142952140	G	GA	420	PASS	-	Ins	-	1	8	MSH6	child	7_142952140_GGA_MSH6	1	1	-	-	-	-	Ins
96dcc714-32a0-11e6-bc66-17b4cc638e3d	8_120304585_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	120304585	TA	T	672	PASS	-	Del	-	1	8	MSH6	child	8_120304585_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
96f9fbfc-327f-11e6-ba36-88d64dc77248	7_85682330_CTTC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	7	85682330	CTT	C	720	PASS	-	Del	-	2	3	NUDT1	child	7_85682330_CTTC_NUDT1	2	2	1	T	0	-	Microhomology-mediated
96ff3cf6-328a-11e6-bbaf-7c090e01a414	19_47694576_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	47694576	CA	C	300	PASS	SAE1	Del	intronic	1	9	MSH6	child	19_47694576_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
97005050-328a-11e6-afaf-7f6251c54cdd	6_144974353_TCT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	6	144974353	TC	T	660	PASS	UTRN	Del	intronic	1	7	EXO1	child	6_144974353_TCT_EXO1	1	1	1	C	6	C	Repeat-mediated
97038d24-3258-11e6-8cd9-139b7872c165	3_76922426_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	76922426	GA	G	480	PASS	ROBO2	Del	intronic	1	5	MSH6	child	3_76922426_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
9703c30a-328c-11e6-88c1-95c36f39e758	14_81534429_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	81534429	GA	G	360	PASS	TSHR	Del	intronic	1	9	MSH6	child	14_81534429_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
971377de-3276-11e6-8629-39703cfdbd24	4_18662912_TGGCGTGAACCCAT	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	4	18662912	TGGCGTGAACCCA	T	540	PASS	-	Del	-	12	1	CHK2	child	4_18662912_TGGCGTGAACCCAT_CHK2	12	>=10	2	GG	0	-	Microhomology-mediated
97164dbe-328b-11e6-b805-77090e01a414	2_157016214_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	157016214	CT	C	300	PASS	-	Del	-	1	6	MSH6	child	2_157016214_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
9716eaee-328b-11e6-919e-92c36f39e758	2_7669345_TGAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	7669345	TGA	T	480	PASS	-	Del	-	2	6	MSH6	child	2_7669345_TGAT_MSH6	2	2	2	GA	5	GA	Repeat-mediated
971923ee-3282-11e6-ba13-7508694da5d2	8_62021772_CTC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	8	62021772	CT	C	300	PASS	CLVS1	Del	intronic	1	9	NEIL1	child	8_62021772_CTC_NEIL1	1	1	1	T	8	T	Repeat-mediated
9733497e-3276-11e6-9bb2-e658c225ee11	20_42296595_GGAG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	20	42296595	GGA	G	530	PASS	MYBL2	Del	intronic	2	5	EXO1	parent	20_42296595_GGAG_EXO1	2	2	2	GA	4	GA	Repeat-mediated
97366bc0-3282-11e6-b735-71393dc9300a	10_93020746_TAAT	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	10	93020746	TAA	T	346	PASS	PCGF5	Del	intronic	2	6	NEIL1	parent	10_93020746_TAAT_NEIL1	2	2	2	AA	4	A	Repeat-mediated
9736bad8-3275-11e6-83cd-a472a178171f	4_37613211_ACA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	37613211	AC	A	720	PASS	RELL1	Del	downstream	1	6	MSH6	child	4_37613211_ACA_MSH6	1	1	1	C	5	C	Repeat-mediated
9740321c-3288-11e6-bf15-aeb06f39e758	6_7078118_CGC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	6	7078118	CG	C	540	PASS	-	Del	-	1	5	EXO1	child	6_7078118_CGC_EXO1	1	1	1	G	4	G	Repeat-mediated
9744d45e-329a-11e6-b74d-b59fcc638e3d	18_49571489_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	49571489	CT	C	660	PASS	-	Del	-	1	8	MSH6	child	18_49571489_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
9745327e-328f-11e6-9777-62d8191589db	5_76104851_CCA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	5	76104851	C	CA	300	PASS	-	Ins	-	1	9	FANCC	child	5_76104851_CCA_FANCC	1	1	-	-	-	-	Ins
9763ce88-329d-11e6-a5cf-e5abcc638e3d	9_106753369_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	106753369	GA	G	660	PASS	-	Del	-	1	7	MSH6	child	9_106753369_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
976597d0-328a-11e6-a729-f0a020e7b7a8	9_137995898_GGGTGAGTGCAGGAAGCTG	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	9	137995898	GGGTGAGTGCAGGAAGCT	G	420	PASS	OLFM1	Del	intronic	17	1	POLE	child	9_137995898_GGGTGAGTGCAGGAAGCTG_POLE	17	>=10	0	-	0	-	None
97689a88-3349-11e6-b3a1-d0f2137bb207	5_104254958_AATTTAATTTTTTTCACAGTTGAAACCATTGCTATTTTTTCTA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	5	104254958	AATTTAATTTTTTTCACAGTTGAAACCATTGCTATTTTTTCT	A	420	PASS	CTD-2374C24.1	Del	intronic	41	1	FANCC	child	5_104254958_AATTTAATTTTTTTCACAGTTGAAACCATTGCTATTTTTTCTA_FANCC	41	>=10	2	AT	0	-	Microhomology-mediated
976bfb14-3273-11e6-b332-88ba7d6a9fc7	15_67672198_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	67672198	CT	C	420	PASS	IQCH	Del	intronic	1	9	MSH6	child	15_67672198_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
976dd87a-3292-11e6-9483-bc0c9c6d3b88	5_101572770_TTA	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	5	101572770	T	TA	300	PASS	SLCO4C1	Ins	intronic	1	4	POLB	child	5_101572770_TTA_POLB	1	1	-	-	-	-	Ins
976dfd66-328b-11e6-bd84-429305ad5bc4	1_12212910_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	12212910	CT	C	900	PASS	-	Del	-	1	8	MSH6	child	1_12212910_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
977182da-3289-11e6-a100-84090e01a414	18_23446803_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	23446803	GA	G	780	PASS	-	Del	-	1	7	MSH6	child	18_23446803_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
97751b9c-3271-11e6-abaf-4642cab49462	6_7780846_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	7780846	AT	A	600	PASS	BMP6	Del	intronic	1	8	MSH6	child	6_7780846_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
977c0e2e-328b-11e6-b4fe-93c36f39e758	12_5406144_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	5406144	GA	G	300	PASS	RP11-1038A11.3	Del	intronic	1	9	MSH6	child	12_5406144_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
977dc314-3285-11e6-99f7-076ea2c71c31	12_103031692_TCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	103031692	TC	T	360	PASS	-	Del	-	1	1	MSH6	child	12_103031692_TCT_MSH6	1	1	0	-	0	C	None
979e1ee4-3293-11e6-b81f-4ee66f39e758	8_136178919_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	136178919	C	CA	300	PASS	-	Ins	-	1	6	MSH6	child	8_136178919_CCA_MSH6	1	1	-	-	-	-	Ins
97a02368-3272-11e6-b8ae-92c57872c165	14_32497113_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	32497113	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	14_32497113_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
97a75e02-3282-11e6-8500-13197e6a9fc7	1_189159894_GTG	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	1	189159894	GT	G	420	PASS	-	Del	-	1	5	POLB	child	1_189159894_GTG_POLB	1	1	1	T	4	T	Repeat-mediated
97addff8-3272-11e6-b8ae-92c57872c165	14_32501075_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	32501075	AT	A	720	PASS	-	Del	-	1	5	MSH6	child	14_32501075_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
97ae3196-3273-11e6-b8ae-92c57872c165	14_95869213_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	95869213	TA	T	420	PASS	LINC00341	Del	downstream	1	7	MSH6	child	14_95869213_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
97b7ed4e-3273-11e6-8f33-a6d9cde16804	11_109109980_ACTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	109109980	ACT	A	720	PASS	-	Del	-	2	6	MSH6	child	11_109109980_ACTA_MSH6	2	2	2	CT	5	CT	Repeat-mediated
97ba85ac-327f-11e6-94df-1cfc028949d4	14_25647145_CTC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	14	25647145	CT	C	360	PASS	-	Del	-	1	9	POLM	child	14_25647145_CTC_POLM	1	1	1	T	8	T	Repeat-mediated
97bb44ea-3272-11e6-9e18-3a69671699ea	10_15746352_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	15746352	AT	A	720	PASS	ITGA8	Del	intronic	1	7	MSH6	child	10_15746352_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
97bfaa2a-3273-11e6-abaf-4642cab49462	6_139828700_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	139828700	CA	C	300	PASS	-	Del	-	1	7	MSH6	child	6_139828700_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
97c291d4-3293-11e6-b88b-bca9fa52e078	17_78926998_TTATCTAGTTCC	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	17	78926998	T	TATCTAGTTCC	480	PASS	RPTOR	Ins	intronic	10	0	NUDT1	child	17_78926998_TTATCTAGTTCC_NUDT1	10	>=10	-	-	-	-	Ins
97cb684c-328c-11e6-8256-94c36f39e758	17_52429300_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	52429300	AT	A	600	PASS	-	Del	-	1	5	MSH6	child	17_52429300_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
97cd36fa-328b-11e6-ac7a-a3c36f39e758	18_4015811_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	4015811	CA	C	600	PASS	DLGAP1	Del	intronic	1	5	MSH6	child	18_4015811_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
97e102c8-328d-11e6-bc33-715238e8a824	2_2094578_CTTGC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	2	2094578	CTTG	C	300	PASS	MYT1L	Del	intronic	3	3	FANCC	child	2_2094578_CTTGC_FANCC	3	3	3	TTG	2	TTG	Repeat-mediated
97e5bebe-3272-11e6-81c8-19f506e9a829	2_124197819_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	2	124197819	AT	A	540	PASS	AC073409.1	Del	downstream	1	8	FANCC	child	2_124197819_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
97e8c2e4-326d-11e6-acc7-e55219a91649	1_97526938_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	97526938	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	1_97526938_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
97efd2f4-327d-11e6-94ee-5ee4b41afd22	9_12131813_CTC	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	9	12131813	CT	C	480	PASS	RP11-74C3.1	Del	intronic	1	6	POLM	child	9_12131813_CTC_POLM	1	1	1	T	5	T	Repeat-mediated
97f6940e-32a0-11e6-aea7-956725c9da85	3_143683088_TTAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	143683088	TTA	T	420	PASS	-	Del	-	2	1	MSH6	child	3_143683088_TTAT_MSH6	2	2	1	T	0	-	Microhomology-mediated
97fc4006-326f-11e6-a539-0e5542c4520d	7_41649297_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	41649297	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	7_41649297_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
98015b12-3284-11e6-aa7b-37792aaffa45	5_145696354_TAT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	5	145696354	TA	T	540	PASS	-	Del	-	1	7	POLE	child	5_145696354_TAT_POLE	1	1	1	A	6	A	Repeat-mediated
98033bf0-328c-11e6-8952-77c36f39e758	10_68147008_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	68147008	GA	G	419	PASS	CTNNA3	Del	intronic	1	9	MSH6	child	10_68147008_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
9803cdd4-328e-11e6-bfac-a2a9cdacbbbf	11_122559159_TGT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	11	122559159	TG	T	480	PASS	UBASH3B	Del	intronic	1	1	POLB	child	11_122559159_TGT_POLB	1	1	0	-	0	G	None
980b8d32-3255-11e6-89d3-d29498816cf3	2_221296192_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	221296192	AT	A	480	PASS	AC114765.1	Del	intronic	1	9	MSH6	child	2_221296192_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
98177d62-3274-11e6-a5d0-4fd14a47a305	2_193747488_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	193747488	CA	C	720	PASS	-	Del	-	1	9	MSH6	child	2_193747488_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
98178c52-3324-11e6-aa06-7ca120e7b7a8	7_68727670_CAC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	7	68727670	CA	C	300	PASS	RP11-3P22.2	Del	intronic	1	5	CHK2	child	7_68727670_CAC_CHK2	1	1	1	A	4	A	Repeat-mediated
981cc9bc-3273-11e6-aad4-1aca35cec73b	X_12917218_GGCGATTCCAACATGCAGGCAAAGTTGAGAACCACTGCTTCAGAGTCATTGCTTGATTGCAACAGATTCTCAAG	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	X	12917218	GGCGATTCCAACATGCAGGCAAAGTTGAGAACCACTGCTTCAGAGTCATTGCTTGATTGCAACAGATTCTCAA	G	720	PASS	-	Del	-	72	1	CHK2	child	X_12917218_GGCGATTCCAACATGCAGGCAAAGTTGAGAACCACTGCTTCAGAGTCATTGCTTGATTGCAACAGATTCTCAAG_CHK2	72	>=10	2	GC	0	-	Microhomology-mediated
98215328-328d-11e6-a2cb-f3ac12ae24cf	5_160715534_TAT	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	5	160715534	TA	T	300	PASS	GABRB2	Del	3prime_UTR_variant	1	3	CHK2	child	5_160715534_TAT_CHK2	1	1	1	A	2	A	Repeat-mediated
982d2966-326d-11e6-b9f4-5d1d694da5d2	14_85929660_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	85929660	GA	G	480	PASS	CTD-2128A3.2	Del	intronic	1	8	MSH6	child	14_85929660_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
9831c258-3283-11e6-9881-48b254de4fc4	5_132665080_AAGA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	5	132665080	AAG	A	300	PASS	FSTL4	Del	intronic	2	6	FANCC	child	5_132665080_AAGA_FANCC	2	2	2	AG	5	AG	Repeat-mediated
98322cea-329a-11e6-b129-195325c9da85	16_34743496_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	34743496	TA	T	480	PASS	RP11-80F22.15	Del	upstream	1	4	MSH6	child	16_34743496_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
9835c14e-3271-11e6-aebf-545f42c4520d	5_20479557_ATA	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	5	20479557	AT	A	360	PASS	CDH18	Del	intronic	1	6	POLB	child	5_20479557_ATA_POLB	1	1	1	T	5	T	Repeat-mediated
983727ac-326f-11e6-ae6c-8cc5620e6611	14_58527839_GCG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	14	58527839	GC	G	300	PASS	C14orf37	Del	intronic	1	3	EXO1	parent	14_58527839_GCG_EXO1	1	1	1	C	2	C	Repeat-mediated
983ba11c-3290-11e6-9401-04ed6f39e758	3_43135414_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	43135414	TA	T	660	PASS	POMGNT2	Del	intronic	1	9	MSH6	child	3_43135414_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
983e6726-329a-11e6-b549-1e5325c9da85	10_45340875_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	45340875	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	10_45340875_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
98400e9a-3278-11e6-a3f9-4821ead19ece	3_43506810_AAC	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	3	43506810	A	AC	540	PASS	ANO10	Ins	intronic	1	1	NEIL1	child	3_43506810_AAC_NEIL1	1	1	-	-	-	-	Ins
98448500-328d-11e6-8fd1-f2ac12ae24cf	X_104733104_CTC	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	X	104733104	CT	C	300	PASS	IL1RAPL2	Del	intronic	1	1	CHK2	child	X_104733104_CTC_CHK2	1	1	0	-	0	T	None
98480d92-3292-11e6-a9cd-ea307a852e0e	9_75892604_CTC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	9	75892604	CT	C	300	PASS	-	Del	-	1	8	CHK2	child	9_75892604_CTC_CHK2	1	1	1	T	7	T	Repeat-mediated
984893fc-3292-11e6-b77d-2eef6f39e758	6_146364432_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	146364432	TA	T	360	PASS	GRM1	Del	intronic	1	8	MSH6	child	6_146364432_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
98527f7c-329a-11e6-b129-195325c9da85	16_34839597_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	34839597	GT	G	600	PASS	-	Del	-	1	8	MSH6	child	16_34839597_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
98597afe-328e-11e6-b2c7-1b63694da5d2	9_35422384_GAG	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	9	35422384	GA	G	780	PASS	-	Del	-	1	7	POLM	child	9_35422384_GAG_POLM	1	1	1	A	6	A	Repeat-mediated
985a6a88-3278-11e6-a391-f6d67d6a9fc7	6_73543950_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	73543950	GA	G	660	PASS	KCNQ5	Del	intronic	1	8	MSH6	child	6_73543950_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
985bd018-329a-11e6-ae71-0c5325c9da85	1_33758130_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	33758130	CT	C	763	PASS	ZNF362	Del	intronic	1	8	MSH6	child	1_33758130_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
986488f2-3290-11e6-919e-92c36f39e758	2_86839483_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	86839483	T	TA	480	PASS	RNF103	Ins	intronic	1	8	MSH6	child	2_86839483_TTA_MSH6	1	1	-	-	-	-	Ins
986a0f10-3287-11e6-a21c-b819bce6aa09	X_102956513_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	102956513	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	X_102956513_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
98731010-3273-11e6-a5d0-4fd14a47a305	2_104069275_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	104069275	TA	T	660	PASS	-	Del	-	1	8	MSH6	child	2_104069275_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
987a9f00-3279-11e6-a391-f6d67d6a9fc7	6_147357449_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	147357449	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	6_147357449_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
98854ace-329a-11e6-bda6-065325c9da85	13_65040871_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	65040871	GA	G	660	PASS	-	Del	-	1	9	MSH6	child	13_65040871_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
9885d5ae-328e-11e6-b4b8-6de0977b3f23	5_21083960_TAT	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	5	21083960	TA	T	360	PASS	-	Del	-	1	8	NEIL1	child	5_21083960_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
98a1df74-3257-11e6-acc5-308412ae24cf	5_82993688_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	82993688	AT	A	300	PASS	HAPLN1	Del	intronic	1	6	MSH6	child	5_82993688_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
98a343ae-3258-11e6-acc5-308412ae24cf	5_161925266_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	161925266	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	5_161925266_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
98a565de-3259-11e6-a39a-dc8512ae24cf	8_130914987_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	130914987	TA	T	540	PASS	FAM49B	Del	intronic	1	8	MSH6	child	8_130914987_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
98b0255a-3272-11e6-a5d0-4fd14a47a305	2_20080720_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	20080720	CT	C	720	PASS	LINC00954	Del	intronic	1	5	MSH6	child	2_20080720_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
98bacc60-326f-11e6-b5b8-e0c24a47a305	X_53383688_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	53383688	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	X_53383688_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
98bc62e8-3272-11e6-bfa3-628a0cfb5812	X_139139394_GAAG	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	X	139139394	GAA	G	300	PASS	-	Del	-	2	2	POLB	child	X_139139394_GAAG_POLB	2	2	0	-	0	-	None
98bcd494-3272-11e6-8f33-a6d9cde16804	11_21356874_CCTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	21356874	CCT	C	360	PASS	NELL1	Del	intronic	2	7	MSH6	child	11_21356874_CCTC_MSH6	2	2	2	CT	6	CT	Repeat-mediated
98c0df58-326d-11e6-b306-b5204b47a305	2_85637955_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	85637955	AT	A	360	PASS	CAPG	Del	upstream	1	8	MSH6	child	2_85637955_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
98c17972-3277-11e6-92d2-c259c225ee11	3_93868050_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	93868050	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	3_93868050_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
98c80d40-326e-11e6-9d68-ac9acab49462	15_85391135_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	85391135	CA	C	420	PASS	ALPK3	Del	intronic	1	8	MSH6	child	15_85391135_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
98cb48f6-328d-11e6-b9c4-751d0e01a414	5_86584520_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	86584520	CT	C	600	PASS	RASA1	Del	intronic	1	8	MSH6	child	5_86584520_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
98ccb5a2-3322-11e6-8c1c-2deb137bb207	15_83691740_TAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	15	83691740	TA	T	360	PASS	BTBD1	Del	intronic	1	9	EXO1	child	15_83691740_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
98cdbd70-326f-11e6-8ed8-0863a78019ab	5_56408233_TCT	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	5	56408233	TC	T	600	PASS	-	Del	-	1	5	POLM	parent	5_56408233_TCT_POLM	1	1	1	C	4	C	Repeat-mediated
98d6dbee-3251-11e6-b895-bae612ae24cf	2_3386988_CTC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	2	3386988	CT	C	352	PASS	TRAPPC12	Del	intronic	1	7	POLB	child	2_3386988_CTC_POLB	1	1	1	T	6	T	Repeat-mediated
98da7bd0-329e-11e6-b696-dd6225c9da85	5_96388588_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	96388588	AT	A	900	PASS	-	Del	-	1	8	MSH6	child	5_96388588_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
98ddc306-3278-11e6-92d2-c259c225ee11	3_167421065_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	167421065	TA	T	360	PASS	PDCD10	Del	intronic	1	9	MSH6	child	3_167421065_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
98f26df6-3287-11e6-b32c-fd87a2c71c31	5_150453778_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	150453778	AT	A	300	PASS	TNIP1	Del	intronic	1	8	MSH6	child	5_150453778_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
98fe7684-3285-11e6-bec9-6bfa4430f757	10_118064664_GTG	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	10	118064664	GT	G	420	PASS	-	Del	-	1	9	EXO1	child	10_118064664_GTG_EXO1	1	1	1	T	8	T	Repeat-mediated
99027df0-3281-11e6-a5e9-0107694da5d2	7_97353625_TAT	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	7	97353625	TA	T	420	PASS	-	Del	-	1	9	NEIL1	child	7_97353625_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
99051e46-3274-11e6-a5d0-4fd14a47a305	2_194251197_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	194251197	AT	A	300	PASS	-	Del	-	1	2	MSH6	child	2_194251197_ATA_MSH6	1	1	1	T	1	T	Repeat-mediated
990c7224-328b-11e6-bd1b-5fcc977b3f23	11_15870382_TGT	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	11	15870382	TG	T	720	PASS	-	Del	-	1	1	NEIL1	child	11_15870382_TGT_NEIL1	1	1	0	-	0	G	None
991a1edc-328c-11e6-aa75-90c36f39e758	13_88786823_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	88786823	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	13_88786823_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
991b755c-328c-11e6-9c1f-afbe38e8a824	8_104762234_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	8	104762234	AT	A	540	PASS	RIMS2	Del	intronic	1	9	NUDT1	parent	8_104762234_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
991be3f8-3272-11e6-8f33-a6d9cde16804	11_21412467_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	21412467	GT	G	600	PASS	NELL1	Del	intronic	1	8	MSH6	child	11_21412467_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
991cb49c-3347-11e6-aa8a-bd633cfdbd24	15_88343113_TAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	15	88343113	TA	T	300	PASS	-	Del	-	1	6	FANCC	child	15_88343113_TAT_FANCC	1	1	1	A	5	A	Repeat-mediated
99210fee-3282-11e6-9ece-78393dc9300a	11_86444921_TAT	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	11	86444921	TA	T	660	PASS	CTD-2005H7.2	Del	intronic	1	9	NEIL1	parent	11_86444921_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
99240806-3279-11e6-a391-f6d67d6a9fc7	6_147726989_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	147726989	TA	T	420	PASS	-	Del	-	1	7	MSH6	child	6_147726989_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
99249250-3295-11e6-9985-7c540d016689	6_92935673_GGTGAGAATTTG	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	6	92935673	GGTGAGAATTT	G	300	PASS	-	Del	-	10	1	NUDT1	child	6_92935673_GGTGAGAATTTG_NUDT1	10	>=10	2	GT	0	-	Microhomology-mediated
99256a72-3281-11e6-8cf9-a42236fc2f7d	17_56668375_GAG	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	17	56668375	GA	G	420	PASS	TEX14	Del	intronic	1	5	NUDT1	child	17_56668375_GAG_NUDT1	1	1	1	A	4	A	Repeat-mediated
9936401e-328f-11e6-baa7-a96919a91649	2_123154833_CTC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	2	123154833	CT	C	360	PASS	-	Del	-	1	9	NEIL1	child	2_123154833_CTC_NEIL1	1	1	1	T	8	T	Repeat-mediated
99365860-328f-11e6-9230-fb250e01a414	3_113199567_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	113199567	TA	T	300	PASS	SPICE1	Del	intronic	1	9	MSH6	child	3_113199567_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
993a1184-3272-11e6-bfb2-2749c225ee11	12_16623122_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	16623122	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	12_16623122_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
994592be-326f-11e6-a20d-eeb97872c165	17_45640937_AGTA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	17	45640937	AGT	A	427	PASS	NPEPPS	Del	intronic	2	2	NEIL1	child	17_45640937_AGTA_NEIL1	2	2	2	GT	1	GT	Repeat-mediated
994b1cb2-3322-11e6-b73c-6a3781635058	1_156263495_CCCTC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	1	156263495	CCCT	C	300	PASS	TMEM79	Del	downstream	3	2	CHK2	child	1_156263495_CCCTC_CHK2	3	3	3	CCT	1	CCT	Repeat-mediated
99540d3e-327f-11e6-b066-e9d4d4957ca3	1_166219544_GTATTG	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	1	166219544	GTATT	G	610	PASS	-	Del	-	4	1	NEIL1	child	1_166219544_GTATTG_NEIL1	4	4	1	T	0	-	Microhomology-mediated
995cfdc4-3255-11e6-89d3-d29498816cf3	2_221833114_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	221833114	CT	C	600	PASS	-	Del	-	1	9	MSH6	child	2_221833114_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
996acdc6-3275-11e6-8ac8-25fbd7fd0a58	X_98314430_TGTGT	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	X	98314430	TGTG	T	300	PASS	-	Del	-	3	1	NEIL1	child	X_98314430_TGTGT_NEIL1	3	3	2	GT	0	-	Microhomology-mediated
997a00ec-3325-11e6-95a6-476ac042253c	3_55281336_CTC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	3	55281336	CT	C	540	PASS	-	Del	-	1	9	CHK2	child	3_55281336_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
9982a5e2-3273-11e6-869c-1303630e6611	19_9478440_ATA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	19	9478440	AT	A	480	PASS	ZNF559-ZNF177	Del	intronic	1	7	CHK2	child	19_9478440_ATA_CHK2	1	1	1	T	6	T	Repeat-mediated
9986cdba-3288-11e6-ad64-7189a178171f	5_9453697_TAATGAACCAATTGCATATTAAATAAGTTGTTTTTAACAAAAAATGCACTTGAAACAAGGTTATTTATTGATCAGTTGACAAAAATATGGTGACCAGAGGCTCGCAGGAACCAAACCCTATATTTCCCCTAGGAGCAGTGGTTCAGGATTTGCTAATTCAGTATTTGCAGTGACTTCATAGAGCATAATTACCACATGCTCTCAATGATAAGAAGAAAAGACGTAAAATATCAAAGGACATGAGCAACAGATATAACACCCTAACAGTCTTCCCCAGCCTGACACAGGATCATCACAGGCCAACCTGAAGGACTGTGTAAGTAGAGTTTTTTCAGTTCACTCAGAAGAGTAATCAGCTCCACAGAGGGAGATCCT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	5	9453697	TAATGAACCAATTGCATATTAAATAAGTTGTTTTTAACAAAAAATGCACTTGAAACAAGGTTATTTATTGATCAGTTGACAAAAATATGGTGACCAGAGGCTCGCAGGAACCAAACCCTATATTTCCCCTAGGAGCAGTGGTTCAGGATTTGCTAATTCAGTATTTGCAGTGACTTCATAGAGCATAATTACCACATGCTCTCAATGATAAGAAGAAAAGACGTAAAATATCAAAGGACATGAGCAACAGATATAACACCCTAACAGTCTTCCCCAGCCTGACACAGGATCATCACAGGCCAACCTGAAGGACTGTGTAAGTAGAGTTTTTTCAGTTCACTCAGAAGAGTAATCAGCTCCACAGAGGGAGATCC	T	600	PASS	SEMA5A	Del	intronic	373	1	FANCC	child	5_9453697_TAATGAACCAATTGCATATTAAATAAGTTGTTTTTAACAAAAAATGCACTTGAAACAAGGTTATTTATTGATCAGTTGACAAAAATATGGTGACCAGAGGCTCGCAGGAACCAAACCCTATATTTCCCCTAGGAGCAGTGGTTCAGGATTTGCTAATTCAGTATTTGCAGTGACTTCATAGAGCATAATTACCACATGCTCTCAATGATAAGAAGAAAAGACGTAAAATATCAAAGGACATGAGCAACAGATATAACACCCTAACAGTCTTCCCCAGCCTGACACAGGATCATCACAGGCCAACCTGAAGGACTGTGTAAGTAGAGTTTTTTCAGTTCACTCAGAAGAGTAATCAGCTCCACAGAGGGAGATCCT_FANCC	373	>=10	4	AATG	0	-	Microhomology-mediated
999a59f0-3253-11e6-bf41-357a7872c165	10_6297441_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	6297441	GT	G	540	PASS	-	Del	-	1	6	MSH6	child	10_6297441_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
999a6dce-3275-11e6-a71d-236235cec73b	X_23249877_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	23249877	AT	A	300	PASS	RP11-40F8.2	Del	intronic	1	6	MSH6	child	X_23249877_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
999aaf2a-326e-11e6-b306-b5204b47a305	2_176649592_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	176649592	TA	T	308	PASS	-	Del	-	1	6	MSH6	child	2_176649592_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
99a05704-3273-11e6-8e5c-87d3d7fd0a58	1_61305999_GGA	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	1	61305999	G	GA	420	PASS	-	Ins	-	1	8	POLB	child	1_61305999_GGA_POLB	1	1	-	-	-	-	Ins
99a5042a-326e-11e6-9d68-ac9acab49462	15_85428661_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	85428661	GA	G	300	PASS	SLC28A1	Del	intronic	1	9	MSH6	child	15_85428661_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
99a76a0c-328d-11e6-8dad-8fe0191589db	21_36062225_CCAAAC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	21	36062225	CCAAA	C	300	PASS	CLIC6	Del	intronic	4	1	FANCC	child	21_36062225_CCAAAC_FANCC	4	4	2	CA	0	-	Microhomology-mediated
99aa3fb6-327e-11e6-ab3d-fefad0959d89	X_40174400_CAGC	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	X	40174400	CAG	C	900	PASS	-	Del	-	2	7	POLB	parent	X_40174400_CAGC_POLB	2	2	2	AG	6	AG	Repeat-mediated
99aaedb4-3277-11e6-83cd-a472a178171f	4_181532311_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	181532311	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	4_181532311_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
99afee04-329a-11e6-a5cf-205325c9da85	11_46141797_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	46141797	AT	A	360	PASS	PHF21A	Del	intronic	1	8	MSH6	child	11_46141797_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
99b6ae04-3274-11e6-803d-c550e7d0bdd7	11_9235355_CCAAAAAAAAAAAAA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	11	9235355	C	CAAAAAAAAAAAAA	300	PASS	DENND5A	Ins	intronic	13	9	EXO1	child	11_9235355_CCAAAAAAAAAAAAA_EXO1	13	>=10	-	-	-	-	Ins
99bce310-3287-11e6-a21c-b819bce6aa09	X_103573985_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	103573985	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	X_103573985_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
99be1fbc-3289-11e6-8eee-76090e01a414	10_21222969_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	21222969	TA	T	420	PASS	NEBL	Del	intronic	1	9	MSH6	child	10_21222969_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
99c3e102-3259-11e6-885f-d1947872c165	4_43522479_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	43522479	A	AT	600	PASS	-	Ins	-	1	5	MSH6	child	4_43522479_AAT_MSH6	1	1	-	-	-	-	Ins
99c47fa4-3272-11e6-b89d-b2d6b0dab373	4_4342562_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	4342562	C	CA	420	PASS	-	Ins	-	1	7	MSH6	child	4_4342562_CCA_MSH6	1	1	-	-	-	-	Ins
99ca6ee4-3251-11e6-b676-5605ee3c4f5d	12_2376494_TAT	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	12	2376494	TA	T	720	PASS	CACNA1C	Del	intronic	1	5	POLB	child	12_2376494_TAT_POLB	1	1	1	A	4	A	Repeat-mediated
99cabef0-3277-11e6-9e0f-7959cab49462	7_140531506_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	140531506	AT	A	840	PASS	BRAF	Del	intronic	1	8	MSH6	child	7_140531506_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
99d04b26-328c-11e6-8770-3e160e01a414	9_77791692_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	77791692	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	9_77791692_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
99d24226-3275-11e6-8cf1-8b341daa6045	16_56291087_TGT	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	16	56291087	TG	T	660	PASS	GNAO1	Del	intronic	1	9	POLM	child	16_56291087_TGT_POLM	1	1	1	G	8	G	Repeat-mediated
99ddd968-3290-11e6-b77d-2eef6f39e758	6_11573393_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	11573393	CT	C	420	PASS	TMEM170B	Del	intronic	1	7	MSH6	child	6_11573393_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
99e23a20-3273-11e6-b8ae-92c57872c165	14_96441090_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	96441090	TA	T	540	PASS	-	Del	-	1	5	MSH6	child	14_96441090_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
99e361f0-3289-11e6-8feb-e6ab6f39e758	3_162634384_GTTG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	3	162634384	GTT	G	420	PASS	-	Del	-	2	2	EXO1	child	3_162634384_GTTG_EXO1	2	2	0	-	0	-	None
99e39a6e-3273-11e6-88b6-40832aaffa45	1_19855438_TAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	19855438	TA	T	540	PASS	-	Del	-	1	7	EXO1	child	1_19855438_TAT_EXO1	1	1	1	A	6	A	Repeat-mediated
99e90f16-3279-11e6-a391-f6d67d6a9fc7	6_147948333_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	147948333	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	6_147948333_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
99ea381a-3291-11e6-9432-c0e56f39e758	5_22458463_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	22458463	T	TA	600	PASS	CDH12	Ins	intronic	1	6	MSH6	child	5_22458463_TTA_MSH6	1	1	-	-	-	-	Ins
99eb02c6-329c-11e6-aca6-b39fcc638e3d	2_183863584_AAGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	183863584	AAG	A	420	PASS	NCKAP1	Del	intronic	2	1	MSH6	child	2_183863584_AAGA_MSH6	2	2	0	-	0	-	None
9a05364c-3273-11e6-b332-88ba7d6a9fc7	15_67853250_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	67853250	CT	C	720	PASS	MAP2K5	Del	intronic	1	7	MSH6	child	15_67853250_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
9a089020-3274-11e6-b7db-2a26987b3f23	21_23137380_TCAT	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	21	23137380	TCA	T	360	PASS	AP000475.2	Del	intronic	2	6	POLB	child	21_23137380_TCAT_POLB	2	2	2	CA	5	CA	Repeat-mediated
9a0efdf0-3285-11e6-a0a8-096ea2c71c31	11_115034019_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	115034019	TA	T	600	PASS	-	Del	-	1	6	MSH6	child	11_115034019_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
9a0f1134-326f-11e6-9fba-41ebd8b4fa2c	11_115446816_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	115446816	CA	C	300	PASS	-	Del	-	1	7	MSH6	child	11_115446816_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
9a1160bc-3272-11e6-bbeb-70bd19a91649	20_49388967_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	20	49388967	AT	A	297	PASS	-	Del	-	1	9	MSH6	child	20_49388967_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
9a123548-3270-11e6-b5b8-e0c24a47a305	X_70665305_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	70665305	CT	C	360	PASS	TAF1	Del	intronic	1	7	MSH6	child	X_70665305_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
9a18c754-326c-11e6-9003-ae204b47a305	19_491274_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	491274	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	19_491274_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
9a1b2584-329a-11e6-8069-175325c9da85	12_46464258_TCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	46464258	TC	T	840	PASS	-	Del	-	1	4	MSH6	child	12_46464258_TCT_MSH6	1	1	1	C	3	C	Repeat-mediated
9a1d3cac-327c-11e6-8c6a-eb8590e2c2e6	10_31181170_ATA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	10	31181170	AT	A	360	PASS	ZNF438	Del	intronic	1	6	NUDT1	child	10_31181170_ATA_NUDT1	1	1	1	T	5	T	Repeat-mediated
9a1d748c-3273-11e6-a5d0-4fd14a47a305	2_105154303_TCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	105154303	TC	T	420	PASS	-	Del	-	1	7	MSH6	child	2_105154303_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
9a2114b2-329a-11e6-8d0f-075325c9da85	14_62683736_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	62683736	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	14_62683736_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
9a24bd86-326f-11e6-a539-0e5542c4520d	7_42699933_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	42699933	TA	T	300	PASS	AC027269.2	Del	downstream	1	7	MSH6	child	7_42699933_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
9a2577cc-328c-11e6-919e-92c36f39e758	2_72451475_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	72451475	AC	A	600	PASS	EXOC6B	Del	intronic	1	5	MSH6	child	2_72451475_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
9a2afeee-328d-11e6-b8c3-19a5e7d0bdd7	12_1664268_CCTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	12	1664268	CCT	C	480	PASS	-	Del	-	2	3	FANCC	child	12_1664268_CCTC_FANCC	2	2	2	CT	2	CT	Repeat-mediated
9a2e8f56-334a-11e6-911d-cdceb0dab373	9_22020298_ATA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	9	22020298	AT	A	360	PASS	-	Del	-	1	8	FANCC	child	9_22020298_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
9a2fb350-3254-11e6-a4a7-35f212ae24cf	14_87587163_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	87587163	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	14_87587163_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
9a38f996-3273-11e6-b776-ad832aaffa45	13_36568694_TAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	13	36568694	TA	T	720	PASS	DCLK1	Del	intronic	1	8	EXO1	child	13_36568694_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
9a3b5ea4-3276-11e6-8c15-5448694da5d2	5_173796436_GTG	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	5	173796436	GT	G	600	PASS	RP11-267A15.1	Del	intronic	1	7	NEIL1	child	5_173796436_GTG_NEIL1	1	1	1	T	6	T	Repeat-mediated
9a42d042-328c-11e6-9c89-8d090e01a414	1_199478537_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	199478537	TA	T	540	PASS	-	Del	-	1	6	MSH6	child	1_199478537_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
9a43f2d0-326c-11e6-92dd-fda8977b3f23	10_14853966_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	14853966	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	10_14853966_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
9a44e532-3271-11e6-81c8-19f506e9a829	2_53076929_CAC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	2	53076929	CA	C	720	PASS	AC010967.2	Del	intronic	1	4	FANCC	child	2_53076929_CAC_FANCC	1	1	1	A	3	A	Repeat-mediated
9a4700fa-328b-11e6-8106-81c36f39e758	19_4993929_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	4993929	AT	A	480	PASS	KDM4B	Del	intronic	1	9	MSH6	child	19_4993929_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
9a4e9e58-3328-11e6-868e-d16670cce0de	6_117109792_ATA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	6	117109792	AT	A	720	PASS	GPRC6A	Del	downstream	1	7	EXO1	child	6_117109792_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
9a4ef74e-3289-11e6-a32d-75090e01a414	14_40710959_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	40710959	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	14_40710959_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
9a53a85a-3254-11e6-a4a7-35f212ae24cf	14_87628955_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	87628955	CT	C	900	PASS	-	Del	-	1	9	MSH6	child	14_87628955_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
9a5451a8-3284-11e6-94be-6cfa4430f757	12_53962582_ATA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	12	53962582	AT	A	600	PASS	ATF7	Del	intronic	1	6	EXO1	child	12_53962582_ATA_EXO1	1	1	1	T	5	T	Repeat-mediated
9a5543a4-328b-11e6-8256-94c36f39e758	17_4241514_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	4241514	GA	G	300	PASS	UBE2G1	Del	intronic	1	8	MSH6	child	17_4241514_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
9a5b4bc0-3270-11e6-a539-0e5542c4520d	7_117170566_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	117170566	CA	C	300	PASS	CFTR	Del	intronic	1	9	MSH6	child	7_117170566_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
9a5ca0de-3288-11e6-a8ac-a28ea2c71c31	3_90138282_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	90138282	CA	C	360	PASS	-	Del	-	1	7	MSH6	child	3_90138282_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
9a612048-3281-11e6-a1d1-b18df4b7c17d	1_177236922_ATA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	1	177236922	AT	A	360	PASS	BRINP2	Del	intronic	1	6	FANCC	child	1_177236922_ATA_FANCC	1	1	1	T	5	T	Repeat-mediated
9a6752f8-3270-11e6-9d19-c216987b3f23	21_25670497_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	21	25670497	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	21_25670497_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
9a6a78e0-3287-11e6-b32c-fd87a2c71c31	5_151029568_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	151029568	AT	A	540	PASS	-	Del	-	1	8	MSH6	child	5_151029568_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
9a6c14be-329d-11e6-a5cf-e5abcc638e3d	9_107518622_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	107518622	GA	G	300	PASS	NIPSNAP3A	Del	intronic	1	9	MSH6	child	9_107518622_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
9a78ae90-328e-11e6-b9c4-751d0e01a414	5_159808306_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	159808306	CA	C	360	PASS	-	Del	-	1	5	MSH6	child	5_159808306_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
9a7b8538-328f-11e6-9d97-efe56f39e758	4_65166492_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	65166492	GT	G	600	PASS	TECRL	Del	intronic	1	5	MSH6	child	4_65166492_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
9a7c0b7a-326c-11e6-b2ac-b6204b47a305	17_279187_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	279187	AT	A	480	PASS	-	Del	-	1	6	MSH6	child	17_279187_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
9a87e746-3272-11e6-aa3b-ca60a178171f	13_32430318_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	32430318	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	13_32430318_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
9a88dbc4-328b-11e6-bd84-429305ad5bc4	1_14461335_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	14461335	GA	G	360	PASS	-	Del	-	1	4	MSH6	child	1_14461335_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
9a8a8dda-3285-11e6-8ebc-68f1bbe6aa09	18_52935752_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	52935752	T	TA	480	PASS	TCF4	Ins	intronic	1	7	MSH6	child	18_52935752_TTA_MSH6	1	1	-	-	-	-	Ins
9a8dc558-328b-11e6-aa75-90c36f39e758	13_24353607_TGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	24353607	TG	T	780	PASS	MIPEP	Del	intronic	1	8	MSH6	child	13_24353607_TGT_MSH6	1	1	1	G	7	G	Repeat-mediated
9a90f93a-3286-11e6-afd8-be14987b3f23	5_178099579_CAGC	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	5	178099579	CAG	C	660	PASS	-	Del	-	2	2	NEIL1	parent	5_178099579_CAGC_NEIL1	2	2	2	AG	1	AG	Repeat-mediated
9a913120-3290-11e6-9230-fb250e01a414	3_177204585_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	177204585	AT	A	300	PASS	LINC00578	Del	intronic	1	9	MSH6	child	3_177204585_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
9a959e90-3277-11e6-a71d-236235cec73b	X_127888748_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	127888748	CA	C	600	PASS	-	Del	-	1	8	MSH6	child	X_127888748_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
9a977576-3272-11e6-9ef9-d85a25c9da85	3_3996248_GAG	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	3	3996248	GA	G	300	PASS	SUMF1	Del	intronic	1	5	POLM	child	3_3996248_GAG_POLM	1	1	1	A	4	A	Repeat-mediated
9a979482-3256-11e6-91d3-a68412ae24cf	7_7262583_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	7262583	TA	T	480	PASS	C1GALT1	Del	intronic	1	8	MSH6	child	7_7262583_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
9a97b176-328b-11e6-8590-58cc977b3f23	14_37402464_GCG	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	14	37402464	GC	G	300	PASS	SLC25A21	Del	intronic	1	4	NEIL1	child	14_37402464_GCG_NEIL1	1	1	1	C	3	C	Repeat-mediated
9a99d362-3258-11e6-aed0-182fee3c4f5d	20_51124754_GAG	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	20	51124754	GA	G	480	PASS	RP4-723E3.1	Del	intronic	1	9	POLB	child	20_51124754_GAG_POLB	1	1	1	A	8	A	Repeat-mediated
9a9e9774-3273-11e6-abaf-4642cab49462	6_140446216_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	140446216	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	6_140446216_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
9aa45c4c-328a-11e6-8459-82090e01a414	12_78720420_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	78720420	CT	C	300	PASS	RP11-38F22.1	Del	downstream	1	5	MSH6	child	12_78720420_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
9aa9e2ac-3253-11e6-a03d-40f212ae24cf	18_4742554_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	18	4742554	CA	C	300	PASS	-	Del	-	1	7	MSH6	child	18_4742554_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
9aae73a0-328d-11e6-b4fe-93c36f39e758	12_123666277_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	123666277	TA	T	420	PASS	MPHOSPH9	Del	intronic	1	9	MSH6	child	12_123666277_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
9aafa25c-3279-11e6-bc24-bc6e3cfdbd24	6_48034793_AATTT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	6	48034793	A	ATTT	540	PASS	PTCHD4	Ins	intronic	3	6	MSH6	parent	6_48034793_AATTT_MSH6	3	3	-	-	-	-	Ins
9ab1b928-326c-11e6-b306-b5204b47a305	2_916306_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	916306	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	2_916306_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
9abce1e6-329d-11e6-94ca-0aaecc638e3d	X_56720787_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	56720787	AT	A	600	PASS	-	Del	-	1	8	MSH6	child	X_56720787_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
9abd449e-334a-11e6-a997-309d38e8a824	4_166543629_GAG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	4	166543629	GA	G	360	PASS	-	Del	-	1	9	FANCC	child	4_166543629_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
9ad30624-328e-11e6-bec1-ca1d0e01a414	X_110931602_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	110931602	TA	T	480	PASS	ALG13	Del	3prime_UTR_variant	1	7	MSH6	child	X_110931602_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
9ade35ba-3254-11e6-b7c7-cd919b6d3b88	18_30129417_TTGAT	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	18	30129417	TTGA	T	540	PASS	-	Del	-	3	2	POLM	child	18_30129417_TTGAT_POLM	3	3	3	TGA	1	TGA	Repeat-mediated
9ae2edbe-3284-11e6-8b67-086ea2c71c31	1_19430942_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	19430942	GA	G	540	PASS	UBR4	Del	intronic	1	8	MSH6	child	1_19430942_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
9aeae80e-3273-11e6-b8ae-92c57872c165	14_96712714_TCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	96712714	TC	T	360	PASS	BDKRB2	Del	downstream	1	4	MSH6	child	14_96712714_TCT_MSH6	1	1	1	C	3	C	Repeat-mediated
9aeccaa4-326c-11e6-9f48-94df41c4520d	12_6681730_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	6681730	CT	C	308	PASS	CHD4	Del	intronic	1	8	MSH6	child	12_6681730_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
9af0e3ee-3278-11e6-a5d7-eb6be7d0bdd7	6_167390887_TAAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	6	167390887	TAA	T	360	PASS	-	Del	-	2	3	EXO1	child	6_167390887_TAAT_EXO1	2	2	1	A	0	-	Microhomology-mediated
9af8357a-3293-11e6-b4ea-e05798ba1142	18_50040521_GGTA	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	18	50040521	G	GTA	300	PASS	DCC	Ins	intronic	2	5	POLB	child	18_50040521_GGTA_POLB	2	2	-	-	-	-	Ins
9afefd32-3253-11e6-a03d-40f212ae24cf	18_4821122_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	18	4821122	GA	G	300	PASS	RP11-172F10.1	Del	intronic	1	8	MSH6	child	18_4821122_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
9b018ba8-32a1-11e6-bc66-17b4cc638e3d	8_15491096_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	15491096	A	AT	360	PASS	TUSC3	Ins	intronic	1	6	MSH6	child	8_15491096_AAT_MSH6	1	1	-	-	-	-	Ins
9b0b05c6-3287-11e6-a21c-b819bce6aa09	X_104610450_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	104610450	CT	C	540	PASS	IL1RAPL2	Del	intronic	1	6	MSH6	child	X_104610450_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
9b1c0654-328d-11e6-b9c4-751d0e01a414	5_87655791_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	87655791	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	5_87655791_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
9b26cb94-3291-11e6-b81f-4ee66f39e758	8_134234085_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	134234085	TA	T	360	PASS	WISP1	Del	intronic	1	6	MSH6	child	8_134234085_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
9b2c2f8a-3273-11e6-88b6-40832aaffa45	1_20155323_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	20155323	AT	A	660	PASS	-	Del	-	1	7	EXO1	child	1_20155323_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
9b2e9b8c-3276-11e6-8f3b-7b67e7d0bdd7	22_48855963_AATGTGGCACCATTCCCTGGGGTGATCAGCCAGCTACCTGGGGGCAGGTTGATTACATTGGACTGCTTCCACCCTGGACAAGGCAGCATTTTGTCCTTGCTGGAACAGGCACTCTGGGCGTGGATTTGTCTTCCCTGCACTCAATGCTGCTGCAAAAACCACCATCCCTGGGCTCACAGCTGCCTCGTCCACCATCGTGCTGTCCACACGGCATTGCCTCTCACCAAGGAGCTCACGTGACACAAATGAAGTGCGGCAATGGGCTCAGGCTCATAGAATGCCCTGGTCGCATCCTGCTTTGTGTAATCCTGAAGCAGCAGAGACCAGCGCTGGGCCCCGA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	22	48855963	AATGTGGCACCATTCCCTGGGGTGATCAGCCAGCTACCTGGGGGCAGGTTGATTACATTGGACTGCTTCCACCCTGGACAAGGCAGCATTTTGTCCTTGCTGGAACAGGCACTCTGGGCGTGGATTTGTCTTCCCTGCACTCAATGCTGCTGCAAAAACCACCATCCCTGGGCTCACAGCTGCCTCGTCCACCATCGTGCTGTCCACACGGCATTGCCTCTCACCAAGGAGCTCACGTGACACAAATGAAGTGCGGCAATGGGCTCAGGCTCATAGAATGCCCTGGTCGCATCCTGCTTTGTGTAATCCTGAAGCAGCAGAGACCAGCGCTGGGCCCCG	A	300	PASS	-	Del	-	338	1	EXO1	child	22_48855963_AATGTGGCACCATTCCCTGGGGTGATCAGCCAGCTACCTGGGGGCAGGTTGATTACATTGGACTGCTTCCACCCTGGACAAGGCAGCATTTTGTCCTTGCTGGAACAGGCACTCTGGGCGTGGATTTGTCTTCCCTGCACTCAATGCTGCTGCAAAAACCACCATCCCTGGGCTCACAGCTGCCTCGTCCACCATCGTGCTGTCCACACGGCATTGCCTCTCACCAAGGAGCTCACGTGACACAAATGAAGTGCGGCAATGGGCTCAGGCTCATAGAATGCCCTGGTCGCATCCTGCTTTGTGTAATCCTGAAGCAGCAGAGACCAGCGCTGGGCCCCGA_EXO1	338	>=10	36	ATGTGGCACCATTCCCTGGGGTGATCAGCCAGCTAC	0	-	Microhomology-mediated
9b3c9872-3280-11e6-9da4-3e472a2d4995	1_8628722_GCCCCTTGAG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	1	8628722	GCCCCTTGA	G	660	PASS	RERE	Del	intronic	8	1	EXO1	child	1_8628722_GCCCCTTGAG_EXO1	8	8	2	CC	0	-	Microhomology-mediated
9b456fe4-328d-11e6-a278-48230e01a414	21_14483098_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	21	14483098	TA	T	279	PASS	-	Del	-	1	7	MSH6	child	21_14483098_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
9b474c08-329f-11e6-91d0-016425c9da85	7_127819749_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	127819749	CA	C	780	PASS	-	Del	-	1	8	MSH6	child	7_127819749_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
9b50b414-3254-11e6-bb62-81f712ae24cf	X_23952986_CTC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	X	23952986	CT	C	300	PASS	CXorf58	Del	intronic	1	9	POLB	child	X_23952986_CTC_POLB	1	1	1	T	8	T	Repeat-mediated
9b50c828-3254-11e6-aedc-3df212ae24cf	19_44391222_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	19	44391222	TA	T	360	PASS	ZNF404	Del	upstream	1	9	MSH6	child	19_44391222_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
9b537732-3270-11e6-b337-78fbd8b4fa2c	2_7529102_GTACAGGTATTGGGTAAAG	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	2	7529102	GTACAGGTATTGGGTAAA	G	420	PASS	-	Del	-	17	1	POLB	child	2_7529102_GTACAGGTATTGGGTAAAG_POLB	17	>=10	10	TACAGGTATT	0	-	Microhomology-mediated
9b558214-3272-11e6-b332-88ba7d6a9fc7	15_28143937_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	28143937	AT	A	480	PASS	OCA2	Del	intronic	1	6	MSH6	child	15_28143937_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
9b55e83e-326e-11e6-acc7-e55219a91649	1_183517631_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	183517631	GT	G	360	PASS	SMG7	Del	intronic	1	9	MSH6	child	1_183517631_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
9b5bfde6-3278-11e6-8b89-96b6ecf1e924	5_164058879_CATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGGACCCAATTTTTATACAGAATAAGAAATGTAAGACAAATACTTGCTGACTCCTTGAAAGCTGAGGAATTAATCATGTGCATTTTACTTCAACCATTCTTAGTCTGACCTCTGAAGATAGACTTAACAGTGTTTATAACCTCCTCAGAAATATTTGAAGGATTGAGTTGTGACCATATGTGTAGATTTTTGTTGGTTTGTTTTATTTTTTGAGGCAGAGACTCCCTTGGTCACCTAGACTTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAGCCTCCACCTCCTGGGTTCAAGTGC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	5	164058879	CATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGGACCCAATTTTTATACAGAATAAGAAATGTAAGACAAATACTTGCTGACTCCTTGAAAGCTGAGGAATTAATCATGTGCATTTTACTTCAACCATTCTTAGTCTGACCTCTGAAGATAGACTTAACAGTGTTTATAACCTCCTCAGAAATATTTGAAGGATTGAGTTGTGACCATATGTGTAGATTTTTGTTGGTTTGTTTTATTTTTTGAGGCAGAGACTCCCTTGGTCACCTAGACTTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAGCCTCCACCTCCTGGGTTCAAGTG	C	317	PASS	-	Del	-	336	1	CHK2	child	5_164058879_CATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGGACCCAATTTTTATACAGAATAAGAAATGTAAGACAAATACTTGCTGACTCCTTGAAAGCTGAGGAATTAATCATGTGCATTTTACTTCAACCATTCTTAGTCTGACCTCTGAAGATAGACTTAACAGTGTTTATAACCTCCTCAGAAATATTTGAAGGATTGAGTTGTGACCATATGTGTAGATTTTTGTTGGTTTGTTTTATTTTTTGAGGCAGAGACTCCCTTGGTCACCTAGACTTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAGCCTCCACCTCCTGGGTTCAAGTGC_CHK2	336	>=10	20	ATTCTCCTGCCTCAGCCTCC	0	-	Microhomology-mediated
9b5e7b72-328a-11e6-9c1f-afbe38e8a824	8_40134718_CAGC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	8	40134718	CAG	C	660	PASS	-	Del	-	2	3	NUDT1	parent	8_40134718_CAGC_NUDT1	2	2	2	AG	2	AG	Repeat-mediated
9b6254d0-326d-11e6-9f48-94df41c4520d	12_79444923_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	79444923	TA	T	300	PASS	SYT1	Del	intronic	1	9	MSH6	child	12_79444923_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
9b6a9f04-3278-11e6-a71d-236235cec73b	X_48664587_GGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	48664587	G	GT	720	PASS	HDAC6	Ins	intronic	1	2	MSH6	child	X_48664587_GGT_MSH6	1	1	-	-	-	-	Ins
9b6f24cc-3271-11e6-9d19-c216987b3f23	21_44796478_GGC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	21	44796478	G	GC	300	PASS	-	Ins	-	1	1	MSH6	child	21_44796478_GGC_MSH6	1	1	-	-	-	-	Ins
9b70a630-328f-11e6-9c89-8d090e01a414	1_110917601_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	110917601	G	GT	300	PASS	SLC16A4	Ins	intronic	1	7	MSH6	child	1_110917601_GGT_MSH6	1	1	-	-	-	-	Ins
9b715e24-3283-11e6-aad6-a42d36fc2f7d	7_37104655_CAC	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	7	37104655	CA	C	360	PASS	ELMO1	Del	intronic	1	5	NUDT1	child	7_37104655_CAC_NUDT1	1	1	1	A	4	A	Repeat-mediated
9b72c8e2-3286-11e6-b32c-fd87a2c71c31	5_38852201_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	38852201	AT	A	1260	PASS	OSMR	Del	intronic	1	5	MSH6	child	5_38852201_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
9b7a7610-328a-11e6-a7cf-80090e01a414	15_68351660_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	68351660	CT	C	420	PASS	PIAS1	Del	intronic	1	7	MSH6	child	15_68351660_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
9b7d85d4-3272-11e6-a89b-2697ecf1e924	2_80012125_CTC	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	2	80012125	CT	C	360	PASS	CTNNA2	Del	intronic	1	6	NEIL1	child	2_80012125_CTC_NEIL1	1	1	1	T	5	T	Repeat-mediated
9b81389e-3283-11e6-b412-3b859cdf095d	2_221368988_TGT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	2	221368988	TG	T	660	PASS	AC067956.1	Del	intronic	1	4	POLE	child	2_221368988_TGT_POLE	1	1	1	G	3	G	Repeat-mediated
9b815cd8-329d-11e6-ae71-0c5325c9da85	1_218367287_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	218367287	TA	T	660	PASS	-	Del	-	1	9	MSH6	child	1_218367287_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
9b82d370-328d-11e6-b6a6-1f1e0e01a414	4_69745513_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	69745513	CA	C	540	PASS	-	Del	-	1	9	MSH6	child	4_69745513_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
9b838ba8-3323-11e6-a3ad-101f42c4520d	22_22437104_GAG	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	22	22437104	GA	G	420	PASS	-	Del	-	1	7	CHK2	child	22_22437104_GAG_CHK2	1	1	1	A	6	A	Repeat-mediated
9b8e1bc0-3276-11e6-92d2-c259c225ee11	3_20838234_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	20838234	AT	A	540	PASS	-	Del	-	1	6	MSH6	child	3_20838234_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
9b8fdc9e-3285-11e6-a0a8-096ea2c71c31	11_115597126_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	115597126	AT	A	480	PASS	AP000797.3	Del	intronic	1	8	MSH6	child	11_115597126_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
9b93de0a-328c-11e6-8770-3e160e01a414	9_78435779_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	78435779	GT	G	600	PASS	-	Del	-	1	6	MSH6	child	9_78435779_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
9b9f25fe-3272-11e6-b4ee-9405147bb207	10_129400664_CTC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	10	129400664	CT	C	600	PASS	-	Del	-	1	9	MSH6	parent	10_129400664_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
9bb03f06-328b-11e6-aa75-90c36f39e758	13_24561683_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	24561683	AT	A	480	PASS	SPATA13	Del	intronic	1	7	MSH6	child	13_24561683_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
9bbc7794-3272-11e6-b799-add079852e0e	11_127897164_GTG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	11	127897164	GT	G	300	PASS	-	Del	-	1	8	FANCC	child	11_127897164_GTG_FANCC	1	1	1	T	7	T	Repeat-mediated
9bbd2c60-3345-11e6-b0ff-c495e84777f6	10_15269247_CCCTTGGCCTCCCAAAGTGTAGGGATTATAGGTGTGAGCCACTGCACCCGGCCGGAACAGTGATATTTGAAATCCAAGTTCAGTATTGTTTTCTTCCACACCACACTCTCAGGTCAGTTTTTGTCTGAACTGTCATTTTCTTTTTTGTTCTTTTGAGACAGGGTCTTGTTCTGTCACCCAGCTGGAGGGCAGTGGTGCAATCATGGCTCACTGTAGCCTCAACCTCCTGTGCTCAAGGGATCCTCCCATCTCAGCCTCCCAAATAGCTCAGACTACAGGCACGTGCTACCATGCCCAACTAACTTTGGTATTTTTTGTAGAGACAGTCTCAATATATTGCCCAGGATGGTCTTGAACTTCTGGACCCAAGTGATCCTCCTGC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	10	15269247	CCCTTGGCCTCCCAAAGTGTAGGGATTATAGGTGTGAGCCACTGCACCCGGCCGGAACAGTGATATTTGAAATCCAAGTTCAGTATTGTTTTCTTCCACACCACACTCTCAGGTCAGTTTTTGTCTGAACTGTCATTTTCTTTTTTGTTCTTTTGAGACAGGGTCTTGTTCTGTCACCCAGCTGGAGGGCAGTGGTGCAATCATGGCTCACTGTAGCCTCAACCTCCTGTGCTCAAGGGATCCTCCCATCTCAGCCTCCCAAATAGCTCAGACTACAGGCACGTGCTACCATGCCCAACTAACTTTGGTATTTTTTGTAGAGACAGTCTCAATATATTGCCCAGGATGGTCTTGAACTTCTGGACCCAAGTGATCCTCCTG	C	300	PASS	FAM171A1	Del	intronic	380	1	FANCC	child	10_15269247_CCCTTGGCCTCCCAAAGTGTAGGGATTATAGGTGTGAGCCACTGCACCCGGCCGGAACAGTGATATTTGAAATCCAAGTTCAGTATTGTTTTCTTCCACACCACACTCTCAGGTCAGTTTTTGTCTGAACTGTCATTTTCTTTTTTGTTCTTTTGAGACAGGGTCTTGTTCTGTCACCCAGCTGGAGGGCAGTGGTGCAATCATGGCTCACTGTAGCCTCAACCTCCTGTGCTCAAGGGATCCTCCCATCTCAGCCTCCCAAATAGCTCAGACTACAGGCACGTGCTACCATGCCCAACTAACTTTGGTATTTTTTGTAGAGACAGTCTCAATATATTGCCCAGGATGGTCTTGAACTTCTGGACCCAAGTGATCCTCCTGC_FANCC	380	>=10	16	CCTTGGCCTCCCAAAG	0	-	Microhomology-mediated
9bc19dc2-328c-11e6-ac7a-a3c36f39e758	18_71076663_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	71076663	CA	C	540	PASS	-	Del	-	1	7	MSH6	child	18_71076663_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
9bc2e924-3256-11e6-9d15-298312ae24cf	X_31846208_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	31846208	CA	C	480	PASS	DMD	Del	intronic	1	7	MSH6	child	X_31846208_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
9bc36f80-328c-11e6-8256-94c36f39e758	17_53421168_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	53421168	CT	C	540	PASS	-	Del	-	1	7	MSH6	child	17_53421168_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
9bcd874a-3291-11e6-919e-92c36f39e758	2_169191096_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	169191096	T	TA	420	PASS	-	Ins	-	1	8	MSH6	child	2_169191096_TTA_MSH6	1	1	-	-	-	-	Ins
9bd25678-3276-11e6-83cd-a472a178171f	4_114226791_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	114226791	GA	G	340	PASS	ANK2	Del	intronic	1	6	MSH6	child	4_114226791_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
9bd9e628-3275-11e6-9e18-3a69671699ea	10_78953478_AAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	78953478	A	AC	540	PASS	KCNMA1	Ins	intronic	1	3	MSH6	child	10_78953478_AAC_MSH6	1	1	-	-	-	-	Ins
9bdb44c2-328f-11e6-b978-4add977b3f23	9_140492120_ATA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	9	140492120	AT	A	300	PASS	-	Del	-	1	5	NEIL1	child	9_140492120_ATA_NEIL1	1	1	1	T	4	T	Repeat-mediated
9bdfb48c-327e-11e6-87e4-1c233dc9300a	2_66972040_GAG	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	2	66972040	GA	G	420	PASS	-	Del	-	1	7	NEIL1	child	2_66972040_GAG_NEIL1	1	1	1	A	6	A	Repeat-mediated
9be1cde2-3280-11e6-8973-e1308e4678dd	11_18338467_CAAC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	11	18338467	CAA	C	480	PASS	HPS5	Del	intronic	2	4	FANCC	child	11_18338467_CAAC_FANCC	2	2	2	AA	2	A	Repeat-mediated
9be7b154-3284-11e6-ae26-b8936f39e758	16_61029323_AGAGA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	16	61029323	AGAG	A	360	PASS	-	Del	-	3	2	EXO1	child	16_61029323_AGAGA_EXO1	3	3	3	GAG	1	GAG	Repeat-mediated
9bea132a-329f-11e6-91d0-016425c9da85	7_127958711_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	127958711	TA	T	540	PASS	RBM28	Del	intronic	1	8	MSH6	child	7_127958711_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
9bf61728-326e-11e6-9fba-41ebd8b4fa2c	11_74115865_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	74115865	AT	A	660	PASS	-	Del	-	1	9	MSH6	child	11_74115865_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
9bfc9060-331f-11e6-be72-aff7191589db	14_22919304_TAT	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	14	22919304	TA	T	840	PASS	-	Del	-	1	7	CHK2	parent	14_22919304_TAT_CHK2	1	1	1	A	6	A	Repeat-mediated
9bff8d86-3272-11e6-af89-7600ebb8d062	5_76695518_CAC	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	5	76695518	CA	C	1020	PASS	PDE8B	Del	intronic	1	8	NUDT1	child	5_76695518_CAC_NUDT1	1	1	1	A	7	A	Repeat-mediated
9c1322bc-327a-11e6-92d2-c259c225ee11	3_110770011_CCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	110770011	C	CT	420	PASS	-	Ins	-	1	8	MSH6	child	3_110770011_CCT_MSH6	1	1	-	-	-	-	Ins
9c1b5638-326d-11e6-9f48-94df41c4520d	12_79775618_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	79775618	CT	C	420	PASS	SYT1	Del	intronic	1	7	MSH6	child	12_79775618_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
9c234cb4-3270-11e6-b89d-b2d6b0dab373	4_74265711_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	74265711	TA	T	900	PASS	ALB	Del	upstream	1	7	MSH6	child	4_74265711_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
9c2c7f30-3272-11e6-975f-8246cab49462	16_13744600_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	13744600	CA	C	480	PASS	-	Del	-	1	7	MSH6	child	16_13744600_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
9c344094-326d-11e6-b2ac-b6204b47a305	17_59974107_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	59974107	TA	T	420	PASS	INTS2	Del	intronic	1	9	MSH6	child	17_59974107_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
9c4230ec-328a-11e6-9035-7296cdacbbbf	2_178584606_CAC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	2	178584606	CA	C	300	PASS	PDE11A	Del	intronic	1	9	FANCC	child	2_178584606_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
9c46f9e4-329c-11e6-b549-1e5325c9da85	10_25760653_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	25760653	A	AT	708	PASS	GPR158	Ins	intronic	1	5	MSH6	child	10_25760653_AAT_MSH6	1	1	-	-	-	-	Ins
9c4903a8-329a-11e6-bda6-065325c9da85	13_66505621_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	66505621	GA	G	720	PASS	-	Del	-	1	9	MSH6	child	13_66505621_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
9c52243c-3322-11e6-9802-cf66694da5d2	12_69531313_TAT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	12	69531313	TA	T	300	PASS	-	Del	-	1	8	EXO1	child	12_69531313_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
9c5626b0-3276-11e6-be3d-b594a20b69d5	4_118320429_TAAAGT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	4	118320429	TAAAG	T	420	PASS	-	Del	-	4	1	EXO1	child	4_118320429_TAAAGT_EXO1	4	4	3	AAA	0	-	Microhomology-mediated
9c6790d4-3286-11e6-b32c-fd87a2c71c31	5_39296568_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	39296568	GA	G	660	PASS	C9	Del	intronic	1	8	MSH6	child	5_39296568_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
9c6bbe8e-326d-11e6-9793-9a8fb0dab373	13_91988390_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	91988390	GT	G	540	PASS	-	Del	-	1	7	MSH6	child	13_91988390_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
9c7044d6-3254-11e6-9f9d-2c7a7872c165	12_70821801_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	70821801	AT	A	420	PASS	KCNMB4	Del	intronic	1	9	MSH6	child	12_70821801_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
9c7bb91a-3290-11e6-bfa2-581f0e01a414	7_85230848_TTAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	85230848	T	TAC	300	PASS	-	Ins	-	2	8	MSH6	child	7_85230848_TTAC_MSH6	2	2	-	-	-	-	Ins
9c869c00-328a-11e6-a80b-87090e01a414	11_81737973_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	81737973	CT	C	300	PASS	RP11-179A16.1	Del	intronic	1	4	MSH6	child	11_81737973_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
9c86e1e8-32a2-11e6-bc66-17b4cc638e3d	8_81699714_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	81699714	C	CA	600	PASS	ZNF704	Ins	intronic	1	1	MSH6	child	8_81699714_CCA_MSH6	1	1	-	-	-	-	Ins
9c913ba6-3285-11e6-9162-c3af90e2c2e6	2_150196265_TCT	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	2	150196265	TC	T	480	PASS	LYPD6	Del	intronic	1	6	POLE	child	2_150196265_TCT_POLE	1	1	1	C	5	C	Repeat-mediated
9c99bf62-327e-11e6-9322-0fb435761512	20_55131169_GTG	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	20	55131169	GT	G	780	PASS	-	Del	-	1	8	FANCC	parent	20_55131169_GTG_FANCC	1	1	1	T	7	T	Repeat-mediated
9c9c7808-3286-11e6-a5b3-3f1ebce6aa09	7_15113484_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	15113484	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	7_15113484_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
9ca93272-3273-11e6-abaf-4642cab49462	6_141156032_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	141156032	CA	C	420	PASS	-	Del	-	1	7	MSH6	child	6_141156032_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
9cab0d30-328d-11e6-8dad-8fe0191589db	21_37070282_GAG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	21	37070282	GA	G	480	PASS	RUNX1	Del	intronic	1	9	FANCC	child	21_37070282_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
9cad71c0-3273-11e6-95d2-ed9a9cdf095d	19_10732113_TTTG	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	19	10732113	T	TTG	300	PASS	SLC44A2	Ins	upstream	2	0	NUDT1	child	19_10732113_TTTG_NUDT1	2	2	-	-	-	-	Ins
9cc84066-3284-11e6-870e-6af1bbe6aa09	19_13043009_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	13043009	AT	A	300	PASS	FARSA	Del	intronic	1	9	MSH6	child	19_13043009_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
9ccec090-3297-11e6-9c5d-eaf997ba1142	12_102188224_CGAGACCAGCCTGGGCAATACAGCAAGACCCCATCTCTATTAAAATAAATAAATTTTAAAAATAAAAAATCTGTACAGAAACTAGCAAAATAATGAAAATATATCAATGTTATGGTATCTTAAAATATATTAGACCATGTGAAATGTTATATATGATCCATTTATTTGTCATCATCAAAATGAGGAAATTTTGAATATATGCCTACATAAAAATCAAACTATATTTTAATGCAACCTTCTAAACTTCTTTAGAAAGAGAACAAGAGTGTTTGATTAAAACTGCTGACCTCAAAATCTGCATTTTCTAATAAGCTAGTTTTCTTTCTAAAAGTTTAAAGCAGCTGGGCATGGTGACTCATCCCTTTAATCTCAGCACTTTGGGAGGTCAAGATGGGAGGATTGCTTGAGTCCAGGAGTTTC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	12	102188224	CGAGACCAGCCTGGGCAATACAGCAAGACCCCATCTCTATTAAAATAAATAAATTTTAAAAATAAAAAATCTGTACAGAAACTAGCAAAATAATGAAAATATATCAATGTTATGGTATCTTAAAATATATTAGACCATGTGAAATGTTATATATGATCCATTTATTTGTCATCATCAAAATGAGGAAATTTTGAATATATGCCTACATAAAAATCAAACTATATTTTAATGCAACCTTCTAAACTTCTTTAGAAAGAGAACAAGAGTGTTTGATTAAAACTGCTGACCTCAAAATCTGCATTTTCTAATAAGCTAGTTTTCTTTCTAAAAGTTTAAAGCAGCTGGGCATGGTGACTCATCCCTTTAATCTCAGCACTTTGGGAGGTCAAGATGGGAGGATTGCTTGAGTCCAGGAGTTT	C	274	PASS	GNPTAB	Del	intronic	418	1	CHK2	child	12_102188224_CGAGACCAGCCTGGGCAATACAGCAAGACCCCATCTCTATTAAAATAAATAAATTTTAAAAATAAAAAATCTGTACAGAAACTAGCAAAATAATGAAAATATATCAATGTTATGGTATCTTAAAATATATTAGACCATGTGAAATGTTATATATGATCCATTTATTTGTCATCATCAAAATGAGGAAATTTTGAATATATGCCTACATAAAAATCAAACTATATTTTAATGCAACCTTCTAAACTTCTTTAGAAAGAGAACAAGAGTGTTTGATTAAAACTGCTGACCTCAAAATCTGCATTTTCTAATAAGCTAGTTTTCTTTCTAAAAGTTTAAAGCAGCTGGGCATGGTGACTCATCCCTTTAATCTCAGCACTTTGGGAGGTCAAGATGGGAGGATTGCTTGAGTCCAGGAGTTTC_CHK2	418	>=10	17	GAGACCAGCCTGGGCAA	0	-	Microhomology-mediated
9ce1487c-329d-11e6-a5cf-e5abcc638e3d	9_107904659_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	107904659	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	9_107904659_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
9cecacf8-328e-11e6-8e48-791e0e01a414	8_66924616_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	66924616	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	8_66924616_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
9ced9344-329c-11e6-aca6-b39fcc638e3d	2_184527025_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	184527025	GA	G	480	PASS	-	Del	-	1	6	MSH6	child	2_184527025_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
9cee0966-328b-11e6-8fa6-65cc977b3f23	15_31055417_GAG	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	15	31055417	GA	G	767	PASS	-	Del	-	1	8	NEIL1	child	15_31055417_GAG_NEIL1	1	1	1	A	7	A	Repeat-mediated
9d04b53a-3286-11e6-afcf-0311bce6aa09	9_98006075_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	98006075	CA	C	480	PASS	FANCC	Del	intronic	1	8	MSH6	child	9_98006075_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
9d0992e4-3290-11e6-b81f-4ee66f39e758	8_58932609_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	58932609	GT	G	480	PASS	FAM110B	Del	intronic	1	8	MSH6	child	8_58932609_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
9d0a4b4c-3256-11e6-b950-8759fa52e078	X_23010461_ATA	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	X	23010461	AT	A	600	PASS	RP11-40F8.2	Del	intronic	1	6	POLM	child	X_23010461_ATA_POLM	1	1	1	T	5	T	Repeat-mediated
9d0e8c1a-3284-11e6-a0a8-096ea2c71c31	11_23154140_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	23154140	CT	C	780	PASS	-	Del	-	1	9	MSH6	child	11_23154140_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
9d11f786-3259-11e6-8cd9-139b7872c165	3_162846129_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	162846129	CA	C	540	PASS	RP11-10O22.1	Del	intronic	1	9	MSH6	child	3_162846129_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
9d154f82-3252-11e6-b676-5605ee3c4f5d	12_85770971_CTATC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	12	85770971	CTAT	C	660	PASS	-	Del	-	3	5	POLB	child	12_85770971_CTATC_POLB	3	3	3	TAT	4	TAT	Repeat-mediated
9d17d178-3291-11e6-9401-04ed6f39e758	3_116402963_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	116402963	CT	C	420	PASS	LSAMP	Del	intronic	1	8	MSH6	child	3_116402963_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
9d17db5e-328d-11e6-ae53-96c36f39e758	15_88634198_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	88634198	CA	C	420	PASS	NTRK3	Del	intronic	1	8	MSH6	child	15_88634198_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
9d22f92e-328a-11e6-8459-82090e01a414	12_79444923_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	79444923	TA	T	300	PASS	SYT1	Del	intronic	1	9	MSH6	child	12_79444923_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
9d246b16-32a2-11e6-bc2c-2a5e25c9da85	4_171202659_GGC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	171202659	G	GC	780	PASS	RP11-789C1.1	Ins	intronic	1	5	MSH6	child	4_171202659_GGC_MSH6	1	1	-	-	-	-	Ins
9d30d8a4-329f-11e6-a04f-c66a25c9da85	6_23736165_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	23736165	GA	G	540	PASS	-	Del	-	1	6	MSH6	child	6_23736165_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
9d395c04-3272-11e6-8165-0dc17872c165	9_140492120_ATA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	9	140492120	AT	A	300	PASS	-	Del	-	1	5	NEIL1	child	9_140492120_ATA_NEIL1	1	1	1	T	4	T	Repeat-mediated
9d3b9c80-3286-11e6-a21c-b819bce6aa09	X_48163322_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	48163322	CA	C	338	PASS	-	Del	-	1	9	MSH6	child	X_48163322_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
9d3da9f4-3271-11e6-9309-bdc34a47a305	8_136926129_ACA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	136926129	AC	A	420	PASS	-	Del	-	1	1	MSH6	child	8_136926129_ACA_MSH6	1	1	0	-	0	C	None
9d480fee-3284-11e6-8ebc-68f1bbe6aa09	18_29258287_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	29258287	CT	C	600	PASS	B4GALT6	Del	intronic	1	9	MSH6	child	18_29258287_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
9d539e5e-3270-11e6-b5b8-e0c24a47a305	X_71584747_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	71584747	AT	A	300	PASS	HDAC8	Del	intronic	1	8	MSH6	child	X_71584747_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
9d559392-3272-11e6-a5d0-4fd14a47a305	2_21978433_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	21978433	CA	C	300	PASS	AC067959.1	Del	intronic	1	8	MSH6	child	2_21978433_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
9d5bdc96-3288-11e6-997d-e46e3adbad45	12_22726915_TTA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	12	22726915	T	TA	420	PASS	-	Ins	-	1	3	NUDT1	parent	12_22726915_TTA_NUDT1	1	1	-	-	-	-	Ins
9d5bec06-3286-11e6-afcf-0311bce6aa09	9_98120157_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	98120157	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	9_98120157_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
9d5ef148-32a0-11e6-bc66-17b4cc638e3d	8_122249454_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	122249454	CT	C	660	PASS	-	Del	-	1	7	MSH6	child	8_122249454_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
9d6c2b22-3270-11e6-b923-6726694da5d2	5_78844187_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	78844187	CA	C	300	PASS	-	Del	-	1	7	MSH6	child	5_78844187_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
9d6eff56-328d-11e6-a278-48230e01a414	21_15298358_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	21	15298358	GA	G	480	PASS	-	Del	-	1	8	MSH6	child	21_15298358_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
9d79ff3a-3285-11e6-a0a8-096ea2c71c31	11_116427109_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	116427109	TA	T	360	PASS	-	Del	-	1	8	MSH6	child	11_116427109_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
9d7f30ec-3274-11e6-b582-0da1cc638e3d	4_63346841_CTC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	4	63346841	CT	C	420	PASS	-	Del	-	1	5	CHK2	child	4_63346841_CTC_CHK2	1	1	1	T	4	T	Repeat-mediated
9d814942-329a-11e6-8d0f-075325c9da85	14_63678183_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	63678183	TA	T	600	PASS	RHOJ	Del	intronic	1	9	MSH6	child	14_63678183_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
9d85ab5c-3274-11e6-a5d0-4fd14a47a305	2_196066734_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	196066734	TA	T	540	PASS	-	Del	-	1	9	MSH6	child	2_196066734_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
9d88f814-3276-11e6-9e4c-96041ea8ec0e	5_12319883_GGCCAC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	5	12319883	G	GCCAC	360	PASS	-	Ins	-	4	0	FANCC	child	5_12319883_GGCCAC_FANCC	4	4	-	-	-	-	Ins
9d9735f6-329d-11e6-a5cf-e5abcc638e3d	9_108086868_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	108086868	CT	C	480	PASS	SLC44A1	Del	intronic	1	5	MSH6	child	9_108086868_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
9d9b1390-329a-11e6-aca6-b39fcc638e3d	2_56736694_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	56736694	CA	C	420	PASS	-	Del	-	1	6	MSH6	child	2_56736694_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
9da0e756-327d-11e6-8d42-cc2c0625f869	10_111857699_ATA	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	10	111857699	AT	A	540	PASS	ADD3	Del	intronic	1	7	POLB	parent	10_111857699_ATA_POLB	1	1	1	T	6	T	Repeat-mediated
9da94dac-3254-11e6-a4a7-35f212ae24cf	14_88844361_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	88844361	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	14_88844361_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
9db1c83c-3345-11e6-94cb-be633cfdbd24	16_13339244_CTTC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	16	13339244	CTT	C	300	PASS	SHISA9	Del	downstream	2	2	FANCC	child	16_13339244_CTTC_FANCC	2	2	0	-	0	-	None
9dc7e2b6-3278-11e6-92d2-c259c225ee11	3_169007943_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	169007943	CA	C	420	PASS	MECOM	Del	intronic	1	9	MSH6	child	3_169007943_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
9dcba988-3286-11e6-a5b3-3f1ebce6aa09	7_15603473_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	15603473	CA	C	480	PASS	AGMO	Del	upstream	1	9	MSH6	child	7_15603473_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
9dcc2d48-3274-11e6-b619-1803630e6611	16_75816269_CCTC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	16	75816269	CCT	C	900	PASS	-	Del	-	2	1	CHK2	child	16_75816269_CCTC_CHK2	2	2	0	-	0	-	None
9dd1e0ee-3288-11e6-a284-4b89a2c71c31	4_187951508_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	187951508	CA	C	600	PASS	-	Del	-	1	6	MSH6	child	4_187951508_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
9ddc52d6-3256-11e6-b4d0-327a7872c165	11_77777209_TTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	77777209	T	TC	420	PASS	NDUFC2	Ins	downstream	1	7	MSH6	child	11_77777209_TTC_MSH6	1	1	-	-	-	-	Ins
9ddd6e06-329b-11e6-ae71-0c5325c9da85	1_94088726_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	94088726	GA	G	780	PASS	BCAR3	Del	intronic	1	2	MSH6	child	1_94088726_GAG_MSH6	1	1	1	A	1	A	Repeat-mediated
9de2f814-3280-11e6-a5e9-0107694da5d2	7_19149904_TAT	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	7	19149904	TA	T	300	PASS	-	Del	-	1	8	NEIL1	child	7_19149904_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
9de46d56-3290-11e6-b77d-2eef6f39e758	6_12628289_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	12628289	TA	T	421	PASS	-	Del	-	1	5	MSH6	child	6_12628289_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
9de69570-3274-11e6-a5d0-4fd14a47a305	2_196260417_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	196260417	GA	G	840	PASS	-	Del	-	1	4	MSH6	child	2_196260417_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
9de848d0-328c-11e6-ac7a-a3c36f39e758	18_71713518_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	71713518	CT	C	720	PASS	-	Del	-	1	7	MSH6	child	18_71713518_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
9de8562e-3280-11e6-9ec5-888f1ac527ab	13_41321906_GAGGAGGAGGTTGCG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	13	41321906	GAGGAGGAGGTTGC	G	360	PASS	MRPS31	Del	intronic	13	1	FANCC	child	13_41321906_GAGGAGGAGGTTGCG_FANCC	13	>=10	2	AG	0	-	Microhomology-mediated
9dece454-328b-11e6-bdca-61cc977b3f23	10_15827181_TACAGT	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	10	15827181	TACAG	T	660	PASS	FAM188A	Del	intronic	4	1	NEIL1	child	10_15827181_TACAGT_NEIL1	4	4	3	ACA	0	-	Microhomology-mediated
9def50e4-3322-11e6-ba3d-227d3adbad45	4_45449247_ATA	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	4	45449247	AT	A	420	PASS	-	Del	-	1	7	CHK2	child	4_45449247_ATA_CHK2	1	1	1	T	6	T	Repeat-mediated
9df36588-3284-11e6-ae26-b8936f39e758	16_62336592_GTG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	16	62336592	GT	G	300	PASS	-	Del	-	1	9	EXO1	child	16_62336592_GTG_EXO1	1	1	1	T	8	T	Repeat-mediated
9df3a62e-329d-11e6-94ca-0aaecc638e3d	X_58243235_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	58243235	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	X_58243235_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
9df6cd02-329a-11e6-b74d-b59fcc638e3d	18_51422312_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	51422312	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	18_51422312_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
9df742bc-32a1-11e6-b696-dd6225c9da85	5_116035283_TTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	116035283	T	TC	540	PASS	-	Ins	-	1	2	MSH6	child	5_116035283_TTC_MSH6	1	1	-	-	-	-	Ins
9dfeb0f0-328e-11e6-b9c4-751d0e01a414	5_160764797_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	160764797	CA	C	360	PASS	GABRB2	Del	intronic	1	9	MSH6	child	5_160764797_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
9e0add18-3283-11e6-8b62-2d0d987b3f23	9_5615733_TAT	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	9	5615733	TA	T	480	PASS	-	Del	-	1	8	NEIL1	parent	9_5615733_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
9e0bf254-3259-11e6-8cd9-139b7872c165	3_163027440_ACA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	163027440	AC	A	420	PASS	CT64	Del	intronic	1	6	MSH6	child	3_163027440_ACA_MSH6	1	1	1	C	5	C	Repeat-mediated
9e20d20a-3254-11e6-bf41-357a7872c165	10_74209166_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	74209166	AT	A	540	PASS	MICU1	Del	intronic	1	9	MSH6	child	10_74209166_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
9e444814-3279-11e6-83cd-a472a178171f	4_129062393_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	129062393	C	CA	600	PASS	LARP1B	Ins	intronic	1	4	MSH6	child	4_129062393_CCA_MSH6	1	1	-	-	-	-	Ins
9e5d3960-3287-11e6-9a8e-d2b1f6dffcf6	1_93154929_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	1	93154929	CT	C	480	PASS	EVI5	Del	intronic	1	9	NUDT1	parent	1_93154929_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
9e5d4f8c-328b-11e6-bdca-61cc977b3f23	10_15996490_TGAAGT	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	10	15996490	TGAAG	T	900	PASS	-	Del	-	4	2	NEIL1	child	10_15996490_TGAAGT_NEIL1	4	4	4	GAAG	1	GAAG	Repeat-mediated
9e5dc2dc-329a-11e6-b74d-b59fcc638e3d	18_51541700_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	51541700	AT	A	540	PASS	-	Del	-	1	6	MSH6	child	18_51541700_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
9e65e520-3272-11e6-a5d0-4fd14a47a305	2_22676040_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	22676040	AT	A	420	PASS	AC068490.2	Del	intronic	1	8	MSH6	child	2_22676040_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
9e6ab448-3258-11e6-9f82-71a92aaffa45	6_25746818_CAC	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	6	25746818	CA	C	480	PASS	-	Del	-	1	9	POLM	child	6_25746818_CAC_POLM	1	1	1	A	8	A	Repeat-mediated
9e6b2898-3275-11e6-8c15-5448694da5d2	5_93197682_GTAATAGAGAACTTGGAACG	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	5	93197682	GTAATAGAGAACTTGGAAC	G	300	PASS	FAM172A	Del	intronic	18	1	NEIL1	child	5_93197682_GTAATAGAGAACTTGGAACG_NEIL1	18	>=10	4	TAAT	0	-	Microhomology-mediated
9e6c29de-3287-11e6-b32c-fd87a2c71c31	5_152653832_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	152653832	TA	T	360	PASS	-	Del	-	1	8	MSH6	child	5_152653832_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
9e7ad278-3259-11e6-8cd9-139b7872c165	3_163322711_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	163322711	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	3_163322711_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
9e7c40be-3285-11e6-be43-0a6ea2c71c31	10_104011797_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	104011797	TA	T	360	PASS	GBF1	Del	intronic	1	6	MSH6	child	10_104011797_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
9e838ab2-3272-11e6-b799-add079852e0e	11_128858961_CAAATC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	11	128858961	CAAAT	C	300	PASS	ARHGAP32	Del	intronic	4	1	FANCC	child	11_128858961_CAAATC_FANCC	4	4	2	AA	0	-	Microhomology-mediated
9e858c90-3272-11e6-b209-994b3cfdbd24	15_75837094_GAG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	15	75837094	GA	G	480	PASS	PTPN9	Del	intronic	1	9	MSH6	parent	15_75837094_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
9e91cd14-328d-11e6-8459-82090e01a414	12_120420683_AAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	120420683	A	AG	960	PASS	-	Ins	-	1	3	MSH6	child	12_120420683_AAG_MSH6	1	1	-	-	-	-	Ins
9e92c662-329a-11e6-aca6-b39fcc638e3d	2_57170491_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	57170491	AT	A	600	PASS	-	Del	-	1	9	MSH6	child	2_57170491_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
9e938a08-3294-11e6-a18f-4ded97ba1142	9_108281629_CAC	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	9	108281629	CA	C	467	PASS	FSD1L	Del	intronic	1	9	POLB	child	9_108281629_CAC_POLB	1	1	1	A	8	A	Repeat-mediated
9e96507c-3275-11e6-b209-994b3cfdbd24	15_84534673_AAAAAC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	15	84534673	A	AAAAC	299	PASS	ADAMTSL3	Ins	intronic	4	0	MSH6	parent	15_84534673_AAAAAC_MSH6	4	4	-	-	-	-	Ins
9e9761d0-328c-11e6-9c1f-afbe38e8a824	8_106361183_TAT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	8	106361183	TA	T	300	PASS	ZFPM2	Del	intronic	1	5	NUDT1	parent	8_106361183_TAT_NUDT1	1	1	1	A	4	A	Repeat-mediated
9e9c6e42-3290-11e6-9230-fb250e01a414	3_178387149_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	178387149	CA	C	360	PASS	KCNMB2	Del	intronic	1	8	MSH6	child	3_178387149_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
9eb7d30a-327a-11e6-a8d8-3e6075253f64	3_146573060_GGT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	3	146573060	G	GT	300	PASS	-	Ins	-	1	2	FANCC	child	3_146573060_GGT_FANCC	1	1	-	-	-	-	Ins
9eba5140-3278-11e6-9608-84e46de4ab00	7_63809718_CCT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	7	63809718	C	CT	600	PASS	ZNF736	Ins	3prime_UTR_variant	1	8	EXO1	child	7_63809718_CCT_EXO1	1	1	-	-	-	-	Ins
9ebc35ce-329a-11e6-aca6-b39fcc638e3d	2_57286696_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	57286696	CA	C	660	PASS	-	Del	-	1	9	MSH6	child	2_57286696_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
9ec14340-3275-11e6-94fa-fb6bcde16804	9_114133595_CTC	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	9	114133595	CT	C	480	PASS	KIAA0368	Del	intronic	1	1	POLB	child	9_114133595_CTC_POLB	1	1	0	-	0	T	None
9ec14fbc-3323-11e6-af46-df1198ba1142	7_77669281_CCTGC	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	7	77669281	CCTG	C	300	PASS	MAGI2	Del	intronic	3	1	POLE	child	7_77669281_CCTGC_POLE	3	3	2	CT	0	-	Microhomology-mediated
9ec18d22-3271-11e6-b4bf-85eb97ba1142	2_235460552_ATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	2	235460552	AT	A	280	PASS	-	Del	-	1	9	EXO1	parent	2_235460552_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
9ec8fa56-325a-11e6-8b28-55ad7872c165	20_215723_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	215723	CA	C	1020	PASS	-	Del	-	1	9	MSH6	child	20_215723_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
9ed11b72-3323-11e6-ba48-d8ad2aaffa45	8_14475397_GAG	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	8	14475397	GA	G	300	PASS	SGCZ	Del	intronic	1	5	POLE	child	8_14475397_GAG_POLE	1	1	1	A	4	A	Repeat-mediated
9ed16974-32a1-11e6-91d0-016425c9da85	7_84983872_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	84983872	A	AT	1140	PASS	-	Ins	-	1	8	MSH6	child	7_84983872_AAT_MSH6	1	1	-	-	-	-	Ins
9ed6af86-326c-11e6-9003-ae204b47a305	19_1378710_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	1378710	TA	T	300	PASS	MUM1	Del	downstream	1	8	MSH6	child	19_1378710_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
9ee76c68-3325-11e6-a5dc-75b8cde16804	1_65820680_TTTGGGC	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	1	65820680	T	TTGGGC	300	PASS	DNAJC6	Ins	intronic	5	0	EXO1	child	1_65820680_TTTGGGC_EXO1	5	5	-	-	-	-	Ins
9ef2df32-3283-11e6-baa3-81ed1da8ec0e	X_42022385_GAGGATTCCCAG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	X	42022385	GAGGATTCCCA	G	600	PASS	-	Del	-	10	1	EXO1	child	X_42022385_GAGGATTCCCAG_EXO1	10	>=10	3	AGG	0	-	Microhomology-mediated
9ef53c18-3270-11e6-a539-0e5542c4520d	7_119001189_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	119001189	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	7_119001189_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
9efd710c-328a-11e6-8459-82090e01a414	12_79775618_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	79775618	CT	C	420	PASS	SYT1	Del	intronic	1	7	MSH6	child	12_79775618_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
9f0260fe-328f-11e6-9230-fb250e01a414	3_114298538_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	114298538	TA	T	480	PASS	ZBTB20	Del	intronic	1	8	MSH6	child	3_114298538_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
9f062dfc-329d-11e6-ae71-0c5325c9da85	1_219221367_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	219221367	GA	G	1320	PASS	-	Del	-	1	8	MSH6	child	1_219221367_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
9f0cfc06-328c-11e6-8eee-76090e01a414	10_83053796_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	83053796	G	GT	600	PASS	-	Ins	-	1	6	MSH6	child	10_83053796_GGT_MSH6	1	1	-	-	-	-	Ins
9f0ef0b0-3291-11e6-b3a9-d5afe7d0bdd7	4_142173892_CAC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	4	142173892	CA	C	420	PASS	RP11-586L23.1	Del	intronic	1	9	FANCC	child	4_142173892_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
9f15e0dc-3273-11e6-9e18-3a69671699ea	10_83538559_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	83538559	GT	G	540	PASS	-	Del	-	1	7	MSH6	child	10_83538559_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
9f192842-329a-11e6-8069-175325c9da85	12_47952757_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	47952757	TA	T	300	PASS	-	Del	-	1	4	MSH6	child	12_47952757_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
9f1ad382-3280-11e6-ba80-c6262eaed38e	2_31266597_ACTAGGTA	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	2	31266597	ACTAGGT	A	360	PASS	GALNT14	Del	intronic	6	1	POLB	child	2_31266597_ACTAGGTA_POLB	6	6	1	C	0	-	Microhomology-mediated
9f1bb5cc-328f-11e6-9432-c0e56f39e758	5_71321149_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	71321149	CA	C	360	PASS	-	Del	-	1	7	MSH6	child	5_71321149_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
9f1d63ba-326f-11e6-b923-6726694da5d2	5_10817865_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	10817865	CA	C	540	PASS	-	Del	-	1	7	MSH6	child	5_10817865_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
9f1d8fa2-3274-11e6-a5d0-4fd14a47a305	2_196500604_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	196500604	AT	A	540	PASS	SLC39A10	Del	intronic	1	7	MSH6	child	2_196500604_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
9f2168ae-3290-11e6-9432-c0e56f39e758	5_142816193_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	142816193	CT	C	360	PASS	NR3C1	Del	upstream	1	8	MSH6	child	5_142816193_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
9f217910-328c-11e6-919e-92c36f39e758	2_73739680_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	73739680	AT	A	360	PASS	ALMS1	Del	intronic	1	8	MSH6	child	2_73739680_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
9f253b46-3286-11e6-b32c-fd87a2c71c31	5_40664655_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	40664655	TA	T	460	PASS	-	Del	-	1	9	MSH6	child	5_40664655_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
9f2763e4-3290-11e6-bb1e-70e16f39e758	X_26383364_GGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	26383364	G	GA	540	PASS	-	Ins	-	1	6	MSH6	child	X_26383364_GGA_MSH6	1	1	-	-	-	-	Ins
9f2fdd76-3321-11e6-923f-078b3cfdbd24	18_69082272_TTAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	18	69082272	TTA	T	300	PASS	-	Del	-	2	8	EXO1	child	18_69082272_TTAT_EXO1	2	2	2	TA	7	TA	Repeat-mediated
9f323db2-3292-11e6-9280-9ce5d0959d89	11_17055679_CTC	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	11	17055679	CT	C	653	PASS	-	Del	-	1	3	POLB	child	11_17055679_CTC_POLB	1	1	1	T	2	T	Repeat-mediated
9f35ae0e-3286-11e6-b093-c9c7b0dab373	2_182163085_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	182163085	TA	T	720	PASS	AC104820.2	Del	intronic	1	7	MSH6	child	2_182163085_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
9f391588-328d-11e6-a278-48230e01a414	21_15860320_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	21	15860320	CT	C	600	PASS	SAMSN1	Del	intronic	1	8	MSH6	child	21_15860320_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
9f3eb7d0-3284-11e6-870e-6af1bbe6aa09	19_13667337_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	13667337	AT	A	600	PASS	-	Del	-	1	5	MSH6	child	19_13667337_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
9f3f0bc6-3258-11e6-8cd9-139b7872c165	3_79590117_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	79590117	CT	C	1140	PASS	ROBO1	Del	intronic	1	7	MSH6	child	3_79590117_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
9f3f840e-3256-11e6-9cd8-27f912ae24cf	7_131163224_GTTCG	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	7	131163224	GTTC	G	840	PASS	MKLN1	Del	intronic	3	2	POLB	child	7_131163224_GTTCG_POLB	3	3	3	TTC	1	TTC	Repeat-mediated
9f457384-3290-11e6-b81f-4ee66f39e758	8_59546074_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	59546074	AC	A	840	PASS	NSMAF	Del	intronic	1	2	MSH6	child	8_59546074_ACA_MSH6	1	1	1	C	1	C	Repeat-mediated
9f482816-329c-11e6-bda6-065325c9da85	13_98431312_GGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	98431312	G	GT	540	PASS	-	Ins	-	1	7	MSH6	child	13_98431312_GGT_MSH6	1	1	-	-	-	-	Ins
9f4d5f62-3273-11e6-9b10-3e7da20b69d5	15_98572065_CAC	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	15	98572065	CA	C	300	PASS	RNU6-134P	Del	downstream	1	8	NUDT1	child	15_98572065_CAC_NUDT1	1	1	1	A	7	A	Repeat-mediated
9f65dea2-3291-11e6-b3a9-d5afe7d0bdd7	4_142411169_CTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	4	142411169	CT	C	420	PASS	-	Del	-	1	4	FANCC	child	4_142411169_CTC_FANCC	1	1	1	T	3	T	Repeat-mediated
9f673d5e-3275-11e6-9c69-5197cdacbbbf	8_103319687_TAT	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	8	103319687	TA	T	540	PASS	UBR5	Del	intronic	1	4	NUDT1	child	8_103319687_TAT_NUDT1	1	1	1	A	3	A	Repeat-mediated
9f6b61f6-3273-11e6-9e18-3a69671699ea	10_83629074_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	83629074	GA	G	480	PASS	-	Del	-	1	8	MSH6	child	10_83629074_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
9f7182ce-3274-11e6-9ac5-e82e84482639	11_134066011_TAAGAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	11	134066011	TAAGA	T	660	PASS	NCAPD3	Del	intronic	4	2	EXO1	child	11_134066011_TAAGAT_EXO1	4	4	4	AAGA	1	AAGA	Repeat-mediated
9f7428c2-328c-11e6-8770-3e160e01a414	9_79484819_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	79484819	AT	A	300	PASS	PRUNE2	Del	intronic	1	6	MSH6	child	9_79484819_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
9f79dc20-3257-11e6-acc5-308412ae24cf	5_84877963_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	84877963	GT	G	540	PASS	-	Del	-	1	7	MSH6	child	5_84877963_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
9f7b2b68-3322-11e6-9611-6b5266a58581	9_34398582_TGT	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	9	34398582	TG	T	900	PASS	FAM219A	Del	3prime_UTR_variant	1	8	CHK2	parent	9_34398582_TGT_CHK2	1	1	1	G	7	G	Repeat-mediated
9f8467c6-3275-11e6-83cd-a472a178171f	4_39636456_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	39636456	GA	G	660	PASS	SMIM14	Del	intronic	1	9	MSH6	child	4_39636456_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
9f8747dc-326d-11e6-b2ac-b6204b47a305	17_60608252_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	60608252	CT	C	571	PASS	TLK2	Del	intronic	1	9	MSH6	child	17_60608252_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
9f87e532-3283-11e6-83f8-60792aaffa45	7_43244945_CAAC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	7	43244945	CAA	C	780	PASS	HECW1	Del	intronic	2	3	POLE	child	7_43244945_CAAC_POLE	2	2	1	A	0	-	Microhomology-mediated
9f8a2224-328e-11e6-9d24-ade56f39e758	7_4413952_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	4413952	GA	G	600	PASS	-	Del	-	1	8	MSH6	child	7_4413952_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
9f8c93f0-3271-11e6-9d19-c216987b3f23	21_45972436_CCG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	21	45972436	C	CG	420	PASS	TSPEAR	Ins	intronic	1	2	MSH6	child	21_45972436_CCG_MSH6	1	1	-	-	-	-	Ins
9f913684-3321-11e6-925a-9564694da5d2	2_65082958_ACTA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	2	65082958	ACT	A	420	PASS	AC007880.1	Del	intronic	2	3	POLE	child	2_65082958_ACTA_POLE	2	2	2	CT	2	CT	Repeat-mediated
9f9f7fe6-326d-11e6-9793-9a8fb0dab373	13_93258339_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	93258339	CT	C	300	PASS	GPC5	Del	intronic	1	8	MSH6	child	13_93258339_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
9fa60944-3270-11e6-8418-1c5942c4520d	3_60092083_ATCTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	60092083	ATCT	A	540	PASS	FHIT	Del	intronic	3	2	MSH6	child	3_60092083_ATCTA_MSH6	3	3	3	TCT	1	TCT	Repeat-mediated
9fa6aa12-329c-11e6-8d0f-075325c9da85	14_81405135_TTTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	81405135	T	TTA	300	PASS	CEP128	Ins	intronic	2	1	MSH6	child	14_81405135_TTTA_MSH6	2	2	-	-	-	-	Ins
9fa84d02-3294-11e6-a18f-4ded97ba1142	9_109065880_ATA	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	9	109065880	AT	A	540	PASS	RP11-308N19.1	Del	intronic	1	6	POLB	child	9_109065880_ATA_POLB	1	1	1	T	5	T	Repeat-mediated
9faa999e-3277-11e6-9019-27a01da8ec0e	6_111811066_TCT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	6	111811066	TC	T	360	PASS	-	Del	-	1	7	FANCC	child	6_111811066_TCT_FANCC	1	1	1	C	6	C	Repeat-mediated
9fac8252-3283-11e6-81fd-f903987b3f23	2_174828026_ATA	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	2	174828026	AT	A	480	PASS	SP3	Del	intronic	1	8	NEIL1	parent	2_174828026_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
9fb20048-3287-11e6-a1c7-605851c54cdd	X_76873192_CTC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	X	76873192	CT	C	480	PASS	ATRX	Del	intronic	1	8	EXO1	child	X_76873192_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
9fb2c6be-3259-11e6-885f-d1947872c165	4_46321986_TTA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	46321986	T	TA	480	PASS	GABRA2	Ins	intronic	1	7	MSH6	child	4_46321986_TTA_MSH6	1	1	-	-	-	-	Ins
9fb8f868-327c-11e6-809e-fbdaeff7a29c	12_14285903_TAT	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	12	14285903	TA	T	540	PASS	-	Del	-	1	5	POLB	parent	12_14285903_TAT_POLB	1	1	1	A	4	A	Repeat-mediated
9fc1a48a-3278-11e6-92d2-c259c225ee11	3_169737061_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	169737061	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	3_169737061_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
9fc5c4fe-328a-11e6-8353-a446fd44d094	1_169397036_CATC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	1	169397036	CAT	C	540	PASS	CCDC181	Del	intronic	2	2	FANCC	child	1_169397036_CATC_FANCC	2	2	2	AT	1	AT	Repeat-mediated
9fc9ebec-326c-11e6-acc7-e55219a91649	1_23010564_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	23010564	CA	C	360	PASS	-	Del	-	1	9	MSH6	child	1_23010564_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
9fccf868-3286-11e6-8b67-086ea2c71c31	1_200782846_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	200782846	GA	G	720	PASS	CAMSAP2	Del	intronic	1	7	MSH6	child	1_200782846_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
9fd5f58e-3291-11e6-9918-e08630158702	10_7023018_GAG	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	10	7023018	GA	G	480	PASS	-	Del	-	1	6	NUDT1	child	10_7023018_GAG_NUDT1	1	1	1	A	5	A	Repeat-mediated
9fde4c4a-3271-11e6-9d19-c216987b3f23	21_46103713_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	21	46103713	C	CA	300	PASS	TSPEAR	Ins	intronic	1	5	MSH6	child	21_46103713_CCA_MSH6	1	1	-	-	-	-	Ins
9fe9a584-328c-11e6-8256-94c36f39e758	17_54561723_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	54561723	GA	G	420	PASS	ANKFN1	Del	downstream	1	9	MSH6	child	17_54561723_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
9fea3050-328f-11e6-8f31-bfe16f39e758	9_132848814_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	132848814	AT	A	720	PASS	GPR107	Del	intronic	1	9	MSH6	child	9_132848814_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
9fedf3b8-3279-11e6-92c7-b3b42aaffa45	20_2537251_TAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	20	2537251	TA	T	474	PASS	TMC2	Del	intronic	1	9	EXO1	child	20_2537251_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
9fef82e2-3273-11e6-a3dd-600b4ec77248	2_15914586_CTC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	2	15914586	CT	C	528	PASS	-	Del	-	1	9	EXO1	child	2_15914586_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
a007cac6-328e-11e6-b960-ae6919a91649	15_30967054_AAGA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	15	30967054	AAG	A	300	PASS	-	Del	-	2	1	NEIL1	child	15_30967054_AAGA_NEIL1	2	2	1	A	0	-	Microhomology-mediated
a008fcf6-3253-11e6-9f9d-2c7a7872c165	12_7740265_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	7740265	CA	C	600	PASS	-	Del	-	1	8	MSH6	child	12_7740265_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
a00ed68e-3290-11e6-9d97-efe56f39e758	4_135160054_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	135160054	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	4_135160054_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
a01713e4-326d-11e6-bc62-6d4742c4520d	16_75083209_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	75083209	CT	C	480	PASS	ZNRF1	Del	intronic	1	8	MSH6	child	16_75083209_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a018f034-328a-11e6-821d-8c090e01a414	13_101947929_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	101947929	AT	A	360	PASS	NALCN	Del	intronic	1	9	MSH6	child	13_101947929_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a01e8436-3258-11e6-8cd9-139b7872c165	3_79834890_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	79834890	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	3_79834890_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
a021ac02-3275-11e6-9e0f-7959cab49462	7_12403233_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	12403233	AT	A	1020	PASS	VWDE	Del	intronic	1	6	MSH6	child	7_12403233_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
a022785e-3292-11e6-b57a-64b34430f757	8_66183232_AAT	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	8	66183232	A	AT	540	PASS	-	Ins	-	1	9	POLE	child	8_66183232_AAT_POLE	1	1	-	-	-	-	Ins
a0284b44-3288-11e6-8f9e-1f8aa178171f	4_1189498_ACA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	4	1189498	AC	A	480	PASS	SPON2	Del	upstream	1	6	FANCC	child	4_1189498_ACA_FANCC	1	1	1	C	5	C	Repeat-mediated
a0309d92-328f-11e6-8e48-791e0e01a414	8_140906805_AGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	140906805	AG	A	360	PASS	TRAPPC9	Del	intronic	1	8	MSH6	child	8_140906805_AGA_MSH6	1	1	1	G	7	G	Repeat-mediated
a032d32a-3283-11e6-8f58-97e3d4957ca3	20_32489381_GTG	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	20	32489381	GT	G	360	PASS	-	Del	-	1	7	NEIL1	child	20_32489381_GTG_NEIL1	1	1	1	T	6	T	Repeat-mediated
a0345e32-3258-11e6-9d15-298312ae24cf	X_148611134_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	148611134	TA	T	720	PASS	IDS	Del	splice_region	1	7	MSH6	child	X_148611134_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
a03f4c7a-328a-11e6-a80b-87090e01a414	11_82721584_TCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	82721584	TC	T	480	PASS	RAB30	Del	intronic	1	1	MSH6	child	11_82721584_TCT_MSH6	1	1	0	-	0	C	None
a041e5e2-3277-11e6-909e-86e86de4ab00	3_14029602_GTG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	3	14029602	GT	G	480	PASS	TPRXL	Del	intronic	1	9	EXO1	child	3_14029602_GTG_EXO1	1	1	1	T	8	T	Repeat-mediated
a0470a94-328c-11e6-b6a6-1f1e0e01a414	4_11162308_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	11162308	GA	G	540	PASS	-	Del	-	1	7	MSH6	child	4_11162308_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
a048952e-328e-11e6-b8c1-a64daa5f95ce	9_102716915_CTTAC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	9	102716915	CTTA	C	840	PASS	STX17	Del	intronic	3	2	POLE	child	9_102716915_CTTAC_POLE	3	3	3	TTA	1	TTA	Repeat-mediated
a048c752-3256-11e6-acc5-308412ae24cf	5_17934021_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	17934021	CT	C	360	PASS	RP11-454P21.1	Del	downstream	1	9	MSH6	child	5_17934021_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
a04ac592-3275-11e6-88aa-2d54a966024e	7_114679385_GAG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	7	114679385	GA	G	840	PASS	-	Del	-	1	6	MSH6	parent	7_114679385_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
a0602cbe-329a-11e6-aca6-b39fcc638e3d	2_57480468_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	57480468	AC	A	600	PASS	-	Del	-	1	6	MSH6	child	2_57480468_ACA_MSH6	1	1	1	C	5	C	Repeat-mediated
a06943b6-328c-11e6-8952-77c36f39e758	10_69867993_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	69867993	CT	C	480	PASS	MYPN	Del	upstream	1	7	MSH6	child	10_69867993_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
a06b62cc-327d-11e6-bd4a-308890e2c2e6	3_59817001_TATGT	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	3	59817001	TATG	T	360	PASS	FHIT	Del	intronic	3	8	FANCC	parent	3_59817001_TATGT_FANCC	3	3	3	ATG	7	ATG	Repeat-mediated
a06bcbae-329b-11e6-b549-1e5325c9da85	10_105221146_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	105221146	AT	A	300	PASS	CALHM1	Del	upstream	1	2	MSH6	child	10_105221146_ATA_MSH6	1	1	1	T	1	T	Repeat-mediated
a06f31d8-3276-11e6-9074-69cc19a91649	X_87223275_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	X	87223275	AT	A	420	PASS	-	Del	-	1	9	EXO1	child	X_87223275_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
a071e566-3287-11e6-a21c-b819bce6aa09	X_107960701_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	107960701	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	X_107960701_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a072b414-328c-11e6-bd84-429305ad5bc4	1_151039507_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	151039507	CT	C	660	PASS	GABPB2	Del	upstream	1	8	MSH6	child	1_151039507_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a07c2b50-3275-11e6-bfcc-6defed3c4f5d	2_165786482_GTG	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	2	165786482	GT	G	420	PASS	SLC38A11	Del	intronic	1	9	NEIL1	child	2_165786482_GTG_NEIL1	1	1	1	T	8	T	Repeat-mediated
a081def8-328c-11e6-a80b-87090e01a414	11_73240540_TTTTCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	73240540	T	TTTCA	480	PASS	FAM168A	Ins	intronic	4	0	MSH6	child	11_73240540_TTTTCA_MSH6	4	4	-	-	-	-	Ins
a0837dae-328b-11e6-9c12-b6c430158702	2_140733640_GATG	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	2	140733640	GAT	G	360	PASS	-	Del	-	2	5	POLM	child	2_140733640_GATG_POLM	2	2	2	AT	4	AT	Repeat-mediated
a0897346-328e-11e6-9230-fb250e01a414	3_48302654_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	48302654	TA	T	540	PASS	ZNF589	Del	intronic	1	9	MSH6	child	3_48302654_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a08ce436-3284-11e6-8313-52c92daed38e	6_56841248_CTCCCAAAGTGCTGGGATTACAGGCGTGAGTCACCATGCCCAGCCGCGTTAGTGCTTCTAAGGCAGAGTGGAGTGTAGATTATTTTATTACAAAATTAGGTGGCAAAGGACTGTGGGGTTTGTTTGTTTGTTTGAGCCAGAGTCTTGCTCTGTCACTCAGGCTGGAGTGCAGTGGCTCAATCTTGGCTCATTGCAACCTCTGCCTCCTGGGTTCAAGCGATTCCCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGCACGTCACCACACCTGGCTAATTTTTGTATTTTTAATACAGATGGGGTTTCACCATGTTGGCCAAGCTGGCCTTGAATTACTGGCCTTAAGTGATCCGCCTGCCTCAGCTC	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	6	56841248	CTCCCAAAGTGCTGGGATTACAGGCGTGAGTCACCATGCCCAGCCGCGTTAGTGCTTCTAAGGCAGAGTGGAGTGTAGATTATTTTATTACAAAATTAGGTGGCAAAGGACTGTGGGGTTTGTTTGTTTGTTTGAGCCAGAGTCTTGCTCTGTCACTCAGGCTGGAGTGCAGTGGCTCAATCTTGGCTCATTGCAACCTCTGCCTCCTGGGTTCAAGCGATTCCCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGCACGTCACCACACCTGGCTAATTTTTGTATTTTTAATACAGATGGGGTTTCACCATGTTGGCCAAGCTGGCCTTGAATTACTGGCCTTAAGTGATCCGCCTGCCTCAGCT	C	300	PASS	BEND6	Del	intronic	370	1	POLB	child	6_56841248_CTCCCAAAGTGCTGGGATTACAGGCGTGAGTCACCATGCCCAGCCGCGTTAGTGCTTCTAAGGCAGAGTGGAGTGTAGATTATTTTATTACAAAATTAGGTGGCAAAGGACTGTGGGGTTTGTTTGTTTGTTTGAGCCAGAGTCTTGCTCTGTCACTCAGGCTGGAGTGCAGTGGCTCAATCTTGGCTCATTGCAACCTCTGCCTCCTGGGTTCAAGCGATTCCCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGCACGTCACCACACCTGGCTAATTTTTGTATTTTTAATACAGATGGGGTTTCACCATGTTGGCCAAGCTGGCCTTGAATTACTGGCCTTAAGTGATCCGCCTGCCTCAGCTC_POLB	370	>=10	24	TCCCAAAGTGCTGGGATTACAGGC	0	-	Microhomology-mediated
a091e3e4-328b-11e6-919e-92c36f39e758	2_10139244_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	10139244	AC	A	660	PASS	GRHL1	Del	intronic	1	6	MSH6	child	2_10139244_ACA_MSH6	1	1	1	C	5	C	Repeat-mediated
a095242a-3284-11e6-9daa-026ea2c71c31	14_47546156_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	47546156	AT	A	360	PASS	MDGA2	Del	intronic	1	6	MSH6	child	14_47546156_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
a09a154a-328c-11e6-8256-94c36f39e758	17_54778154_TCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	54778154	TC	T	540	PASS	-	Del	-	1	6	MSH6	child	17_54778154_TCT_MSH6	1	1	1	C	5	C	Repeat-mediated
a0b10d7c-3273-11e6-9e18-3a69671699ea	10_84189728_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	84189728	CT	C	420	PASS	NRG3	Del	intronic	1	7	MSH6	child	10_84189728_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
a0b49614-3290-11e6-9d97-efe56f39e758	4_135486805_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	135486805	GT	G	660	PASS	-	Del	-	1	6	MSH6	child	4_135486805_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
a0bafffa-328f-11e6-b8e6-91c36f39e758	11_134528970_GGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	134528970	G	GA	420	PASS	-	Ins	-	1	8	MSH6	child	11_134528970_GGA_MSH6	1	1	-	-	-	-	Ins
a0c16248-328d-11e6-b5d1-34059c6d3b88	13_43251862_TTTAAT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	13	43251862	TTTAA	T	360	PASS	-	Del	-	4	1	POLB	child	13_43251862_TTTAAT_POLB	4	4	3	TTA	0	-	Microhomology-mediated
a0c4c48a-3286-11e6-ba9a-5a79a178171f	14_81142587_TAAT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	14	81142587	TAA	T	480	PASS	CEP128	Del	intronic	2	3	FANCC	child	14_81142587_TAAT_FANCC	2	2	1	A	0	-	Microhomology-mediated
a0c52fa2-3285-11e6-be43-0a6ea2c71c31	10_104353334_CCTTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	104353334	CCTT	C	780	PASS	SUFU	Del	intronic	3	2	MSH6	child	10_104353334_CCTTC_MSH6	3	3	3	CTT	1	CTT	Repeat-mediated
a0cdb5ae-3277-11e6-b7b5-ce91a78019ab	5_72103567_ATA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	5	72103567	AT	A	600	PASS	-	Del	-	1	9	NEIL1	child	5_72103567_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
a0d6f97a-3254-11e6-a03d-40f212ae24cf	18_75067628_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	18	75067628	CT	C	300	PASS	-	Del	-	1	7	MSH6	child	18_75067628_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
a0db3076-3254-11e6-9f9d-2c7a7872c165	12_72196312_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	72196312	AT	A	420	PASS	RP11-2H8.2	Del	upstream	1	9	MSH6	child	12_72196312_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a0e7ed5c-329a-11e6-bda6-065325c9da85	13_67641911_TGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	67641911	TG	T	480	PASS	PCDH9	Del	intronic	1	8	MSH6	child	13_67641911_TGT_MSH6	1	1	1	G	7	G	Repeat-mediated
a0f4f000-3273-11e6-aa3b-ca60a178171f	13_101830027_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	101830027	AT	A	480	PASS	NALCN	Del	intronic	1	7	MSH6	child	13_101830027_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
a0fab844-3284-11e6-94be-6cfa4430f757	12_55635691_GAG	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	12	55635691	GA	G	720	PASS	-	Del	-	1	5	EXO1	child	12_55635691_GAG_EXO1	1	1	1	A	4	A	Repeat-mediated
a1042bf4-32a2-11e6-b970-398625c9da85	20_17366390_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	17366390	GA	G	420	PASS	PCSK2	Del	intronic	1	5	MSH6	child	20_17366390_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
a10f3590-3288-11e6-a21c-b819bce6aa09	X_76045076_TTTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	76045076	T	TTA	420	PASS	-	Ins	-	2	4	MSH6	child	X_76045076_TTTA_MSH6	2	2	-	-	-	-	Ins
a11256a0-3290-11e6-9230-fb250e01a414	3_179020402_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	179020402	CA	C	900	PASS	-	Del	-	1	5	MSH6	child	3_179020402_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
a1127f18-3259-11e6-a39a-dc8512ae24cf	8_133884237_ATGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	133884237	ATG	A	300	PASS	TG	Del	intronic	2	5	MSH6	child	8_133884237_ATGA_MSH6	2	2	2	TG	4	TG	Repeat-mediated
a11504c2-3272-11e6-a862-bc9becf1e924	1_19284505_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	19284505	CT	C	420	PASS	IFFO2	Del	upstream	1	4	MSH6	child	1_19284505_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
a1200978-328e-11e6-84a5-b1e2977b3f23	7_3190234_GTG	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	7	3190234	GT	G	600	PASS	-	Del	-	1	9	NEIL1	child	7_3190234_GTG_NEIL1	1	1	1	T	8	T	Repeat-mediated
a122f452-329e-11e6-b696-dd6225c9da85	5_99081039_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	99081039	AT	A	780	PASS	-	Del	-	1	8	MSH6	child	5_99081039_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
a127bfa2-329c-11e6-a5cf-e5abcc638e3d	9_27071709_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	27071709	GA	G	540	PASS	-	Del	-	1	9	MSH6	child	9_27071709_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
a1314d0c-329b-11e6-a5cf-205325c9da85	11_111985926_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	111985926	CA	C	660	PASS	-	Del	-	1	8	MSH6	child	11_111985926_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
a13558a0-329d-11e6-bc2c-2a5e25c9da85	4_47717616_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	47717616	CA	C	480	PASS	CORIN	Del	intronic	1	9	MSH6	child	4_47717616_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
a13651b0-328e-11e6-b8e6-91c36f39e758	11_67054812_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	67054812	A	AT	660	PASS	ADRBK1	Ins	downstream	1	1	MSH6	child	11_67054812_AAT_MSH6	1	1	-	-	-	-	Ins
a13863c0-328d-11e6-919e-92c36f39e758	2_144650846_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	144650846	CT	C	660	PASS	-	Del	-	1	8	MSH6	child	2_144650846_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a139a1d6-329c-11e6-a5cf-e5abcc638e3d	9_27092115_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	27092115	AT	A	660	PASS	-	Del	-	1	9	MSH6	child	9_27092115_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a13b4fe6-3273-11e6-90ac-b4c37872c165	8_48874012_GACG	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	8	48874012	GAC	G	480	PASS	MCM4	Del	intronic	2	1	NEIL1	child	8_48874012_GACG_NEIL1	2	2	1	A	0	-	Microhomology-mediated
a1424b20-3287-11e6-a21c-b819bce6aa09	X_108415736_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	108415736	GA	G	480	PASS	-	Del	-	1	5	MSH6	child	X_108415736_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
a1493a86-328a-11e6-94b1-74090e01a414	17_68065229_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	68065229	GT	G	300	PASS	LINC01028	Del	downstream	1	7	MSH6	child	17_68065229_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
a150af9c-3257-11e6-8cd9-139b7872c165	3_6571140_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	6571140	CT	C	360	PASS	AC069277.2	Del	intronic	1	8	MSH6	child	3_6571140_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a1630afa-32a4-11e6-a04f-c66a25c9da85	6_166088793_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	166088793	G	GA	840	PASS	-	Ins	-	1	3	MSH6	child	6_166088793_GGA_MSH6	1	1	-	-	-	-	Ins
a1655b1e-328d-11e6-8c87-38240e01a414	22_19884971_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	22	19884971	TA	T	480	PASS	TXNRD2	Del	intronic	1	7	MSH6	child	22_19884971_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
a1739302-3277-11e6-8b89-96b6ecf1e924	5_88664199_CTC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	5	88664199	CT	C	480	PASS	-	Del	-	1	7	CHK2	child	5_88664199_CTC_CHK2	1	1	1	T	6	T	Repeat-mediated
a17caef2-328f-11e6-9432-c0e56f39e758	5_72146631_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	72146631	CT	C	540	PASS	TNPO1	Del	intronic	1	8	MSH6	child	5_72146631_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a1895760-3258-11e6-8340-da9012ae24cf	6_12288544_TGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	12288544	TG	T	420	PASS	EDN1	Del	upstream	1	7	MSH6	child	6_12288544_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
a190f03c-326d-11e6-9fba-41ebd8b4fa2c	11_40929616_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	40929616	AT	A	300	PASS	LRRC4C	Del	intronic	1	8	MSH6	child	11_40929616_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
a19c743a-3325-11e6-80f2-a91d98ba1142	21_37800380_ATTTATTA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	21	37800380	ATTTATT	A	300	PASS	-	Del	-	6	1	EXO1	child	21_37800380_ATTTATTA_EXO1	6	6	3	TTT	0	-	Microhomology-mediated
a1a11806-3293-11e6-b10a-17a5e7d0bdd7	1_246063113_CCA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	1	246063113	C	CA	780	PASS	SMYD3	Ins	intronic	1	3	FANCC	child	1_246063113_CCA_FANCC	1	1	-	-	-	-	Ins
a1a745b4-3289-11e6-aa70-b0b3cc638e3d	19_21627520_ATA	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	19	21627520	AT	A	300	PASS	CTD-2561J22.5	Del	downstream	1	8	NUDT1	child	19_21627520_ATA_NUDT1	1	1	1	T	7	T	Repeat-mediated
a1b1ab7a-329e-11e6-bc2c-2a5e25c9da85	4_112584687_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	112584687	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	4_112584687_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
a1b2f14c-3271-11e6-8bac-883da966024e	16_33480426_CTC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	16	33480426	CT	C	528	PASS	-	Del	-	1	5	MSH6	parent	16_33480426_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
a1b9d1aa-326d-11e6-b2ac-b6204b47a305	17_61021672_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	61021672	TA	T	420	PASS	RP11-180P8.1	Del	intronic	1	9	MSH6	child	17_61021672_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a1bfe4ee-3288-11e6-b093-c9c7b0dab373	2_101200758_AAAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	101200758	A	AAG	540	PASS	-	Ins	-	2	1	MSH6	child	2_101200758_AAAG_MSH6	2	2	-	-	-	-	Ins
a1c943b6-326c-11e6-92dd-fda8977b3f23	10_16486837_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	16486837	GT	G	360	PASS	PTER	Del	intronic	1	8	MSH6	child	10_16486837_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
a1cf3670-328c-11e6-8770-3e160e01a414	9_80256947_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	80256947	CA	C	300	PASS	GNA14	Del	intronic	1	9	MSH6	child	9_80256947_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
a1cf5d36-3286-11e6-b093-c9c7b0dab373	2_183395899_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	183395899	TA	T	660	PASS	-	Del	-	1	9	MSH6	child	2_183395899_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a1d8d09e-329c-11e6-aca6-b39fcc638e3d	2_186311049_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	186311049	CA	C	960	PASS	-	Del	-	1	7	MSH6	child	2_186311049_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
a1daa986-3289-11e6-a7cf-80090e01a414	15_35357891_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	35357891	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	15_35357891_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
a1ddb6d8-3321-11e6-bc94-01ed0322d171	16_47978784_CTTC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	16	47978784	CTT	C	300	PASS	-	Del	-	2	3	EXO1	child	16_47978784_CTTC_EXO1	2	2	1	T	0	-	Microhomology-mediated
a1e0c392-3258-11e6-aed0-182fee3c4f5d	20_52569953_CAC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	20	52569953	CA	C	540	PASS	BCAS1	Del	intronic	1	8	POLB	child	20_52569953_CAC_POLB	1	1	1	A	7	A	Repeat-mediated
a1f0e662-328c-11e6-aa75-90c36f39e758	13_90821590_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	90821590	CA	C	360	PASS	-	Del	-	1	9	MSH6	child	13_90821590_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
a1f534ae-3293-11e6-a2c5-65337a852e0e	5_102041370_TCTTTCTCTTCTTATAT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	5	102041370	TCTTTCTCTTCTTATA	T	480	PASS	-	Del	-	15	1	CHK2	child	5_102041370_TCTTTCTCTTCTTATAT_CHK2	15	>=10	0	-	0	-	None
a1fd3d6e-3272-11e6-8f33-a6d9cde16804	11_23970565_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	23970565	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	11_23970565_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a209cd0a-3276-11e6-998e-ba48fa52e078	8_64584549_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	64584549	CA	C	480	PASS	-	Del	-	1	6	MSH6	child	8_64584549_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
a20e8b1c-3288-11e6-b9eb-c78fa2c71c31	6_74356115_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	74356115	AT	A	660	PASS	SLC17A5	Del	intronic	1	9	MSH6	child	6_74356115_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a20ed6d6-334a-11e6-8a03-0d6be84777f6	21_46699309_CAC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	21	46699309	CA	C	300	PASS	POFUT2	Del	intronic	1	8	FANCC	child	21_46699309_CAC_FANCC	1	1	1	A	7	A	Repeat-mediated
a2109564-328e-11e6-919e-92c36f39e758	2_209229085_GGTCTTTGGTTTAAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	209229085	GGTCTTTGGTTTAA	G	480	PASS	-	Del	-	13	1	MSH6	child	2_209229085_GGTCTTTGGTTTAAG_MSH6	13	>=10	6	GTCTTT	0	-	Microhomology-mediated
a210e9d4-3251-11e6-8c4a-b6e612ae24cf	16_3779135_GTGCG	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	16	3779135	GTGC	G	480	PASS	CREBBP	Del	inframe	3	4	POLB	child	16_3779135_GTGCG_POLB	3	3	3	TGC	3	TGC	Repeat-mediated
a2209de6-3325-11e6-bd6e-9bc7cde16804	6_78718179_ATA	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	6	78718179	AT	A	420	PASS	-	Del	-	1	1	CHK2	child	6_78718179_ATA_CHK2	1	1	0	-	0	T	None
a220c774-328c-11e6-8256-94c36f39e758	17_55138297_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	55138297	TA	T	409	PASS	-	Del	-	1	7	MSH6	child	17_55138297_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
a227364c-328a-11e6-ad64-7189a178171f	5_174311240_GTAG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	5	174311240	GTA	G	660	PASS	-	Del	-	2	1	FANCC	child	5_174311240_GTAG_FANCC	2	2	1	T	0	-	Microhomology-mediated
a22baf1e-329a-11e6-aca6-b39fcc638e3d	2_58097209_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	58097209	TA	T	480	PASS	-	Del	-	1	6	MSH6	child	2_58097209_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
a230006c-328d-11e6-b9c4-751d0e01a414	5_90008987_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	90008987	TA	T	660	PASS	GPR98	Del	intronic	1	8	MSH6	child	5_90008987_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
a23b0800-329b-11e6-bbf7-b00798ba1142	3_161703809_AAATA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	3	161703809	AAAT	A	480	PASS	-	Del	-	3	1	CHK2	child	3_161703809_AAATA_CHK2	3	3	1	A	0	-	Microhomology-mediated
a23c0476-3273-11e6-b923-6726694da5d2	5_126827224_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	126827224	T	TA	420	PASS	-	Ins	-	1	5	MSH6	child	5_126827224_TTA_MSH6	1	1	-	-	-	-	Ins
a2467924-326e-11e6-bfba-13bf4a47a305	9_17473347_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	17473347	CT	C	300	PASS	CNTLN	Del	intronic	1	7	MSH6	child	9_17473347_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
a249a004-3287-11e6-8064-0e1e987b3f23	6_110604433_TTTATCT	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	6	110604433	TTTATC	T	540	PASS	METTL24	Del	intronic	5	1	NEIL1	parent	6_110604433_TTTATCT_NEIL1	5	5	3	TTA	0	-	Microhomology-mediated
a250dfce-3276-11e6-8c34-46e27872c165	5_83983191_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	83983191	CA	C	480	PASS	-	Del	-	1	8	MSH6	child	5_83983191_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
a254923c-3270-11e6-b5b8-e0c24a47a305	X_73083035_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	73083035	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	X_73083035_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
a258a4c8-328c-11e6-bec1-ca1d0e01a414	X_22162331_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	22162331	AT	A	660	PASS	PHEX	Del	intronic	1	9	MSH6	child	X_22162331_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a26055c6-328a-11e6-bb2d-24a320e7b7a8	X_52052629_CAC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	X	52052629	CA	C	360	PASS	-	Del	-	1	7	POLE	child	X_52052629_CAC_POLE	1	1	1	A	6	A	Repeat-mediated
a2624de0-328a-11e6-8459-82090e01a414	12_80573220_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	80573220	CT	C	300	PASS	-	Del	-	1	4	MSH6	child	12_80573220_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
a262a780-3272-11e6-b8ae-92c57872c165	14_35311417_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	35311417	GA	G	480	PASS	BAZ1A	Del	intronic	1	9	MSH6	child	14_35311417_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
a26d1e7a-326f-11e6-a539-0e5542c4520d	7_45321662_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	45321662	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	7_45321662_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a271c368-3287-11e6-a21c-b819bce6aa09	X_109128450_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	109128450	GA	G	360	PASS	-	Del	-	1	7	MSH6	child	X_109128450_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
a271e692-3271-11e6-b89d-b2d6b0dab373	4_144667178_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	144667178	TA	T	720	PASS	-	Del	-	1	4	MSH6	child	4_144667178_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
a2745b78-3273-11e6-a685-a844e7d0bdd7	10_70444003_ATA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	10	70444003	AT	A	480	PASS	TET1	Del	intronic	1	8	EXO1	child	10_70444003_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
a278826e-3270-11e6-b923-6726694da5d2	5_79823850_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	79823850	CT	C	360	PASS	FAM151B	Del	intronic	1	7	MSH6	child	5_79823850_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
a285df8e-329f-11e6-bc2c-2a5e25c9da85	4_174782583_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	174782583	CA	C	480	PASS	-	Del	-	1	8	MSH6	child	4_174782583_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
a2917a08-328e-11e6-b9c4-751d0e01a414	5_162102992_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	162102992	AT	A	660	PASS	-	Del	-	1	9	MSH6	child	5_162102992_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a293c93a-3274-11e6-ab69-1c1607e9a829	9_816286_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	816286	TG	T	300	PASS	-	Del	-	1	1	MSH6	child	9_816286_TGT_MSH6	1	1	0	-	0	G	None
a29ca83a-328c-11e6-b805-77090e01a414	2_222568577_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	222568577	GA	G	360	PASS	-	Del	-	1	4	MSH6	child	2_222568577_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
a2a8a36e-3292-11e6-a366-d0257a852e0e	2_220858228_ATA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	2	220858228	AT	A	300	PASS	-	Del	-	1	9	CHK2	child	2_220858228_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
a2add448-3287-11e6-97e4-64c735cec73b	21_14635817_TAT	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	21	14635817	TA	T	454	PASS	-	Del	-	1	9	POLE	child	21_14635817_TAT_POLE	1	1	1	A	8	A	Repeat-mediated
a2bc01f4-3272-11e6-8418-1c5942c4520d	3_46565375_AAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	46565375	A	AT	780	PASS	LRRC2	Ins	intronic	1	7	MSH6	child	3_46565375_AAT_MSH6	1	1	-	-	-	-	Ins
a2c2f546-328a-11e6-a80b-87090e01a414	11_83413199_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	83413199	CT	C	360	PASS	DLG2	Del	intronic	1	9	MSH6	child	11_83413199_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
a2c5c21e-3274-11e6-8889-c85efc77b11e	4_48501830_TTACTCAAAGTACCACCTGAATTCACTTTCAAAGTACCT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	4	48501830	TTACTCAAAGTACCACCTGAATTCACTTTCAAAGTACC	T	660	PASS	FRYL	Del	intronic	37	1	MSH6	parent	4_48501830_TTACTCAAAGTACCACCTGAATTCACTTTCAAAGTACCT_MSH6	37	>=10	0	-	0	-	None
a2c9e73a-328e-11e6-ad16-6b56f0f7a29c	10_22296746_TAT	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	10	22296746	TA	T	660	PASS	DNAJC1	Del	upstream	1	7	NEIL1	child	10_22296746_TAT_NEIL1	1	1	1	A	6	A	Repeat-mediated
a2cb9d80-3349-11e6-be18-768ca20b69d5	3_47207188_CAC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	3	47207188	CA	C	277	PASS	SETD2	Del	upstream	1	9	FANCC	child	3_47207188_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
a2cca92a-327f-11e6-8767-7cd94dc77248	6_11766624_CAC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	6	11766624	CA	C	600	PASS	ADTRP	Del	intronic	1	6	NUDT1	child	6_11766624_CAC_NUDT1	1	1	1	A	5	A	Repeat-mediated
a2d018a8-328e-11e6-9d24-ade56f39e758	7_4943571_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	4943571	CT	C	420	PASS	MMD2	Del	downstream	1	9	MSH6	child	7_4943571_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
a2dc93c6-3289-11e6-821d-8c090e01a414	13_40101835_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	40101835	AT	A	600	PASS	LHFP	Del	intronic	1	7	MSH6	child	13_40101835_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
a2dd9d44-326f-11e6-b77c-ce5aceda8250	11_69967124_AAAGA	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	11	69967124	AAAG	A	506	PASS	ANO1	Del	intronic	3	1	POLM	child	11_69967124_AAAGA_POLM	3	3	2	AA	0	-	Microhomology-mediated
a2f287cc-3288-11e6-b686-d35a51c54cdd	4_121622655_TAT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	4	121622655	TA	T	480	PASS	PRDM5	Del	intronic	1	7	EXO1	child	4_121622655_TAT_EXO1	1	1	1	A	6	A	Repeat-mediated
a2f50ff8-326d-11e6-9fba-41ebd8b4fa2c	11_41150320_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	41150320	AT	A	360	PASS	LRRC4C	Del	intronic	1	7	MSH6	child	11_41150320_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
a2f63a1a-3284-11e6-99f7-076ea2c71c31	12_21579048_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	21579048	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	12_21579048_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a2fd16d2-3289-11e6-b093-c9c7b0dab373	2_195274747_CCA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	195274747	C	CA	480	PASS	AC018799.1	Ins	intronic	1	8	MSH6	child	2_195274747_CCA_MSH6	1	1	-	-	-	-	Ins
a2fd6874-3290-11e6-9d97-efe56f39e758	4_136083197_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	136083197	TA	T	360	PASS	-	Del	-	1	7	MSH6	child	4_136083197_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
a303f6e4-328b-11e6-8952-77c36f39e758	10_7374624_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	7374624	GA	G	600	PASS	SFMBT2	Del	intronic	1	9	MSH6	child	10_7374624_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
a30e2596-3287-11e6-bb85-03a66f39e758	4_94314502_GAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	4	94314502	GA	G	480	PASS	GRID2	Del	intronic	1	8	EXO1	child	4_94314502_GAG_EXO1	1	1	1	A	7	A	Repeat-mediated
a31468ea-3280-11e6-ab79-75e41da8ec0e	18_6395449_AGA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	18	6395449	AG	A	480	PASS	L3MBTL4	Del	intronic	1	7	EXO1	child	18_6395449_AGA_EXO1	1	1	1	G	6	G	Repeat-mediated
a325c85a-326d-11e6-b9f4-5d1d694da5d2	14_89306336_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	89306336	TA	T	300	PASS	TTC8	Del	intronic	1	7	MSH6	child	14_89306336_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
a3276aa6-3273-11e6-b253-1903630e6611	18_27142732_ATA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	18	27142732	AT	A	480	PASS	-	Del	-	1	9	CHK2	child	18_27142732_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
a32f4ef8-329e-11e6-b696-dd6225c9da85	5_99876281_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	99876281	AT	A	480	PASS	FAM174A	Del	intronic	1	7	MSH6	child	5_99876281_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
a3340482-3291-11e6-b77d-2eef6f39e758	6_76619467_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	76619467	GT	G	540	PASS	MYO6	Del	intronic	1	7	MSH6	child	6_76619467_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
a337fb0c-328f-11e6-8f31-bfe16f39e758	9_133570019_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	133570019	AT	A	660	PASS	EXOSC2	Del	intronic	1	7	MSH6	child	9_133570019_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
a33c80c8-328f-11e6-9230-fb250e01a414	3_115552888_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	115552888	GA	G	360	PASS	LSAMP	Del	intronic	1	9	MSH6	child	3_115552888_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
a33cd004-328b-11e6-8256-94c36f39e758	17_5643891_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	5643891	CA	C	420	PASS	-	Del	-	1	5	MSH6	child	17_5643891_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
a33cf3f4-3277-11e6-bb6d-38aec042253c	3_37002096_TGGCGTGTGCCTGTAT	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	3	37002096	TGGCGTGTGCCTGTA	T	900	PASS	-	Del	-	14	1	CHK2	child	3_37002096_TGGCGTGTGCCTGTAT_CHK2	14	>=10	1	G	0	-	Microhomology-mediated
a34b49f4-3254-11e6-89d3-d29498816cf3	2_121925880_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	121925880	CA	C	720	PASS	-	Del	-	1	9	MSH6	child	2_121925880_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
a34bc81c-3276-11e6-88aa-2d54a966024e	7_20225114_AAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	7	20225114	A	AT	300	PASS	MACC1	Ins	intronic	1	7	MSH6	parent	7_20225114_AAT_MSH6	1	1	-	-	-	-	Ins
a35700f8-328d-11e6-919e-92c36f39e758	2_145423318_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	145423318	CT	C	300	PASS	TEX41	Del	upstream	1	9	MSH6	child	2_145423318_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
a359b372-3277-11e6-83cd-a472a178171f	4_183803777_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	183803777	AT	A	758	PASS	RP11-188P17.2	Del	upstream	1	8	MSH6	child	4_183803777_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
a35d3872-3276-11e6-a47c-77abeab8d062	5_25245334_TCTCTCAACACT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	5	25245334	TCTCTCAACAC	T	540	PASS	RP11-184E9.1	Del	intronic	10	1	EXO1	child	5_25245334_TCTCTCAACACT_EXO1	10	>=10	2	CT	0	-	Microhomology-mediated
a36785ac-326c-11e6-adc2-b7204b47a305	18_2172183_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	2172183	CA	C	300	PASS	RP11-161I6.2	Del	intronic	1	9	MSH6	child	18_2172183_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
a3679582-328b-11e6-8952-77c36f39e758	10_7465267_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	7465267	GA	G	720	PASS	-	Del	-	1	6	MSH6	child	10_7465267_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
a36a6fd0-326f-11e6-a16f-981f1daa6045	19_35646010_TACTCT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	19	35646010	TACTC	T	540	PASS	FXYD5	Del	5prime_UTR_variant	4	2	NUDT1	child	19_35646010_TACTCT_NUDT1	4	4	4	ACTC	1	ACTC	Repeat-mediated
a37c61d4-3271-11e6-949c-85d3ed3c4f5d	19_34143186_TCT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	19	34143186	TC	T	780	PASS	CHST8	Del	intronic	1	1	MSH6	parent	19_34143186_TCT_MSH6	1	1	0	-	0	C	None
a38a265c-328f-11e6-8612-7b73fc77b11e	5_44146209_CTC	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	5	44146209	CT	C	480	PASS	-	Del	-	1	8	POLE	child	5_44146209_CTC_POLE	1	1	1	T	7	T	Repeat-mediated
a394770e-328c-11e6-9539-3490a178171f	3_59656649_TTA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	3	59656649	T	TA	360	PASS	-	Ins	-	1	5	FANCC	child	3_59656649_TTA_FANCC	1	1	-	-	-	-	Ins
a39684e6-3286-11e6-b32c-fd87a2c71c31	5_43141129_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	43141129	GT	G	420	PASS	ZNF131	Del	intronic	1	9	MSH6	child	5_43141129_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
a39941ce-3275-11e6-b96a-e20a1ea8ec0e	7_100285750_GAGAG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	7	100285750	GAGA	G	540	PASS	GIGYF1	Del	intronic	3	3	FANCC	child	7_100285750_GAGAG_FANCC	3	3	3	AGA	2	AGA	Repeat-mediated
a39c3360-3294-11e6-9107-a556e7d0bdd7	22_46804045_CCTTC	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	22	46804045	CCTT	C	600	PASS	CELSR1	Del	intronic	3	1	NUDT1	child	22_46804045_CCTTC_NUDT1	3	3	2	CT	0	-	Microhomology-mediated
a3b46d26-328b-11e6-8770-3e160e01a414	9_213503_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	213503	AT	A	600	PASS	C9orf66	Del	3prime_UTR_variant	1	6	MSH6	child	9_213503_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
a3b6a09c-328a-11e6-b805-77090e01a414	2_89164768_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	89164768	GA	G	420	PASS	-	Del	-	1	8	MSH6	child	2_89164768_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
a3c05028-3286-11e6-86e9-d4770d016689	X_70652197_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	X	70652197	AT	A	540	PASS	TAF1	Del	intronic	1	7	EXO1	child	X_70652197_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
a3c2ae0e-3295-11e6-8016-3bf2d0959d89	21_47573475_CCCAGGGGACGC	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	21	47573475	CCCAGGGGACG	C	300	PASS	FTCD	Del	intronic	10	1	POLB	child	21_47573475_CCCAGGGGACGC_POLB	10	>=10	4	CCAG	0	-	Microhomology-mediated
a3c71502-3254-11e6-b4d0-327a7872c165	11_72736820_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	72736820	AT	A	300	PASS	FCHSD2	Del	intronic	1	7	MSH6	child	11_72736820_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
a3ca7652-3290-11e6-bc00-90df977b3f23	X_143889738_CTC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	X	143889738	CT	C	600	PASS	-	Del	-	1	9	NEIL1	child	X_143889738_CTC_NEIL1	1	1	1	T	8	T	Repeat-mediated
a3cb7eac-3287-11e6-b7eb-5479a178171f	12_129538671_ACA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	12	129538671	AC	A	420	PASS	-	Del	-	1	7	FANCC	child	12_129538671_ACA_FANCC	1	1	1	C	6	C	Repeat-mediated
a3d0c2c6-329c-11e6-ae71-0c5325c9da85	1_160507471_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	160507471	TA	T	360	PASS	CD84	Del	downstream	1	4	MSH6	child	1_160507471_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
a3d4ea96-3255-11e6-acd5-c91dee3c4f5d	4_169263340_CTC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	4	169263340	CT	C	600	PASS	-	Del	-	1	9	POLB	child	4_169263340_CTC_POLB	1	1	1	T	8	T	Repeat-mediated
a3d554e4-329c-11e6-a5cf-e5abcc638e3d	9_27623267_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	27623267	AC	A	540	PASS	-	Del	-	1	5	MSH6	child	9_27623267_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
a3d6f960-3289-11e6-a284-4b89a2c71c31	4_86609015_AAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	86609015	A	AT	600	PASS	ARHGAP24	Ins	intronic	1	1	MSH6	child	4_86609015_AAT_MSH6	1	1	-	-	-	-	Ins
a3da4040-3273-11e6-b4ee-9405147bb207	10_75350700_TTA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	10	75350700	T	TA	420	PASS	USP54	Ins	intronic	1	3	MSH6	parent	10_75350700_TTA_MSH6	1	1	-	-	-	-	Ins
a3e78f5e-3285-11e6-b093-c9c7b0dab373	2_96213572_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	96213572	AT	A	420	PASS	-	Del	-	1	7	MSH6	child	2_96213572_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
a3e8782c-3322-11e6-a5dc-75b8cde16804	1_89207012_TAT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	1	89207012	TA	T	840	PASS	PKN2	Del	intronic	1	8	EXO1	child	1_89207012_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
a3ef81d4-3288-11e6-9317-6ba56f39e758	8_131154245_TGTACCACCT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	8	131154245	TGTACCACC	T	360	PASS	ASAP1	Del	intronic	8	1	EXO1	child	8_131154245_TGTACCACCT_EXO1	8	8	2	GT	0	-	Microhomology-mediated
a3f68c8e-3285-11e6-99f7-076ea2c71c31	12_107405273_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	107405273	TA	T	480	PASS	CRY1	Del	intronic	1	9	MSH6	child	12_107405273_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a3f85d24-328b-11e6-a7cf-80090e01a414	15_89032549_CGC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	89032549	CG	C	780	PASS	-	Del	-	1	6	MSH6	child	15_89032549_CGC_MSH6	1	1	1	G	5	G	Repeat-mediated
a40aa956-326e-11e6-9fba-41ebd8b4fa2c	11_75794740_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	75794740	AT	A	900	PASS	UVRAG	Del	intronic	1	9	MSH6	child	11_75794740_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a40eb8c6-326d-11e6-bc62-6d4742c4520d	16_75817442_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	75817442	CT	C	540	PASS	-	Del	-	1	7	MSH6	child	16_75817442_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
a41628be-327b-11e6-8fd7-46dab41afd22	15_35674334_TAT	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	15	35674334	TA	T	480	PASS	DPH6	Del	intronic	1	9	POLM	child	15_35674334_TAT_POLM	1	1	1	A	8	A	Repeat-mediated
a41663ea-3273-11e6-bea5-e783a20b69d5	13_85861736_AAGA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	13	85861736	AAG	A	420	PASS	-	Del	-	2	2	EXO1	child	13_85861736_AAGA_EXO1	2	2	2	AG	1	AG	Repeat-mediated
a417c0f6-3321-11e6-b44e-ec3a66a58581	18_51127237_CCT	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	18	51127237	C	CT	420	PASS	RP11-202D1.3	Ins	downstream	1	0	CHK2	parent	18_51127237_CCT_CHK2	1	1	-	-	-	-	Ins
a419e8c6-329b-11e6-aca6-b39fcc638e3d	2_122501801_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	122501801	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	2_122501801_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a41ae9ca-326d-11e6-9793-9a8fb0dab373	13_94293428_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	94293428	GA	G	600	PASS	GPC6	Del	intronic	1	9	MSH6	child	13_94293428_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
a43ba4ee-329f-11e6-bc66-17b4cc638e3d	8_52074108_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	52074108	GA	G	1140	PASS	-	Del	-	1	8	MSH6	child	8_52074108_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
a43d289c-328f-11e6-aa67-b667694da5d2	5_28292462_TAT	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	5	28292462	TA	T	420	PASS	CTD-2061E9.1	Del	upstream	1	8	POLM	child	5_28292462_TAT_POLM	1	1	1	A	7	A	Repeat-mediated
a441d8de-329d-11e6-91d0-016425c9da85	7_10770661_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	10770661	AT	A	540	PASS	-	Del	-	1	8	MSH6	child	7_10770661_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
a44201b8-326d-11e6-9003-ae204b47a305	19_47999639_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	47999639	CT	C	480	PASS	NAPA	Del	intronic	1	8	MSH6	child	19_47999639_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a446aea0-3274-11e6-8889-c85efc77b11e	4_48772423_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	4	48772423	AT	A	720	PASS	FRYL	Del	intronic	1	7	MSH6	parent	4_48772423_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
a4498bba-3284-11e6-870e-6af1bbe6aa09	19_14740628_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	14740628	AT	A	360	PASS	EMR3	Del	intronic	1	9	MSH6	child	19_14740628_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a44b5c74-328e-11e6-b9c4-751d0e01a414	5_162820323_AACA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	162820323	AAC	A	300	PASS	-	Del	-	2	7	MSH6	child	5_162820323_AACA_MSH6	2	2	2	AC	6	AC	Repeat-mediated
a4539026-328c-11e6-8770-3e160e01a414	9_81030501_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	81030501	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	9_81030501_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a45b1d56-3272-11e6-975f-8246cab49462	16_15560272_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	15560272	CT	C	780	PASS	C16orf45	Del	intronic	1	9	MSH6	child	16_15560272_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
a463a4b8-3294-11e6-9280-9ce5d0959d89	11_93134598_GGA	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	11	93134598	G	GA	480	PASS	CCDC67	Ins	intronic	1	7	POLB	child	11_93134598_GGA_POLB	1	1	-	-	-	-	Ins
a4681b0a-3259-11e6-8340-da9012ae24cf	6_76922796_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	76922796	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	6_76922796_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
a469a32e-32a1-11e6-a04f-c66a25c9da85	6_152499177_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	152499177	TA	T	660	PASS	SYNE1	Del	intronic	1	9	MSH6	child	6_152499177_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a46cc76e-3271-11e6-b923-6726694da5d2	5_159549286_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	159549286	CA	C	360	PASS	PWWP2A	Del	upstream	1	8	MSH6	child	5_159549286_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
a46e2844-3270-11e6-b5b8-e0c24a47a305	X_73767114_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	73767114	CT	C	660	PASS	-	Del	-	1	8	MSH6	child	X_73767114_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a473695a-328c-11e6-aac2-75bb5d753391	4_169536545_TCAT	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	4	169536545	TCA	T	1020	PASS	PALLD	Del	intronic	2	1	POLE	child	4_169536545_TCAT_POLE	2	2	0	-	0	-	None
a47fd70e-329f-11e6-a04f-c66a25c9da85	6_25189806_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	25189806	GA	G	660	PASS	-	Del	-	1	9	MSH6	child	6_25189806_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
a48096c0-3255-11e6-a0fc-e737fa52e078	2_122639031_GTG	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	2	122639031	GT	G	660	PASS	-	Del	-	1	1	POLM	child	2_122639031_GTG_POLM	1	1	0	-	0	T	None
a4843962-328a-11e6-9c89-8d090e01a414	1_74290348_TGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	74290348	TG	T	300	PASS	-	Del	-	1	5	MSH6	child	1_74290348_TGT_MSH6	1	1	1	G	4	G	Repeat-mediated
a4843e9e-328f-11e6-bb1e-70e16f39e758	X_103787292_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	103787292	TA	T	600	PASS	-	Del	-	1	6	MSH6	child	X_103787292_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
a48c8fae-3294-11e6-a18f-4ded97ba1142	9_111419754_CATC	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	9	111419754	CAT	C	600	PASS	-	Del	-	2	1	POLB	child	9_111419754_CATC_POLB	2	2	1	A	0	-	Microhomology-mediated
a493caa6-328c-11e6-919e-92c36f39e758	2_75281141_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	75281141	TA	T	420	PASS	TACR1	Del	intronic	1	9	MSH6	child	2_75281141_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a497b022-3277-11e6-8c34-46e27872c165	5_161099618_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	161099618	CT	C	420	PASS	-	Del	-	1	8	MSH6	child	5_161099618_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a498f60a-328e-11e6-8f31-bfe16f39e758	9_69112813_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	69112813	GT	G	312	PASS	RP11-87H9.3	Del	upstream	1	5	MSH6	child	9_69112813_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
a49a4c5e-3279-11e6-a05d-037890e2c2e6	12_59693654_ATA	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	12	59693654	AT	A	840	PASS	-	Del	-	1	8	FANCC	parent	12_59693654_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
a4a34302-3276-11e6-9406-ffa24430f757	3_132964400_ATA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	3	132964400	AT	A	360	PASS	TMEM108	Del	intronic	1	8	POLB	child	3_132964400_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
a4a40920-3287-11e6-8f25-19044530f757	22_38672932_ATA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	22	38672932	AT	A	1320	PASS	TMEM184B	Del	upstream	1	9	EXO1	child	22_38672932_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
a4a819bc-3290-11e6-9230-fb250e01a414	3_179880758_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	179880758	CT	C	540	PASS	RNA5SP149	Del	upstream	1	5	MSH6	child	3_179880758_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
a4aea898-326f-11e6-a0a7-943dc225ee11	1_42646251_ATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	1	42646251	AT	A	540	PASS	FOXJ3	Del	intronic	1	9	EXO1	parent	1_42646251_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
a4af2da4-3274-11e6-80be-3658a2c71c31	11_94101531_CAC	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	11	94101531	CA	C	660	PASS	-	Del	-	1	7	NEIL1	child	11_94101531_CAC_NEIL1	1	1	1	A	6	A	Repeat-mediated
a4b79b30-3272-11e6-9e18-3a69671699ea	10_18961782_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	18961782	TA	T	840	PASS	ARL5B	Del	intronic	1	9	MSH6	child	10_18961782_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a4ba56d0-326e-11e6-b306-b5204b47a305	2_180741937_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	180741937	CA	C	360	PASS	-	Del	-	1	7	MSH6	child	2_180741937_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
a4c65160-3255-11e6-8a2a-3af212ae24cf	16_31636001_AAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	16	31636001	A	AC	480	PASS	-	Ins	-	1	3	MSH6	child	16_31636001_AAC_MSH6	1	1	-	-	-	-	Ins
a4c74316-3284-11e6-85df-bb936f39e758	14_89568087_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	14	89568087	AT	A	480	PASS	-	Del	-	1	9	EXO1	child	14_89568087_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
a4c9d120-329e-11e6-bc2c-2a5e25c9da85	4_113583849_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	113583849	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	4_113583849_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
a4cae98e-329e-11e6-aea7-956725c9da85	3_10903217_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	10903217	CA	C	660	PASS	SLC6A11	Del	intronic	1	8	MSH6	child	3_10903217_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
a4d230bc-3290-11e6-b77d-2eef6f39e758	6_14368019_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	14368019	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	6_14368019_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a4d545c2-3286-11e6-a5b3-3f1ebce6aa09	7_18115754_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	18115754	CT	C	840	PASS	-	Del	-	1	9	MSH6	child	7_18115754_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
a4d77892-3295-11e6-a2f7-5503d9b4fa2c	6_722466_GAG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	6	722466	GA	G	480	PASS	RP11-532F6.4	Del	intronic	1	6	NUDT1	child	6_722466_GAG_NUDT1	1	1	1	A	5	A	Repeat-mediated
a4db0f54-3275-11e6-bfb2-2749c225ee11	12_83426504_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	83426504	A	AT	600	PASS	TMTC2	Ins	intronic	1	8	MSH6	child	12_83426504_AAT_MSH6	1	1	-	-	-	-	Ins
a4e10ff6-327c-11e6-8d42-cc2c0625f869	10_16846103_TAT	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	10	16846103	TA	T	600	PASS	RSU1	Del	intronic	1	8	POLB	parent	10_16846103_TAT_POLB	1	1	1	A	7	A	Repeat-mediated
a4e62dee-3270-11e6-b77c-ce5aceda8250	11_96684492_CTGCTCATG	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	11	96684492	CTGCT	CATG	720	PASS	-	Complex	-	4	0	POLM	child	11_96684492_CTGCTCATG_POLM	1	1	-	-	-	-	Complex
a4ea7646-326c-11e6-9d68-ac9acab49462	15_21932715_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	21932715	GA	G	263	PASS	-	Del	-	1	8	MSH6	child	15_21932715_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
a4ed980e-328e-11e6-bec1-ca1d0e01a414	X_113598809_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	113598809	CA	C	360	PASS	-	Del	-	1	6	MSH6	child	X_113598809_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
a4f0c3ce-329a-11e6-b74d-b59fcc638e3d	18_53006983_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	53006983	TA	T	660	PASS	TCF4	Del	intronic	1	8	MSH6	child	18_53006983_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
a4f262d4-3276-11e6-a1d0-c9e56de4ab00	4_17562893_GAAAG	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	4	17562893	GAAA	G	420	PASS	-	Del	-	3	8	NEIL1	child	4_17562893_GAAAG_NEIL1	3	3	3	AAA	5	A	Repeat-mediated
a4f59b2a-3285-11e6-9e78-7d3e51c54cdd	2_121869159_GAG	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	2	121869159	GA	G	720	PASS	-	Del	-	1	9	EXO1	child	2_121869159_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
a5105270-326d-11e6-9d68-ac9acab49462	15_65772466_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	65772466	TA	T	300	PASS	DPP8	Del	intronic	1	9	MSH6	child	15_65772466_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a521fc7e-3280-11e6-a62e-ba6f2aaffa45	10_1729120_ATA	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	10	1729120	AT	A	600	PASS	ADARB2	Del	intronic	1	8	POLE	child	10_1729120_ATA_POLE	1	1	1	T	7	T	Repeat-mediated
a5270366-3273-11e6-af88-fed9cde16804	3_102750249_ATA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	3	102750249	AT	A	540	PASS	-	Del	-	1	9	NEIL1	child	3_102750249_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
a52a69fc-32a0-11e6-bc66-17b4cc638e3d	8_124152974_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	124152974	AT	A	780	PASS	TBC1D31	Del	intronic	1	9	MSH6	child	8_124152974_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a52c27dc-3274-11e6-946d-9c2bc7271a47	2_141859700_CAGGGATCCAAGCCTCTCCACTCCCAAGTGTGCCTGTATTCTTCACCCTTAGTGGTAGTAGAACCTTATGAATTAGAC	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	2	141859700	CAGGGATCCAAGCCTCTCCACTCCCAAGTGTGCCTGTATTCTTCACCCTTAGTGGTAGTAGAACCTTATGAATTAGA	C	300	PASS	LRP1B	Del	intronic	76	1	POLB	child	2_141859700_CAGGGATCCAAGCCTCTCCACTCCCAAGTGTGCCTGTATTCTTCACCCTTAGTGGTAGTAGAACCTTATGAATTAGAC_POLB	76	>=10	1	A	0	-	Microhomology-mediated
a531f4b8-3270-11e6-b5b8-e0c24a47a305	X_74079679_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	74079679	TA	T	300	PASS	KIAA2022	Del	intronic	1	5	MSH6	child	X_74079679_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
a5354d8c-328b-11e6-8770-3e160e01a414	9_450726_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	450726	GA	G	300	PASS	DOCK8	Del	intronic	1	9	MSH6	child	9_450726_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
a5365c68-3286-11e6-a21c-b819bce6aa09	X_53179485_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	53179485	GT	G	605	PASS	LINC01155	Del	intronic	1	9	MSH6	child	X_53179485_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
a53cc962-3291-11e6-9cbe-9277fc77b11e	3_94626202_TAT	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	3	94626202	TA	T	480	PASS	-	Del	-	1	7	POLE	child	3_94626202_TAT_POLE	1	1	1	A	6	A	Repeat-mediated
a546f4d8-326d-11e6-9d68-ac9acab49462	15_65777168_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	65777168	CT	C	300	PASS	DPP8	Del	intronic	1	7	MSH6	child	15_65777168_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
a5528806-328c-11e6-b4fe-93c36f39e758	12_65823797_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	65823797	AT	A	300	PASS	MSRB3	Del	intronic	1	9	MSH6	child	12_65823797_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a554deaa-3276-11e6-8c34-46e27872c165	5_84575422_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	84575422	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	5_84575422_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
a556363c-3286-11e6-afcf-0311bce6aa09	9_101251326_GTCG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	101251326	GTC	G	720	PASS	GABBR2	Del	intronic	2	2	MSH6	child	9_101251326_GTCG_MSH6	2	2	2	TC	1	TC	Repeat-mediated
a55ec00c-326f-11e6-bfba-13bf4a47a305	9_119458561_AAGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	119458561	AAG	A	360	PASS	ASTN2	Del	intronic	2	2	MSH6	child	9_119458561_AAGA_MSH6	2	2	2	AG	1	AG	Repeat-mediated
a56210e4-3275-11e6-a71d-236235cec73b	X_25978372_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	25978372	AT	A	720	PASS	-	Del	-	1	7	MSH6	child	X_25978372_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
a56a32f0-3253-11e6-81f9-42f212ae24cf	17_5819177_GCG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	17	5819177	GC	G	720	PASS	WSCD1	Del	intronic	1	8	MSH6	child	17_5819177_GCG_MSH6	1	1	1	C	7	C	Repeat-mediated
a56bc43a-328f-11e6-8ac8-88d65d753391	3_116956454_TTG	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	3	116956454	T	TG	300	PASS	LSAMP	Ins	intronic	1	7	POLE	child	3_116956454_TTG_POLE	1	1	-	-	-	-	Ins
a57abb80-32a2-11e6-bc2c-2a5e25c9da85	4_173678078_GGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	173678078	G	GT	720	PASS	GALNTL6	Ins	intronic	1	5	MSH6	child	4_173678078_GGT_MSH6	1	1	-	-	-	-	Ins
a58828f2-32a1-11e6-94ca-0aaecc638e3d	X_142568012_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	142568012	C	CT	660	PASS	-	Ins	-	1	8	MSH6	child	X_142568012_CCT_MSH6	1	1	-	-	-	-	Ins
a58aa8ae-329f-11e6-91d0-016425c9da85	7_129278754_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	129278754	CT	C	840	PASS	NRF1	Del	intronic	1	6	MSH6	child	7_129278754_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
a58c0f86-3273-11e6-a2a4-305390e2c2e6	3_48671053_CTGC	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	3	48671053	CTG	C	660	PASS	SLC26A6	Del	frameshift	2	3	POLB	child	3_48671053_CTGC_POLB	2	2	2	TG	2	TG	Repeat-mediated
a5940174-3254-11e6-bc65-c9667872c165	13_103018088_ATGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	103018088	ATG	A	480	PASS	FGF14	Del	intronic	2	7	MSH6	child	13_103018088_ATGA_MSH6	2	2	2	TG	6	TG	Repeat-mediated
a5963576-326c-11e6-9793-9a8fb0dab373	13_25214591_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	25214591	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	13_25214591_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a59947d0-3257-11e6-acc5-308412ae24cf	5_87459658_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	87459658	CT	C	660	PASS	-	Del	-	1	8	MSH6	child	5_87459658_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a59cd8fc-3287-11e6-9766-8c8ca2c71c31	22_49078612_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	22	49078612	GT	G	480	PASS	FAM19A5	Del	intronic	1	9	MSH6	child	22_49078612_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
a59e4be2-326e-11e6-b306-b5204b47a305	2_181029970_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	181029970	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	2_181029970_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a5a6393e-3272-11e6-bf33-43b638e8a824	4_71216045_CTC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	4	71216045	CT	C	420	PASS	-	Del	-	1	7	NEIL1	child	4_71216045_CTC_NEIL1	1	1	1	T	6	T	Repeat-mediated
a5abb9f8-328c-11e6-a2c6-303e046f68b1	16_21952562_AAGA	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	16	21952562	AAG	A	480	PASS	-	Del	-	2	4	POLE	child	16_21952562_AAGA_POLE	2	2	2	AG	3	AG	Repeat-mediated
a5add0ee-3287-11e6-a8ac-a28ea2c71c31	3_4119489_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	4119489	TA	T	762	PASS	SUMF1	Del	intronic	1	9	MSH6	child	3_4119489_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a5bbff26-3290-11e6-ad70-ba257a852e0e	11_88826884_CAC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	11	88826884	CA	C	360	PASS	-	Del	-	1	3	CHK2	child	11_88826884_CAC_CHK2	1	1	1	A	2	A	Repeat-mediated
a5d06ccc-328b-11e6-ac7a-a3c36f39e758	18_8403574_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	8403574	TA	T	360	PASS	PTPRM	Del	intronic	1	9	MSH6	child	18_8403574_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a5d7877e-326c-11e6-acc7-e55219a91649	1_24495144_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	24495144	AT	A	360	PASS	IFNLR1	Del	intronic	1	9	MSH6	child	1_24495144_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a5d9946c-329c-11e6-a5cf-e5abcc638e3d	9_28309586_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	28309586	TA	T	600	PASS	LINGO2	Del	intronic	1	9	MSH6	child	9_28309586_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a5dbd228-3291-11e6-b77d-2eef6f39e758	6_77420096_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	77420096	AT	A	540	PASS	-	Del	-	1	6	MSH6	child	6_77420096_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
a5dc756e-3257-11e6-9d5a-0c8112ae24cf	9_135156296_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	135156296	CT	C	540	PASS	SETX	Del	intronic	1	7	MSH6	child	9_135156296_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
a5f3fb82-3287-11e6-a284-4b89a2c71c31	4_101362086_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	101362086	CA	C	600	PASS	EMCN	Del	intronic	1	9	MSH6	child	4_101362086_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
a5f5e23c-328f-11e6-a043-93e7977b3f23	3_6861163_GTG	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	3	6861163	GT	G	420	PASS	-	Del	-	1	8	NEIL1	child	3_6861163_GTG_NEIL1	1	1	1	T	7	T	Repeat-mediated
a5f79d08-3284-11e6-873a-cd2d36fc2f7d	8_57685794_TAT	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	8	57685794	TA	T	540	PASS	-	Del	-	1	1	NUDT1	child	8_57685794_TAT_NUDT1	1	1	0	-	0	A	None
a5fd0dde-3292-11e6-b77d-2eef6f39e758	6_149727486_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	149727486	TA	T	720	PASS	TAB2	Del	intronic	1	7	MSH6	child	6_149727486_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
a603ce50-328b-11e6-919e-92c36f39e758	2_10967996_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	10967996	TA	T	300	PASS	PDIA6	Del	intronic	1	9	MSH6	child	2_10967996_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a608790a-329a-11e6-b74d-b59fcc638e3d	18_53253092_ACTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	53253092	ACT	A	540	PASS	TCF4	Del	5prime_UTR_variant	2	7	MSH6	child	18_53253092_ACTA_MSH6	2	2	2	CT	6	CT	Repeat-mediated
a60fbe28-3271-11e6-950d-d529694da5d2	16_54940892_CAC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	16	54940892	CA	C	420	PASS	-	Del	-	1	9	CHK2	child	16_54940892_CAC_CHK2	1	1	1	A	8	A	Repeat-mediated
a611b7be-328f-11e6-bb1e-70e16f39e758	X_104531218_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	104531218	CA	C	480	PASS	IL1RAPL2	Del	intronic	1	8	MSH6	child	X_104531218_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
a617ddba-326c-11e6-b306-b5204b47a305	2_4950870_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	4950870	TA	T	360	PASS	-	Del	-	1	6	MSH6	child	2_4950870_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
a6200aaa-328d-11e6-bfa2-581f0e01a414	7_62050606_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	62050606	CT	C	300	PASS	-	Del	-	1	5	MSH6	child	7_62050606_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
a633dfa2-3275-11e6-a862-bc9becf1e924	1_219786942_TACT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	219786942	TAC	T	396	PASS	-	Del	-	2	4	MSH6	child	1_219786942_TACT_MSH6	2	2	2	AC	3	AC	Repeat-mediated
a6473b2c-3286-11e6-a5b3-3f1ebce6aa09	7_18749143_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	18749143	AT	A	720	PASS	HDAC9	Del	intronic	1	7	MSH6	child	7_18749143_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
a64bc87e-3289-11e6-bc2b-e5cd191589db	12_47288883_CTC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	12	47288883	CT	C	360	PASS	-	Del	-	1	7	FANCC	child	12_47288883_CTC_FANCC	1	1	1	T	6	T	Repeat-mediated
a64fce08-326e-11e6-b306-b5204b47a305	2_181381625_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	181381625	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	2_181381625_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a653d3ac-3270-11e6-a16f-981f1daa6045	19_10732113_TTTG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	19	10732113	T	TTG	420	PASS	SLC44A2	Ins	upstream	2	0	NUDT1	child	19_10732113_TTTG_NUDT1	2	2	-	-	-	-	Ins
a663fcd8-3292-11e6-b77d-2eef6f39e758	6_149831878_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	149831878	CA	C	660	PASS	PPIL4	Del	intronic	1	8	MSH6	child	6_149831878_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
a666460a-3288-11e6-a21c-b819bce6aa09	X_79397684_AAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	79397684	A	AT	660	PASS	-	Ins	-	1	6	MSH6	child	X_79397684_AAT_MSH6	1	1	-	-	-	-	Ins
a66ea574-328e-11e6-b8e6-91c36f39e758	11_68075723_TTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	68075723	T	TG	480	PASS	LRP5	Ins	upstream	1	7	MSH6	child	11_68075723_TTG_MSH6	1	1	-	-	-	-	Ins
a66ee978-3287-11e6-a21c-b819bce6aa09	X_112003391_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	112003391	CT	C	780	PASS	-	Del	-	1	9	MSH6	child	X_112003391_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
a677d4a8-326d-11e6-9793-9a8fb0dab373	13_94981283_CGC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	94981283	CG	C	480	PASS	GPC6	Del	intronic	1	8	MSH6	child	13_94981283_CGC_MSH6	1	1	1	G	7	G	Repeat-mediated
a67d92a0-3284-11e6-a0a8-096ea2c71c31	11_25913220_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	25913220	CT	C	420	PASS	-	Del	-	1	5	MSH6	child	11_25913220_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
a6814f82-3291-11e6-b77d-2eef6f39e758	6_77591149_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	77591149	TA	T	480	PASS	-	Del	-	1	5	MSH6	child	6_77591149_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
a6898c50-3288-11e6-b9eb-c78fa2c71c31	6_76302898_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	76302898	GA	G	780	PASS	RNU6-1338P	Del	downstream	1	9	MSH6	child	6_76302898_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
a68e2b2a-3288-11e6-9453-299c20e7b7a8	2_106839382_CAC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	2	106839382	CA	C	780	PASS	-	Del	-	1	4	POLE	child	2_106839382_CAC_POLE	1	1	1	A	3	A	Repeat-mediated
a6904a4a-3274-11e6-b332-88ba7d6a9fc7	15_90929005_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	90929005	TA	T	780	PASS	IQGAP1	Del	upstream	1	9	MSH6	child	15_90929005_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a6a2269a-3254-11e6-9f9d-2c7a7872c165	12_74647347_CGC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	74647347	CG	C	660	PASS	RP11-81H3.2	Del	intronic	1	5	MSH6	child	12_74647347_CGC_MSH6	1	1	1	G	4	G	Repeat-mediated
a6a2b502-328f-11e6-ae83-5ae3191589db	6_149065725_ATA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	6	149065725	AT	A	360	PASS	UST	Del	upstream	1	7	FANCC	child	6_149065725_ATA_FANCC	1	1	1	T	6	T	Repeat-mediated
a6aa7018-3270-11e6-9309-bdc34a47a305	8_52295258_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	52295258	TA	T	300	PASS	PXDNL	Del	intronic	1	9	MSH6	child	8_52295258_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a6b9e396-329c-11e6-ae71-0c5325c9da85	1_160991568_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	160991568	GA	G	780	PASS	F11R	Del	upstream	1	8	MSH6	child	1_160991568_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
a6be186a-3285-11e6-afd8-be14987b3f23	5_100902918_TAGTTAGCTAGCTCT	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	5	100902918	TAGTTAGCTAGCTC	T	660	PASS	-	Del	-	13	1	NEIL1	parent	5_100902918_TAGTTAGCTAGCTCT_NEIL1	13	>=10	2	AG	0	-	Microhomology-mediated
a6c954ee-3291-11e6-b0cf-8b7219a91649	7_70236135_TTTCT	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	7	70236135	TTTC	T	360	PASS	AUTS2	Del	intronic	3	1	NEIL1	child	7_70236135_TTTCT_NEIL1	3	3	2	TT	0	-	Microhomology-mediated
a6cda104-326c-11e6-b306-b5204b47a305	2_5374166_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	5374166	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	2_5374166_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
a6cdabda-329f-11e6-9c44-d26625c9da85	21_29740993_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	21	29740993	C	CT	780	PASS	-	Ins	-	1	6	MSH6	child	21_29740993_CCT_MSH6	1	1	-	-	-	-	Ins
a6d2cbf0-3282-11e6-a31e-d655f7d33ce3	1_194156891_TCT	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	1	194156891	TC	T	420	PASS	RP11-563D10.1	Del	intronic	1	1	NUDT1	child	1_194156891_TCT_NUDT1	1	1	0	-	0	C	None
a6d76cc0-3253-11e6-8ebc-3ef212ae24cf	15_22498149_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	22498149	CA	C	387	PASS	-	Del	-	1	7	MSH6	child	15_22498149_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
a6d7ba90-328f-11e6-8cd8-07045e753391	2_184951216_CTTC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	2	184951216	CTT	C	480	PASS	-	Del	-	2	2	POLB	child	2_184951216_CTTC_POLB	2	2	0	-	0	-	None
a6d7dcba-3257-11e6-a7ac-209a7872c165	22_31903723_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	22	31903723	GA	G	717	PASS	SFI1	Del	intronic	1	7	MSH6	child	22_31903723_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
a6de872c-3275-11e6-b582-0da1cc638e3d	4_135285425_ATA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	4	135285425	AT	A	660	PASS	-	Del	-	1	9	CHK2	child	4_135285425_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
a6e720f2-3280-11e6-9066-1ba854de4fc4	14_47967841_GAG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	14	47967841	GA	G	720	PASS	MDGA2	Del	intronic	1	7	FANCC	child	14_47967841_GAG_FANCC	1	1	1	A	6	A	Repeat-mediated
a6f13036-3273-11e6-88b6-40832aaffa45	1_22730827_CTC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	22730827	CT	C	600	PASS	-	Del	-	1	7	EXO1	child	1_22730827_CTC_EXO1	1	1	1	T	6	T	Repeat-mediated
a6f86eee-3289-11e6-8459-82090e01a414	12_21838598_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	21838598	CA	C	420	PASS	LDHB	Del	intronic	1	7	MSH6	child	12_21838598_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
a6fbbb42-3290-11e6-b81f-4ee66f39e758	8_61790348_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	61790348	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	8_61790348_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a705d45c-329e-11e6-8c2e-3f6625c9da85	22_40033774_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	22	40033774	AT	A	480	PASS	CACNA1I	Del	intronic	1	7	MSH6	child	22_40033774_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
a7172080-3295-11e6-8669-5f48a178171f	15_63491850_GGT	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	15	63491850	G	GT	420	PASS	RAB8B	Ins	intronic	1	7	NEIL1	child	15_63491850_GGT_NEIL1	1	1	-	-	-	-	Ins
a71ecd04-328f-11e6-9297-a3a9cdacbbbf	10_89237730_CCAA	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	10	89237730	C	CAA	331	PASS	-	Ins	-	2	0	POLB	child	10_89237730_CCAA_POLB	2	2	-	-	-	-	Ins
a7219d34-3291-11e6-bb4c-05a29b6d3b88	3_99736614_CAC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	3	99736614	CA	C	360	PASS	FILIP1L	Del	intronic	1	8	POLB	child	3_99736614_CAC_POLB	1	1	1	A	7	A	Repeat-mediated
a72862b8-3287-11e6-b32c-fd87a2c71c31	5_156558320_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	156558320	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	5_156558320_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a72a6b10-3289-11e6-8459-82090e01a414	12_21972622_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	21972622	CT	C	540	PASS	ABCC9	Del	intronic	1	9	MSH6	child	12_21972622_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
a72dfbc2-3284-11e6-888b-2d6e0d016689	18_18938918_GGA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	18	18938918	G	GA	360	PASS	GREB1L	Ins	upstream	1	1	EXO1	child	18_18938918_GGA_EXO1	1	1	-	-	-	-	Ins
a72f0320-3278-11e6-b7b5-ce91a78019ab	5_153729297_ATA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	5	153729297	AT	A	780	PASS	GALNT10	Del	intronic	1	8	NEIL1	child	5_153729297_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
a733eeec-3289-11e6-ba48-afb3cc638e3d	2_41548864_TAGAT	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	2	41548864	TAGA	T	420	PASS	-	Del	-	3	1	NUDT1	child	2_41548864_TAGAT_NUDT1	3	3	2	AG	0	-	Microhomology-mediated
a735ba06-327f-11e6-8a95-4ae6b41afd22	X_85068805_ATTA	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	X	85068805	ATT	A	540	PASS	-	Del	-	2	3	POLM	child	X_85068805_ATTA_POLM	2	2	1	T	0	-	Microhomology-mediated
a73607ba-326e-11e6-b306-b5204b47a305	2_181772752_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	181772752	TA	T	600	PASS	-	Del	-	1	9	MSH6	child	2_181772752_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a73c6002-3277-11e6-a391-f6d67d6a9fc7	6_14794923_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	14794923	TA	T	780	PASS	-	Del	-	1	6	MSH6	child	6_14794923_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
a73ddc42-3273-11e6-94cc-1ec335cec73b	19_46972532_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	46972532	AT	A	300	PASS	PNMAL1	Del	intronic	1	6	MSH6	child	19_46972532_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
a743de24-327f-11e6-bf44-a4f9eff7a29c	3_35485559_GAG	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	3	35485559	GA	G	420	PASS	-	Del	-	1	8	POLB	parent	3_35485559_GAG_POLB	1	1	1	A	7	A	Repeat-mediated
a744f1ca-325b-11e6-8340-da9012ae24cf	6_32969044_CCAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	32969044	C	CAG	840	PASS	HLA-DOA	Ins	downstream	2	5	MSH6	child	6_32969044_CCAG_MSH6	2	2	-	-	-	-	Ins
a746cdea-329e-11e6-9c44-d26625c9da85	21_22864067_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	21	22864067	CA	C	660	PASS	NCAM2	Del	intronic	1	4	MSH6	child	21_22864067_CAC_MSH6	1	1	1	A	3	A	Repeat-mediated
a751bbe6-328b-11e6-bd84-429305ad5bc4	1_18042911_AGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	18042911	AG	A	420	PASS	RP11-473A10.2	Del	upstream	1	1	MSH6	child	1_18042911_AGA_MSH6	1	1	0	-	0	G	None
a751c224-3274-11e6-9e4c-96041ea8ec0e	5_57408847_TAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	5	57408847	TA	T	360	PASS	CTD-2037L6.2	Del	intronic	1	9	FANCC	child	5_57408847_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
a756e1fe-3289-11e6-a32d-75090e01a414	14_44624481_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	44624481	CA	C	660	PASS	RP11-305B6.3	Del	intronic	1	7	MSH6	child	14_44624481_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
a75a5120-326d-11e6-9793-9a8fb0dab373	13_95278149_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	95278149	AT	A	540	PASS	GPR180	Del	intronic	1	7	MSH6	child	13_95278149_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
a75bbde6-3257-11e6-885f-d1947872c165	4_108002997_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	108002997	GT	G	540	PASS	-	Del	-	1	8	MSH6	child	4_108002997_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
a75f396a-329a-11e6-aca6-b39fcc638e3d	2_60050066_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	60050066	TA	T	840	PASS	RP11-444A22.1	Del	intronic	1	9	MSH6	child	2_60050066_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a7623526-328a-11e6-a19d-3c763adbad45	4_185781650_CAC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	4	185781650	CA	C	900	PASS	RP11-701P16.5	Del	upstream	1	7	NUDT1	parent	4_185781650_CAC_NUDT1	1	1	1	A	6	A	Repeat-mediated
a762bb96-3289-11e6-9021-40b47098ee92	13_61777853_CAC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	13	61777853	CA	C	540	PASS	MIR3169	Del	upstream	1	7	NUDT1	child	13_61777853_CAC_NUDT1	1	1	1	A	6	A	Repeat-mediated
a765bf40-3256-11e6-8ebc-3ef212ae24cf	15_52685934_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	52685934	C	CA	300	PASS	MYO5A	Ins	intronic	1	5	MSH6	child	15_52685934_CCA_MSH6	1	1	-	-	-	-	Ins
a7680ac4-3284-11e6-83b0-2c6e0d016689	2_100115077_TAAACCGCTAGTAGATAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	2	100115077	TAAACCGCTAGTAGATA	T	300	PASS	-	Del	-	16	1	EXO1	child	2_100115077_TAAACCGCTAGTAGATAT_EXO1	16	>=10	1	A	0	-	Microhomology-mediated
a76d3548-3271-11e6-b89d-b2d6b0dab373	4_146151764_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	146151764	GA	G	420	PASS	-	Del	-	1	8	MSH6	child	4_146151764_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
a7722dc8-3276-11e6-a47c-77abeab8d062	5_26593624_GTG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	5	26593624	GT	G	480	PASS	-	Del	-	1	8	EXO1	child	5_26593624_GTG_EXO1	1	1	1	T	7	T	Repeat-mediated
a7751c72-328f-11e6-bb1e-70e16f39e758	X_105259180_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	105259180	GT	G	420	PASS	-	Del	-	1	9	MSH6	child	X_105259180_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
a77a4f70-326d-11e6-9fba-41ebd8b4fa2c	11_42342683_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	42342683	TA	T	660	PASS	-	Del	-	1	1	MSH6	child	11_42342683_TAT_MSH6	1	1	0	-	0	A	None
a78391de-3272-11e6-a814-531398ba1142	X_111313977_GCG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	X	111313977	GC	G	660	PASS	TRPC5	Del	intronic	1	9	EXO1	parent	X_111313977_GCG_EXO1	1	1	1	C	8	C	Repeat-mediated
a78952a0-3285-11e6-9efa-64528e4678dd	6_100387257_CAC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	6	100387257	CA	C	720	PASS	MCHR2	Del	intronic	1	6	EXO1	child	6_100387257_CAC_EXO1	1	1	1	A	5	A	Repeat-mediated
a78ce5d8-3289-11e6-b805-77090e01a414	2_29910400_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	29910400	TA	T	360	PASS	ALK	Del	intronic	1	9	MSH6	child	2_29910400_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a7944108-326f-11e6-9068-b49eeab8d062	14_72783482_ATA	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	14	72783482	AT	A	420	PASS	RGS6	Del	intronic	1	8	NUDT1	child	14_72783482_ATA_NUDT1	1	1	1	T	7	T	Repeat-mediated
a79993d4-326e-11e6-9fba-41ebd8b4fa2c	11_76520544_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	76520544	CA	C	377	PASS	-	Del	-	1	9	MSH6	child	11_76520544_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
a79a0914-3281-11e6-b9fb-4420bce6aa09	9_100520809_CAC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	9	100520809	CA	C	360	PASS	-	Del	-	1	6	POLM	child	9_100520809_CAC_POLM	1	1	1	A	5	A	Repeat-mediated
a79e69dc-32a4-11e6-a04f-c66a25c9da85	6_168188952_TTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	168188952	T	TG	720	PASS	-	Ins	-	1	7	MSH6	child	6_168188952_TTG_MSH6	1	1	-	-	-	-	Ins
a7a8133e-3285-11e6-9881-48b254de4fc4	5_173712664_AACTCCTCTT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	5	173712664	A	ACTCCTCTT	420	PASS	-	Ins	-	8	0	FANCC	child	5_173712664_AACTCCTCTT_FANCC	8	8	-	-	-	-	Ins
a7b07e10-3272-11e6-9309-bdc34a47a305	8_61034012_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	61034012	C	CA	600	PASS	-	Ins	-	1	6	MSH6	child	8_61034012_CCA_MSH6	1	1	-	-	-	-	Ins
a7b5a0cc-328e-11e6-b21e-ac230625f869	13_42796253_CAGTC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	13	42796253	CAGT	C	300	PASS	DGKH	Del	intronic	3	3	NEIL1	child	13_42796253_CAGTC_NEIL1	3	3	3	AGT	2	AGT	Repeat-mediated
a7b8b576-3321-11e6-9802-cf66694da5d2	12_8643385_CAC	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	12	8643385	CA	C	480	PASS	-	Del	-	1	8	EXO1	child	12_8643385_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
a7bde64c-32a2-11e6-bc66-17b4cc638e3d	8_85183400_TTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	85183400	T	TA	600	PASS	RALYL	Ins	intronic	1	9	MSH6	child	8_85183400_TTA_MSH6	1	1	-	-	-	-	Ins
a7c0f274-3324-11e6-922f-5f0e75253f64	4_125164397_AGA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	4	125164397	AG	A	540	PASS	CTD-2325B11.1	Del	intronic	1	1	POLE	child	4_125164397_AGA_POLE	1	1	0	-	0	G	None
a7cf0302-325a-11e6-8b28-55ad7872c165	20_2430509_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	2430509	TA	T	660	PASS	-	Del	-	1	8	MSH6	child	20_2430509_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
a7d0d7ba-3276-11e6-9e0f-7959cab49462	7_78289599_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	78289599	TA	T	780	PASS	MAGI2	Del	intronic	1	9	MSH6	child	7_78289599_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a7d9e640-3297-11e6-9baf-ebf997ba1142	14_24469441_TTTTTA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	14	24469441	T	TTTTA	361	PASS	DHRS4L2	Ins	intronic	4	0	CHK2	child	14_24469441_TTTTTA_CHK2	4	4	-	-	-	-	Ins
a7eb7b7c-3287-11e6-8d3f-2a9c20e7b7a8	18_21750411_CTC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	18	21750411	CT	C	480	PASS	OSBPL1A	Del	frameshift	1	5	POLE	child	18_21750411_CTC_POLE	1	1	1	T	4	T	Repeat-mediated
a7f59816-3276-11e6-a2b7-2d8b671699ea	21_17240969_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	21	17240969	GT	G	780	PASS	USP25	Del	intronic	1	5	MSH6	child	21_17240969_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
a8128946-3328-11e6-8b1e-ddf006e9a829	20_35606673_ATA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	20	35606673	AT	A	480	PASS	-	Del	-	1	8	POLE	child	20_35606673_ATA_POLE	1	1	1	T	7	T	Repeat-mediated
a81ff2ac-3279-11e6-a862-bc9becf1e924	1_239593629_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	239593629	A	AT	420	PASS	-	Ins	-	1	6	MSH6	child	1_239593629_AAT_MSH6	1	1	-	-	-	-	Ins
a82072bc-3298-11e6-8de1-2d9afaf1a024	7_16248060_TAT	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	7	16248060	TA	T	660	PASS	ISPD	Del	intronic	1	8	CHK2	child	7_16248060_TAT_CHK2	1	1	1	A	7	A	Repeat-mediated
a821bc50-3278-11e6-a391-f6d67d6a9fc7	6_77872187_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	77872187	CT	C	420	PASS	-	Del	-	1	7	MSH6	child	6_77872187_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
a82803b8-3349-11e6-a9cc-a0a270cce0de	2_64746354_TGAGGTTTGAA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	2	64746354	TGAGGT	TTGAA	780	PASS	RP11-568N6.1	Complex	downstream	5	0	FANCC	child	2_64746354_TGAGGTTTGAA_FANCC	1	1	-	-	-	-	Complex
a82d1282-328a-11e6-8459-82090e01a414	12_82208947_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	82208947	CA	C	360	PASS	-	Del	-	1	6	MSH6	child	12_82208947_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
a836aef0-328a-11e6-9c12-b6c430158702	2_33309227_TAT	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	2	33309227	TA	T	300	PASS	LTBP1	Del	intronic	1	8	POLM	child	2_33309227_TAT_POLM	1	1	1	A	7	A	Repeat-mediated
a8389fba-329b-11e6-aca6-b39fcc638e3d	2_123653986_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	123653986	TA	T	540	PASS	-	Del	-	1	7	MSH6	child	2_123653986_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
a83df73a-3273-11e6-8f33-a6d9cde16804	11_115460963_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	115460963	CA	C	360	PASS	RP11-136I14.5	Del	intronic	1	7	MSH6	child	11_115460963_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
a8466b9a-326e-11e6-b306-b5204b47a305	2_182037037_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	182037037	GA	G	420	PASS	AC104820.2	Del	intronic	1	8	MSH6	child	2_182037037_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
a847ac5e-3290-11e6-b77d-2eef6f39e758	6_15136747_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	15136747	CA	C	600	PASS	-	Del	-	1	9	MSH6	child	6_15136747_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
a848e748-328d-11e6-919e-92c36f39e758	2_147319452_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	147319452	GT	G	600	PASS	-	Del	-	1	8	MSH6	child	2_147319452_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
a8518eca-3274-11e6-972b-b65bfc77b11e	1_107800809_ATA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	1	107800809	AT	A	300	PASS	NTNG1	Del	intronic	1	9	CHK2	child	1_107800809_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
a855125e-3326-11e6-8d31-31bce7d0bdd7	1_205528921_AAG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	1	205528921	A	AG	360	PASS	-	Ins	-	1	1	EXO1	child	1_205528921_AAG_EXO1	1	1	-	-	-	-	Ins
a856a792-3270-11e6-8418-1c5942c4520d	3_62822230_CGTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	62822230	CGT	C	300	PASS	CADPS	Del	intronic	2	6	MSH6	child	3_62822230_CGTC_MSH6	2	2	2	GT	5	GT	Repeat-mediated
a8592588-328b-11e6-8952-77c36f39e758	10_8484154_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	8484154	CT	C	420	PASS	RP11-543F8.2	Del	intronic	1	8	MSH6	child	10_8484154_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a85e5134-328b-11e6-8256-94c36f39e758	17_6605443_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	6605443	CT	C	540	PASS	SLC13A5	Del	intronic	1	3	MSH6	child	17_6605443_CTC_MSH6	1	1	1	T	2	T	Repeat-mediated
a85f60ee-3324-11e6-925b-cca72aaffa45	X_129631333_CTC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	X	129631333	CT	C	387	PASS	RP1-274L7.1	Del	intronic	1	8	CHK2	child	X_129631333_CTC_CHK2	1	1	1	T	7	T	Repeat-mediated
a86bc7aa-329b-11e6-ae71-0c5325c9da85	1_96882227_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	96882227	GA	G	540	PASS	-	Del	-	1	8	MSH6	child	1_96882227_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
a86bcfa8-3277-11e6-92d2-c259c225ee11	3_99253538_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	99253538	GA	G	360	PASS	-	Del	-	1	8	MSH6	child	3_99253538_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
a8740e58-326c-11e6-b306-b5204b47a305	2_6043034_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	6043034	CT	C	300	PASS	-	Del	-	1	6	MSH6	child	2_6043034_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
a87f499e-3285-11e6-b093-c9c7b0dab373	2_98396521_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	98396521	CA	C	480	PASS	TMEM131	Del	intronic	1	9	MSH6	child	2_98396521_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
a8820ac6-327b-11e6-a391-f6d67d6a9fc7	6_109723247_GGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	109723247	G	GA	480	PASS	PPIL6	Ins	intronic	1	1	MSH6	child	6_109723247_GGA_MSH6	1	1	-	-	-	-	Ins
a88262be-3271-11e6-a7ca-da712aaffa45	17_63725097_TAT	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	17	63725097	TA	T	360	PASS	CEP112	Del	intronic	1	9	CHK2	child	17_63725097_TAT_CHK2	1	1	1	A	8	A	Repeat-mediated
a882a7ec-3280-11e6-a57a-16fc028949d4	11_80498626_TAT	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	11	80498626	TA	T	540	PASS	-	Del	-	1	7	POLM	child	11_80498626_TAT_POLM	1	1	1	A	6	A	Repeat-mediated
a888a172-325a-11e6-8b28-55ad7872c165	20_2620946_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	2620946	CT	C	600	PASS	TMC2	Del	intronic	1	9	MSH6	child	20_2620946_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
a8990a16-328d-11e6-919e-92c36f39e758	2_147425007_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	147425007	GA	G	480	PASS	-	Del	-	1	7	MSH6	child	2_147425007_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
a89b0914-3270-11e6-b09c-a7fe7146d362	10_6483174_TAT	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	10	6483174	TA	T	480	PASS	PRKCQ	Del	intronic	1	9	CHK2	child	10_6483174_TAT_CHK2	1	1	1	A	8	A	Repeat-mediated
a8a08b0e-328a-11e6-8eee-76090e01a414	10_91421598_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	91421598	TA	T	600	PASS	-	Del	-	1	8	MSH6	child	10_91421598_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
a8a434fa-329b-11e6-aca6-b39fcc638e3d	2_123822462_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	123822462	AT	A	780	PASS	AC062020.2	Del	upstream	1	6	MSH6	child	2_123822462_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
a8b21404-3290-11e6-b837-bf257a852e0e	13_108887947_CATTC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	13	108887947	CATT	C	300	PASS	ABHD13	Del	downstream	3	2	CHK2	child	13_108887947_CATTC_CHK2	3	3	3	ATT	1	ATT	Repeat-mediated
a8b83de2-334a-11e6-840b-09aab0dab373	1_72511883_CCA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	1	72511883	C	CA	540	PASS	NEGR1	Ins	intronic	1	6	FANCC	child	1_72511883_CCA_FANCC	1	1	-	-	-	-	Ins
a8bc16cc-328e-11e6-847e-1aa5e7d0bdd7	13_107073277_CAC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	13	107073277	CA	C	360	PASS	-	Del	-	1	3	FANCC	child	13_107073277_CAC_FANCC	1	1	1	A	2	A	Repeat-mediated
a8bc8754-3272-11e6-aa3b-ca60a178171f	13_36526905_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	36526905	AT	A	540	PASS	DCLK1	Del	intronic	1	8	MSH6	child	13_36526905_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
a8cb0c04-32a2-11e6-b970-398625c9da85	20_19066195_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	19066195	TA	T	660	PASS	-	Del	-	1	7	MSH6	child	20_19066195_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
a8cc6702-3275-11e6-8889-c85efc77b11e	4_122297133_TAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	4	122297133	TA	T	420	PASS	QRFPR	Del	intronic	1	5	MSH6	parent	4_122297133_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
a8d92bea-3284-11e6-b996-7c3e51c54cdd	14_61736626_TCT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	14	61736626	TC	T	780	PASS	PRKCH	Del	intronic	1	1	EXO1	child	14_61736626_TCT_EXO1	1	1	0	-	0	C	None
a8dd815c-3254-11e6-89d3-d29498816cf3	2_124227189_TGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	124227189	TG	T	900	PASS	-	Del	-	1	1	MSH6	child	2_124227189_TGT_MSH6	1	1	0	-	0	G	None
a8dfc824-3284-11e6-a722-38d09b6d3b88	3_58302977_TTGT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	3	58302977	TTG	T	600	PASS	RPP14	Del	intronic	2	3	EXO1	child	3_58302977_TTGT_EXO1	2	2	2	TG	2	TG	Repeat-mediated
a8e4eddc-3323-11e6-8c6b-3c0f42c4520d	4_37388912_ATA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	4	37388912	AT	A	300	PASS	KIAA1239	Del	intronic	1	8	EXO1	child	4_37388912_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
a8e55d9e-3288-11e6-b686-d35a51c54cdd	4_123893821_ATA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	4	123893821	AT	A	720	PASS	SPATA5	Del	intronic	1	8	EXO1	child	4_123893821_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
a8e7ab78-3290-11e6-b8c3-19a5e7d0bdd7	12_107312034_TTAA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	12	107312034	T	TAA	360	PASS	-	Ins	-	2	1	FANCC	child	12_107312034_TTAA_FANCC	2	2	-	-	-	-	Ins
a8f4e076-326e-11e6-bfba-13bf4a47a305	9_19301933_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	19301933	CA	C	300	PASS	DENND4C	Del	intronic	1	8	MSH6	child	9_19301933_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
a8f7ed54-3276-11e6-9e0f-7959cab49462	7_78574976_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	78574976	AT	A	420	PASS	MAGI2	Del	intronic	1	9	MSH6	child	7_78574976_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
a8f81de2-326c-11e6-9f48-94df41c4520d	12_9309466_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	9309466	CT	C	480	PASS	PZP	Del	intronic	1	7	MSH6	child	12_9309466_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
a902b7da-3275-11e6-a924-afbd7d6a9fc7	2_195041133_CGCCGGCCGGCCCTGCCGGTCCCAGGCAGTGAC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	2	195041133	CGCCGGCCGGCCCTGCCGGTCCCAGGCAGTGA	C	420	PASS	-	Del	-	31	1	EXO1	child	2_195041133_CGCCGGCCGGCCCTGCCGGTCCCAGGCAGTGAC_EXO1	31	>=10	1	G	0	-	Microhomology-mediated
a90ad38c-3286-11e6-a5b3-3f1ebce6aa09	7_20028817_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	20028817	GT	G	480	PASS	-	Del	-	1	7	MSH6	child	7_20028817_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
a919fe7a-329f-11e6-aca6-b39fcc638e3d	2_129242144_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	129242144	C	CT	300	PASS	-	Ins	-	1	9	MSH6	child	2_129242144_CCT_MSH6	1	1	-	-	-	-	Ins
a91d16f0-3277-11e6-92d2-c259c225ee11	3_99592464_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	99592464	GT	G	420	PASS	FILIP1L	Del	intronic	1	8	MSH6	child	3_99592464_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
a91d6b68-326e-11e6-be21-a41225c9da85	12_6881191_CAC	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	12	6881191	CA	C	780	PASS	LAG3	Del	upstream	1	1	POLM	child	12_6881191_CAC_POLM	1	1	0	-	0	A	None
a930cf9e-327f-11e6-9a18-69cfaa716c52	4_139901240_ATA	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	4	139901240	AT	A	780	PASS	-	Del	-	1	6	POLB	parent	4_139901240_ATA_POLB	1	1	1	T	5	T	Repeat-mediated
a9367a0a-328b-11e6-9892-02ba5d753391	5_112759974_CAC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	5	112759974	CA	C	600	PASS	MCC	Del	intronic	1	8	POLE	child	5_112759974_CAC_POLE	1	1	1	A	7	A	Repeat-mediated
a93d6ef0-3286-11e6-a21c-b819bce6aa09	X_54538531_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	54538531	TA	T	420	PASS	-	Del	-	1	5	MSH6	child	X_54538531_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
a93ed14c-3271-11e6-81c8-19f506e9a829	2_57058056_CGTTTAAAC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	2	57058056	CGTTTAAA	C	360	PASS	-	Del	-	7	1	FANCC	child	2_57058056_CGTTTAAAC_FANCC	7	7	5	GTTTA	0	-	Microhomology-mediated
a946ba52-3270-11e6-aee1-fd97191589db	3_73566693_TAT	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	3	73566693	TA	T	720	PASS	PDZRN3	Del	intronic	1	4	POLM	parent	3_73566693_TAT_POLM	1	1	1	A	3	A	Repeat-mediated
a953d20a-3257-11e6-acc5-308412ae24cf	5_88704194_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	88704194	TA	T	480	PASS	-	Del	-	1	9	MSH6	child	5_88704194_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
a9560bb6-326f-11e6-a202-899bcc638e3d	16_47367119_CAC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	16	47367119	CA	C	480	PASS	ITFG1	Del	intronic	1	5	NEIL1	child	16_47367119_CAC_NEIL1	1	1	1	A	4	A	Repeat-mediated
a9586a88-329b-11e6-bda6-065325c9da85	13_33263784_TTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	33263784	T	TA	660	PASS	PDS5B	Ins	intronic	1	1	MSH6	child	13_33263784_TTA_MSH6	1	1	-	-	-	-	Ins
a95f10f0-3281-11e6-9fe5-cc8f38e8a824	19_34622764_TAGTAGTACT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	19	34622764	TAGTAGTAC	T	446	PASS	-	Del	-	8	1	POLE	parent	19_34622764_TAGTAGTACT_POLE	8	8	1	A	0	-	Microhomology-mediated
a9613192-3294-11e6-a264-365aead19ece	9_100213524_ATA	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	9	100213524	AT	A	360	PASS	TDRD7	Del	intronic	1	7	NUDT1	child	9_100213524_ATA_NUDT1	1	1	1	T	6	T	Repeat-mediated
a9671bf6-329a-11e6-b549-1e5325c9da85	10_52395453_GCG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	52395453	GC	G	540	PASS	-	Del	-	1	3	MSH6	child	10_52395453_GCG_MSH6	1	1	1	C	2	C	Repeat-mediated
a96be5b4-3286-11e6-b1ba-6def1da8ec0e	1_224947806_CTC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	1	224947806	CT	C	780	PASS	-	Del	-	1	9	EXO1	child	1_224947806_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
a9707e24-3256-11e6-a39a-dc8512ae24cf	8_1321276_TGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	1321276	TG	T	360	PASS	AF067845.1	Del	upstream	1	7	MSH6	child	8_1321276_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
a971da78-3286-11e6-afcf-0311bce6aa09	9_103145072_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	103145072	GA	G	840	PASS	-	Del	-	1	9	MSH6	child	9_103145072_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
a972d924-326c-11e6-b306-b5204b47a305	2_6506437_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	6506437	CT	C	300	PASS	AC105253.1	Del	intronic	1	9	MSH6	child	2_6506437_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
a9787874-329a-11e6-8069-175325c9da85	12_50054755_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	50054755	CA	C	960	PASS	FMNL3	Del	intronic	1	7	MSH6	child	12_50054755_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
a979f216-3287-11e6-afcf-0311bce6aa09	9_75146176_GGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	75146176	G	GT	960	PASS	TMC1	Ins	intronic	1	5	MSH6	child	9_75146176_GGT_MSH6	1	1	-	-	-	-	Ins
a97afeb8-3273-11e6-a5d0-4fd14a47a305	2_110333988_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	110333988	AT	A	300	PASS	SEPT10	Del	intronic	1	8	MSH6	child	2_110333988_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
a98182ea-3275-11e6-8c34-46e27872c165	5_21074045_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	21074045	CA	C	600	PASS	-	Del	-	1	7	MSH6	child	5_21074045_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
a990d5cc-3286-11e6-a5b3-3f1ebce6aa09	7_20328757_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	20328757	TA	T	720	PASS	-	Del	-	1	7	MSH6	child	7_20328757_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
a9a15476-3257-11e6-91d3-a68412ae24cf	7_86292929_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	86292929	CT	C	600	PASS	GRM3	Del	intronic	1	8	MSH6	child	7_86292929_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a9a5b526-3279-11e6-92c7-b3b42aaffa45	20_4904171_TAGGT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	20	4904171	TAGG	T	600	PASS	SLC23A2	Del	intronic	3	1	EXO1	child	20_4904171_TAGGT_EXO1	3	3	2	AG	0	-	Microhomology-mediated
a9a6262a-3281-11e6-b415-f403987b3f23	18_4736558_TAT	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	18	4736558	TA	T	420	PASS	-	Del	-	1	9	NEIL1	parent	18_4736558_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
a9ab0e0e-32a1-11e6-a04f-c66a25c9da85	6_153839136_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	153839136	AT	A	301	PASS	-	Del	-	1	7	MSH6	child	6_153839136_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
a9b0c1de-328b-11e6-ad89-6ebfcc638e3d	X_5404938_TAT	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	X	5404938	TA	T	360	PASS	-	Del	-	1	7	NUDT1	child	X_5404938_TAT_NUDT1	1	1	1	A	6	A	Repeat-mediated
a9b25ac0-3287-11e6-956d-004290e2c2e6	X_124817313_CAC	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	X	124817313	CA	C	480	PASS	-	Del	-	1	8	POLE	child	X_124817313_CAC_POLE	1	1	1	A	7	A	Repeat-mediated
a9b4864e-3294-11e6-b25c-c77219a91649	8_109971772_GGA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	8	109971772	G	GA	420	PASS	-	Ins	-	1	5	NEIL1	child	8_109971772_GGA_NEIL1	1	1	-	-	-	-	Ins
a9b5b778-326f-11e6-b89d-b2d6b0dab373	4_11162308_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	11162308	GA	G	480	PASS	-	Del	-	1	7	MSH6	child	4_11162308_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
a9b680c0-328a-11e6-aff5-85090e01a414	16_75083209_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	75083209	CT	C	420	PASS	ZNRF1	Del	intronic	1	8	MSH6	child	16_75083209_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a9b7fe0a-329e-11e6-91d0-016425c9da85	7_71131363_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	71131363	AT	A	420	PASS	WBSCR17	Del	intronic	1	7	MSH6	child	7_71131363_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
a9bffd2c-3275-11e6-9e25-e58e2aaffa45	4_16330879_GAG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	4	16330879	GA	G	300	PASS	-	Del	-	1	7	EXO1	child	4_16330879_GAG_EXO1	1	1	1	A	6	A	Repeat-mediated
a9c8f778-328a-11e6-9c89-8d090e01a414	1_75955393_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	75955393	TA	T	480	PASS	SLC44A5	Del	intronic	1	7	MSH6	child	1_75955393_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
a9c8fb6a-326c-11e6-adc2-b7204b47a305	18_3479892_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	3479892	CT	C	540	PASS	RP11-838N2.4	Del	downstream	1	8	MSH6	child	18_3479892_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
a9cb703c-329b-11e6-b549-1e5325c9da85	10_108041874_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	108041874	CA	C	600	PASS	-	Del	-	1	8	MSH6	child	10_108041874_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
a9d26c3e-32a0-11e6-a04f-c66a25c9da85	6_89175819_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	89175819	TA	T	480	PASS	-	Del	-	1	1	MSH6	child	6_89175819_TAT_MSH6	1	1	0	-	0	A	None
a9d72b6c-3281-11e6-9f9b-29bd9b6d3b88	11_92819257_ATA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	11	92819257	AT	A	420	PASS	-	Del	-	1	9	EXO1	child	11_92819257_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
a9e000a6-32a0-11e6-a04f-c66a25c9da85	6_89203992_CTAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	89203992	CTA	C	540	PASS	-	Del	-	2	5	MSH6	child	6_89203992_CTAC_MSH6	2	2	2	TA	4	TA	Repeat-mediated
a9f40ad2-329c-11e6-a5cf-205325c9da85	11_38340616_TTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	38340616	T	TA	960	PASS	-	Ins	-	1	6	MSH6	child	11_38340616_TTA_MSH6	1	1	-	-	-	-	Ins
a9fe6854-329e-11e6-bc2c-2a5e25c9da85	4_115281512_TGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	115281512	TG	T	540	PASS	-	Del	-	1	7	MSH6	child	4_115281512_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
a9ff49b8-3276-11e6-8c64-8432c7271a47	3_172159801_GTG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	3	172159801	GT	G	300	PASS	GHSR	Del	downstream	1	8	MSH6	parent	3_172159801_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
a9ffeb12-3270-11e6-a539-0e5542c4520d	7_123178124_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	123178124	CA	C	480	PASS	NDUFA5	Del	3prime_UTR_variant	1	9	MSH6	child	7_123178124_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
aa045072-328d-11e6-b9c4-751d0e01a414	5_92797212_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	92797212	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	5_92797212_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
aa0a7478-3276-11e6-998e-ba48fa52e078	8_67674268_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	67674268	CT	C	540	PASS	SGK3	Del	intronic	1	9	MSH6	child	8_67674268_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
aa0ec046-327b-11e6-a391-f6d67d6a9fc7	6_110043813_TTTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	110043813	T	TTA	420	PASS	FIG4	Ins	intronic	2	7	MSH6	child	6_110043813_TTTA_MSH6	2	2	-	-	-	-	Ins
aa11f4a2-326f-11e6-a539-0e5542c4520d	7_48455334_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	48455334	GA	G	600	PASS	ABCA13	Del	intronic	1	9	MSH6	child	7_48455334_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
aa154f42-328f-11e6-bb1e-70e16f39e758	X_106227166_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	106227166	AT	A	1020	PASS	MORC4	Del	intronic	1	8	MSH6	child	X_106227166_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
aa186ccc-3271-11e6-b4c7-c8d4ed3c4f5d	10_16809601_ATA	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	10	16809601	AT	A	420	PASS	RSU1	Del	intronic	1	9	NEIL1	child	10_16809601_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
aa1e5da2-3295-11e6-800c-01f9d8b4fa2c	5_93389623_GCG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	5	93389623	GC	G	360	PASS	FAM172A	Del	intronic	1	5	NUDT1	child	5_93389623_GCG_NUDT1	1	1	1	C	4	C	Repeat-mediated
aa21e980-326e-11e6-b306-b5204b47a305	2_182888535_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	182888535	AT	A	300	PASS	PPP1R1C	Del	intronic	1	9	MSH6	child	2_182888535_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
aa2fe7fc-3290-11e6-9401-04ed6f39e758	3_47530926_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	47530926	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	3_47530926_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
aa328bbc-328e-11e6-b9c4-751d0e01a414	5_164601558_TCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	164601558	TC	T	300	PASS	-	Del	-	1	1	MSH6	child	5_164601558_TCT_MSH6	1	1	0	-	0	C	None
aa3481f8-328c-11e6-bb43-9c5c694da5d2	14_35056823_AAAACA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	14	35056823	AAAAC	A	480	PASS	SNX6	Del	intronic	4	4	POLM	child	14_35056823_AAAACA_POLM	4	4	4	AAAC	3	AAAC	Repeat-mediated
aa358554-328b-11e6-8590-58cc977b3f23	14_41965609_TAT	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	14	41965609	TA	T	480	PASS	-	Del	-	1	9	NEIL1	child	14_41965609_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
aa3660b4-3254-11e6-bc65-c9667872c165	13_104614227_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	104614227	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	13_104614227_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
aa4161f8-3272-11e6-a862-bc9becf1e924	1_21310655_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	21310655	AT	A	300	PASS	EIF4G3	Del	intronic	1	9	MSH6	child	1_21310655_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
aa576328-3320-11e6-a903-ae0342c4520d	13_22279376_CTC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	13	22279376	CT	C	300	PASS	FGF9	Del	downstream	1	3	EXO1	child	13_22279376_CTC_EXO1	1	1	1	T	2	T	Repeat-mediated
aa5fe3ce-3283-11e6-9ece-78393dc9300a	11_43654494_GGA	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	11	43654494	G	GA	480	PASS	-	Ins	-	1	7	NEIL1	parent	11_43654494_GGA_NEIL1	1	1	-	-	-	-	Ins
aa6584c8-326f-11e6-9309-bdc34a47a305	8_35675441_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	35675441	CT	C	300	PASS	-	Del	-	1	7	MSH6	child	8_35675441_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
aa710996-3289-11e6-85a7-f8cd191589db	13_65720618_ATA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	13	65720618	AT	A	360	PASS	-	Del	-	1	9	FANCC	child	13_65720618_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
aa735466-328f-11e6-9230-fb250e01a414	3_117133405_ACA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	117133405	AC	A	600	PASS	LSAMP	Del	intronic	1	8	MSH6	child	3_117133405_ACA_MSH6	1	1	1	C	7	C	Repeat-mediated
aa75e56c-3273-11e6-9b10-3e7da20b69d5	15_102131431_CTC	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	15	102131431	CT	C	300	PASS	-	Del	-	1	9	NUDT1	child	15_102131431_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
aa8025dc-328b-11e6-b90a-464ed5dcf142	5_64752360_ATTTGA	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	5	64752360	ATTTG	A	420	PASS	ADAMTS6	Del	intronic	4	3	NUDT1	child	5_64752360_ATTTGA_NUDT1	4	4	4	TTTG	2	TTTG	Repeat-mediated
aa82af22-3273-11e6-bfb2-2749c225ee11	12_89389876_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	89389876	GA	G	300	PASS	-	Del	-	1	7	MSH6	child	12_89389876_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
aa83c8e8-3274-11e6-b7b8-aca7ecf1e924	12_70639991_CTC	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	12	70639991	CT	C	300	PASS	CNOT2	Del	intronic	1	8	NEIL1	child	12_70639991_CTC_NEIL1	1	1	1	T	7	T	Repeat-mediated
aa871246-3288-11e6-993a-93e95d753391	12_85521587_GTG	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	12	85521587	GT	G	600	PASS	LRRIQ1	Del	intronic	1	9	POLE	child	12_85521587_GTG_POLE	1	1	1	T	8	T	Repeat-mediated
aa8b10a2-328e-11e6-9d41-3ba5e7d0bdd7	11_84812088_TATGAT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	11	84812088	TATGA	T	540	PASS	DLG2	Del	intronic	4	1	FANCC	child	11_84812088_TATGAT_FANCC	4	4	3	ATG	0	-	Microhomology-mediated
aa8dcc20-3257-11e6-a304-347a7872c165	1_22618975_CCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	22618975	C	CT	480	PASS	-	Ins	-	1	8	MSH6	child	1_22618975_CCT_MSH6	1	1	-	-	-	-	Ins
aaafe382-328e-11e6-9337-20a5e7d0bdd7	14_97961783_CTGACATC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	14	97961783	CTGACAT	C	540	PASS	CTD-2506J14.1	Del	intronic	6	1	FANCC	child	14_97961783_CTGACATC_FANCC	6	6	2	TG	0	-	Microhomology-mediated
aab6be20-326e-11e6-acc7-e55219a91649	1_188944987_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	188944987	CA	C	480	PASS	-	Del	-	1	2	MSH6	child	1_188944987_CAC_MSH6	1	1	1	A	1	A	Repeat-mediated
aab6cf1a-3272-11e6-8f33-a6d9cde16804	11_26538611_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	26538611	GT	G	600	PASS	ANO3	Del	intronic	1	9	MSH6	child	11_26538611_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
aab93cfc-3270-11e6-881e-8d938a20d9eb	15_20598230_TCT	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	15	20598230	TC	T	300	PASS	-	Del	-	1	1	CHK2	child	15_20598230_TCT_CHK2	1	1	0	-	0	C	None
aac3c5a2-334a-11e6-a997-309d38e8a824	4_171214501_GTAG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	4	171214501	GTA	G	360	PASS	-	Del	-	2	6	FANCC	child	4_171214501_GTAG_FANCC	2	2	2	TA	5	TA	Repeat-mediated
aac50900-3285-11e6-8e86-a8fc137bb207	8_59248427_CAAC	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	8	59248427	CAA	C	360	PASS	-	Del	-	2	3	FANCC	child	8_59248427_CAAC_FANCC	2	2	1	A	0	-	Microhomology-mediated
aac8b85c-3253-11e6-a4a7-35f212ae24cf	14_26143191_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	26143191	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	14_26143191_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
aaca4778-329c-11e6-a0ea-135325c9da85	15_21944082_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	21944082	C	CA	252	PASS	RP11-32B5.7	Ins	intronic	1	5	MSH6	child	15_21944082_CCA_MSH6	1	1	-	-	-	-	Ins
aad32298-328e-11e6-b6a6-1f1e0e01a414	4_138345796_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	138345796	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	4_138345796_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
aadb8322-32a0-11e6-a04f-c66a25c9da85	6_89564893_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	89564893	CA	C	540	PASS	RNGTT	Del	intronic	1	8	MSH6	child	6_89564893_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
aadce39a-326c-11e6-9fba-41ebd8b4fa2c	11_6124444_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	6124444	AT	A	300	PASS	OR56B4	Del	upstream	1	5	MSH6	child	11_6124444_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
aae3dfe2-3271-11e6-923c-a6d5ed3c4f5d	4_7060766_TGGAT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	4	7060766	TGGA	T	480	PASS	GRPEL1	Del	3prime_UTR_variant	3	2	POLB	child	4_7060766_TGGAT_POLB	3	3	3	GGA	1	GGA	Repeat-mediated
aaf9693e-3285-11e6-b093-c9c7b0dab373	2_99305491_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	99305491	TA	T	420	PASS	MGAT4A	Del	intronic	1	8	MSH6	child	2_99305491_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
aafee4fe-328f-11e6-b4fe-93c36f39e758	12_115652367_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	115652367	A	AT	420	PASS	-	Ins	-	1	7	MSH6	child	12_115652367_AAT_MSH6	1	1	-	-	-	-	Ins
ab01ac7c-326f-11e6-8f14-87641565c797	19_53256964_CTC	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	19	53256964	CT	C	720	PASS	-	Del	-	1	6	POLM	child	19_53256964_CTC_POLM	1	1	1	T	5	T	Repeat-mediated
ab054ac6-3283-11e6-8f58-97e3d4957ca3	20_34884197_CTC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	20	34884197	CT	C	660	PASS	-	Del	-	1	7	NEIL1	child	20_34884197_CTC_NEIL1	1	1	1	T	6	T	Repeat-mediated
ab07e7b2-3289-11e6-9c89-8d090e01a414	1_21819973_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	21819973	GA	G	480	PASS	-	Del	-	1	7	MSH6	child	1_21819973_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
ab10fea4-3286-11e6-9162-c3af90e2c2e6	2_221879367_CTC	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	2	221879367	CT	C	480	PASS	-	Del	-	1	8	POLE	child	2_221879367_CTC_POLE	1	1	1	T	7	T	Repeat-mediated
ab1de3f2-3287-11e6-a21c-b819bce6aa09	X_113671448_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	113671448	GT	G	660	PASS	-	Del	-	1	9	MSH6	child	X_113671448_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
ab249328-326e-11e6-9fba-41ebd8b4fa2c	11_76807857_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	76807857	CA	C	1260	PASS	CAPN5	Del	intronic	1	8	MSH6	child	11_76807857_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
ab2528b2-3253-11e6-9f9d-2c7a7872c165	12_9283321_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	9283321	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	12_9283321_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
ab315640-3286-11e6-afcf-0311bce6aa09	9_104220186_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	104220186	AT	A	420	PASS	-	Del	-	1	8	MSH6	child	9_104220186_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ab3a6044-328d-11e6-a278-48230e01a414	21_19263056_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	21	19263056	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	21_19263056_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
ab40bb62-3277-11e6-805e-161f630e6611	7_86963600_AAGA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	7	86963600	AAG	A	420	PASS	TP53TG1	Del	intronic	2	2	CHK2	child	7_86963600_AAGA_CHK2	2	2	2	AG	1	AG	Repeat-mediated
ab4cb4be-3289-11e6-b805-77090e01a414	2_31098159_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	31098159	CT	C	900	PASS	-	Del	-	1	9	MSH6	child	2_31098159_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
ab4d3a92-3324-11e6-819a-262af46126f1	X_114785983_CAGC	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	X	114785983	CAG	C	420	PASS	-	Del	-	2	2	POLE	child	X_114785983_CAGC_POLE	2	2	2	AG	1	AG	Repeat-mediated
ab4ec100-3289-11e6-a80b-87090e01a414	11_24367437_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	24367437	GA	G	420	PASS	-	Del	-	1	8	MSH6	child	11_24367437_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
ab505708-3258-11e6-acc5-308412ae24cf	5_167411664_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	167411664	GA	G	420	PASS	TENM2	Del	intronic	1	9	MSH6	child	5_167411664_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
ab512972-3275-11e6-a71d-236235cec73b	X_28235357_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	28235357	AT	A	720	PASS	-	Del	-	1	9	MSH6	child	X_28235357_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
ab60e42a-328e-11e6-8621-65d8191589db	4_187346898_TGT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	4	187346898	TG	T	360	PASS	-	Del	-	1	6	FANCC	child	4_187346898_TGT_FANCC	1	1	1	G	5	G	Repeat-mediated
ab6baadc-3292-11e6-ba8c-277819a91649	6_65557628_CTC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	6	65557628	CT	C	360	PASS	EYS	Del	intronic	1	7	NEIL1	child	6_65557628_CTC_NEIL1	1	1	1	T	6	T	Repeat-mediated
ab726e0c-3275-11e6-a71d-236235cec73b	X_28253899_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	28253899	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	X_28253899_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
ab7f2056-3276-11e6-ae53-82ab977b3f23	3_109009992_GGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGTGCCTGGCCAGATATTTTTTTTAATGGAGCAGTAAAGCAAAAATAGTCCTATTAGATACTAAAATTAATTATTGTTATTATTATTATTTTGAGACAGAGTTTCGCTTTTGTTGCCCAGGCTGGAGTGCAATGGCGCGTTCTCGGCTCACCGCAACCTCCGCGTCCTGGTTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGTGCACCACCACGCCTGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTTACGACGTTGGTCGGGCTGCTCTTGAACTCCTGACCTGAAGTGATCCACCCACCTCAG	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	3	109009992	GGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGTGCCTGGCCAGATATTTTTTTTAATGGAGCAGTAAAGCAAAAATAGTCCTATTAGATACTAAAATTAATTATTGTTATTATTATTATTTTGAGACAGAGTTTCGCTTTTGTTGCCCAGGCTGGAGTGCAATGGCGCGTTCTCGGCTCACCGCAACCTCCGCGTCCTGGTTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGTGCACCACCACGCCTGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTTACGACGTTGGTCGGGCTGCTCTTGAACTCCTGACCTGAAGTGATCCACCCACCTCA	G	268	PASS	DPPA2	Del	downstream	364	1	NUDT1	child	3_109009992_GGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGTGCCTGGCCAGATATTTTTTTTAATGGAGCAGTAAAGCAAAAATAGTCCTATTAGATACTAAAATTAATTATTGTTATTATTATTATTTTGAGACAGAGTTTCGCTTTTGTTGCCCAGGCTGGAGTGCAATGGCGCGTTCTCGGCTCACCGCAACCTCCGCGTCCTGGTTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGTGCACCACCACGCCTGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTTACGACGTTGGTCGGGCTGCTCTTGAACTCCTGACCTGAAGTGATCCACCCACCTCAG_NUDT1	364	>=10	27	GCCTCCCAAAGTGCTGGGATTACAGGC	0	-	Microhomology-mediated
ab7f6aea-3274-11e6-aa3b-ca60a178171f	13_77899617_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	77899617	C	CA	300	PASS	MYCBP2	Ins	intronic	1	7	MSH6	child	13_77899617_CCA_MSH6	1	1	-	-	-	-	Ins
ab8212f2-3294-11e6-94ac-06337a852e0e	4_176410748_CATGATACTGGTACCAAAACAGATC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	4	176410748	CATGATACTGGTACCAAAACAGAT	C	360	PASS	-	Del	-	23	1	CHK2	child	4_176410748_CATGATACTGGTACCAAAACAGATC_CHK2	23	>=10	2	AT	0	-	Microhomology-mediated
ab89e328-329a-11e6-a5cf-205325c9da85	11_49365199_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	49365199	CA	C	580	PASS	-	Del	-	1	6	MSH6	child	11_49365199_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
ab9c76d6-328c-11e6-b6a6-1f1e0e01a414	4_14099076_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	14099076	CT	C	360	PASS	-	Del	-	1	5	MSH6	child	4_14099076_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
ab9ff280-3286-11e6-b930-8f14987b3f23	4_171100158_ATGTATA	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	4	171100158	ATGTAT	A	600	PASS	-	Del	-	5	1	NEIL1	parent	4_171100158_ATGTATA_NEIL1	5	5	0	-	0	-	None
abb4dede-3277-11e6-92d2-c259c225ee11	3_100173906_ACA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	100173906	AC	A	660	PASS	LNP1	Del	intronic	1	7	MSH6	child	3_100173906_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
abba93b4-3278-11e6-9972-dabcecf1e924	3_100391857_ATA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	3	100391857	AT	A	900	PASS	GPR128	Del	intronic	1	8	NEIL1	child	3_100391857_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
abbc96a8-329d-11e6-b696-dd6225c9da85	5_36997002_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	36997002	AT	A	780	PASS	NIPBL	Del	intronic	1	9	MSH6	child	5_36997002_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
abc3fbe6-3289-11e6-940d-53a538e8a824	2_203038689_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	2	203038689	CT	C	480	PASS	-	Del	-	1	9	NUDT1	parent	2_203038689_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
abc6107e-3253-11e6-81f9-42f212ae24cf	17_7162084_TGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	17	7162084	TG	T	300	PASS	ELP5	Del	frameshift	1	5	MSH6	child	17_7162084_TGT_MSH6	1	1	1	G	4	G	Repeat-mediated
abd1c4e0-3286-11e6-b093-c9c7b0dab373	2_187057059_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	187057059	AT	A	780	PASS	-	Del	-	1	7	MSH6	child	2_187057059_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
abd88184-328d-11e6-b6a6-1f1e0e01a414	4_74265711_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	74265711	TA	T	600	PASS	ALB	Del	upstream	1	7	MSH6	child	4_74265711_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
abe1d2f2-328d-11e6-ae53-96c36f39e758	15_90339727_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	90339727	CT	C	420	PASS	ANPEP	Del	intronic	1	9	MSH6	child	15_90339727_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
abe6edc4-3278-11e6-92d2-c259c225ee11	3_172329722_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	172329722	TA	T	720	PASS	-	Del	-	1	5	MSH6	child	3_172329722_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
abe7bca4-329b-11e6-a5cf-205325c9da85	11_115180024_AGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	115180024	AG	A	540	PASS	CADM1	Del	intronic	1	1	MSH6	child	11_115180024_AGA_MSH6	1	1	0	-	0	G	None
abf55b74-326f-11e6-b923-6726694da5d2	5_15020873_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	15020873	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	5_15020873_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
abf765a6-3290-11e6-9d97-efe56f39e758	4_138242612_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	138242612	AT	A	600	PASS	-	Del	-	1	9	MSH6	child	4_138242612_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
abfc9b86-327a-11e6-b10f-b842a20b69d5	9_22557342_CAC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	9	22557342	CA	C	540	PASS	-	Del	-	1	7	FANCC	parent	9_22557342_CAC_FANCC	1	1	1	A	6	A	Repeat-mediated
ac023bb0-325a-11e6-8340-da9012ae24cf	6_152998042_AGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	152998042	AG	A	600	PASS	-	Del	-	1	5	MSH6	child	6_152998042_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
ac06b418-329d-11e6-ae71-0c5325c9da85	1_222170760_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	222170760	CA	C	780	PASS	-	Del	-	1	9	MSH6	child	1_222170760_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
ac06df36-328b-11e6-8106-81c36f39e758	19_8140231_CGC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	8140231	CG	C	360	PASS	FBN3	Del	frameshift	1	4	MSH6	child	19_8140231_CGC_MSH6	1	1	1	G	3	G	Repeat-mediated
ac148074-3253-11e6-bc65-c9667872c165	13_28403478_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	28403478	AT	A	300	PASS	RNU6-73P	Del	downstream	1	9	MSH6	child	13_28403478_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
ac271080-3286-11e6-8404-8e1fbce6aa09	8_15317712_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	15317712	CT	C	420	PASS	-	Del	-	1	5	MSH6	child	8_15317712_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
ac282c66-3288-11e6-b3c1-495b51c54cdd	8_58992172_CAC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	8	58992172	CA	C	300	PASS	FAM110B	Del	intronic	1	9	EXO1	child	8_58992172_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
ac3a18aa-3287-11e6-a284-4b89a2c71c31	4_103851877_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	103851877	TA	T	420	PASS	SLC9B1	Del	intronic	1	8	MSH6	child	4_103851877_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
ac3e668e-3274-11e6-88b6-40832aaffa45	1_105527330_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	105527330	AT	A	720	PASS	-	Del	-	1	7	EXO1	child	1_105527330_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
ac3ef610-3285-11e6-8b67-086ea2c71c31	1_108573091_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	108573091	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	1_108573091_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
ac48afe0-3292-11e6-b77d-2eef6f39e758	6_150558341_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	150558341	CT	C	780	PASS	PPP1R14C	Del	intronic	1	9	MSH6	child	6_150558341_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
ac573518-3276-11e6-92d2-c259c225ee11	3_26304345_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	26304345	AT	A	1020	PASS	-	Del	-	1	8	MSH6	child	3_26304345_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ac5cf08e-328a-11e6-927f-cebe38e8a824	7_45136154_TACT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	7	45136154	TAC	T	420	PASS	TBRG4	Del	downstream	2	5	NUDT1	parent	7_45136154_TACT_NUDT1	2	2	2	AC	4	AC	Repeat-mediated
ac5ea10e-326c-11e6-acc7-e55219a91649	1_26186662_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	26186662	AT	A	360	PASS	PAQR7	Del	downstream	1	9	MSH6	child	1_26186662_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
ac5edd9c-3292-11e6-8cd8-07045e753391	2_136712866_AAT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	2	136712866	A	AT	360	PASS	DARS	Ins	intronic	1	5	POLB	child	2_136712866_AAT_POLB	1	1	-	-	-	-	Ins
ac5f33b2-329e-11e6-b696-dd6225c9da85	5_103036964_AAGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	103036964	AAG	A	660	PASS	-	Del	-	2	7	MSH6	child	5_103036964_AAGA_MSH6	2	2	2	AG	6	AG	Repeat-mediated
ac684740-3253-11e6-a4a7-35f212ae24cf	14_26773370_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	26773370	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	14_26773370_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
ac6e67ac-3289-11e6-85b3-df4bcf376b51	15_63868592_CTC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	15	63868592	CT	C	540	PASS	USP3	Del	intronic	1	6	NUDT1	child	15_63868592_CTC_NUDT1	1	1	1	T	5	T	Repeat-mediated
ac7535de-328c-11e6-8256-94c36f39e758	17_57208609_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	57208609	AT	A	480	PASS	SKA2	Del	intronic	1	8	MSH6	child	17_57208609_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ac7b3b02-3258-11e6-a39a-dc8512ae24cf	8_60278428_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	60278428	AT	A	780	PASS	-	Del	-	1	9	MSH6	child	8_60278428_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
ac7ce67a-3256-11e6-9d5a-0c8112ae24cf	9_72884512_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	72884512	CA	C	600	PASS	SMC5	Del	intronic	1	7	MSH6	child	9_72884512_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
ac808d9c-3275-11e6-88aa-2d54a966024e	7_118502425_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	7	118502425	AT	A	420	PASS	-	Del	-	1	7	MSH6	parent	7_118502425_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
ac83e77e-329a-11e6-a0ea-135325c9da85	15_60285642_AGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	60285642	AG	A	600	PASS	-	Del	-	1	6	MSH6	child	15_60285642_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
ac888f8e-3283-11e6-b857-6115038949d4	5_94505565_ATA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	5	94505565	AT	A	350	PASS	MCTP1	Del	intronic	1	7	POLM	child	5_94505565_ATA_POLM	1	1	1	T	6	T	Repeat-mediated
ac8cb8ce-327f-11e6-a6bc-51fe684da5d2	15_81862773_CTC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	15	81862773	CT	C	480	PASS	CTD-2034I4.1	Del	intronic	1	9	NEIL1	child	15_81862773_CTC_NEIL1	1	1	1	T	8	T	Repeat-mediated
ac97552c-3284-11e6-9607-56b01ac527ab	4_79827406_GTAAAAGTGTAGAGGTTTA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	4	79827406	GTAAAAGTGTAGAG	GTTTA	720	PASS	BMP2K	Complex	intronic	13	0	FANCC	child	4_79827406_GTAAAAGTGTAGAGGTTTA_FANCC	9	9	-	-	-	-	Complex
ac98373c-329b-11e6-aca6-b39fcc638e3d	2_124932607_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	124932607	AT	A	540	PASS	CNTNAP5	Del	intronic	1	8	MSH6	child	2_124932607_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ac9b0d18-326e-11e6-b306-b5204b47a305	2_183577292_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	183577292	CT	C	300	PASS	DNAJC10	Del	upstream	1	9	MSH6	child	2_183577292_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
acb32d28-326c-11e6-b2ac-b6204b47a305	17_3444512_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	3444512	AT	A	300	PASS	TRPV3	Del	intronic	1	2	MSH6	child	17_3444512_ATA_MSH6	1	1	1	T	1	T	Repeat-mediated
acc6f3fa-3274-11e6-8c58-fa31b51afd22	8_41980249_GTG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	8	41980249	GT	G	900	PASS	-	Del	-	1	9	FANCC	child	8_41980249_GTG_FANCC	1	1	1	T	8	T	Repeat-mediated
acd4ce84-328e-11e6-9432-c0e56f39e758	5_8574309_TGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	8574309	TG	T	420	PASS	-	Del	-	1	8	MSH6	child	5_8574309_TGT_MSH6	1	1	1	G	7	G	Repeat-mediated
acd55344-326c-11e6-9d68-ac9acab49462	15_22390750_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	22390750	AT	A	300	PASS	-	Del	-	1	6	MSH6	child	15_22390750_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
acdf49ce-3291-11e6-9458-5f42ead19ece	2_9761462_AATACCGTTCTA	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	2	9761462	AATACCGTTCT	A	600	PASS	YWHAQ	Del	intronic	10	1	NUDT1	child	2_9761462_AATACCGTTCTA_NUDT1	10	>=10	4	ATAC	0	-	Microhomology-mediated
ace20996-328e-11e6-bec1-ca1d0e01a414	X_115466095_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	115466095	TA	T	420	PASS	-	Del	-	1	7	MSH6	child	X_115466095_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
aced2e00-3290-11e6-a400-33b64430f757	22_47973548_GAG	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	22	47973548	GA	G	480	PASS	-	Del	-	1	4	POLE	child	22_47973548_GAG_POLE	1	1	1	A	3	A	Repeat-mediated
acf397e0-3272-11e6-b439-e34b3cfdbd24	2_118793160_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	2	118793160	AT	A	300	PASS	-	Del	-	1	5	MSH6	parent	2_118793160_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
acf62fbe-3281-11e6-b735-71393dc9300a	10_7965680_CAC	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	10	7965680	CA	C	480	PASS	TAF3	Del	intronic	1	9	NEIL1	parent	10_7965680_CAC_NEIL1	1	1	1	A	8	A	Repeat-mediated
acf8240e-3254-11e6-8f56-7d832aaffa45	13_47297332_CTC	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	13	47297332	CT	C	420	PASS	LRCH1	Del	intronic	1	7	POLM	child	13_47297332_CTC_POLM	1	1	1	T	6	T	Repeat-mediated
acfe3902-326d-11e6-9f48-94df41c4520d	12_84982920_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	84982920	GA	G	720	PASS	-	Del	-	1	9	MSH6	child	12_84982920_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
acffb110-3321-11e6-923f-078b3cfdbd24	18_73252843_TAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	18	73252843	TA	T	660	PASS	-	Del	-	1	1	EXO1	child	18_73252843_TAT_EXO1	1	1	0	-	0	A	None
ad05e574-3292-11e6-9401-04ed6f39e758	3_190142398_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	190142398	GA	G	540	PASS	TMEM207	Del	downstream	1	9	MSH6	child	3_190142398_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
ad08c446-3270-11e6-b923-6726694da5d2	5_82742343_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	82742343	GA	G	360	PASS	-	Del	-	1	9	MSH6	child	5_82742343_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
ad0f77fe-328f-11e6-94e1-63e1191589db	3_163915933_CAC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	3	163915933	CA	C	300	PASS	-	Del	-	1	9	FANCC	child	3_163915933_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
ad1031fc-3290-11e6-92cf-bf2a0e01a414	6_119466630_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	119466630	GA	G	600	PASS	FAM184A	Del	intronic	1	7	MSH6	child	6_119466630_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
ad260750-334b-11e6-9f94-b3873cfdbd24	6_63347192_CTC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	6	63347192	CT	C	360	PASS	-	Del	-	1	8	FANCC	child	6_63347192_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
ad26caa6-3255-11e6-bc65-c9667872c165	13_80682773_TTA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	80682773	T	TA	420	PASS	-	Ins	-	1	6	MSH6	child	13_80682773_TTA_MSH6	1	1	-	-	-	-	Ins
ad31d20c-3287-11e6-baf1-58044530f757	3_26094581_TTTCACACTGTTCCTCTCCCTTCCTCATTTTCCTCTAGAT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	3	26094581	TTTCACACTGTTCCTCTCCCTTCCTCATTTTCCTCTAGA	T	480	PASS	-	Del	-	38	1	EXO1	child	3_26094581_TTTCACACTGTTCCTCTCCCTTCCTCATTTTCCTCTAGAT_EXO1	38	>=10	0	-	0	-	None
ad33d9f2-326f-11e6-a539-0e5542c4520d	7_49499206_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	49499206	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	7_49499206_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
ad39fc76-3272-11e6-a7fb-3a9cecf1e924	22_33600785_ATA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	22	33600785	AT	A	360	PASS	-	Del	-	1	8	NEIL1	child	22_33600785_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
ad555dfe-3272-11e6-83ef-69fb06e9a829	18_20182756_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	20182756	GA	G	540	PASS	-	Del	-	1	4	MSH6	child	18_20182756_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
ad565542-326d-11e6-9f48-94df41c4520d	12_85036614_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	85036614	CT	C	360	PASS	-	Del	-	1	7	MSH6	child	12_85036614_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
ad60559c-3277-11e6-81cf-37408a20d9eb	8_47976256_TGT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	8	47976256	TG	T	300	PASS	-	Del	-	1	9	EXO1	child	8_47976256_TGT_EXO1	1	1	1	G	8	G	Repeat-mediated
ad644820-328e-11e6-bd84-429305ad5bc4	1_104559620_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	104559620	G	GT	659	PASS	-	Ins	-	1	6	MSH6	child	1_104559620_GGT_MSH6	1	1	-	-	-	-	Ins
ad6c2916-3255-11e6-b4d0-327a7872c165	11_6935498_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	6935498	A	AT	480	PASS	-	Ins	-	1	7	MSH6	child	11_6935498_AAT_MSH6	1	1	-	-	-	-	Ins
ad6d6488-3274-11e6-b747-d9deed3c4f5d	X_91152978_CTC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	X	91152978	CT	C	290	PASS	PCDH11X	Del	intronic	1	8	MSH6	parent	X_91152978_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
ad6f24f6-329e-11e6-aea7-956725c9da85	3_12486122_GGAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	12486122	GGA	G	720	PASS	-	Del	-	2	4	MSH6	child	3_12486122_GGAG_MSH6	2	2	2	GA	3	GA	Repeat-mediated
ad74ea44-328a-11e6-9c89-8d090e01a414	1_76986983_TACT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	76986983	TAC	T	360	PASS	ST6GALNAC3	Del	intronic	2	6	MSH6	child	1_76986983_TACT_MSH6	2	2	2	AC	5	AC	Repeat-mediated
ad74f80c-329b-11e6-aca6-b39fcc638e3d	2_125133360_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	125133360	CA	C	300	PASS	CNTNAP5	Del	intronic	1	8	MSH6	child	2_125133360_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
ad82dc7c-3289-11e6-821d-8c090e01a414	13_41872163_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	41872163	CT	C	660	PASS	-	Del	-	1	9	MSH6	child	13_41872163_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
ad835642-3276-11e6-92d2-c259c225ee11	3_26702208_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	26702208	TA	T	660	PASS	LRRC3B	Del	intronic	1	8	MSH6	child	3_26702208_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
ad8431cc-3274-11e6-bde9-8c1aead19ece	10_74520032_GTCCTGGGCTCAAGCGATCCTCCCATCTCAGCCTCTCAAAGTATGGGGATTACAGGTGTGAGCCACCTCACCCAGCCAAAATTTTGAAATCTTTATTCAAGAAATGGTTCCCTGAAAAACCAGGTTATAATGCTCAAAAGTCACACTTTAAGAGAAAGGAATATTTAGTGAGCACTTAACACCAGGGCTTGTTTTAGATTTATTTAAAAATATATTTTATAATTTGGTCCTCAAAAAACCCTACGTCATAAATGTTTTGGTTTTCTTTTGTTTTTAGAGAGGGTCTCACCCCGTCACCCAGGCTGAAGTGCGGTGGCATGATCTTGGCTCACTGCAGCCTCAAACG	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	10	74520032	GTCCTGGGCTCAAGCGATCCTCCCATCTCAGCCTCTCAAAGTATGGGGATTACAGGTGTGAGCCACCTCACCCAGCCAAAATTTTGAAATCTTTATTCAAGAAATGGTTCCCTGAAAAACCAGGTTATAATGCTCAAAAGTCACACTTTAAGAGAAAGGAATATTTAGTGAGCACTTAACACCAGGGCTTGTTTTAGATTTATTTAAAAATATATTTTATAATTTGGTCCTCAAAAAACCCTACGTCATAAATGTTTTGGTTTTCTTTTGTTTTTAGAGAGGGTCTCACCCCGTCACCCAGGCTGAAGTGCGGTGGCATGATCTTGGCTCACTGCAGCCTCAAAC	G	300	PASS	MCU	Del	intronic	344	1	NEIL1	child	10_74520032_GTCCTGGGCTCAAGCGATCCTCCCATCTCAGCCTCTCAAAGTATGGGGATTACAGGTGTGAGCCACCTCACCCAGCCAAAATTTTGAAATCTTTATTCAAGAAATGGTTCCCTGAAAAACCAGGTTATAATGCTCAAAAGTCACACTTTAAGAGAAAGGAATATTTAGTGAGCACTTAACACCAGGGCTTGTTTTAGATTTATTTAAAAATATATTTTATAATTTGGTCCTCAAAAAACCCTACGTCATAAATGTTTTGGTTTTCTTTTGTTTTTAGAGAGGGTCTCACCCCGTCACCCAGGCTGAAGTGCGGTGGCATGATCTTGGCTCACTGCAGCCTCAAACG_NEIL1	344	>=10	14	TCCTGGGCTCAAGC	0	-	Microhomology-mediated
ad85c004-328e-11e6-b81f-4ee66f39e758	8_603518_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	603518	CT	C	660	PASS	-	Del	-	1	8	MSH6	child	8_603518_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
ad86f3b2-327e-11e6-8cd8-82e7b41afd22	7_25952188_ACA	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	7	25952188	AC	A	540	PASS	-	Del	-	1	1	POLM	child	7_25952188_ACA_POLM	1	1	0	-	0	C	None
ad90e426-3283-11e6-89eb-f2eacdacbbbf	4_123784946_GAGATCCATAGGCG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	4	123784946	GAGATCCATAGGC	G	840	PASS	FGF2	Del	intronic	12	1	EXO1	child	4_123784946_GAGATCCATAGGCG_EXO1	12	>=10	2	AG	0	-	Microhomology-mediated
ad932416-32a1-11e6-b696-dd6225c9da85	5_120818093_GGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	120818093	G	GT	600	PASS	-	Ins	-	1	3	MSH6	child	5_120818093_GGT_MSH6	1	1	-	-	-	-	Ins
ad9f8fec-3276-11e6-9e0f-7959cab49462	7_80101448_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	80101448	AT	A	960	PASS	CD36	Del	intronic	1	8	MSH6	child	7_80101448_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ada33906-3287-11e6-9a8e-d2b1f6dffcf6	1_102287650_CTAC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	1	102287650	CTA	C	540	PASS	OLFM3	Del	intronic	2	1	NUDT1	parent	1_102287650_CTAC_NUDT1	2	2	1	T	0	-	Microhomology-mediated
adb4750c-3270-11e6-b89d-b2d6b0dab373	4_78798363_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	78798363	GT	G	360	PASS	MRPL1	Del	intronic	1	7	MSH6	child	4_78798363_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
adc11992-327a-11e6-ab1d-16d9ecf1e924	20_55240188_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	55240188	GA	G	480	PASS	RNU6-1146P	Del	upstream	1	8	MSH6	child	20_55240188_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
adca01dc-3285-11e6-be43-0a6ea2c71c31	10_109170898_GCTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	109170898	GCT	G	540	PASS	-	Del	-	2	6	MSH6	child	10_109170898_GCTG_MSH6	2	2	2	CT	5	CT	Repeat-mediated
adce0afe-328d-11e6-919e-92c36f39e758	2_148961896_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	148961896	GA	G	420	PASS	MBD5	Del	intronic	1	8	MSH6	child	2_148961896_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
addb3d6a-328c-11e6-88c1-95c36f39e758	14_87757882_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	87757882	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	14_87757882_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
ade4b1a2-3277-11e6-ab97-84f471d7bc54	6_77525530_CTC	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	6	77525530	CT	C	480	PASS	-	Del	-	1	7	NEIL1	child	6_77525530_CTC_NEIL1	1	1	1	T	6	T	Repeat-mediated
ade7dc24-3295-11e6-a718-6f48a178171f	2_234408458_GAG	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	2	234408458	GA	G	540	PASS	USP40	Del	intronic	1	9	POLB	child	2_234408458_GAG_POLB	1	1	1	A	8	A	Repeat-mediated
ade8e63e-3284-11e6-99f7-076ea2c71c31	12_25112419_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	25112419	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	12_25112419_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
adf05ed2-32a2-11e6-b970-398625c9da85	20_20906356_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	20906356	GA	G	660	PASS	-	Del	-	1	9	MSH6	child	20_20906356_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
adfa24b6-3285-11e6-9e78-7d3e51c54cdd	2_124468349_ATA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	2	124468349	AT	A	360	PASS	-	Del	-	1	9	EXO1	child	2_124468349_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
ae041546-3287-11e6-b32c-fd87a2c71c31	5_159732364_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	159732364	CT	C	600	PASS	CCNJL	Del	intronic	1	4	MSH6	child	5_159732364_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
ae0b0912-328e-11e6-9c89-8d090e01a414	1_50971044_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	50971044	C	CA	840	PASS	FAF1	Ins	intronic	1	3	MSH6	child	1_50971044_CCA_MSH6	1	1	-	-	-	-	Ins
ae108c20-328e-11e6-8e48-791e0e01a414	8_71061315_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	71061315	CT	C	480	PASS	NCOA2	Del	intronic	1	7	MSH6	child	8_71061315_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
ae157ec4-3324-11e6-b0c6-e1e369062303	5_2491972_CAC	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	5	2491972	CA	C	420	PASS	-	Del	-	1	8	EXO1	child	5_2491972_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
ae224db4-329f-11e6-91d0-016425c9da85	7_130602340_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	130602340	CA	C	360	PASS	MIR29A	Del	upstream	1	8	MSH6	child	7_130602340_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
ae28ff42-3259-11e6-8cd9-139b7872c165	3_168097138_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	168097138	CT	C	420	PASS	-	Del	-	1	5	MSH6	child	3_168097138_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
ae2a9b4c-3284-11e6-a8af-066ea2c71c31	15_39339086_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	39339086	TA	T	420	PASS	-	Del	-	1	7	MSH6	child	15_39339086_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
ae30792c-328e-11e6-9230-fb250e01a414	3_50166713_ACA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	50166713	AC	A	600	PASS	-	Del	-	1	5	MSH6	child	3_50166713_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
ae31f740-3282-11e6-a072-0fc02daed38e	7_5001962_TAT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	7	5001962	TA	T	300	PASS	MMD2	Del	upstream	1	5	POLB	child	7_5001962_TAT_POLB	1	1	1	A	4	A	Repeat-mediated
ae32864c-329b-11e6-ae71-0c5325c9da85	1_98292389_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	98292389	CT	C	600	PASS	DPYD	Del	intronic	1	8	MSH6	child	1_98292389_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
ae369fc6-3272-11e6-9e18-3a69671699ea	10_21471238_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	21471238	CA	C	780	PASS	-	Del	-	1	8	MSH6	child	10_21471238_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
ae3acd86-3253-11e6-b4d0-327a7872c165	11_10357612_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	10357612	CT	C	360	PASS	AMPD3	Del	intronic	1	9	MSH6	child	11_10357612_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
ae4a229c-3288-11e6-b9eb-c78fa2c71c31	6_79496320_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	79496320	TA	T	508	PASS	-	Del	-	1	1	MSH6	child	6_79496320_TAT_MSH6	1	1	0	-	0	A	None
ae4eb0ca-3321-11e6-b981-016519a91649	2_127376367_GAG	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	2	127376367	GA	G	420	PASS	-	Del	-	1	9	CHK2	child	2_127376367_GAG_CHK2	1	1	1	A	8	A	Repeat-mediated
ae50d220-3276-11e6-998e-ba48fa52e078	8_69153482_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	69153482	GA	G	420	PASS	PREX2	Del	downstream	1	7	MSH6	child	8_69153482_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
ae529888-3291-11e6-b77d-2eef6f39e758	6_79699199_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	79699199	GA	G	600	PASS	PHIP	Del	intronic	1	7	MSH6	child	6_79699199_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
ae699986-3276-11e6-a2b7-2d8b671699ea	21_18888137_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	21	18888137	CA	C	420	PASS	CXADR	Del	intronic	1	9	MSH6	child	21_18888137_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
ae71cae8-328a-11e6-8459-82090e01a414	12_83627967_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	83627967	GT	G	300	PASS	-	Del	-	1	7	MSH6	child	12_83627967_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
ae73f582-3291-11e6-b78c-8cb4e7d0bdd7	6_45825586_ACACAATTAATCTA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	6	45825586	ACACAATTAATCT	A	300	PASS	-	Del	-	12	1	FANCC	child	6_45825586_ACACAATTAATCTA_FANCC	12	>=10	5	CACAA	0	-	Microhomology-mediated
ae75670c-328a-11e6-a380-15ec54de4fc4	1_158544550_CTC	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	1	158544550	CT	C	360	PASS	OR10X1	Del	downstream	1	9	CHK2	child	1_158544550_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
ae7946ea-3273-11e6-aa3b-ca60a178171f	13_105720993_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	105720993	AT	A	540	PASS	-	Del	-	1	8	MSH6	child	13_105720993_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ae8aeb22-3285-11e6-90da-f3a469062303	6_111609603_ACTA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	6	111609603	ACT	A	540	PASS	-	Del	-	2	2	FANCC	child	6_111609603_ACTA_FANCC	2	2	2	CT	1	CT	Repeat-mediated
ae94fc60-3286-11e6-a0a8-096ea2c71c31	11_82166264_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	82166264	T	TA	660	PASS	RP11-179A16.1	Ins	intronic	1	7	MSH6	child	11_82166264_TTA_MSH6	1	1	-	-	-	-	Ins
ae96853a-3272-11e6-83ef-69fb06e9a829	18_20448471_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	20448471	TA	T	600	PASS	RBBP8	Del	intronic	1	8	MSH6	child	18_20448471_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
aea69dd0-3290-11e6-9d24-ade56f39e758	7_137465693_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	137465693	TA	T	420	PASS	DGKI	Del	intronic	1	5	MSH6	child	7_137465693_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
aecb87ae-3253-11e6-9f9d-2c7a7872c165	12_9941575_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	9941575	CA	C	480	PASS	-	Del	-	1	7	MSH6	child	12_9941575_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
aed379f4-328b-11e6-8770-3e160e01a414	9_3105681_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	3105681	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	9_3105681_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
aed8ce90-3259-11e6-8340-da9012ae24cf	6_80049477_ATCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	80049477	ATC	A	540	PASS	-	Del	-	2	4	MSH6	child	6_80049477_ATCA_MSH6	2	2	2	TC	3	TC	Repeat-mediated
aedc1608-3291-11e6-b3a9-d5afe7d0bdd7	4_148493057_ATA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	4	148493057	AT	A	420	PASS	RP11-752L20.5	Del	intronic	1	6	FANCC	child	4_148493057_ATA_FANCC	1	1	1	T	5	T	Repeat-mediated
aee6036c-3272-11e6-abaf-4642cab49462	6_75235856_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	75235856	AT	A	300	PASS	RP11-554D15.1	Del	intronic	1	7	MSH6	child	6_75235856_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
aeec3980-3286-11e6-afcf-0311bce6aa09	9_106494671_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	106494671	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	9_106494671_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
aef28534-3276-11e6-998e-ba48fa52e078	8_69495983_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	69495983	CT	C	600	PASS	C8orf34	Del	intronic	1	8	MSH6	child	8_69495983_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
aef7eef6-326d-11e6-b9f4-5d1d694da5d2	14_91810085_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	91810085	TA	T	480	PASS	CCDC88C	Del	intronic	1	9	MSH6	child	14_91810085_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
aefc4ace-3285-11e6-ae72-519738e8a824	5_163702560_GATTGGCAAACAGTGAAATTGAGGTGATTTTTATGCTTGGGATGACTTAAAAATCATTATACTAGAGGAGTAGTTTAGTATTGCCTGGCTTGTGATAAATGTTACCATGCAATAAAAATCCTGAAATCTCTGTATTATCCTTAGCTTTATGGGTTCAATGCATATGGAAATGCAAATACTCAAATTACAAGCAATAGAACTTCAAAGCTCAG	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	5	163702560	GATTGGCAAACAGTGAAATTGAGGTGATTTTTATGCTTGGGATGACTTAAAAATCATTATACTAGAGGAGTAGTTTAGTATTGCCTGGCTTGTGATAAATGTTACCATGCAATAAAAATCCTGAAATCTCTGTATTATCCTTAGCTTTATGGGTTCAATGCATATGGAAATGCAAATACTCAAATTACAAGCAATAGAACTTCAAAGCTCA	G	720	PASS	-	Del	-	210	1	POLE	parent	5_163702560_GATTGGCAAACAGTGAAATTGAGGTGATTTTTATGCTTGGGATGACTTAAAAATCATTATACTAGAGGAGTAGTTTAGTATTGCCTGGCTTGTGATAAATGTTACCATGCAATAAAAATCCTGAAATCTCTGTATTATCCTTAGCTTTATGGGTTCAATGCATATGGAAATGCAAATACTCAAATTACAAGCAATAGAACTTCAAAGCTCAG_POLE	210	>=10	4	ATTG	0	-	Microhomology-mediated
aefd43ae-327e-11e6-8cd6-250199816cf3	5_165388539_CATC	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	5	165388539	CAT	C	360	PASS	-	Del	-	2	2	POLM	child	5_165388539_CATC_POLM	2	2	2	AT	1	AT	Repeat-mediated
aefea314-3258-11e6-acc5-308412ae24cf	5_168282841_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	168282841	AT	A	360	PASS	SLIT3	Del	intronic	1	6	MSH6	child	5_168282841_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
af02e69e-3254-11e6-aa0b-72f912ae24cf	8_2098936_ATA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	8	2098936	AT	A	660	PASS	-	Del	-	1	8	POLB	child	8_2098936_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
af083c74-328c-11e6-b4fe-93c36f39e758	12_68345408_TCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	68345408	TC	T	480	PASS	GS1-410F4.4	Del	intronic	1	1	MSH6	child	12_68345408_TCT_MSH6	1	1	0	-	0	C	None
af0abfd6-3272-11e6-9e18-3a69671699ea	10_21618795_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	21618795	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	10_21618795_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
af0ad050-3297-11e6-854b-9fa830158702	20_58071569_GCAG	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	20	58071569	GCA	G	300	PASS	-	Del	-	2	4	NUDT1	child	20_58071569_GCAG_NUDT1	2	2	2	CA	3	CA	Repeat-mediated
af125018-3284-11e6-ba80-c6262eaed38e	2_137691204_CCT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	2	137691204	C	CT	300	PASS	THSD7B	Ins	intronic	1	7	POLB	child	2_137691204_CCT_POLB	1	1	-	-	-	-	Ins
af150b56-329c-11e6-a5cf-e5abcc638e3d	9_31381801_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	31381801	GA	G	420	PASS	RP11-271O3.1	Del	upstream	1	7	MSH6	child	9_31381801_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
af16ec1c-328f-11e6-b97d-a8b305ad5bc4	20_6010800_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	6010800	AT	A	660	PASS	CRLS1	Del	intronic	1	9	MSH6	child	20_6010800_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
af1d0fd2-328c-11e6-a2cb-f3ac12ae24cf	5_77720543_CAC	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	5	77720543	CA	C	300	PASS	SCAMP1	Del	intronic	1	9	CHK2	child	5_77720543_CAC_CHK2	1	1	1	A	8	A	Repeat-mediated
af3e5bcc-328e-11e6-919e-92c36f39e758	2_213699704_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	213699704	GT	G	420	PASS	-	Del	-	1	8	MSH6	child	2_213699704_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
af3ec6e8-3257-11e6-885f-d1947872c165	4_110188945_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	110188945	TA	T	360	PASS	COL25A1	Del	intronic	1	9	MSH6	child	4_110188945_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
af456be2-328e-11e6-919e-92c36f39e758	2_213701359_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	213701359	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	2_213701359_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
af473182-3272-11e6-b8ae-92c57872c165	14_38659832_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	38659832	CA	C	442	PASS	CTD-2142D14.1	Del	upstream	1	9	MSH6	child	14_38659832_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
af47c872-3290-11e6-9230-fb250e01a414	3_182961917_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	182961917	CA	C	360	PASS	MCF2L2	Del	intronic	1	9	MSH6	child	3_182961917_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
af48da66-334c-11e6-911d-cdceb0dab373	9_113734923_GGATACTTG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	9	113734923	GGATACTT	G	300	PASS	LPAR1	Del	intronic	7	1	FANCC	child	9_113734923_GGATACTTG_FANCC	7	7	2	GA	0	-	Microhomology-mediated
af4a1efe-3274-11e6-9b52-2fdc6de4ab00	12_92822581_GCG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	12	92822581	GC	G	600	PASS	CLLU1OS	Del	upstream	1	2	EXO1	child	12_92822581_GCG_EXO1	1	1	1	C	1	C	Repeat-mediated
af4be6b6-3257-11e6-885f-d1947872c165	4_110225270_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	110225270	TA	T	600	PASS	COL25A1	Del	upstream	1	8	MSH6	child	4_110225270_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
af559320-3287-11e6-a5b3-3f1ebce6aa09	7_115120068_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	115120068	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	7_115120068_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
af56be84-3274-11e6-85c1-8b573cfdbd24	13_115005106_CAAC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	13	115005106	CAA	C	420	PASS	CDC16	Del	intronic	2	6	CHK2	child	13_115005106_CAAC_CHK2	2	2	2	AA	4	A	Repeat-mediated
af59fa24-3272-11e6-bfb2-2749c225ee11	12_22525012_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	22525012	TA	T	420	PASS	-	Del	-	1	7	MSH6	child	12_22525012_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
af5aea22-326f-11e6-be3d-925130158702	1_34957936_GTG	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	1	34957936	GT	G	480	PASS	-	Del	-	1	6	POLB	child	1_34957936_GTG_POLB	1	1	1	T	5	T	Repeat-mediated
af5c6cfa-3272-11e6-be56-9cdfd7fd0a58	4_73952091_ATA	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	4	73952091	AT	A	720	PASS	ANKRD17	Del	intronic	1	9	NUDT1	child	4_73952091_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
af6805f4-3279-11e6-83cd-a472a178171f	4_134712377_GGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	134712377	G	GT	540	PASS	-	Ins	-	1	7	MSH6	child	4_134712377_GGT_MSH6	1	1	-	-	-	-	Ins
af6af720-3272-11e6-8165-0dc17872c165	9_125115222_AGTTTAATGG	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	9	125115222	AGTTTA	ATGG	960	PASS	-	Complex	-	5	0	NEIL1	child	9_125115222_AGTTTAATGG_NEIL1	2	2	-	-	-	-	Complex
af6be2a6-3287-11e6-b686-d35a51c54cdd	4_53607584_GTG	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	4	53607584	GT	G	600	PASS	ERVMER34-1	Del	downstream	1	9	EXO1	child	4_53607584_GTG_EXO1	1	1	1	T	8	T	Repeat-mediated
af6dd820-328e-11e6-9432-c0e56f39e758	5_9327599_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	9327599	TA	T	540	PASS	SEMA5A	Del	intronic	1	4	MSH6	child	5_9327599_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
af72c582-328f-11e6-b97d-a8b305ad5bc4	20_6178200_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	6178200	GT	G	480	PASS	-	Del	-	1	9	MSH6	child	20_6178200_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
af72e8c4-3293-11e6-b963-13387a852e0e	3_38903619_GAG	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	3	38903619	GA	G	420	PASS	SCN11A	Del	intronic	1	8	CHK2	child	3_38903619_GAG_CHK2	1	1	1	A	7	A	Repeat-mediated
af79ae72-328c-11e6-bd84-429305ad5bc4	1_157647518_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	157647518	TA	T	300	PASS	FCRL3	Del	3prime_UTR_variant	1	8	MSH6	child	1_157647518_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
af7ce2e6-3281-11e6-86cf-8f288e4678dd	10_103422432_CTC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	10	103422432	CT	C	360	PASS	FBXW4	Del	intronic	1	8	FANCC	child	10_103422432_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
af7d635e-326f-11e6-bfba-13bf4a47a305	9_123386823_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	123386823	GA	G	300	PASS	MEGF9	Del	intronic	1	9	MSH6	child	9_123386823_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
af806baa-3254-11e6-8ebc-3ef212ae24cf	15_66873607_CCAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	66873607	CCA	C	420	PASS	-	Del	-	2	2	MSH6	child	15_66873607_CCAC_MSH6	2	2	2	CA	1	CA	Repeat-mediated
af81be70-3253-11e6-bf41-357a7872c165	10_11689314_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	11689314	GA	G	360	PASS	-	Del	-	1	9	MSH6	child	10_11689314_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
af8710c4-3270-11e6-b5b8-e0c24a47a305	X_77890075_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	77890075	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	X_77890075_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
af8a0584-329a-11e6-aca6-b39fcc638e3d	2_61615111_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	61615111	TA	T	360	PASS	USP34	Del	intronic	1	8	MSH6	child	2_61615111_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
af8f6c34-3292-11e6-9401-04ed6f39e758	3_190846975_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	190846975	TA	T	600	PASS	-	Del	-	1	9	MSH6	child	3_190846975_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
af95a884-325a-11e6-885f-d1947872c165	4_127722871_AATG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	127722871	A	ATG	300	PASS	-	Ins	-	2	6	MSH6	child	4_127722871_AATG_MSH6	2	2	-	-	-	-	Ins
af96f138-3289-11e6-b093-c9c7b0dab373	2_199491687_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	199491687	T	TA	660	PASS	AC019330.1	Ins	intronic	1	7	MSH6	child	2_199491687_TTA_MSH6	1	1	-	-	-	-	Ins
af9ea17c-3292-11e6-8cd8-07045e753391	2_137691204_CCT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	2	137691204	C	CT	420	PASS	THSD7B	Ins	intronic	1	7	POLB	child	2_137691204_CCT_POLB	1	1	-	-	-	-	Ins
afa535b2-3258-11e6-a39a-dc8512ae24cf	8_61387758_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	61387758	GT	G	600	PASS	RP11-163N6.2	Del	intronic	1	8	MSH6	child	8_61387758_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
afa6c842-3284-11e6-870e-6af1bbe6aa09	19_17372976_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	17372976	AT	A	840	PASS	USHBP1	Del	intronic	1	9	MSH6	child	19_17372976_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
afaba686-328f-11e6-aaa2-31b34430f757	4_47838500_CAGC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	4	47838500	CAG	C	660	PASS	CORIN	Del	intronic	2	2	POLE	child	4_47838500_CAGC_POLE	2	2	2	AG	1	AG	Repeat-mediated
afabdfa0-328c-11e6-aa75-90c36f39e758	13_94528531_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	94528531	CA	C	480	PASS	GPC6	Del	intronic	1	6	MSH6	child	13_94528531_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
afaea27e-328e-11e6-8f31-bfe16f39e758	9_71653709_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	71653709	CA	C	840	PASS	FXN	Del	intronic	1	8	MSH6	child	9_71653709_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
afaef59e-32a2-11e6-bc66-17b4cc638e3d	8_87510017_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	87510017	C	CT	720	PASS	CPNE3	Ins	intronic	1	0	MSH6	child	8_87510017_CCT_MSH6	1	1	-	-	-	-	Ins
afb3900a-32a1-11e6-a04f-c66a25c9da85	6_155052502_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	155052502	CT	C	660	PASS	SCAF8	Del	upstream	1	8	MSH6	child	6_155052502_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
afc18a50-3271-11e6-be0b-bed2cde16804	14_66769379_TAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	14	66769379	TA	T	294	PASS	RP11-72M17.1	Del	intronic	1	9	MSH6	parent	14_66769379_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
afc90260-326e-11e6-9003-ae204b47a305	19_41982741_TTTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	41982741	T	TTA	300	PASS	AC011526.1	Ins	intronic	2	1	MSH6	child	19_41982741_TTTA_MSH6	2	2	-	-	-	-	Ins
afd0bb5a-3290-11e6-9401-04ed6f39e758	3_48358985_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	48358985	TA	T	360	PASS	SPINK8	Del	intronic	1	9	MSH6	child	3_48358985_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
afd735a8-3271-11e6-b923-6726694da5d2	5_162820323_AACA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	162820323	AAC	A	360	PASS	-	Del	-	2	7	MSH6	child	5_162820323_AACA_MSH6	2	2	2	AC	6	AC	Repeat-mediated
afddb5b6-328c-11e6-8459-82090e01a414	12_58389497_CCAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	58389497	C	CAT	360	PASS	-	Ins	-	2	4	MSH6	child	12_58389497_CCAT_MSH6	2	2	-	-	-	-	Ins
afddf81c-3270-11e6-b89d-b2d6b0dab373	4_79216161_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	79216161	CT	C	480	PASS	FRAS1	Del	intronic	1	9	MSH6	child	4_79216161_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
afe0171c-3286-11e6-9f05-70ef1da8ec0e	10_122928642_AAAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	10	122928642	A	AAT	300	PASS	-	Ins	-	2	0	EXO1	child	10_122928642_AAAT_EXO1	2	2	-	-	-	-	Ins
afe20d76-3275-11e6-9074-69cc19a91649	X_53651913_GAG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	X	53651913	GA	G	480	PASS	HUWE1	Del	intronic	1	7	EXO1	child	X_53651913_GAG_EXO1	1	1	1	A	6	A	Repeat-mediated
afeabe1a-329f-11e6-bc2c-2a5e25c9da85	4_177717828_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	177717828	AT	A	660	PASS	VEGFC	Del	upstream	1	7	MSH6	child	4_177717828_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
afeae78e-3270-11e6-9d19-c216987b3f23	21_31682270_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	21	31682270	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	21_31682270_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
aff0aa32-3290-11e6-9230-fb250e01a414	3_183062540_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	183062540	GA	G	300	PASS	MCF2L2	Del	intronic	1	8	MSH6	child	3_183062540_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
aff29428-3272-11e6-bfb2-2749c225ee11	12_22825947_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	22825947	CA	C	300	PASS	ETNK1	Del	intronic	1	8	MSH6	child	12_22825947_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
aff5aa4c-3271-11e6-9dfc-541498ba1142	8_23353984_AATGTGGGGA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	8	23353984	AATGTGGGG	A	540	PASS	CTC-756D1.3	Del	upstream	8	1	EXO1	parent	8_23353984_AATGTGGGGA_EXO1	8	8	1	A	0	-	Microhomology-mediated
aff5cd58-3279-11e6-9e0f-7959cab49462	7_122957634_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	122957634	C	CA	660	PASS	-	Ins	-	1	5	MSH6	child	7_122957634_CCA_MSH6	1	1	-	-	-	-	Ins
aff96cc8-3284-11e6-94be-6cfa4430f757	12_58491066_TAT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	12	58491066	TA	T	540	PASS	RP11-58A17.4	Del	downstream	1	3	EXO1	child	12_58491066_TAT_EXO1	1	1	1	A	2	A	Repeat-mediated
affa134e-3270-11e6-8141-e0f3eab8d062	16_4178739_AAT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	16	4178739	A	AT	540	PASS	-	Ins	-	1	5	NUDT1	child	16_4178739_AAT_NUDT1	1	1	-	-	-	-	Ins
affebc80-329f-11e6-91d0-016425c9da85	7_130902655_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	130902655	CA	C	780	PASS	-	Del	-	1	4	MSH6	child	7_130902655_CAC_MSH6	1	1	1	A	3	A	Repeat-mediated
b003a306-3274-11e6-b539-d702ebb8d062	7_149337745_TGGGTAG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	7	149337745	TGGG	TAG	285	PASS	-	Complex	-	3	0	NUDT1	child	7_149337745_TGGGTAG_NUDT1	1	1	-	-	-	-	Complex
b00bcd62-3290-11e6-9d97-efe56f39e758	4_139344131_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	139344131	AT	A	480	PASS	LINC00499	Del	intronic	1	9	MSH6	child	4_139344131_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b00e80ec-328c-11e6-8952-77c36f39e758	10_72183580_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	72183580	CA	C	360	PASS	EIF4EBP2	Del	3prime_UTR_variant	1	8	MSH6	child	10_72183580_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
b0145f74-325c-11e6-8340-da9012ae24cf	6_111875300_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	111875300	A	AT	660	PASS	TRAF3IP2	Ins	downstream	1	7	MSH6	child	6_111875300_AAT_MSH6	1	1	-	-	-	-	Ins
b014c5fc-3295-11e6-83fc-8f4c0d016689	4_45356024_AATAT	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	4	45356024	A	ATAT	360	PASS	-	Ins	-	3	0	NUDT1	child	4_45356024_AATAT_NUDT1	3	3	-	-	-	-	Ins
b016ac3c-3281-11e6-b735-71393dc9300a	10_8929422_GAG	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	10	8929422	GA	G	540	PASS	-	Del	-	1	7	NEIL1	parent	10_8929422_GAG_NEIL1	1	1	1	A	6	A	Repeat-mediated
b0194260-326f-11e6-8e5c-87d3d7fd0a58	1_40338567_AAAAGA	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	1	40338567	AAAAG	A	600	PASS	TRIT1	Del	intronic	4	3	POLB	child	1_40338567_AAAAGA_POLB	4	4	4	AAAG	2	AAAG	Repeat-mediated
b01c2fdc-3276-11e6-8629-39703cfdbd24	4_25683368_TGGAT	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	4	25683368	TGGA	T	480	PASS	SLC34A2	Del	downstream	3	2	CHK2	child	4_25683368_TGGAT_CHK2	3	3	3	GGA	1	GGA	Repeat-mediated
b020e9ea-328b-11e6-8256-94c36f39e758	17_7939219_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	7939219	GA	G	480	PASS	ALOX15B	Del	upstream	1	8	MSH6	child	17_7939219_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
b0267b30-3290-11e6-a039-080d9c6d3b88	7_84892459_GCTAG	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	7	84892459	GCTA	G	420	PASS	-	Del	-	3	2	POLB	child	7_84892459_GCTAG_POLB	3	3	3	CTA	1	CTA	Repeat-mediated
b03203ec-3326-11e6-9eb4-dd99cf737e61	8_111514712_CAC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	8	111514712	CA	C	480	PASS	-	Del	-	1	8	EXO1	child	8_111514712_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
b036480c-328c-11e6-8770-3e160e01a414	9_84299036_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	84299036	CA	C	360	PASS	TLE1	Del	intronic	1	8	MSH6	child	9_84299036_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
b03bdd1a-3252-11e6-8c4a-b6e612ae24cf	16_67866504_TAGT	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	16	67866504	TAG	T	840	PASS	TSNAXIP1	Del	downstream	2	2	POLB	child	16_67866504_TAGT_POLB	2	2	2	AG	1	AG	Repeat-mediated
b04c16c4-3277-11e6-81cf-37408a20d9eb	8_48740021_AAAAATA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	8	48740021	AAAAAT	A	296	PASS	PRKDC	Del	intronic	5	1	EXO1	child	8_48740021_AAAAATA_EXO1	5	5	2	AA	0	-	Microhomology-mediated
b04d8ae0-3290-11e6-b81f-4ee66f39e758	8_64628610_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	64628610	CT	C	660	PASS	RP11-579E24.2	Del	intronic	1	8	MSH6	child	8_64628610_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
b0503bc8-3272-11e6-aa3b-ca60a178171f	13_38412133_TTCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	38412133	TTC	T	720	PASS	TRPC4	Del	intronic	2	4	MSH6	child	13_38412133_TTCT_MSH6	2	2	2	TC	3	TC	Repeat-mediated
b059d9c6-3277-11e6-b0ed-7298a20b69d5	6_155715473_ATA	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	6	155715473	AT	A	360	PASS	NOX3	Del	downstream	1	8	NUDT1	child	6_155715473_ATA_NUDT1	1	1	1	T	7	T	Repeat-mediated
b05a5014-3294-11e6-a718-6f48a178171f	2_167728498_TAT	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	2	167728498	TA	T	360	PASS	-	Del	-	1	8	POLB	child	2_167728498_TAT_POLB	1	1	1	A	7	A	Repeat-mediated
b0648b9a-328c-11e6-b6a6-1f1e0e01a414	4_15348657_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	15348657	CA	C	300	PASS	C1QTNF7	Del	intronic	1	8	MSH6	child	4_15348657_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
b06a3468-326f-11e6-b89d-b2d6b0dab373	4_12958627_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	12958627	CT	C	360	PASS	-	Del	-	1	6	MSH6	child	4_12958627_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
b06ea30e-329c-11e6-ae71-0c5325c9da85	1_162504215_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	162504215	CA	C	540	PASS	UHMK1	Del	downstream	1	8	MSH6	child	1_162504215_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
b089a82c-3286-11e6-afcf-0311bce6aa09	9_107144725_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	107144725	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	9_107144725_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b08f3342-3285-11e6-a7ff-5779a178171f	10_2746305_ACACACAGTGAACTCATCCCTAAGGCTTCTGTAGACACAGTCTGCAGCTTATTGACTTGA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	10	2746305	ACACACAGTGAACTCATCCCTAAGGCTTCTGTAGACACAGTCTGCAGCTTATTGACTTG	A	360	PASS	-	Del	-	58	1	FANCC	child	10_2746305_ACACACAGTGAACTCATCCCTAAGGCTTCTGTAGACACAGTCTGCAGCTTATTGACTTGA_FANCC	58	>=10	2	CA	0	-	Microhomology-mediated
b090f528-329a-11e6-8d0f-075325c9da85	14_67946442_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	67946442	GA	G	720	PASS	TMEM229B	Del	intronic	1	9	MSH6	child	14_67946442_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
b093b4d6-3275-11e6-972b-b65bfc77b11e	1_184540272_CAC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	1	184540272	CA	C	480	PASS	C1orf21	Del	intronic	1	9	CHK2	child	1_184540272_CAC_CHK2	1	1	1	A	8	A	Repeat-mediated
b094d4d0-3273-11e6-972b-b65bfc77b11e	1_36128969_GAG	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	1	36128969	GA	G	840	PASS	-	Del	-	1	3	CHK2	child	1_36128969_GAG_CHK2	1	1	1	A	2	A	Repeat-mediated
b0962a28-3279-11e6-9e25-e58e2aaffa45	4_177286301_GGT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	4	177286301	G	GT	600	PASS	-	Ins	-	1	6	EXO1	child	4_177286301_GGT_EXO1	1	1	-	-	-	-	Ins
b096711a-326d-11e6-92dd-fda8977b3f23	10_83547361_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	83547361	TA	T	420	PASS	-	Del	-	1	4	MSH6	child	10_83547361_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
b096939e-3285-11e6-99f7-076ea2c71c31	12_111016788_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	111016788	TA	T	480	PASS	PPTC7	Del	intronic	1	7	MSH6	child	12_111016788_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
b096d236-3259-11e6-a39a-dc8512ae24cf	8_138199037_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	138199037	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	8_138199037_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
b0aa0154-326c-11e6-b9f4-5d1d694da5d2	14_25658845_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	25658845	AT	A	284	PASS	-	Del	-	1	5	MSH6	child	14_25658845_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
b0b3fc32-3289-11e6-a7cf-80090e01a414	15_38728597_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	38728597	AT	A	960	PASS	-	Del	-	1	8	MSH6	child	15_38728597_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
b0c7699e-3283-11e6-8a7a-74ed1f4bbf9c	7_82580100_GAGAG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	7	82580100	GAGA	G	360	PASS	PCLO	Del	inframe	3	1	EXO1	child	7_82580100_GAGAG_EXO1	3	3	2	AG	0	-	Microhomology-mediated
b0d79bee-326e-11e6-9f48-94df41c4520d	12_20204550_GGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	20204550	G	GA	480	PASS	RP11-664H17.1	Ins	intronic	1	8	MSH6	child	12_20204550_GGA_MSH6	1	1	-	-	-	-	Ins
b0dbdbf6-326d-11e6-92dd-fda8977b3f23	10_83601815_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	83601815	GA	G	540	PASS	-	Del	-	1	6	MSH6	child	10_83601815_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
b0deb7c2-3290-11e6-b81f-4ee66f39e758	8_65002358_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	65002358	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	8_65002358_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b0e3a58e-329f-11e6-ae71-0c5325c9da85	1_75225988_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	75225988	C	CA	420	PASS	TYW3	Ins	intronic	1	7	MSH6	child	1_75225988_CCA_MSH6	1	1	-	-	-	-	Ins
b0e69a54-3282-11e6-b652-59be9b6d3b88	1_216571634_GAG	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	1	216571634	GA	G	420	PASS	USH2A	Del	intronic	1	8	POLE	child	1_216571634_GAG_POLE	1	1	1	A	7	A	Repeat-mediated
b0eff1b8-3277-11e6-9074-69cc19a91649	X_38041188_GGA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	X	38041188	G	GA	300	PASS	SRPX	Ins	intronic	1	9	EXO1	child	X_38041188_GGA_EXO1	1	1	-	-	-	-	Ins
b0f01762-328e-11e6-8e48-791e0e01a414	8_72179793_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	72179793	GT	G	540	PASS	EYA1	Del	intronic	1	8	MSH6	child	8_72179793_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
b0fa55cc-328b-11e6-b4fe-93c36f39e758	12_9969488_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	9969488	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	12_9969488_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b0fe4d42-3283-11e6-a853-ed929cdf095d	9_78352357_CTC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	9	78352357	CT	C	480	PASS	-	Del	-	1	9	POLE	child	9_78352357_CTC_POLE	1	1	1	T	8	T	Repeat-mediated
b1011c56-328e-11e6-92cf-bf2a0e01a414	6_2652505_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	2652505	CA	C	840	PASS	-	Del	-	1	9	MSH6	child	6_2652505_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
b105e604-3320-11e6-89bb-56bf70cce0de	13_20299137_CAAAAATAAAAATC	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	13	20299137	CAAAAATAAAAAT	C	360	PASS	PSPC1	Del	intronic	12	2	POLE	child	13_20299137_CAAAAATAAAAATC_POLE	12	>=10	12	AAAAATAAAAAT	5	A	Microhomology-mediated
b111dd1a-3294-11e6-9ac5-d165046f68b1	7_22626916_CAC	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	7	22626916	CA	C	360	PASS	-	Del	-	1	8	NEIL1	child	7_22626916_CAC_NEIL1	1	1	1	A	7	A	Repeat-mediated
b12263ec-3280-11e6-ae55-ef338e4678dd	14_31808324_GAG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	14	31808324	GA	G	320	PASS	HEATR5A	Del	intronic	1	9	EXO1	child	14_31808324_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
b12a765c-328c-11e6-8770-3e160e01a414	9_84434079_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	84434079	GA	G	360	PASS	-	Del	-	1	9	MSH6	child	9_84434079_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
b12bb5a4-329a-11e6-bda6-065325c9da85	13_71864779_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	71864779	AT	A	840	PASS	-	Del	-	1	5	MSH6	child	13_71864779_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
b12cacac-329f-11e6-b696-dd6225c9da85	5_171506874_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	171506874	AT	A	660	PASS	STK10	Del	intronic	1	8	MSH6	child	5_171506874_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
b132feec-3289-11e6-a80b-87090e01a414	11_25584473_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	25584473	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	11_25584473_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b133b91e-3288-11e6-8358-6179a178171f	17_77439468_CCT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	17	77439468	C	CT	420	PASS	RBFOX3	Ins	intronic	1	9	FANCC	child	17_77439468_CCT_FANCC	1	1	-	-	-	-	Ins
b13acd84-329d-11e6-91d0-016425c9da85	7_13655428_TCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	13655428	TC	T	420	PASS	AC011288.2	Del	intronic	1	2	MSH6	child	7_13655428_TCT_MSH6	1	1	1	C	1	C	Repeat-mediated
b13c2dfe-3271-11e6-8f10-bfc27872c165	4_22288008_CAC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	4	22288008	CA	C	780	PASS	-	Del	-	1	9	EXO1	parent	4_22288008_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
b13dafe8-328b-11e6-88c1-95c36f39e758	14_28157937_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	28157937	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	14_28157937_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
b143f1de-3275-11e6-bfb2-2749c225ee11	12_87778811_GGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	87778811	G	GT	600	PASS	-	Ins	-	1	7	MSH6	child	12_87778811_GGT_MSH6	1	1	-	-	-	-	Ins
b1499202-328d-11e6-919e-92c36f39e758	2_150073211_TCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	150073211	TC	T	480	PASS	LYPD6B	Del	downstream	1	1	MSH6	child	2_150073211_TCT_MSH6	1	1	0	-	0	C	None
b154ffb0-3284-11e6-a0a8-096ea2c71c31	11_29905802_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	29905802	CA	C	480	PASS	CTD-3138F19.1	Del	downstream	1	7	MSH6	child	11_29905802_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
b1567936-3256-11e6-a304-347a7872c165	1_218828828_ACA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	218828828	AC	A	660	PASS	-	Del	-	1	5	MSH6	child	1_218828828_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
b15db0cc-3290-11e6-9432-c0e56f39e758	5_148872208_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	148872208	TA	T	600	PASS	CSNK1A1	Del	3prime_UTR_variant	1	4	MSH6	child	5_148872208_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
b1694a2e-3270-11e6-b5b8-e0c24a47a305	X_78808680_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	78808680	AT	A	540	PASS	-	Del	-	1	7	MSH6	child	X_78808680_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
b16a1b28-328b-11e6-bd84-429305ad5bc4	1_22232234_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	22232234	TA	T	600	PASS	HSPG2	Del	intronic	1	7	MSH6	child	1_22232234_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
b1730518-326c-11e6-b306-b5204b47a305	2_9757390_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	9757390	CA	C	900	PASS	YWHAQ	Del	intronic	1	7	MSH6	child	2_9757390_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
b174ef0c-3345-11e6-994a-5ae3e9d19ece	11_22875061_GAG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	11	22875061	GA	G	360	PASS	CCDC179	Del	intronic	1	7	FANCC	child	11_22875061_GAG_FANCC	1	1	1	A	6	A	Repeat-mediated
b17574c8-3295-11e6-b7af-6ffe6ca5563b	5_162590665_TAT	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	5	162590665	TA	T	540	PASS	-	Del	-	1	6	POLB	child	5_162590665_TAT_POLB	1	1	1	A	5	A	Repeat-mediated
b1793880-3284-11e6-8ebc-68f1bbe6aa09	18_37977414_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	37977414	GA	G	720	PASS	-	Del	-	1	9	MSH6	child	18_37977414_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
b180ccd8-3281-11e6-8049-10fc028949d4	1_150983801_TAT	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	1	150983801	TA	T	540	PASS	PRUNE	Del	intronic	1	9	POLM	child	1_150983801_TAT_POLM	1	1	1	A	8	A	Repeat-mediated
b18a8b10-3321-11e6-bda0-2f6519a91649	12_104627729_ATTTAGTA	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	12	104627729	ATTTAGT	A	820	PASS	TXNRD1	Del	intronic	6	1	CHK2	child	12_104627729_ATTTAGTA_CHK2	6	6	1	T	0	-	Microhomology-mediated
b18b01ba-328d-11e6-b9c4-751d0e01a414	5_95300942_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	95300942	GT	G	660	PASS	ELL2	Del	upstream	1	9	MSH6	child	5_95300942_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
b18cdff2-3293-11e6-a2c5-65337a852e0e	5_106944712_TTCT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	5	106944712	TTC	T	420	PASS	EFNA5	Del	intronic	2	1	CHK2	child	5_106944712_TTCT_CHK2	2	2	1	T	0	-	Microhomology-mediated
b18f9358-329f-11e6-aea7-956725c9da85	3_76129516_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	76129516	GT	G	720	PASS	ROBO2	Del	intronic	1	7	MSH6	child	3_76129516_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
b199d64a-3274-11e6-a862-bc9becf1e924	1_154697649_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	154697649	AT	A	420	PASS	KCNN3	Del	intronic	1	8	MSH6	child	1_154697649_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
b1a7bfb4-3286-11e6-a284-4b89a2c71c31	4_13048218_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	13048218	TA	T	360	PASS	RNU6-962P	Del	upstream	1	8	MSH6	child	4_13048218_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
b1a8f524-3285-11e6-a7ff-5779a178171f	10_3013906_AGA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	10	3013906	AG	A	540	PASS	-	Del	-	1	1	FANCC	child	10_3013906_AGA_FANCC	1	1	0	-	0	G	None
b1a9b6b0-3273-11e6-b923-6726694da5d2	5_132188450_CCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	132188450	C	CT	300	PASS	RNA5SP192	Ins	downstream	1	8	MSH6	child	5_132188450_CCT_MSH6	1	1	-	-	-	-	Ins
b1b2339c-3284-11e6-847a-5cef1da8ec0e	11_74459985_TCGGCGGGGCT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	11	74459985	TCGGCGGGGC	T	360	PASS	RNF169	Del	inframe	9	2	EXO1	child	11_74459985_TCGGCGGGGCT_EXO1	9	9	9	CGGCGGGGC	1	CGGCGGGGC	Repeat-mediated
b1b7048a-331f-11e6-b44e-ec3a66a58581	18_11142233_GAG	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	18	11142233	GA	G	1020	PASS	-	Del	-	1	6	CHK2	parent	18_11142233_GAG_CHK2	1	1	1	A	5	A	Repeat-mediated
b1c51b0a-329e-11e6-bc2c-2a5e25c9da85	4_117789972_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	117789972	GT	G	420	PASS	-	Del	-	1	5	MSH6	child	4_117789972_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
b1c84788-32a0-11e6-bc66-17b4cc638e3d	8_126913121_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	126913121	GT	G	420	PASS	RNU6-442P	Del	upstream	1	7	MSH6	child	8_126913121_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
b1cb0e88-3281-11e6-9d9d-e3b4e7d0bdd7	2_117954129_ATA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	2	117954129	AT	A	420	PASS	-	Del	-	1	9	FANCC	child	2_117954129_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
b1cbab9a-328b-11e6-919e-92c36f39e758	2_13995179_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	13995179	AT	A	540	PASS	LINC00276	Del	intronic	1	8	MSH6	child	2_13995179_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
b1cc24ac-328c-11e6-bd84-429305ad5bc4	1_159549312_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	159549312	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	1_159549312_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b1d067d4-328b-11e6-b4fe-93c36f39e758	12_10214150_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	10214150	CA	C	420	PASS	CLEC9A	Del	intronic	1	9	MSH6	child	12_10214150_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
b1d9938c-328f-11e6-bb1e-70e16f39e758	X_109045643_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	109045643	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	X_109045643_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
b1ec4d90-329b-11e6-9048-b49fcc638e3d	17_80921723_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	80921723	TA	T	600	PASS	B3GNTL1	Del	intronic	1	9	MSH6	child	17_80921723_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b1ed577a-32a1-11e6-94ca-0aaecc638e3d	X_146071235_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	146071235	G	GA	600	PASS	-	Ins	-	1	8	MSH6	child	X_146071235_GGA_MSH6	1	1	-	-	-	-	Ins
b1f6c906-329f-11e6-aea7-956725c9da85	3_76230943_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	76230943	TA	T	540	PASS	ROBO2	Del	intronic	1	9	MSH6	child	3_76230943_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b203d452-3286-11e6-8b67-086ea2c71c31	1_205605316_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	205605316	AT	A	420	PASS	ELK4	Del	upstream	1	9	MSH6	child	1_205605316_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b20e3b26-3287-11e6-a284-4b89a2c71c31	4_106495548_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	106495548	CA	C	420	PASS	ARHGEF38	Del	intronic	1	9	MSH6	child	4_106495548_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
b20fb302-3287-11e6-b2c0-5aa538e8a824	19_33653101_GTG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	19	33653101	GT	G	480	PASS	WDR88	Del	intronic	1	8	NUDT1	parent	19_33653101_GTG_NUDT1	1	1	1	T	7	T	Repeat-mediated
b210702c-3254-11e6-bf41-357a7872c165	10_77414674_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	77414674	GA	G	360	PASS	-	Del	-	1	7	MSH6	child	10_77414674_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
b210974a-329b-11e6-aca6-b39fcc638e3d	2_126594634_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	126594634	GT	G	360	PASS	-	Del	-	1	4	MSH6	child	2_126594634_GTG_MSH6	1	1	1	T	3	T	Repeat-mediated
b2110314-3292-11e6-b014-6aecb41afd22	2_22352538_TAT	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	2	22352538	TA	T	360	PASS	AC068490.2	Del	intronic	1	7	NEIL1	child	2_22352538_TAT_NEIL1	1	1	1	A	6	A	Repeat-mediated
b2143bac-3278-11e6-92d2-c259c225ee11	3_174198252_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	174198252	GT	G	300	PASS	-	Del	-	1	7	MSH6	child	3_174198252_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
b2144d0e-3278-11e6-9972-dabcecf1e924	3_102164665_ATA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	3	102164665	AT	A	540	PASS	ZPLD1	Del	intronic	1	5	NEIL1	child	3_102164665_ATA_NEIL1	1	1	1	T	4	T	Repeat-mediated
b214e38c-328b-11e6-bdca-61cc977b3f23	10_20913393_TAT	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	10	20913393	TA	T	540	PASS	-	Del	-	1	9	NEIL1	child	10_20913393_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
b21edab4-32a3-11e6-a04f-c66a25c9da85	6_103402421_CCTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	103402421	C	CTG	480	PASS	-	Ins	-	2	7	MSH6	child	6_103402421_CCTG_MSH6	2	2	-	-	-	-	Ins
b21f9458-3277-11e6-9e0f-7959cab49462	7_148475395_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	148475395	CT	C	600	PASS	CUL1	Del	intronic	1	7	MSH6	child	7_148475395_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
b224ab8a-3283-11e6-8a7a-74ed1f4bbf9c	7_83058062_ATA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	7	83058062	AT	A	720	PASS	SEMA3E	Del	intronic	1	7	EXO1	child	7_83058062_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
b22529d6-328b-11e6-919e-92c36f39e758	2_14092959_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	14092959	GA	G	257	PASS	LINC00276	Del	intronic	1	8	MSH6	child	2_14092959_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
b22ef1cc-3278-11e6-a391-f6d67d6a9fc7	6_80947599_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	80947599	TA	T	840	PASS	BCKDHB	Del	intronic	1	8	MSH6	child	6_80947599_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
b230b6c6-3258-11e6-acc5-308412ae24cf	5_169324198_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	169324198	CT	C	300	PASS	DOCK2	Del	intronic	1	9	MSH6	child	5_169324198_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b2351d08-3288-11e6-a8ac-a28ea2c71c31	3_103268831_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	103268831	GA	G	540	PASS	-	Del	-	1	7	MSH6	child	3_103268831_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
b23b32a4-3253-11e6-bf41-357a7872c165	10_12014380_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	12014380	CT	C	600	PASS	UPF2	Del	intronic	1	8	MSH6	child	10_12014380_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
b24b8a2a-3297-11e6-9985-7c540d016689	6_145162688_GGTGT	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	6	145162688	G	GTGT	420	PASS	UTRN	Ins	intronic	3	0	NUDT1	child	6_145162688_GGTGT_NUDT1	3	3	-	-	-	-	Ins
b26676dc-3274-11e6-a862-bc9becf1e924	1_154856307_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	154856307	AG	A	360	PASS	-	Del	-	1	7	MSH6	child	1_154856307_AGA_MSH6	1	1	1	G	6	G	Repeat-mediated
b26de88e-3271-11e6-8454-c65566a58581	13_85019163_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	13	85019163	AT	A	420	PASS	-	Del	-	1	9	FANCC	child	13_85019163_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
b26e3386-3274-11e6-ab69-1c1607e9a829	9_5300455_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	5300455	TA	T	540	PASS	RLN2	Del	intronic	1	9	MSH6	child	9_5300455_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b26eea5a-3293-11e6-9458-5f42ead19ece	2_159685837_CTGTTC	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	2	159685837	CTGTT	C	540	PASS	-	Del	-	4	1	NUDT1	child	2_159685837_CTGTTC_NUDT1	4	4	2	TG	0	-	Microhomology-mediated
b2766744-3275-11e6-a5f8-cc8730158702	20_23037331_CCA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	20	23037331	C	CA	420	PASS	-	Ins	-	1	9	POLB	child	20_23037331_CCA_POLB	1	1	-	-	-	-	Ins
b27c5ba8-326c-11e6-9fba-41ebd8b4fa2c	11_6949266_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	6949266	CT	C	480	PASS	ZNF215	Del	intronic	1	9	MSH6	child	11_6949266_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b281f076-3290-11e6-8d00-b1b0e7d0bdd7	5_44071928_ACTA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	5	44071928	ACT	A	300	PASS	-	Del	-	2	2	FANCC	child	5_44071928_ACTA_FANCC	2	2	2	CT	1	CT	Repeat-mediated
b2823f76-3255-11e6-89d3-d29498816cf3	2_231581877_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	231581877	AT	A	660	PASS	CAB39	Del	intronic	1	9	MSH6	child	2_231581877_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b2876c7c-3286-11e6-a284-4b89a2c71c31	4_13630992_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	13630992	CA	C	900	PASS	BOD1L1	Del	upstream	1	7	MSH6	child	4_13630992_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
b2898282-3286-11e6-a5b3-3f1ebce6aa09	7_23320126_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	23320126	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	7_23320126_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b291dae4-3322-11e6-917a-b666694da5d2	11_76045126_TCAAAT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	11	76045126	TCAAA	T	300	PASS	-	Del	-	4	2	EXO1	child	11_76045126_TCAAAT_EXO1	4	4	4	CAAA	1	CAAA	Repeat-mediated
b29bd6b4-3275-11e6-8fc6-c022c7271a47	4_134417368_TTATATATATATGTATAC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	4	134417368	T	TATATATATATGTATAC	300	PASS	-	Ins	-	16	1	POLB	child	4_134417368_TTATATATATATGTATAC_POLB	16	>=10	-	-	-	-	Ins
b29ccd6c-3293-11e6-b574-0154e7d0bdd7	20_510275_GAG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	20	510275	GA	G	720	PASS	CSNK2A1	Del	intronic	1	9	FANCC	child	20_510275_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
b2a18b62-328f-11e6-9230-fb250e01a414	3_119329925_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	119329925	TA	T	360	PASS	PLA1A	Del	intronic	1	7	MSH6	child	3_119329925_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
b2a3b8e2-3276-11e6-8c34-46e27872c165	5_89759915_TCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	89759915	TC	T	420	PASS	MBLAC2	Del	intronic	1	4	MSH6	child	5_89759915_TCT_MSH6	1	1	1	C	3	C	Repeat-mediated
b2a51e7c-3289-11e6-9c89-8d090e01a414	1_23010564_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	23010564	CA	C	360	PASS	-	Del	-	1	9	MSH6	child	1_23010564_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
b2a552e0-3273-11e6-b332-88ba7d6a9fc7	15_69820952_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	69820952	TA	T	360	PASS	RP11-279F6.1	Del	intronic	1	5	MSH6	child	15_69820952_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
b2a99cee-3271-11e6-ae57-cc5566a58581	18_77969935_TAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	18	77969935	TA	T	360	PASS	PARD6G	Del	intronic	1	9	FANCC	child	18_77969935_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
b2ab47b4-3254-11e6-b4d0-327a7872c165	11_76164603_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	76164603	GT	G	300	PASS	C11orf30	Del	intronic	1	9	MSH6	child	11_76164603_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
b2ae1860-3289-11e6-a100-84090e01a414	18_31086259_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	31086259	GA	G	420	PASS	-	Del	-	1	6	MSH6	child	18_31086259_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
b2b61e36-3287-11e6-b32c-fd87a2c71c31	5_161840911_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	161840911	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	5_161840911_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
b2c05548-3289-11e6-a100-84090e01a414	18_31156329_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	31156329	CT	C	300	PASS	ASXL3	Del	upstream	1	9	MSH6	child	18_31156329_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b2c0606e-3299-11e6-8de1-2d9afaf1a024	7_110045250_TCT	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	7	110045250	TC	T	600	PASS	-	Del	-	1	3	CHK2	child	7_110045250_TCT_CHK2	1	1	1	C	2	C	Repeat-mediated
b2c1e19a-3277-11e6-8c34-46e27872c165	5_165305067_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	165305067	GT	G	524	PASS	-	Del	-	1	9	MSH6	child	5_165305067_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
b2c3f9d2-328e-11e6-bc12-79ae12ae24cf	8_127919827_CAC	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	8	127919827	CA	C	300	PASS	PCAT1	Del	intronic	1	9	CHK2	child	8_127919827_CAC_CHK2	1	1	1	A	8	A	Repeat-mediated
b2d63f50-3286-11e6-8404-8e1fbce6aa09	8_17611025_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	17611025	AT	A	720	PASS	MTUS1	Del	intronic	1	9	MSH6	child	8_17611025_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b2d833c2-3287-11e6-afcf-0311bce6aa09	9_79181949_TTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	79181949	T	TC	300	PASS	-	Ins	-	1	1	MSH6	child	9_79181949_TTC_MSH6	1	1	-	-	-	-	Ins
b2dd79aa-327c-11e6-a25d-ed8590e2c2e6	13_66876593_ATCTA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	13	66876593	ATCT	A	600	PASS	PCDH9	Del	downstream	3	2	NUDT1	child	13_66876593_ATCTA_NUDT1	3	3	3	TCT	1	TCT	Repeat-mediated
b2e2b8fc-3254-11e6-b4d0-327a7872c165	11_76201277_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	76201277	TA	T	780	PASS	C11orf30	Del	intronic	1	9	MSH6	child	11_76201277_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b2e61c1c-3291-11e6-b01f-c8b64430f757	6_116716736_CTC	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	6	116716736	CT	C	600	PASS	DSE	Del	intronic	1	9	POLE	child	6_116716736_CTC_POLE	1	1	1	T	8	T	Repeat-mediated
b2efdbe8-328d-11e6-bfa2-581f0e01a414	7_64705189_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	64705189	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	7_64705189_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b2f7a060-3320-11e6-8317-80eabbe6aa09	12_77475250_ATA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	12	77475250	AT	A	480	PASS	-	Del	-	1	8	POLE	child	12_77475250_ATA_POLE	1	1	1	T	7	T	Repeat-mediated
b3053176-328a-11e6-b020-3791e7d0bdd7	11_26372006_CTC	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	11	26372006	CT	C	480	PASS	ANO3	Del	intronic	1	3	POLM	child	11_26372006_CTC_POLM	1	1	1	T	2	T	Repeat-mediated
b317c63c-3259-11e6-91d3-a68412ae24cf	7_80388247_GGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	80388247	G	GA	300	PASS	SEMA3C	Ins	intronic	1	5	MSH6	child	7_80388247_GGA_MSH6	1	1	-	-	-	-	Ins
b31a22ee-328e-11e6-b9c4-751d0e01a414	5_166817990_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	166817990	AT	A	300	PASS	TENM2	Del	intronic	1	8	MSH6	child	5_166817990_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
b31d91e2-3291-11e6-9401-04ed6f39e758	3_122158214_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	122158214	GT	G	480	PASS	KPNA1	Del	intronic	1	5	MSH6	child	3_122158214_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
b31f2870-3284-11e6-8b67-086ea2c71c31	1_24929861_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	24929861	TA	T	300	PASS	NCMAP	Del	intronic	1	9	MSH6	child	1_24929861_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b31f7d48-3275-11e6-972b-b65bfc77b11e	1_185216996_GTG	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	1	185216996	GT	G	540	PASS	SWT1	Del	intronic	1	9	CHK2	child	1_185216996_GTG_CHK2	1	1	1	T	8	T	Repeat-mediated
b326e702-3286-11e6-8358-6179a178171f	17_52182458_GAG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	17	52182458	GA	G	360	PASS	-	Del	-	1	7	FANCC	child	17_52182458_GAG_FANCC	1	1	1	A	6	A	Repeat-mediated
b32a9718-328a-11e6-9c89-8d090e01a414	1_78353313_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	78353313	AT	A	414	PASS	NEXN	Del	upstream	1	9	MSH6	child	1_78353313_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b32f69bc-328c-11e6-919e-92c36f39e758	2_79263145_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	79263145	TA	T	360	PASS	-	Del	-	1	6	MSH6	child	2_79263145_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
b32fb9d0-3278-11e6-b7b5-ce91a78019ab	5_157504315_CTC	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	5	157504315	CT	C	420	PASS	-	Del	-	1	9	NEIL1	child	5_157504315_CTC_NEIL1	1	1	1	T	8	T	Repeat-mediated
b3321898-327c-11e6-864f-47be4dc77248	17_40728037_TCAAT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	17	40728037	TCAA	T	420	PASS	FAM134C	Del	downstream	3	7	NUDT1	child	17_40728037_TCAAT_NUDT1	3	3	3	CAA	6	CAA	Repeat-mediated
b33f5f64-328e-11e6-9d97-efe56f39e758	4_5796987_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	5796987	AT	A	540	PASS	EVC	Del	intronic	1	6	MSH6	child	4_5796987_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
b3424cee-3287-11e6-b093-c9c7b0dab373	2_20698882_CCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	20698882	C	CT	600	PASS	AC012065.4	Ins	downstream	1	7	MSH6	child	2_20698882_CCT_MSH6	1	1	-	-	-	-	Ins
b3472072-329e-11e6-bc2c-2a5e25c9da85	4_118212295_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	118212295	CT	C	540	PASS	-	Del	-	1	6	MSH6	child	4_118212295_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
b34a3fb2-3287-11e6-a21c-b819bce6aa09	X_117619596_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	117619596	CA	C	458	PASS	-	Del	-	1	7	MSH6	child	X_117619596_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
b34d1454-329a-11e6-aca6-b39fcc638e3d	2_62203297_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	62203297	TA	T	840	PASS	COMMD1	Del	intronic	1	8	MSH6	child	2_62203297_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
b34da930-3274-11e6-8e2a-7f03630e6611	X_68279603_GTCG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	X	68279603	GTC	G	540	PASS	-	Del	-	2	2	FANCC	child	X_68279603_GTCG_FANCC	2	2	2	TC	1	TC	Repeat-mediated
b3573060-3272-11e6-9e18-3a69671699ea	10_22691213_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	22691213	TA	T	540	PASS	SPAG6	Del	intronic	1	9	MSH6	child	10_22691213_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b3758afa-32a0-11e6-aea7-956725c9da85	3_150855965_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	150855965	CT	C	660	PASS	MED12L	Del	intronic	1	9	MSH6	child	3_150855965_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b37bf182-3283-11e6-9881-48b254de4fc4	5_143946450_GGGCTTCAG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	5	143946450	GGGCTTCA	G	480	PASS	-	Del	-	7	1	FANCC	child	5_143946450_GGGCTTCAG_FANCC	7	7	2	GG	0	-	Microhomology-mediated
b37eb100-3275-11e6-a924-afbd7d6a9fc7	2_197655610_TAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	2	197655610	TA	T	300	PASS	GTF3C3	Del	intronic	1	9	EXO1	child	2_197655610_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
b38251ac-3289-11e6-a32d-75090e01a414	14_48738510_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	48738510	GA	G	480	PASS	-	Del	-	1	8	MSH6	child	14_48738510_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
b38a9f54-3272-11e6-aa3b-ca60a178171f	13_39218435_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	39218435	CT	C	517	PASS	-	Del	-	1	8	MSH6	child	13_39218435_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
b391e248-327a-11e6-ab1d-16d9ecf1e924	20_56982063_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	56982063	GA	G	840	PASS	VAPB	Del	intronic	1	6	MSH6	child	20_56982063_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
b3949648-328c-11e6-9453-299c20e7b7a8	2_182305808_AAG	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	2	182305808	A	AG	300	PASS	-	Ins	-	1	5	POLE	child	2_182305808_AAG_POLE	1	1	-	-	-	-	Ins
b39ae01a-3274-11e6-8d20-7365cde16804	5_96164548_CTC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	5	96164548	CT	C	420	PASS	-	Del	-	1	9	MSH6	parent	5_96164548_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b39b76f6-329c-11e6-ae71-0c5325c9da85	1_163278988_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	163278988	GA	G	600	PASS	NUF2	Del	intronic	1	8	MSH6	child	1_163278988_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
b39df1b6-327d-11e6-8cce-e78590e2c2e6	12_119317932_GAG	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	12	119317932	GA	G	420	PASS	RP11-357K6.3	Del	intronic	1	6	NUDT1	child	12_119317932_GAG_NUDT1	1	1	1	A	5	A	Repeat-mediated
b3a0bff0-3272-11e6-8f62-6fa664f80bad	7_57512883_CAC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	7	57512883	CA	C	480	PASS	ZNF716	Del	intronic	1	7	EXO1	parent	7_57512883_CAC_EXO1	1	1	1	A	6	A	Repeat-mediated
b3a2a224-32a0-11e6-b696-dd6225c9da85	5_50973764_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	50973764	G	GA	540	PASS	-	Ins	-	1	7	MSH6	child	5_50973764_GGA_MSH6	1	1	-	-	-	-	Ins
b3ad6aea-3284-11e6-9daa-026ea2c71c31	14_53638466_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	53638466	CA	C	420	PASS	AL163953.3	Del	intronic	1	7	MSH6	child	14_53638466_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
b3b45960-329b-11e6-b549-1e5325c9da85	10_110903915_GGAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	110903915	GGA	G	360	PASS	-	Del	-	2	8	MSH6	child	10_110903915_GGAG_MSH6	2	2	2	GA	7	GA	Repeat-mediated
b3b73afe-328c-11e6-b43c-7ec36f39e758	16_70584105_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	70584105	TA	T	420	PASS	SF3B3	Del	intronic	1	7	MSH6	child	16_70584105_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
b3d70cec-3275-11e6-83cd-a472a178171f	4_43933052_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	43933052	TA	T	660	PASS	-	Del	-	1	7	MSH6	child	4_43933052_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
b3da8bac-3283-11e6-a072-0fc02daed38e	7_103185360_GTCTG	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	7	103185360	GTCT	G	720	PASS	RELN	Del	intronic	3	1	POLB	child	7_103185360_GTCTG_POLB	3	3	1	T	0	-	Microhomology-mediated
b3e364c8-328f-11e6-9230-fb250e01a414	3_119583018_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	119583018	AT	A	480	PASS	GSK3B	Del	intronic	1	8	MSH6	child	3_119583018_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
b3e87670-328a-11e6-8459-82090e01a414	12_84982920_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	84982920	GA	G	600	PASS	-	Del	-	1	9	MSH6	child	12_84982920_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
b3ec21e2-3273-11e6-826a-adb6fa52e078	17_76882813_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	17	76882813	CT	C	540	PASS	TIMP2	Del	intronic	1	9	MSH6	child	17_76882813_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b3ed014c-3274-11e6-972b-b65bfc77b11e	1_110888907_CTC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	1	110888907	CT	C	300	PASS	RBM15	Del	intronic	1	7	CHK2	child	1_110888907_CTC_CHK2	1	1	1	T	6	T	Repeat-mediated
b3f0eaca-3290-11e6-8f31-bfe16f39e758	9_82047336_GGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	82047336	G	GA	480	PASS	-	Ins	-	1	6	MSH6	child	9_82047336_GGA_MSH6	1	1	-	-	-	-	Ins
b3f13482-329d-11e6-bc66-17b4cc638e3d	8_15403963_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	15403963	GT	G	960	PASS	TUSC3	Del	intronic	1	8	MSH6	child	8_15403963_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
b3f5c882-3287-11e6-a8a6-92e95d753391	10_15684127_GAG	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	10	15684127	GA	G	360	PASS	ITGA8	Del	intronic	1	9	POLE	child	10_15684127_GAG_POLE	1	1	1	A	8	A	Repeat-mediated
b3fbfb90-3281-11e6-9d9d-e3b4e7d0bdd7	2_118825640_TGTTTCTCAGAACATATCCCCATGGTTAAGTGATGTGTGT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	2	118825640	TGTTTCTCAGAACATATCCCCATGGTTAAGTGATGTGTG	T	360	PASS	-	Del	-	38	1	FANCC	child	2_118825640_TGTTTCTCAGAACATATCCCCATGGTTAAGTGATGTGTGT_FANCC	38	>=10	3	GTT	0	-	Microhomology-mediated
b3fe3cd0-328a-11e6-baf1-58044530f757	3_83754316_AAT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	3	83754316	A	AT	360	PASS	-	Ins	-	1	5	EXO1	child	3_83754316_AAT_EXO1	1	1	-	-	-	-	Ins
b40056f6-3284-11e6-931c-baa482d12d16	3_145131302_CTGTTC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	3	145131302	CTGTT	C	300	PASS	-	Del	-	4	2	FANCC	child	3_145131302_CTGTTC_FANCC	4	4	4	TGTT	1	TGTT	Repeat-mediated
b4084b8c-3256-11e6-9d15-298312ae24cf	X_42525040_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	42525040	CT	C	540	PASS	RP1-154K9.2	Del	intronic	1	9	MSH6	child	X_42525040_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b409f40a-3292-11e6-b77d-2eef6f39e758	6_152187471_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	152187471	CT	C	360	PASS	ESR1	Del	intronic	1	9	MSH6	child	6_152187471_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b40d9444-3273-11e6-879d-c5bc6de4ab00	14_72939404_CGC	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	14	72939404	CG	C	300	PASS	RGS6	Del	intronic	1	8	POLB	child	14_72939404_CGC_POLB	1	1	1	G	7	G	Repeat-mediated
b41d64d6-328d-11e6-ab9a-705238e8a824	18_8607494_ATA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	18	8607494	AT	A	360	PASS	RAB12	Del	upstream	1	4	FANCC	child	18_8607494_ATA_FANCC	1	1	1	T	3	T	Repeat-mediated
b41d93ba-328e-11e6-903e-aa6919a91649	16_22171796_AGA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	16	22171796	AG	A	300	PASS	VWA3A	Del	downstream	1	1	NEIL1	child	16_22171796_AGA_NEIL1	1	1	0	-	0	G	None
b43332b0-3289-11e6-815f-e4cd191589db	14_69164495_GAG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	14	69164495	GA	G	300	PASS	RAD51B	Del	intronic	1	7	FANCC	child	14_69164495_GAG_FANCC	1	1	1	A	6	A	Repeat-mediated
b435d734-3290-11e6-92cf-bf2a0e01a414	6_121691413_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	121691413	CA	C	420	PASS	-	Del	-	1	7	MSH6	child	6_121691413_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
b43cfeec-3286-11e6-a5b3-3f1ebce6aa09	7_23760098_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	23760098	AT	A	720	PASS	STK31	Del	intronic	1	9	MSH6	child	7_23760098_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b4425c66-327c-11e6-8e5f-c9a0aa716c52	14_44049600_AACA	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	14	44049600	AAC	A	540	PASS	-	Del	-	2	2	POLB	parent	14_44049600_AACA_POLB	2	2	2	AC	1	AC	Repeat-mediated
b445271a-3273-11e6-9e18-3a69671699ea	10_89719195_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	89719195	GA	G	600	PASS	PTEN	Del	intronic	1	9	MSH6	child	10_89719195_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
b4538548-329c-11e6-a5cf-e5abcc638e3d	9_32804366_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	32804366	GA	G	780	PASS	-	Del	-	1	9	MSH6	child	9_32804366_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
b4568a2e-3272-11e6-b8ae-92c57872c165	14_39769365_TACT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	39769365	TAC	T	540	PASS	CTAGE5	Del	intronic	2	5	MSH6	child	14_39769365_TACT_MSH6	2	2	2	AC	4	AC	Repeat-mediated
b4580ab6-329a-11e6-9048-b49fcc638e3d	17_37106430_TCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	37106430	TC	T	540	PASS	FBXO47	Del	intronic	1	6	MSH6	child	17_37106430_TCT_MSH6	1	1	1	C	5	C	Repeat-mediated
b45994d6-328f-11e6-9230-fb250e01a414	3_119712736_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	119712736	AT	A	360	PASS	GSK3B	Del	intronic	1	8	MSH6	child	3_119712736_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
b46195a6-3270-11e6-9309-bdc34a47a305	8_57131643_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	57131643	CA	C	300	PASS	CHCHD7	Del	downstream	1	9	MSH6	child	8_57131643_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
b46a0638-3323-11e6-a5dc-75b8cde16804	1_182386576_ATA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	1	182386576	AT	A	720	PASS	LINC00272	Del	downstream	1	9	EXO1	child	1_182386576_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
b46aac32-326f-11e6-b89d-b2d6b0dab373	4_14099076_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	14099076	CT	C	300	PASS	-	Del	-	1	5	MSH6	child	4_14099076_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
b46e3afc-329a-11e6-b549-1e5325c9da85	10_55291133_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	55291133	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	10_55291133_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
b470f8d2-3259-11e6-91d3-a68412ae24cf	7_80748714_CCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	80748714	C	CT	420	PASS	-	Ins	-	1	2	MSH6	child	7_80748714_CCT_MSH6	1	1	-	-	-	-	Ins
b4789f22-3274-11e6-a862-bc9becf1e924	1_155354655_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	155354655	CT	C	660	PASS	ASH1L	Del	intronic	1	8	MSH6	child	1_155354655_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
b47cd862-3288-11e6-9a8e-d2b1f6dffcf6	1_247490364_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	1	247490364	CT	C	360	PASS	ZNF496	Del	intronic	1	9	NUDT1	parent	1_247490364_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
b48a787a-329a-11e6-aca6-b39fcc638e3d	2_62448648_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	62448648	TA	T	480	PASS	B3GNT2	Del	intronic	1	8	MSH6	child	2_62448648_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
b48c4636-328c-11e6-a80b-87090e01a414	11_77536021_TTTTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	77536021	T	TTTG	300	PASS	RSF1	Ins	upstream	3	3	MSH6	child	11_77536021_TTTTG_MSH6	3	3	-	-	-	-	Ins
b49373ac-3278-11e6-a391-f6d67d6a9fc7	6_81926498_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	81926498	TA	T	480	PASS	-	Del	-	1	5	MSH6	child	6_81926498_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
b4a38e40-3273-11e6-8418-1c5942c4520d	3_153140654_AAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	153140654	A	AG	420	PASS	-	Ins	-	1	0	MSH6	child	3_153140654_AAG_MSH6	1	1	-	-	-	-	Ins
b4a9d3e4-3292-11e6-be55-fcd76ca5563b	14_46176841_AATTTTCTTGGAATGATTTATA	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	14	46176841	AATTTTCTTGGAATGATTTAT	A	660	PASS	RP11-369C8.1	Del	intronic	20	1	POLB	child	14_46176841_AATTTTCTTGGAATGATTTATA_POLB	20	>=10	5	ATTTT	1	T	Microhomology-mediated
b4ace170-3291-11e6-8d18-13cc0d01a414	20_1868217_ATCCTGCTTCCTGTTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	20	1868217	ATCCTGCTTCCTGTT	A	420	PASS	-	Del	-	14	1	MSH6	child	20_1868217_ATCCTGCTTCCTGTTA_MSH6	14	>=10	12	TCCTGCTTCCTG	0	-	Microhomology-mediated
b4b080f6-328b-11e6-b686-d35a51c54cdd	4_131709669_AAT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	4	131709669	A	AT	600	PASS	-	Ins	-	1	1	EXO1	child	4_131709669_AAT_EXO1	1	1	-	-	-	-	Ins
b4b60b58-3258-11e6-acc5-308412ae24cf	5_170630603_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	170630603	TA	T	540	PASS	RANBP17	Del	intronic	1	9	MSH6	child	5_170630603_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b4b86396-3274-11e6-af01-f818cd638e3d	15_83995751_CAC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	15	83995751	CA	C	480	PASS	-	Del	-	1	8	EXO1	child	15_83995751_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
b4b91502-3288-11e6-a21c-b819bce6aa09	X_88286224_GGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	88286224	G	GT	540	PASS	-	Ins	-	1	6	MSH6	child	X_88286224_GGT_MSH6	1	1	-	-	-	-	Ins
b4bb92d0-328f-11e6-9230-fb250e01a414	3_119841830_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	119841830	GT	G	420	PASS	RP11-18H7.1	Del	intronic	1	8	MSH6	child	3_119841830_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
b4bbd6b2-3282-11e6-8c30-2208694da5d2	4_150247902_GTG	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	4	150247902	GT	G	360	PASS	-	Del	-	1	6	NEIL1	child	4_150247902_GTG_NEIL1	1	1	1	T	5	T	Repeat-mediated
b4bf2712-32a1-11e6-a04f-c66a25c9da85	6_156196851_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	156196851	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	6_156196851_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
b4c134ea-3287-11e6-8bbd-f88da2c71c31	21_19727073_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	21	19727073	GA	G	360	PASS	TMPRSS15	Del	intronic	1	7	MSH6	child	21_19727073_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
b4c3b6d4-328c-11e6-bfa2-581f0e01a414	7_4066214_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	4066214	GA	G	360	PASS	SDK1	Del	intronic	1	9	MSH6	child	7_4066214_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
b4cafaee-329a-11e6-bda6-065325c9da85	13_72728766_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	72728766	GA	G	600	PASS	-	Del	-	1	9	MSH6	child	13_72728766_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
b4d09a7a-3273-11e6-946d-9c2bc7271a47	2_55887366_GAG	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	2	55887366	GA	G	480	PASS	PNPT1	Del	intronic	1	6	POLB	child	2_55887366_GAG_POLB	1	1	1	A	5	A	Repeat-mediated
b4e41a9a-3256-11e6-a39a-dc8512ae24cf	8_3973019_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	3973019	TA	T	360	PASS	CSMD1	Del	intronic	1	5	MSH6	child	8_3973019_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
b502e274-3286-11e6-a5b3-3f1ebce6aa09	7_24066883_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	24066883	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	7_24066883_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b5042516-3255-11e6-b91e-9b5d2aaffa45	11_127543754_ATA	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	11	127543754	AT	A	480	PASS	-	Del	-	1	9	POLM	child	11_127543754_ATA_POLM	1	1	1	T	8	T	Repeat-mediated
b5092d82-3281-11e6-9b68-79e41da8ec0e	2_96487635_GTG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	2	96487635	GT	G	366	PASS	-	Del	-	1	7	EXO1	child	2_96487635_GTG_EXO1	1	1	1	T	6	T	Repeat-mediated
b516dd9e-3284-11e6-a1ac-fd6da2c71c31	13_46007012_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	46007012	CA	C	600	PASS	-	Del	-	1	9	MSH6	child	13_46007012_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
b52136c8-3288-11e6-a8ac-a28ea2c71c31	3_104512245_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	104512245	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	3_104512245_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
b52252f4-3320-11e6-be60-326519a91649	15_43402263_ATA	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	15	43402263	AT	A	651	PASS	UBR1	Del	upstream	1	7	CHK2	child	15_43402263_ATA_CHK2	1	1	1	T	6	T	Repeat-mediated
b524b7f0-326d-11e6-9fba-41ebd8b4fa2c	11_44049717_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	44049717	TA	T	540	PASS	-	Del	-	1	8	MSH6	child	11_44049717_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
b539e27a-3280-11e6-9e54-079882d12d16	12_30926196_GAG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	12	30926196	GA	G	420	PASS	RP11-77I22.2	Del	intronic	1	9	FANCC	child	12_30926196_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
b5439732-328c-11e6-919e-92c36f39e758	2_79996329_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	79996329	TA	T	480	PASS	CTNNA2	Del	intronic	1	6	MSH6	child	2_79996329_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
b5444076-3276-11e6-92d2-c259c225ee11	3_29004835_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	29004835	TA	T	360	PASS	-	Del	-	1	8	MSH6	child	3_29004835_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
b54a6cb0-328c-11e6-ae46-59cc977b3f23	12_90523282_CTGTTC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	12	90523282	CTGTT	C	780	PASS	-	Del	-	4	1	NEIL1	child	12_90523282_CTGTTC_NEIL1	4	4	3	TGT	0	-	Microhomology-mediated
b5505ba8-3281-11e6-b391-7d482a2d4995	12_101660249_CAC	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	12	101660249	CA	C	360	PASS	-	Del	-	1	9	NUDT1	child	12_101660249_CAC_NUDT1	1	1	1	A	8	A	Repeat-mediated
b55132fc-3273-11e6-975f-8246cab49462	16_76848290_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	76848290	GT	G	540	PASS	CTD-2336H13.2	Del	intronic	1	8	MSH6	child	16_76848290_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
b56bb324-327e-11e6-9cfc-ec8590e2c2e6	1_178581046_GTG	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	1	178581046	GT	G	1020	PASS	-	Del	-	1	9	NUDT1	child	1_178581046_GTG_NUDT1	1	1	1	T	8	T	Repeat-mediated
b56d39c8-3289-11e6-8f9e-1f8aa178171f	4_72510075_TAATGGGAGATCT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	4	72510075	TAATGGGAGATC	T	540	PASS	-	Del	-	11	1	FANCC	child	4_72510075_TAATGGGAGATCT_FANCC	11	>=10	5	AATGG	0	-	Microhomology-mediated
b56ddffc-3286-11e6-817a-6b15987b3f23	8_90790117_GAG	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	8	90790117	GA	G	540	PASS	RIPK2	Del	intronic	1	9	NEIL1	parent	8_90790117_GAG_NEIL1	1	1	1	A	8	A	Repeat-mediated
b56f960c-328c-11e6-8952-77c36f39e758	10_73867415_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	73867415	CA	C	720	PASS	ASCC1	Del	intronic	1	7	MSH6	child	10_73867415_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
b570f626-327a-11e6-ab1d-16d9ecf1e924	20_57547033_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	57547033	CT	C	780	PASS	-	Del	-	1	7	MSH6	child	20_57547033_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
b5739e72-3283-11e6-8422-6218038949d4	22_30969942_CTTC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	22	30969942	CTT	C	480	PASS	PES1	Del	downstream	2	3	POLM	child	22_30969942_CTTC_POLM	2	2	1	T	0	-	Microhomology-mediated
b57b4dd0-3287-11e6-9a8e-d2b1f6dffcf6	1_107165144_TAT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	1	107165144	TA	T	480	PASS	-	Del	-	1	9	NUDT1	parent	1_107165144_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
b57fe1b2-3271-11e6-abaf-4642cab49462	6_15077975_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	15077975	GT	G	300	PASS	RP11-146I2.1	Del	intronic	1	7	MSH6	child	6_15077975_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
b5801bf4-3281-11e6-8597-c8186ee4ab00	8_59354854_TATCT	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	8	59354854	TATC	T	600	PASS	UBXN2B	Del	intronic	3	1	POLB	parent	8_59354854_TATCT_POLB	3	3	2	AT	0	-	Microhomology-mediated
b59451c0-3275-11e6-a71d-236235cec73b	X_31118834_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	31118834	TA	T	540	PASS	-	Del	-	1	9	MSH6	child	X_31118834_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b59e603e-3284-11e6-96d6-e945ee3c4f5d	3_80163200_TAT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	3	80163200	TA	T	600	PASS	-	Del	-	1	5	POLB	child	3_80163200_TAT_POLB	1	1	1	A	4	A	Repeat-mediated
b5a370d0-3287-11e6-a5b3-3f1ebce6aa09	7_118350026_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	118350026	GA	G	720	PASS	-	Del	-	1	9	MSH6	child	7_118350026_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
b5b0a9b0-3284-11e6-9f05-70ef1da8ec0e	10_86541011_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	10	86541011	AT	A	300	PASS	-	Del	-	1	9	EXO1	child	10_86541011_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
b5b6de26-3274-11e6-b747-d9deed3c4f5d	X_94582910_GTG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	X	94582910	GT	G	600	PASS	-	Del	-	1	7	MSH6	parent	X_94582910_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
b5c8d592-3290-11e6-b6a6-1f1e0e01a414	4_64756465_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	64756465	A	AT	291	PASS	-	Ins	-	1	8	MSH6	child	4_64756465_AAT_MSH6	1	1	-	-	-	-	Ins
b5cb4208-326f-11e6-bfba-13bf4a47a305	9_124677989_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	124677989	AT	A	480	PASS	TTLL11	Del	intronic	1	7	MSH6	child	9_124677989_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
b5d22d1e-3285-11e6-be43-0a6ea2c71c31	10_112208156_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	112208156	GT	G	480	PASS	RP11-525A16.4	Del	intronic	1	5	MSH6	child	10_112208156_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
b5d55bca-3289-11e6-a284-4b89a2c71c31	4_93968426_GGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	93968426	G	GA	840	PASS	GRID2	Ins	intronic	1	5	MSH6	child	4_93968426_GGA_MSH6	1	1	-	-	-	-	Ins
b5d59f24-3287-11e6-a5b3-3f1ebce6aa09	7_118528848_TTAAAAAGCTTCTAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	118528848	TTAAAAAGCTTCTA	T	840	PASS	-	Del	-	13	1	MSH6	child	7_118528848_TTAAAAAGCTTCTAT_MSH6	13	>=10	1	T	0	-	Microhomology-mediated
b5eb992a-3258-11e6-aa0b-72f912ae24cf	8_56342320_GGAAAGAA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	8	56342320	G	GAAAGAA	420	PASS	XKR4	Ins	intronic	6	1	POLB	child	8_56342320_GGAAAGAA_POLB	6	6	-	-	-	-	Ins
b5ece99a-328c-11e6-ae53-96c36f39e758	15_67884041_TGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	67884041	TG	T	540	PASS	MAP2K5	Del	intronic	1	5	MSH6	child	15_67884041_TGT_MSH6	1	1	1	G	4	G	Repeat-mediated
b5edbafc-3253-11e6-8ebc-3ef212ae24cf	15_24810736_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	24810736	CA	C	720	PASS	PWRN1	Del	intronic	1	9	MSH6	child	15_24810736_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
b5f2aaf8-329e-11e6-9c44-d26625c9da85	21_26961432_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	21	26961432	GA	G	720	PASS	MRPL39	Del	intronic	1	7	MSH6	child	21_26961432_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
b5f4f11c-3255-11e6-99c2-78832aaffa45	1_112404736_ACTA	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	1	112404736	ACT	A	600	PASS	KCND3	Del	intronic	2	2	POLM	child	1_112404736_ACTA_POLM	2	2	2	CT	1	CT	Repeat-mediated
b5feddfc-3328-11e6-868e-d16670cce0de	6_125632819_CTC	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	6	125632819	CT	C	540	PASS	-	Del	-	1	7	EXO1	child	6_125632819_CTC_EXO1	1	1	1	T	6	T	Repeat-mediated
b600ac3a-3284-11e6-821e-69f1bbe6aa09	16_29768188_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	29768188	TA	T	540	PASS	-	Del	-	1	9	MSH6	child	16_29768188_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b6049966-328f-11e6-8e48-791e0e01a414	8_145867876_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	145867876	GA	G	420	PASS	ARHGAP39	Del	intronic	1	8	MSH6	child	8_145867876_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
b6077f48-3274-11e6-84df-cb0cebb8d062	14_102624572_TCACCTTGGAGGGGTGCATGGTGT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	14	102624572	TCACCTTGGAGGGGTGCATGGTG	T	660	PASS	WDR20	Del	intronic	22	1	EXO1	child	14_102624572_TCACCTTGGAGGGGTGCATGGTGT_EXO1	22	>=10	1	C	0	-	Microhomology-mediated
b607c43e-3347-11e6-b1a0-0d1e4ec77248	X_8650858_CAC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	X	8650858	CA	C	420	PASS	KAL1	Del	intronic	1	8	FANCC	child	X_8650858_CAC_FANCC	1	1	1	A	7	A	Repeat-mediated
b60daf44-3274-11e6-975f-8246cab49462	16_47686530_GGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	47686530	G	GT	540	PASS	PHKB	Ins	intronic	1	7	MSH6	child	16_47686530_GGT_MSH6	1	1	-	-	-	-	Ins
b60fddb4-328d-11e6-919e-92c36f39e758	2_151349446_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	151349446	TA	T	420	PASS	RND3	Del	intronic	1	9	MSH6	child	2_151349446_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b628b3a2-32a1-11e6-bc2c-2a5e25c9da85	4_111687214_TTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	111687214	T	TC	300	PASS	-	Ins	-	1	5	MSH6	child	4_111687214_TTC_MSH6	1	1	-	-	-	-	Ins
b62a01a0-3286-11e6-8b2d-79a669062303	3_180707767_ATA	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	3	180707767	AT	A	720	PASS	DNAJC19	Del	upstream	1	6	POLE	parent	3_180707767_ATA_POLE	1	1	1	T	5	T	Repeat-mediated
b62d30a2-3270-11e6-b923-6726694da5d2	5_85726783_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	85726783	AT	A	360	PASS	-	Del	-	1	6	MSH6	child	5_85726783_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
b62e90bc-3272-11e6-83ef-69fb06e9a829	18_21906041_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	21906041	GA	G	360	PASS	OSBPL1A	Del	intronic	1	7	MSH6	child	18_21906041_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
b633abf8-328e-11e6-9d97-efe56f39e758	4_6626222_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	6626222	TA	T	600	PASS	MAN2B2	Del	downstream	1	7	MSH6	child	4_6626222_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
b636d078-328c-11e6-9c89-8d090e01a414	1_203903793_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	203903793	AT	A	420	PASS	-	Del	-	1	8	MSH6	child	1_203903793_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
b63ae38c-3284-11e6-97d5-6cf1bbe6aa09	17_25668046_GAGAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	25668046	GAGA	G	480	PASS	RP11-173M1.4	Del	intronic	3	2	MSH6	child	17_25668046_GAGAG_MSH6	3	3	3	AGA	1	AGA	Repeat-mediated
b645635c-328e-11e6-bfa2-581f0e01a414	7_121575319_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	121575319	TA	T	480	PASS	PTPRZ1	Del	intronic	1	9	MSH6	child	7_121575319_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b64fd6d8-3253-11e6-89d3-d29498816cf3	2_25788271_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	25788271	AT	A	540	PASS	DTNB	Del	intronic	1	9	MSH6	child	2_25788271_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b6504cb8-3289-11e6-ad64-7189a178171f	5_86403402_ATA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	5	86403402	AT	A	360	PASS	RP11-72L22.1	Del	intronic	1	7	FANCC	child	5_86403402_ATA_FANCC	1	1	1	T	6	T	Repeat-mediated
b65140b0-3274-11e6-a924-afbd7d6a9fc7	2_127761751_GCG	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	2	127761751	GC	G	720	PASS	-	Del	-	1	3	EXO1	child	2_127761751_GCG_EXO1	1	1	1	C	2	C	Repeat-mediated
b6561a42-3277-11e6-a391-f6d67d6a9fc7	6_17812023_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	17812023	CT	C	660	PASS	KIF13A	Del	intronic	1	9	MSH6	child	6_17812023_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b65b0078-328d-11e6-8eed-44ee5d753391	6_96872305_TGT	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	6	96872305	TG	T	540	PASS	-	Del	-	1	8	POLE	child	6_96872305_TGT_POLE	1	1	1	G	7	G	Repeat-mediated
b65b3a7a-326f-11e6-9fba-41ebd8b4fa2c	11_118612601_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	118612601	TA	T	420	PASS	-	Del	-	1	6	MSH6	child	11_118612601_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
b66082e4-3271-11e6-abaf-4642cab49462	6_15225486_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	15225486	GA	G	360	PASS	-	Del	-	1	8	MSH6	child	6_15225486_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
b6644fc0-3328-11e6-a5c2-ba124530f757	8_79462734_TTCAT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	8	79462734	TTCA	T	360	PASS	PKIA	Del	intronic	3	2	CHK2	child	8_79462734_TTCAT_CHK2	3	3	3	TCA	1	TCA	Repeat-mediated
b6765148-3323-11e6-bd60-7fd335cec73b	8_12436703_TTCT	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	8	12436703	TTC	T	345	PASS	-	Del	-	2	1	CHK2	child	8_12436703_TTCT_CHK2	2	2	0	-	0	-	None
b67f225c-3272-11e6-b337-78fbd8b4fa2c	2_160454048_ATA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	2	160454048	AT	A	300	PASS	BAZ2B	Del	intronic	1	9	POLB	child	2_160454048_ATA_POLB	1	1	1	T	8	T	Repeat-mediated
b68212b6-331f-11e6-aa07-9916d8fd0a58	19_7854186_TGT	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	19	7854186	TG	T	1080	PASS	-	Del	-	1	1	CHK2	parent	19_7854186_TGT_CHK2	1	1	0	-	0	G	None
b6835752-3284-11e6-a1ac-fd6da2c71c31	13_46480031_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	46480031	GT	G	360	PASS	-	Del	-	1	8	MSH6	child	13_46480031_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
b6845942-3287-11e6-b32c-fd87a2c71c31	5_163674094_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	163674094	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	5_163674094_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b6853c64-329f-11e6-94ca-0aaecc638e3d	X_142848361_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	142848361	AT	A	412	PASS	RP3-526F5.2	Del	intronic	1	7	MSH6	child	X_142848361_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
b692eea0-3280-11e6-b919-dd36ee3c4f5d	12_30885954_ATA	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	12	30885954	AT	A	720	PASS	CAPRIN2	Del	intronic	1	9	POLB	child	12_30885954_ATA_POLB	1	1	1	T	8	T	Repeat-mediated
b694c8ce-3271-11e6-a390-fc104530f757	1_58834868_CTC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	1	58834868	CT	C	300	PASS	-	Del	-	1	6	FANCC	child	1_58834868_CTC_FANCC	1	1	1	T	5	T	Repeat-mediated
b69a0ba6-3256-11e6-b950-8759fa52e078	X_34090735_ATA	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	X	34090735	AT	A	660	PASS	-	Del	-	1	7	POLM	child	X_34090735_ATA_POLM	1	1	1	T	6	T	Repeat-mediated
b69dfcee-3327-11e6-868e-d16670cce0de	6_50024520_ATA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	6	50024520	AT	A	540	PASS	-	Del	-	1	8	EXO1	child	6_50024520_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
b6a829ac-3274-11e6-ab69-1c1607e9a829	9_6341998_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	6341998	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	9_6341998_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
b6a8e0bc-331f-11e6-a0b4-eb1c51c54cdd	16_9981053_GTG	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	16	9981053	GT	G	600	PASS	GRIN2A	Del	intronic	1	9	CHK2	parent	16_9981053_GTG_CHK2	1	1	1	T	8	T	Repeat-mediated
b6abbd12-3254-11e6-9f9d-2c7a7872c165	12_78972632_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	78972632	GA	G	720	PASS	-	Del	-	1	8	MSH6	child	12_78972632_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
b6adc77c-3274-11e6-b439-e34b3cfdbd24	2_11238800_GGT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	2	11238800	G	GT	480	PASS	AC062028.1	Ins	downstream	1	5	MSH6	parent	2_11238800_GGT_MSH6	1	1	-	-	-	-	Ins
b6adcdca-3275-11e6-8cf1-8b341daa6045	16_64055937_ATGTA	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	16	64055937	ATGT	A	420	PASS	-	Del	-	3	2	POLM	child	16_64055937_ATGTA_POLM	3	3	3	TGT	1	TGT	Repeat-mediated
b6b198d0-3255-11e6-8d5e-9bf112ae24cf	9_31708158_GGT	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	9	31708158	G	GT	322	PASS	-	Ins	-	1	6	POLB	child	9_31708158_GGT_POLB	1	1	-	-	-	-	Ins
b6bf6984-3321-11e6-923f-078b3cfdbd24	18_75608404_GAG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	18	75608404	GA	G	360	PASS	-	Del	-	1	9	EXO1	child	18_75608404_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
b6ce06f4-329c-11e6-ae71-0c5325c9da85	1_164174609_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	164174609	TA	T	480	PASS	-	Del	-	1	7	MSH6	child	1_164174609_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
b6d33f1a-328e-11e6-8e48-791e0e01a414	8_73969438_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	73969438	GA	G	406	PASS	-	Del	-	1	7	MSH6	child	8_73969438_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
b6d3d518-329a-11e6-9048-b49fcc638e3d	17_37423529_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	37423529	CA	C	660	PASS	FBXL20	Del	intronic	1	9	MSH6	child	17_37423529_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
b6d542c6-3282-11e6-aa13-78428e4678dd	5_2491972_CAC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	5	2491972	CA	C	420	PASS	-	Del	-	1	8	EXO1	child	5_2491972_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
b6d692fc-3273-11e6-aa3b-ca60a178171f	13_108154724_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	108154724	AT	A	420	PASS	FAM155A	Del	intronic	1	5	MSH6	child	13_108154724_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
b6da07ec-3323-11e6-ba3d-227d3adbad45	4_154844569_CAC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	4	154844569	CA	C	900	PASS	-	Del	-	1	3	CHK2	child	4_154844569_CAC_CHK2	1	1	1	A	2	A	Repeat-mediated
b6e46ae0-3254-11e6-809b-7a832aaffa45	16_29316017_CAGC	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	16	29316017	CAG	C	720	PASS	SNX29P2	Del	intronic	2	2	POLM	child	16_29316017_CAGC_POLM	2	2	2	AG	1	AG	Repeat-mediated
b6e6516c-3253-11e6-b4d0-327a7872c165	11_12870588_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	12870588	CT	C	600	PASS	TEAD1	Del	intronic	1	9	MSH6	child	11_12870588_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b6f44206-326f-11e6-996e-f60b98ba1142	18_63794997_AAAGA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	18	63794997	AAAG	A	360	PASS	-	Del	-	3	2	EXO1	parent	18_63794997_AAAGA_EXO1	3	3	3	AAG	1	AAG	Repeat-mediated
b6f477d2-328b-11e6-ae53-96c36f39e758	15_25284450_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	25284450	TA	T	420	PASS	PWAR6	Del	downstream	1	9	MSH6	child	15_25284450_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b6f5afc8-3284-11e6-99f7-076ea2c71c31	12_27421386_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	27421386	AT	A	500	PASS	STK38L	Del	intronic	1	6	MSH6	child	12_27421386_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
b6fbe000-328e-11e6-8f31-bfe16f39e758	9_72934216_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	72934216	AT	A	480	PASS	SMC5	Del	intronic	1	9	MSH6	child	9_72934216_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b7037a86-3284-11e6-821e-69f1bbe6aa09	16_29957216_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	29957216	AT	A	420	PASS	TMEM219	Del	intronic	1	9	MSH6	child	16_29957216_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b70a1abe-3278-11e6-b021-16ab4430f757	3_132119267_TGT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	3	132119267	TG	T	840	PASS	-	Del	-	1	4	EXO1	child	3_132119267_TGT_EXO1	1	1	1	G	3	G	Repeat-mediated
b71d8be8-3256-11e6-9d5a-0c8112ae24cf	9_75046963_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	75046963	AT	A	420	PASS	-	Del	-	1	8	MSH6	child	9_75046963_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
b71eb0b6-328f-11e6-84e9-d36dfd44d094	2_79082126_CCT	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	2	79082126	C	CT	300	PASS	-	Ins	-	1	8	POLM	child	2_79082126_CCT_POLM	1	1	-	-	-	-	Ins
b726e552-3257-11e6-91d3-a68412ae24cf	7_92020797_CTTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	92020797	CTT	C	420	PASS	ANKIB1	Del	intronic	2	7	MSH6	child	7_92020797_CTTC_MSH6	2	2	2	TT	5	T	Repeat-mediated
b729dcf0-325a-11e6-8cd9-139b7872c165	3_33172757_CCG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	33172757	C	CG	360	PASS	CRTAP	Ins	intronic	1	8	MSH6	child	3_33172757_CCG_MSH6	1	1	-	-	-	-	Ins
b72fdd38-3275-11e6-96f3-ccbe99696edf	12_71230885_TAT	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	12	71230885	TA	T	360	PASS	PTPRR	Del	intronic	1	8	POLM	child	12_71230885_TAT_POLM	1	1	1	A	7	A	Repeat-mediated
b73193be-3282-11e6-89eb-f2eacdacbbbf	4_22884523_CAC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	4	22884523	CA	C	600	PASS	-	Del	-	1	9	EXO1	child	4_22884523_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
b73b6068-3293-11e6-a157-907af530df36	1_182019993_TAT	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	1	182019993	TA	T	600	PASS	ZNF648	Del	downstream	1	9	POLB	child	1_182019993_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
b74052a8-329d-11e6-bc66-17b4cc638e3d	8_15967998_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	15967998	GT	G	420	PASS	MSR1	Del	intronic	1	7	MSH6	child	8_15967998_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
b74ee49c-3290-11e6-b81f-4ee66f39e758	8_67035793_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	67035793	GA	G	660	PASS	TRIM55	Del	upstream	1	9	MSH6	child	8_67035793_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
b7593934-3271-11e6-b89d-b2d6b0dab373	4_150924716_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	150924716	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	4_150924716_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
b76463a0-32a2-11e6-b970-398625c9da85	20_24315376_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	24315376	TA	T	720	PASS	-	Del	-	1	8	MSH6	child	20_24315376_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
b77ad4e6-3275-11e6-97a4-7a51e7d0bdd7	12_70739936_TTA	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	12	70739936	T	TA	360	PASS	CNOT2	Ins	intronic	1	0	POLB	child	12_70739936_TTA_POLB	1	1	-	-	-	-	Ins
b78007de-3272-11e6-8f33-a6d9cde16804	11_31147467_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	31147467	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	11_31147467_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b78ab866-3324-11e6-9918-868d0322d171	7_40530553_CCTTC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	7	40530553	CCTT	C	420	PASS	SUGCT	Del	intronic	3	1	EXO1	child	7_40530553_CCTTC_EXO1	3	3	2	CT	0	-	Microhomology-mediated
b791b350-3289-11e6-a80b-87090e01a414	11_26802993_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	26802993	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	11_26802993_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
b792f630-3292-11e6-9401-04ed6f39e758	3_192789603_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	192789603	TA	T	460	PASS	-	Del	-	1	8	MSH6	child	3_192789603_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
b79f6e9e-328b-11e6-8770-3e160e01a414	9_5300455_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	5300455	TA	T	720	PASS	RLN2	Del	intronic	1	9	MSH6	child	9_5300455_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b7b058d4-328c-11e6-a2c2-fa8aa178171f	8_67481645_TTA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	8	67481645	T	TA	540	PASS	MYBL1	Ins	intronic	1	0	FANCC	child	8_67481645_TTA_FANCC	1	1	-	-	-	-	Ins
b7b13fce-328c-11e6-aaf7-8f5c694da5d2	19_11596767_ATA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	19	11596767	AT	A	300	PASS	ELAVL3	Del	upstream	1	8	POLM	child	19_11596767_ATA_POLM	1	1	1	T	7	T	Repeat-mediated
b7b1a00c-3270-11e6-a1fc-666dc042253c	7_138569154_CAGGAC	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	7	138569154	CAGGA	C	480	PASS	KIAA1549	Del	intronic	4	1	POLM	parent	7_138569154_CAGGAC_POLM	4	4	3	AGG	0	-	Microhomology-mediated
b7b1f38c-3283-11e6-9e76-639d69062303	8_30122885_GAG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	8	30122885	GA	G	360	PASS	-	Del	-	1	9	FANCC	child	8_30122885_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
b7bd087c-328c-11e6-bd84-429305ad5bc4	1_161510141_TTGACT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	161510141	TTGAC	T	600	PASS	FCGR3A	Del	downstream	4	1	MSH6	child	1_161510141_TTGACT_MSH6	4	4	3	TGA	0	-	Microhomology-mediated
b7bfe1f6-3254-11e6-92eb-77832aaffa45	10_30726072_CTC	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	10	30726072	CT	C	420	PASS	MAP3K8	Del	intronic	1	8	POLM	child	10_30726072_CTC_POLM	1	1	1	T	7	T	Repeat-mediated
b7c5c7c8-329b-11e6-a5ec-650998ba1142	6_128259611_CAC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	6	128259611	CA	C	660	PASS	-	Del	-	1	7	CHK2	child	6_128259611_CAC_CHK2	1	1	1	A	6	A	Repeat-mediated
b7ce2f7e-3270-11e6-b306-b5204b47a305	2_106186147_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	106186147	C	CA	480	PASS	-	Ins	-	1	1	MSH6	child	2_106186147_CCA_MSH6	1	1	-	-	-	-	Ins
b7d0847a-328b-11e6-8770-3e160e01a414	9_5341257_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	5341257	AT	A	360	PASS	RLN1	Del	upstream	1	7	MSH6	child	9_5341257_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
b7d64a0a-3258-11e6-acc5-308412ae24cf	5_171564455_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	171564455	TA	T	406	PASS	STK10	Del	intronic	1	9	MSH6	child	5_171564455_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b7e31204-328e-11e6-88c7-2ba6e7d0bdd7	6_82916285_TAGAT	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	6	82916285	TAGA	T	300	PASS	IBTK	Del	intronic	3	2	POLM	child	6_82916285_TAGAT_POLM	3	3	3	AGA	1	AGA	Repeat-mediated
b7e4e58c-329f-11e6-ae71-0c5325c9da85	1_77626634_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	77626634	G	GA	600	PASS	PIGK	Ins	intronic	1	7	MSH6	child	1_77626634_GGA_MSH6	1	1	-	-	-	-	Ins
b7e8f592-3258-11e6-b25c-c08312ae24cf	6_169158535_GAG	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	6	169158535	GA	G	420	PASS	-	Del	-	1	7	POLB	child	6_169158535_GAG_POLB	1	1	1	A	6	A	Repeat-mediated
b7e97478-3289-11e6-aa70-b0b3cc638e3d	19_30635659_AGA	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	19	30635659	AG	A	300	PASS	-	Del	-	1	6	NUDT1	child	19_30635659_AGA_NUDT1	1	1	1	G	5	G	Repeat-mediated
b7f09074-326f-11e6-9fba-41ebd8b4fa2c	11_118665539_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	118665539	CT	C	600	PASS	DDX6	Del	upstream	1	9	MSH6	child	11_118665539_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b7f2b8a0-3273-11e6-8418-1c5942c4520d	3_154125508_CCACACACACACACAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	154125508	C	CACACACACACACAT	300	PASS	GPR149	Ins	intronic	14	0	MSH6	child	3_154125508_CCACACACACACACAT_MSH6	14	>=10	-	-	-	-	Ins
b808c302-328c-11e6-b805-77090e01a414	2_227742692_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	227742692	TA	T	540	PASS	RHBDD1	Del	intronic	1	8	MSH6	child	2_227742692_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
b80becf6-3270-11e6-b923-6726694da5d2	5_86253485_CTTCTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	86253485	CTTCT	C	300	PASS	-	Del	-	4	1	MSH6	child	5_86253485_CTTCTC_MSH6	4	4	3	TTC	0	-	Microhomology-mediated
b80e0e06-3288-11e6-8392-fc5a51c54cdd	7_127449797_CATAC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	7	127449797	CATA	C	540	PASS	SND1	Del	intronic	3	2	EXO1	child	7_127449797_CATAC_EXO1	3	3	3	ATA	1	ATA	Repeat-mediated
b8132d66-3272-11e6-a623-9985cdacbbbf	17_74892722_CAGC	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	17	74892722	CAG	C	540	PASS	MGAT5B	Del	intronic	2	3	NUDT1	child	17_74892722_CAGC_NUDT1	2	2	2	AG	2	AG	Repeat-mediated
b813a574-328c-11e6-ab2c-1d6bfc77b11e	14_39242915_ATA	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	14	39242915	AT	A	540	PASS	LINC00639	Del	intronic	1	8	POLE	child	14_39242915_ATA_POLE	1	1	1	T	7	T	Repeat-mediated
b8156566-3283-11e6-8c64-b1af90e2c2e6	17_8411760_CTTAC	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	17	8411760	CTTA	C	900	PASS	MYH10	Del	intronic	3	3	POLE	child	17_8411760_CTTAC_POLE	3	3	3	TTA	2	TTA	Repeat-mediated
b821e13e-3287-11e6-a8ac-a28ea2c71c31	3_10411906_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	10411906	CT	C	720	PASS	ATP2B2	Del	intronic	1	5	MSH6	child	3_10411906_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
b828695e-328d-11e6-b797-0ba0e7d0bdd7	7_82227920_GACG	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	7	82227920	GAC	G	300	PASS	-	Del	-	2	1	POLM	child	7_82227920_GACG_POLM	2	2	1	A	0	-	Microhomology-mediated
b82e16a8-3272-11e6-ba3c-6216cd638e3d	7_45317463_CTC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	7	45317463	CT	C	480	PASS	-	Del	-	1	8	NEIL1	child	7_45317463_CTC_NEIL1	1	1	1	T	7	T	Repeat-mediated
b82f3232-3276-11e6-998e-ba48fa52e078	8_72477263_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	72477263	TA	T	540	PASS	-	Del	-	1	8	MSH6	child	8_72477263_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
b83111b0-3276-11e6-9e0f-7959cab49462	7_82980635_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	82980635	GT	G	480	PASS	-	Del	-	1	8	MSH6	child	7_82980635_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
b83c5f32-326e-11e6-9fba-41ebd8b4fa2c	11_77814901_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	77814901	AT	A	300	PASS	ALG8	Del	intronic	1	8	MSH6	child	11_77814901_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
b841f174-3276-11e6-92d2-c259c225ee11	3_30051499_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	30051499	GA	G	660	PASS	RBMS3	Del	downstream	1	5	MSH6	child	3_30051499_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
b843fad2-3325-11e6-bd60-7fd335cec73b	8_79462734_TTCAT	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	8	79462734	TTCA	T	540	PASS	PKIA	Del	intronic	3	2	CHK2	child	8_79462734_TTCAT_CHK2	3	3	3	TCA	1	TCA	Repeat-mediated
b847ac14-3275-11e6-9e0f-7959cab49462	7_19087755_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	19087755	CA	C	720	PASS	-	Del	-	1	6	MSH6	child	7_19087755_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
b84a3ece-3276-11e6-92d2-c259c225ee11	3_30073945_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	30073945	GT	G	600	PASS	-	Del	-	1	7	MSH6	child	3_30073945_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
b8506cde-3255-11e6-a304-347a7872c165	1_150083072_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	150083072	GT	G	480	PASS	VPS45	Del	intronic	1	8	MSH6	child	1_150083072_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
b8529416-3271-11e6-b923-6726694da5d2	5_165240322_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	165240322	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	5_165240322_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
b85b0be2-3257-11e6-91d3-a68412ae24cf	7_92594905_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	92594905	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	7_92594905_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b865bf76-3291-11e6-b81f-4ee66f39e758	8_142871782_TGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	142871782	TG	T	660	PASS	-	Del	-	1	7	MSH6	child	8_142871782_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
b87876f2-3273-11e6-bfb2-2749c225ee11	12_93390681_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	93390681	GT	G	720	PASS	RP11-511B23.1	Del	upstream	1	7	MSH6	child	12_93390681_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
b87a3b1e-3272-11e6-94cc-1ec335cec73b	19_9758570_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	9758570	CA	C	480	PASS	ZNF562	Del	downstream	1	7	MSH6	child	19_9758570_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
b87aadb4-3287-11e6-a5b3-3f1ebce6aa09	7_119955166_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	119955166	GA	G	540	PASS	KCND2	Del	intronic	1	8	MSH6	child	7_119955166_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
b87cb08c-3291-11e6-961b-e659e84777f6	1_164816266_GAG	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	1	164816266	GA	G	540	PASS	PBX1	Del	3prime_UTR_variant	1	7	CHK2	child	1_164816266_GAG_CHK2	1	1	1	A	6	A	Repeat-mediated
b8860948-3287-11e6-a5b3-3f1ebce6aa09	7_119977066_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	119977066	CT	C	480	PASS	KCND2	Del	intronic	1	9	MSH6	child	7_119977066_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b887cfa4-329a-11e6-a0ea-135325c9da85	15_61893262_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	61893262	GT	G	480	PASS	RP11-259A24.1	Del	intronic	1	7	MSH6	child	15_61893262_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
b89002ba-3276-11e6-a2b7-2d8b671699ea	21_21363492_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	21	21363492	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	21_21363492_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
b896517a-3275-11e6-83cd-a472a178171f	4_45847935_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	45847935	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	4_45847935_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
b89796e4-3292-11e6-9401-04ed6f39e758	3_193154403_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	193154403	AT	A	400	PASS	ATP13A4	Del	intronic	1	9	MSH6	child	3_193154403_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b898711c-3270-11e6-b62b-e162a78019ab	8_79699714_GTG	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	8	79699714	GT	G	780	PASS	IL7	Del	intronic	1	8	POLM	parent	8_79699714_GTG_POLM	1	1	1	T	7	T	Repeat-mediated
b89cefc4-3290-11e6-9d24-ade56f39e758	7_139572453_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	139572453	CA	C	600	PASS	TBXAS1	Del	intronic	1	6	MSH6	child	7_139572453_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
b89f7990-3292-11e6-ba8c-277819a91649	6_71174784_CTAC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	6	71174784	CTA	C	300	PASS	FAM135A	Del	intronic	2	1	NEIL1	child	6_71174784_CTAC_NEIL1	2	2	1	T	0	-	Microhomology-mediated
b8a332ee-3286-11e6-a284-4b89a2c71c31	4_16056484_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	16056484	GA	G	540	PASS	PROM1	Del	intronic	1	7	MSH6	child	4_16056484_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
b8a41e8e-328b-11e6-a4b4-e6cd191589db	17_65072807_GGA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	17	65072807	G	GA	300	PASS	HELZ	Ins	3prime_UTR_variant	1	2	FANCC	child	17_65072807_GGA_FANCC	1	1	-	-	-	-	Ins
b8b7d794-328b-11e6-b8e6-91c36f39e758	11_12681727_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	12681727	CA	C	720	PASS	-	Del	-	1	7	MSH6	child	11_12681727_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
b8c08504-3274-11e6-a862-bc9becf1e924	1_155883777_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	155883777	AG	A	540	PASS	KIAA0907	Del	3prime_UTR_variant	1	6	MSH6	child	1_155883777_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
b8c5c4f4-3276-11e6-a2b7-2d8b671699ea	21_21416180_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	21	21416180	CT	C	480	PASS	-	Del	-	1	7	MSH6	child	21_21416180_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
b8c6b34a-3321-11e6-842f-4d64694da5d2	19_44683332_TAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	19	44683332	TA	T	720	PASS	ZNF226	Del	downstream	1	9	EXO1	child	19_44683332_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
b8c9ca74-328d-11e6-b797-0ba0e7d0bdd7	7_82560605_TGAGT	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	7	82560605	TGAG	T	720	PASS	PCLO	Del	intronic	3	2	POLM	child	7_82560605_TGAGT_POLM	3	3	3	GAG	1	GAG	Repeat-mediated
b8ca0a9e-3287-11e6-b32c-fd87a2c71c31	5_164716077_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	164716077	GT	G	660	PASS	-	Del	-	1	6	MSH6	child	5_164716077_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
b8d1ef0a-3275-11e6-98dc-d270cde16804	22_36293164_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	22	36293164	CT	C	1020	PASS	RBFOX2	Del	intronic	1	9	MSH6	child	22_36293164_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b8d3ab00-326c-11e6-9793-9a8fb0dab373	13_28925198_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	28925198	AT	A	300	PASS	FLT1	Del	intronic	1	8	MSH6	child	13_28925198_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
b8d47988-328d-11e6-b6a6-1f1e0e01a414	4_77669146_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	77669146	CA	C	420	PASS	SHROOM3	Del	intronic	1	9	MSH6	child	4_77669146_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
b8d4fd72-3323-11e6-9271-15989d7ad846	5_27593006_TAT	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	5	27593006	TA	T	540	PASS	-	Del	-	1	8	CHK2	child	5_27593006_TAT_CHK2	1	1	1	A	7	A	Repeat-mediated
b8d8980c-328c-11e6-8e38-06cf69062303	4_111664149_AGCAGTA	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	4	111664149	AGCAGT	A	300	PASS	-	Del	-	5	1	CHK2	child	4_111664149_AGCAGTA_CHK2	5	5	1	G	0	-	Microhomology-mediated
b8dbc026-3292-11e6-b14c-5e337a852e0e	X_39954191_ACTA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	X	39954191	ACT	A	300	PASS	BCOR	Del	intronic	2	2	CHK2	child	X_39954191_ACTA_CHK2	2	2	2	CT	1	CT	Repeat-mediated
b8deb83c-3290-11e6-b81f-4ee66f39e758	8_67477202_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	67477202	AT	A	720	PASS	MYBL1	Del	intronic	1	7	MSH6	child	8_67477202_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
b8e07d58-328f-11e6-a724-38ab4430f757	1_237450808_TAT	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	1	237450808	TA	T	480	PASS	RYR2	Del	intronic	1	1	POLE	child	1_237450808_TAT_POLE	1	1	0	-	0	A	None
b8e52f20-331f-11e6-81cd-b5127e6a9fc7	10_13380401_CAC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	10	13380401	CA	C	1140	PASS	SEPHS1	Del	intronic	1	5	CHK2	parent	10_13380401_CAC_CHK2	1	1	1	A	4	A	Repeat-mediated
b8e785a2-329a-11e6-a0ea-135325c9da85	15_61976444_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	61976444	CT	C	420	PASS	RP11-507B12.1	Del	intronic	1	9	MSH6	child	15_61976444_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b8e7886e-3276-11e6-8caa-7235b51afd22	9_133571994_GTG	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	9	133571994	GT	G	600	PASS	EXOSC2	Del	intronic	1	7	EXO1	child	9_133571994_GTG_EXO1	1	1	1	T	6	T	Repeat-mediated
b8f1e240-3286-11e6-a284-4b89a2c71c31	4_16257401_GGAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	16257401	GGA	G	540	PASS	-	Del	-	2	6	MSH6	child	4_16257401_GGAG_MSH6	2	2	2	GA	5	GA	Repeat-mediated
b8fd0246-329b-11e6-ae71-0c5325c9da85	1_100849618_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	100849618	AT	A	660	PASS	CDC14A	Del	intronic	1	7	MSH6	child	1_100849618_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
b8fe40aa-3270-11e6-9fba-41ebd8b4fa2c	11_18243715_GGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	18243715	G	GT	540	PASS	-	Ins	-	1	5	MSH6	child	11_18243715_GGT_MSH6	1	1	-	-	-	-	Ins
b8fe48fa-328b-11e6-aac2-75bb5d753391	4_101806011_ATA	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	4	101806011	AT	A	300	PASS	-	Del	-	1	8	POLE	child	4_101806011_ATA_POLE	1	1	1	T	7	T	Repeat-mediated
b8febc7c-3272-11e6-a5d0-4fd14a47a305	2_29568925_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	29568925	CA	C	360	PASS	ALK	Del	intronic	1	7	MSH6	child	2_29568925_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
b90eeeb6-3273-11e6-af01-f818cd638e3d	15_63878345_CTC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	15	63878345	CT	C	540	PASS	USP3	Del	intronic	1	5	EXO1	child	15_63878345_CTC_EXO1	1	1	1	T	4	T	Repeat-mediated
b91e74d2-3271-11e6-972e-caab7d6a9fc7	15_26430300_AGTA	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	15	26430300	AGT	A	360	PASS	-	Del	-	2	3	NEIL1	child	15_26430300_AGTA_NEIL1	2	2	2	GT	2	GT	Repeat-mediated
b91fa522-329a-11e6-9048-b49fcc638e3d	17_37698770_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	37698770	CT	C	360	PASS	RNU6-233P	Del	downstream	1	9	MSH6	child	17_37698770_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b926d31c-3284-11e6-8ebc-68f1bbe6aa09	18_41271656_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	41271656	GA	G	600	PASS	-	Del	-	1	8	MSH6	child	18_41271656_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
b92f3764-3270-11e6-b89d-b2d6b0dab373	4_81951746_TCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	81951746	TC	T	600	PASS	BMP3	Del	upstream	1	7	MSH6	child	4_81951746_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
b931df7a-3278-11e6-a391-f6d67d6a9fc7	6_83828739_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	83828739	GA	G	660	PASS	DOPEY1	Del	intronic	1	6	MSH6	child	6_83828739_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
b93a1f76-3289-11e6-a5b3-3f1ebce6aa09	7_158569732_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	158569732	T	TA	420	PASS	ESYT2	Ins	intronic	1	1	MSH6	child	7_158569732_TTA_MSH6	1	1	-	-	-	-	Ins
b94dba0a-3283-11e6-b857-6115038949d4	5_99070825_TAT	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	5	99070825	TA	T	303	PASS	-	Del	-	1	9	POLM	child	5_99070825_TAT_POLM	1	1	1	A	8	A	Repeat-mediated
b950131e-328c-11e6-8952-77c36f39e758	10_74530659_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	74530659	GT	G	480	PASS	MCU	Del	intronic	1	8	MSH6	child	10_74530659_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
b951e598-3270-11e6-b5b8-e0c24a47a305	X_81204748_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	81204748	GT	G	300	PASS	-	Del	-	1	8	MSH6	child	X_81204748_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
b95d6e82-328d-11e6-b4fe-93c36f39e758	12_130889565_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	130889565	GA	G	480	PASS	RIMBP2	Del	intronic	1	6	MSH6	child	12_130889565_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
b964ff92-3258-11e6-8d59-25a02aaffa45	4_177215194_GTATG	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	4	177215194	GTAT	G	480	PASS	-	Del	-	3	2	POLM	child	4_177215194_GTATG_POLM	3	3	3	TAT	1	TAT	Repeat-mediated
b9664ed4-3257-11e6-9d5a-0c8112ae24cf	9_139798001_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	139798001	TA	T	600	PASS	TRAF2	Del	intronic	1	3	MSH6	child	9_139798001_TAT_MSH6	1	1	1	A	2	A	Repeat-mediated
b96836a6-3273-11e6-a862-bc9becf1e924	1_85074572_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	85074572	TA	T	660	PASS	-	Del	-	1	7	MSH6	child	1_85074572_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
b96e6f86-328b-11e6-aa75-90c36f39e758	13_30414839_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	30414839	AT	A	600	PASS	UBL3	Del	intronic	1	6	MSH6	child	13_30414839_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
b9727a2a-328d-11e6-b837-1e9fe7d0bdd7	4_95447028_TAT	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	4	95447028	TA	T	900	PASS	PDLIM5	Del	intronic	1	7	POLM	child	4_95447028_TAT_POLM	1	1	1	A	6	A	Repeat-mediated
b9828982-3289-11e6-a284-4b89a2c71c31	4_95615106_AATC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	95615106	A	ATC	480	PASS	RP11-554D13.1	Ins	intronic	2	6	MSH6	child	4_95615106_AATC_MSH6	2	2	-	-	-	-	Ins
b982d26e-3286-11e6-a5b3-3f1ebce6aa09	7_25851158_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	25851158	CA	C	660	PASS	-	Del	-	1	7	MSH6	child	7_25851158_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
b98e1b1e-327d-11e6-9131-82eeeff7a29c	11_127633186_ACTA	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	11	127633186	ACT	A	420	PASS	-	Del	-	2	2	POLB	parent	11_127633186_ACTA_POLB	2	2	2	CT	1	CT	Repeat-mediated
b998f08e-328c-11e6-8952-77c36f39e758	10_74618043_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	74618043	CA	C	480	PASS	MCU	Del	intronic	1	6	MSH6	child	10_74618043_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
b9990be8-329e-11e6-aea7-956725c9da85	3_15397683_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	15397683	GT	G	360	PASS	-	Del	-	1	9	MSH6	child	3_15397683_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
b99b406e-328c-11e6-8256-94c36f39e758	17_59810720_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	59810720	AT	A	420	PASS	BRIP1	Del	intronic	1	9	MSH6	child	17_59810720_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
b9a28a22-3291-11e6-8d18-13cc0d01a414	20_3056716_ACA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	20	3056716	AC	A	480	PASS	OXT	Del	downstream	1	7	MSH6	child	20_3056716_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
b9a4d558-3272-11e6-a862-bc9becf1e924	1_23809015_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	23809015	CA	C	400	PASS	ASAP3	Del	intronic	1	8	MSH6	child	1_23809015_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
b9a8ee66-325b-11e6-8340-da9012ae24cf	6_36312402_CCAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	36312402	C	CAT	360	PASS	-	Ins	-	2	6	MSH6	child	6_36312402_CCAT_MSH6	2	2	-	-	-	-	Ins
b9aa2e66-3283-11e6-a853-ed929cdf095d	9_81283478_ATA	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	9	81283478	AT	A	540	PASS	-	Del	-	1	9	POLE	child	9_81283478_ATA_POLE	1	1	1	T	8	T	Repeat-mediated
b9acaaf4-3258-11e6-8cd9-139b7872c165	3_89825908_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	89825908	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	3_89825908_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
b9af699e-325b-11e6-8340-da9012ae24cf	6_36312409_AATG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	36312409	A	ATG	300	PASS	-	Ins	-	2	0	MSH6	child	6_36312409_AATG_MSH6	2	2	-	-	-	-	Ins
b9b9b8fc-3325-11e6-8b24-4ab97d6a9fc7	4_84642799_TCT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	4	84642799	TC	T	540	PASS	RP11-767N15.1	Del	intronic	1	3	EXO1	child	4_84642799_TCT_EXO1	1	1	1	C	2	C	Repeat-mediated
b9bd0534-3285-11e6-99f7-076ea2c71c31	12_113900525_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	113900525	CT	C	420	PASS	LHX5	Del	3prime_UTR_variant	1	9	MSH6	child	12_113900525_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
b9bfe2a4-3271-11e6-b636-ce0fead19ece	12_12368229_CCTC	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	12	12368229	CCT	C	480	PASS	LRP6	Del	intronic	2	1	NEIL1	child	12_12368229_CCTC_NEIL1	2	2	0	-	0	-	None
b9c3a212-3290-11e6-9cbe-9277fc77b11e	3_20556629_ATA	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	3	20556629	AT	A	420	PASS	-	Del	-	1	8	POLE	child	3_20556629_ATA_POLE	1	1	1	T	7	T	Repeat-mediated
b9d89dfc-3259-11e6-a304-347a7872c165	1_188586844_TTA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	188586844	T	TA	480	PASS	-	Ins	-	1	4	MSH6	child	1_188586844_TTA_MSH6	1	1	-	-	-	-	Ins
b9dbdfe4-3272-11e6-aca7-e2b6dcd214c4	5_137710299_TATAT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	5	137710299	TATA	T	600	PASS	KDM3B	Del	intronic	3	2	POLM	child	5_137710299_TATAT_POLM	3	3	3	ATA	1	ATA	Repeat-mediated
b9dd3622-3273-11e6-b89d-b2d6b0dab373	4_86447114_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	86447114	C	CA	840	PASS	ARHGAP24	Ins	intronic	1	1	MSH6	child	4_86447114_CCA_MSH6	1	1	-	-	-	-	Ins
b9e0f344-328b-11e6-b43c-7ec36f39e758	16_11824413_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	11824413	AT	A	540	PASS	TXNDC11	Del	intronic	1	7	MSH6	child	16_11824413_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
b9f85260-3271-11e6-8ebd-b79e4430f757	12_80235698_GTG	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	12	80235698	GT	G	420	PASS	PPP1R12A	Del	intronic	1	8	POLB	child	12_80235698_GTG_POLB	1	1	1	T	7	T	Repeat-mediated
b9fe5b96-3286-11e6-8404-8e1fbce6aa09	8_20251977_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	20251977	AT	A	480	PASS	-	Del	-	1	6	MSH6	child	8_20251977_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
ba0eb2ee-3325-11e6-98e4-0c20d8fd0a58	X_146901201_TGT	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	X	146901201	TG	T	1020	PASS	-	Del	-	1	7	CHK2	parent	X_146901201_TGT_CHK2	1	1	1	G	6	G	Repeat-mediated
ba140ad2-3258-11e6-8cd9-139b7872c165	3_90138282_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	90138282	CA	C	600	PASS	-	Del	-	1	7	MSH6	child	3_90138282_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
ba2494a0-3254-11e6-a4a7-35f212ae24cf	14_94463296_TGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	94463296	TG	T	840	PASS	-	Del	-	1	7	MSH6	child	14_94463296_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
ba2c8b86-3283-11e6-83b0-2c6e0d016689	2_1977666_ACA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	2	1977666	AC	A	420	PASS	MYT1L	Del	intronic	1	4	EXO1	child	2_1977666_ACA_EXO1	1	1	1	C	3	C	Repeat-mediated
ba3487ac-3290-11e6-b81f-4ee66f39e758	8_67583629_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	67583629	AT	A	480	PASS	VCPIP1	Del	upstream	1	8	MSH6	child	8_67583629_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ba4112d2-328c-11e6-b537-8a5c694da5d2	13_39777818_ACA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	13	39777818	AC	A	480	PASS	-	Del	-	1	5	POLM	child	13_39777818_ACA_POLM	1	1	1	C	4	C	Repeat-mediated
ba4eb620-327e-11e6-8c98-e78c90e2c2e6	4_28689261_TTGACT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	4	28689261	TTGAC	T	600	PASS	-	Del	-	4	1	NUDT1	child	4_28689261_TTGACT_NUDT1	4	4	2	TG	0	-	Microhomology-mediated
ba51e85a-329b-11e6-a5cf-205325c9da85	11_118488189_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	118488189	CT	C	540	PASS	PHLDB1	Del	intronic	1	9	MSH6	child	11_118488189_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
ba52e4e6-3276-11e6-b48f-cc371daa6045	9_102642854_TCT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	9	102642854	TC	T	499	PASS	-	Del	-	1	6	EXO1	child	9_102642854_TCT_EXO1	1	1	1	C	5	C	Repeat-mediated
ba53d952-3274-11e6-972b-b65bfc77b11e	1_112952013_TAT	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	1	112952013	TA	T	420	PASS	CTTNBP2NL	Del	intronic	1	8	CHK2	child	1_112952013_TAT_CHK2	1	1	1	A	7	A	Repeat-mediated
ba5ef238-3292-11e6-b014-6aecb41afd22	2_24765361_CTC	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	2	24765361	CT	C	480	PASS	NCOA1	Del	intronic	1	8	NEIL1	child	2_24765361_CTC_NEIL1	1	1	1	T	7	T	Repeat-mediated
ba6029cc-3293-11e6-a2c5-65337a852e0e	5_110144508_GTAG	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	5	110144508	GTA	G	360	PASS	-	Del	-	2	7	CHK2	child	5_110144508_GTAG_CHK2	2	2	2	TA	6	TA	Repeat-mediated
ba63eeb8-3275-11e6-9406-ffa24430f757	3_62656358_TAT	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	3	62656358	TA	T	300	PASS	CADPS	Del	intronic	1	9	POLB	child	3_62656358_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
ba67acc6-3273-11e6-a5d0-4fd14a47a305	2_116001334_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	116001334	GT	G	420	PASS	DPP10	Del	intronic	1	9	MSH6	child	2_116001334_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
ba76ff58-3289-11e6-8b67-086ea2c71c31	1_241754736_AAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	241754736	A	AG	420	PASS	KMO	Ins	intronic	1	1	MSH6	child	1_241754736_AAG_MSH6	1	1	-	-	-	-	Ins
ba7f1d8c-3275-11e6-83cd-a472a178171f	4_46633198_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	46633198	AT	A	540	PASS	-	Del	-	1	6	MSH6	child	4_46633198_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
ba834986-3287-11e6-afcf-0311bce6aa09	9_83223761_GGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	83223761	G	GA	418	PASS	-	Ins	-	1	1	MSH6	child	9_83223761_GGA_MSH6	1	1	-	-	-	-	Ins
ba882fe0-3256-11e6-9cd8-27f912ae24cf	7_138237003_AAATGACACA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	7	138237003	AAATGACAC	A	660	PASS	TRIM24	Del	intronic	8	1	POLB	child	7_138237003_AAATGACACA_POLB	8	8	1	A	0	-	Microhomology-mediated
ba88f86c-326f-11e6-b0d5-f40b98ba1142	19_38425611_GTG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	19	38425611	GT	G	480	PASS	SIPA1L3	Del	intronic	1	9	EXO1	parent	19_38425611_GTG_EXO1	1	1	1	T	8	T	Repeat-mediated
ba8a2d30-328e-11e6-9d24-ade56f39e758	7_9511980_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	9511980	CA	C	660	PASS	-	Del	-	1	8	MSH6	child	7_9511980_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
ba8c73ba-3284-11e6-8ebc-68f1bbe6aa09	18_42027790_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	42027790	TA	T	640	PASS	CTC-782O7.1	Del	intronic	1	7	MSH6	child	18_42027790_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
ba8cdaee-3284-11e6-a79b-fd3eee3c4f5d	4_179072579_ATA	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	4	179072579	AT	A	300	PASS	-	Del	-	1	8	POLB	child	4_179072579_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
ba970d34-3275-11e6-83cd-a472a178171f	4_46747562_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	46747562	CT	C	420	PASS	COX7B2	Del	intronic	1	6	MSH6	child	4_46747562_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
baa49a0e-327e-11e6-89da-51be4dc77248	15_68644066_GGAGGC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	15	68644066	G	GAGGC	540	PASS	ITGA11	Ins	intronic	4	0	NUDT1	child	15_68644066_GGAGGC_NUDT1	4	4	-	-	-	-	Ins
baabd89e-328f-11e6-8f31-bfe16f39e758	9_138256764_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	138256764	CA	C	600	PASS	-	Del	-	1	9	MSH6	child	9_138256764_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
baae3bb4-328c-11e6-8459-82090e01a414	12_62542007_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	62542007	C	CA	540	PASS	FAM19A2	Ins	intronic	1	4	MSH6	child	12_62542007_CCA_MSH6	1	1	-	-	-	-	Ins
bab4487e-3278-11e6-a391-f6d67d6a9fc7	6_84287817_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	84287817	AT	A	840	PASS	SNAP91	Del	intronic	1	9	MSH6	child	6_84287817_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
bab738fa-328b-11e6-aa75-90c36f39e758	13_30676438_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	30676438	AC	A	540	PASS	LINC00365	Del	downstream	1	1	MSH6	child	13_30676438_ACA_MSH6	1	1	0	-	0	C	None
bac1717c-3258-11e6-8cd9-139b7872c165	3_93566396_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	93566396	CT	C	480	PASS	RNU6-488P	Del	downstream	1	8	MSH6	child	3_93566396_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
bad31faa-3279-11e6-8c34-46e27872c165	5_131521107_CCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	131521107	C	CT	900	PASS	AC063976.3	Ins	upstream	1	7	MSH6	child	5_131521107_CCT_MSH6	1	1	-	-	-	-	Ins
badc8502-3253-11e6-9f9d-2c7a7872c165	12_12274394_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	12274394	CA	C	540	PASS	LRP6	Del	intronic	1	9	MSH6	child	12_12274394_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
badcafa8-3291-11e6-9432-c0e56f39e758	5_31431008_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	31431008	T	TA	780	PASS	DROSHA	Ins	intronic	1	8	MSH6	child	5_31431008_TTA_MSH6	1	1	-	-	-	-	Ins
bae62996-3284-11e6-95c7-6dfa4430f757	11_65267084_TGGT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	11	65267084	TGG	T	780	PASS	MALAT1	Del	nc_variant	2	3	EXO1	child	11_65267084_TGGT_EXO1	2	2	1	G	0	-	Microhomology-mediated
bae7ef0e-3277-11e6-a391-f6d67d6a9fc7	6_18392098_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	18392098	CA	C	360	PASS	RNF144B	Del	intronic	1	9	MSH6	child	6_18392098_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
bae8165a-328b-11e6-8770-3e160e01a414	9_6235005_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	6235005	GA	G	360	PASS	IL33	Del	intronic	1	9	MSH6	child	9_6235005_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
baefb40a-3286-11e6-8404-8e1fbce6aa09	8_21049383_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	21049383	GA	G	360	PASS	-	Del	-	1	9	MSH6	child	8_21049383_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
baf02ae0-331f-11e6-94fd-ff28038949d4	15_25942710_CAGC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	15	25942710	CAG	C	1140	PASS	ATP10A	Del	intronic	2	3	CHK2	parent	15_25942710_CAGC_CHK2	2	2	2	AG	2	AG	Repeat-mediated
bafd333e-3284-11e6-a8af-066ea2c71c31	15_42036411_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	42036411	TA	T	540	PASS	MGA	Del	intronic	1	1	MSH6	child	15_42036411_TAT_MSH6	1	1	0	-	0	A	None
baffd572-3274-11e6-a2a4-305390e2c2e6	3_133831303_TAT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	3	133831303	TA	T	480	PASS	-	Del	-	1	7	POLB	child	3_133831303_TAT_POLB	1	1	1	A	6	A	Repeat-mediated
bb0a1bae-3279-11e6-92c7-b3b42aaffa45	20_10700563_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	20	10700563	AT	A	600	PASS	-	Del	-	1	5	EXO1	child	20_10700563_ATA_EXO1	1	1	1	T	4	T	Repeat-mediated
bb0b78ac-328b-11e6-9e88-ed4438e8a824	6_7917521_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	6	7917521	AT	A	600	PASS	TXNDC5	Del	intronic	1	1	NUDT1	parent	6_7917521_ATA_NUDT1	1	1	0	-	0	T	None
bb0c01d8-3285-11e6-be43-0a6ea2c71c31	10_114306357_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	114306357	CA	C	600	PASS	VTI1A	Del	intronic	1	5	MSH6	child	10_114306357_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
bb0d3afe-3270-11e6-b5b8-e0c24a47a305	X_82641761_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	82641761	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	X_82641761_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
bb0ebc20-329e-11e6-bc2c-2a5e25c9da85	4_120266674_TAGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	120266674	TAG	T	600	PASS	-	Del	-	2	6	MSH6	child	4_120266674_TAGT_MSH6	2	2	2	AG	5	AG	Repeat-mediated
bb0f4c38-3287-11e6-a284-4b89a2c71c31	4_110063891_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	110063891	CT	C	300	PASS	COL25A1	Del	intronic	1	9	MSH6	child	4_110063891_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
bb151dbe-3289-11e6-8eee-76090e01a414	10_28825893_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	28825893	TA	T	480	PASS	WAC	Del	intronic	1	8	MSH6	child	10_28825893_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
bb19b55a-329c-11e6-aca6-b39fcc638e3d	2_192147249_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	192147249	GA	G	600	PASS	MYO1B	Del	intronic	1	9	MSH6	child	2_192147249_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
bb1ec3bc-3290-11e6-9432-c0e56f39e758	5_151703652_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	151703652	AT	A	331	PASS	-	Del	-	1	9	MSH6	child	5_151703652_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
bb206bc6-3287-11e6-a5b3-3f1ebce6aa09	7_121170026_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	121170026	GT	G	420	PASS	-	Del	-	1	7	MSH6	child	7_121170026_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
bb24ee12-3273-11e6-b1f2-34f6620e6611	1_213113170_CTC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	1	213113170	CT	C	420	PASS	-	Del	-	1	8	CHK2	child	1_213113170_CTC_CHK2	1	1	1	T	7	T	Repeat-mediated
bb263cfc-3324-11e6-922f-5f0e75253f64	4_129690133_GAGAG	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	4	129690133	GAGA	G	600	PASS	-	Del	-	3	3	POLE	child	4_129690133_GAGAG_POLE	3	3	3	AGA	2	AGA	Repeat-mediated
bb364622-3272-11e6-9e18-3a69671699ea	10_24437267_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	24437267	TA	T	360	PASS	KIAA1217	Del	intronic	1	9	MSH6	child	10_24437267_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
bb439c5a-3259-11e6-a304-347a7872c165	1_189011311_CCTA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	189011311	C	CTA	300	PASS	-	Ins	-	2	2	MSH6	child	1_189011311_CCTA_MSH6	2	2	-	-	-	-	Ins
bb45d530-3284-11e6-870e-6af1bbe6aa09	19_20225469_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	20225469	TA	T	360	PASS	ZNF90	Del	intronic	1	6	MSH6	child	19_20225469_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
bb4a112a-3295-11e6-a24b-ac3c7a852e0e	6_111525154_TAT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	6	111525154	TA	T	300	PASS	SLC16A10	Del	intronic	1	9	CHK2	child	6_111525154_TAT_CHK2	1	1	1	A	8	A	Repeat-mediated
bb4a531c-3347-11e6-aa8a-bd633cfdbd24	15_93381368_TAT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	15	93381368	TA	T	300	PASS	-	Del	-	1	8	FANCC	child	15_93381368_TAT_FANCC	1	1	1	A	7	A	Repeat-mediated
bb506314-3285-11e6-b093-c9c7b0dab373	2_105487811_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	105487811	GT	G	360	PASS	-	Del	-	1	9	MSH6	child	2_105487811_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
bb518318-329c-11e6-ae71-0c5325c9da85	1_165289252_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	165289252	AT	A	420	PASS	LMX1A	Del	intronic	1	9	MSH6	child	1_165289252_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
bb58a90a-3287-11e6-a8ac-a28ea2c71c31	3_11605490_ACA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	11605490	AC	A	420	PASS	VGLL4	Del	intronic	1	5	MSH6	child	3_11605490_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
bb5ddbb8-326f-11e6-bfba-13bf4a47a305	9_126570834_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	126570834	AT	A	480	PASS	DENND1A	Del	intronic	1	7	MSH6	child	9_126570834_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
bb61896a-328e-11e6-ab2c-1d6bfc77b11e	14_85251973_AAT	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	14	85251973	A	AT	480	PASS	-	Ins	-	1	3	POLE	child	14_85251973_AAT_POLE	1	1	-	-	-	-	Ins
bb6c9e62-3271-11e6-9850-b83e75253f64	12_61423609_CTTCTTCTCCTTCTCCTTCTTGC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	12	61423609	CTTCTTCTCCTTCTCCTTCTTG	C	300	PASS	-	Del	-	21	1	FANCC	child	12_61423609_CTTCTTCTCCTTCTCCTTCTTGC_FANCC	21	>=10	12	TTCTTCTCCTTC	0	-	Microhomology-mediated
bb6ed014-3290-11e6-92cf-bf2a0e01a414	6_123285619_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	123285619	TA	T	540	PASS	-	Del	-	1	9	MSH6	child	6_123285619_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
bb6f06ec-3290-11e6-bec1-ca1d0e01a414	X_129391742_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	129391742	T	TA	300	PASS	ZNF280C	Ins	intronic	1	6	MSH6	child	X_129391742_TTA_MSH6	1	1	-	-	-	-	Ins
bb70fa8e-3271-11e6-81c8-19f506e9a829	2_62450732_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	2	62450732	AT	A	300	PASS	B3GNT2	Del	3prime_UTR_variant	1	9	FANCC	child	2_62450732_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
bb76c686-3270-11e6-8ebd-b79e4430f757	12_15457503_ATA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	12	15457503	AT	A	480	PASS	RERG	Del	intronic	1	9	POLB	child	12_15457503_ATA_POLB	1	1	1	T	8	T	Repeat-mediated
bb7950e0-3324-11e6-841a-c49690e2c2e6	6_3955362_CTC	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	6	3955362	CT	C	360	PASS	-	Del	-	1	8	POLE	child	6_3955362_CTC_POLE	1	1	1	T	7	T	Repeat-mediated
bb873fa6-328f-11e6-b97d-a8b305ad5bc4	20_13771329_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	13771329	GT	G	540	PASS	NDUFAF5	Del	intronic	1	7	MSH6	child	20_13771329_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
bb8a4f58-3270-11e6-aafd-c7dee9d19ece	2_5672749_ATA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	2	5672749	AT	A	420	PASS	-	Del	-	1	8	CHK2	child	2_5672749_ATA_CHK2	1	1	1	T	7	T	Repeat-mediated
bb942b36-3275-11e6-a71d-236235cec73b	X_33053325_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	33053325	CT	C	360	PASS	DMD	Del	intronic	1	8	MSH6	child	X_33053325_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
bba2ef6c-3285-11e6-b093-c9c7b0dab373	2_105627806_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	105627806	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	2_105627806_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
bbad2030-326d-11e6-9d68-ac9acab49462	15_67149432_TCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	67149432	TC	T	720	PASS	-	Del	-	1	1	MSH6	child	15_67149432_TCT_MSH6	1	1	0	-	0	C	None
bbbd1970-3279-11e6-a862-bc9becf1e924	1_243852128_CCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	243852128	C	CT	480	PASS	AKT3	Ins	intronic	1	9	MSH6	child	1_243852128_CCT_MSH6	1	1	-	-	-	-	Ins
bbbdf6ee-3277-11e6-9e0f-7959cab49462	7_150530916_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	150530916	GA	G	300	PASS	AOC1	Del	intronic	1	9	MSH6	child	7_150530916_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
bbc90bd6-3256-11e6-885f-d1947872c165	4_41533401_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	41533401	TA	T	300	PASS	LIMCH1	Del	intronic	1	9	MSH6	child	4_41533401_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
bbe075b0-3282-11e6-b9fb-4420bce6aa09	9_84077386_AAC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	9	84077386	A	AC	300	PASS	-	Ins	-	1	6	POLM	child	9_84077386_AAC_POLM	1	1	-	-	-	-	Ins
bbe236a2-3296-11e6-9458-5f42ead19ece	2_165063835_CCT	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	2	165063835	C	CT	300	PASS	AC092684.1	Ins	intronic	1	9	NUDT1	child	2_165063835_CCT_NUDT1	1	1	-	-	-	-	Ins
bbe6b096-3283-11e6-9e76-639d69062303	8_30965156_CTCGC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	8	30965156	CTCG	C	300	PASS	WRN	Del	intronic	3	1	FANCC	child	8_30965156_CTCGC_FANCC	3	3	1	T	0	-	Microhomology-mediated
bbe911b2-3286-11e6-a035-b215987b3f23	7_150776324_GGCTTTG	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	7	150776324	GGCTTT	G	600	PASS	SLC4A2	Del	downstream	5	1	NEIL1	parent	7_150776324_GGCTTTG_NEIL1	5	5	0	-	0	-	None
bbec0e28-3289-11e6-8909-3ebb38e8a824	9_89361473_TAT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	9	89361473	TA	T	300	PASS	-	Del	-	1	9	NUDT1	parent	9_89361473_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
bbf26cc2-326c-11e6-adc2-b7204b47a305	18_9621864_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	9621864	AT	A	300	PASS	RP11-692N5.1	Del	downstream	1	6	MSH6	child	18_9621864_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
bbf5a7f4-3279-11e6-9dfe-7ec135761512	1_91710120_GAG	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	1	91710120	GA	G	720	PASS	-	Del	-	1	4	FANCC	parent	1_91710120_GAG_FANCC	1	1	1	A	3	A	Repeat-mediated
bc035f54-3281-11e6-9fd8-b56f2aaffa45	13_111580188_AAACA	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	13	111580188	AAAC	A	1020	PASS	-	Del	-	3	1	POLE	child	13_111580188_AAACA_POLE	3	3	2	AA	0	-	Microhomology-mediated
bc0a79c4-328b-11e6-a7cf-80090e01a414	15_91819056_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	91819056	CA	C	360	PASS	SV2B	Del	intronic	1	8	MSH6	child	15_91819056_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
bc168138-3254-11e6-9f9d-2c7a7872c165	12_80494632_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	80494632	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	12_80494632_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
bc2128b2-32a0-11e6-a04f-c66a25c9da85	6_93988425_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	93988425	GT	G	840	PASS	EPHA7	Del	intronic	1	9	MSH6	child	6_93988425_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
bc273e3e-328a-11e6-a80b-87090e01a414	11_90532715_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	90532715	TA	T	480	PASS	DISC1FP1	Del	intronic	1	9	MSH6	child	11_90532715_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
bc2f67b6-3277-11e6-ab69-1c1607e9a829	9_104884100_CCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	104884100	C	CT	360	PASS	-	Ins	-	1	7	MSH6	child	9_104884100_CCT_MSH6	1	1	-	-	-	-	Ins
bc302a46-3274-11e6-89b4-ff21a2c71c31	10_132484084_TAT	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	10	132484084	TA	T	600	PASS	-	Del	-	1	8	CHK2	child	10_132484084_TAT_CHK2	1	1	1	A	7	A	Repeat-mediated
bc30ed68-3275-11e6-a6a8-746da178171f	4_113433423_CAGAC	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	4	113433423	CAGA	C	1080	PASS	NEUROG2	Del	downstream	3	2	NEIL1	child	4_113433423_CAGAC_NEIL1	3	3	3	AGA	1	AGA	Repeat-mediated
bc346958-326f-11e6-bf40-308964f80bad	4_87936761_GGTG	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	4	87936761	GGT	G	600	PASS	AFF1	Del	intronic	2	2	POLM	parent	4_87936761_GGTG_POLM	2	2	2	GT	1	GT	Repeat-mediated
bc34a836-3275-11e6-8c34-46e27872c165	5_26040274_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	26040274	CT	C	420	PASS	-	Del	-	1	7	MSH6	child	5_26040274_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
bc4641a2-328b-11e6-8770-3e160e01a414	9_6459220_AGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	6459220	AG	A	300	PASS	UHRF2	Del	intronic	1	1	MSH6	child	9_6459220_AGA_MSH6	1	1	0	-	0	G	None
bc55ae6a-3283-11e6-9607-56b01ac527ab	4_113952326_AATATATTACAAATTTTAATTTAAAATAAATGGAGGGAAGAGCTATACAACATTAGTATCTGTGAGACTCCTATTAAGATGCATTAGAAAAAAATTACTTTTATAATAATTTATTAATTGGCTCAAAATTTCTCTTTATTGCATTTTTCTGGAGATATTTATCTTTCCCTGAACCCATTCATTCATCTTGCCTTGGATCTATTTATTTAAGGACAGAGAGGATGCCGTGGGGACTGTTGCAGGGTAATGGGCAGATGGGCTGACTTCTTGCTTATTAGTAAGCTGGGATGATCTGACTCTAAACTTCTTCCTAAGGGA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	4	113952326	AATATATTACAAATTTTAATTTAAAATAAATGGAGGGAAGAGCTATACAACATTAGTATCTGTGAGACTCCTATTAAGATGCATTAGAAAAAAATTACTTTTATAATAATTTATTAATTGGCTCAAAATTTCTCTTTATTGCATTTTTCTGGAGATATTTATCTTTCCCTGAACCCATTCATTCATCTTGCCTTGGATCTATTTATTTAAGGACAGAGAGGATGCCGTGGGGACTGTTGCAGGGTAATGGGCAGATGGGCTGACTTCTTGCTTATTAGTAAGCTGGGATGATCTGACTCTAAACTTCTTCCTAAGGG	A	420	PASS	ANK2	Del	intronic	316	1	FANCC	child	4_113952326_AATATATTACAAATTTTAATTTAAAATAAATGGAGGGAAGAGCTATACAACATTAGTATCTGTGAGACTCCTATTAAGATGCATTAGAAAAAAATTACTTTTATAATAATTTATTAATTGGCTCAAAATTTCTCTTTATTGCATTTTTCTGGAGATATTTATCTTTCCCTGAACCCATTCATTCATCTTGCCTTGGATCTATTTATTTAAGGACAGAGAGGATGCCGTGGGGACTGTTGCAGGGTAATGGGCAGATGGGCTGACTTCTTGCTTATTAGTAAGCTGGGATGATCTGACTCTAAACTTCTTCCTAAGGGA_FANCC	316	>=10	3	ATA	0	-	Microhomology-mediated
bc5aee04-3290-11e6-b77d-2eef6f39e758	6_18866939_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	18866939	CA	C	600	PASS	-	Del	-	1	5	MSH6	child	6_18866939_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
bc6c2a2a-3290-11e6-8f31-bfe16f39e758	9_84422600_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	84422600	C	CA	480	PASS	-	Ins	-	1	8	MSH6	child	9_84422600_CCA_MSH6	1	1	-	-	-	-	Ins
bc6c2e4c-3323-11e6-814a-c8fe4430f757	1_227946628_CAC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	1	227946628	CA	C	540	PASS	SNAP47	Del	intronic	1	9	CHK2	child	1_227946628_CAC_CHK2	1	1	1	A	8	A	Repeat-mediated
bc6f04ce-328c-11e6-b8e6-91c36f39e758	11_78221987_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	78221987	TA	T	780	PASS	NARS2	Del	intronic	1	7	MSH6	child	11_78221987_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
bc6f938a-3273-11e6-9065-cc4890e2c2e6	1_185149316_TAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	1	185149316	TA	T	480	PASS	SWT1	Del	intronic	1	9	MSH6	parent	1_185149316_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
bc770e52-326f-11e6-b923-6726694da5d2	5_18722537_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	18722537	CA	C	360	PASS	CTD-2023M8.1	Del	intronic	1	9	MSH6	child	5_18722537_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
bc77e05a-3285-11e6-a722-38d09b6d3b88	3_168022568_TAT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	3	168022568	TA	T	360	PASS	-	Del	-	1	6	EXO1	child	3_168022568_TAT_EXO1	1	1	1	A	5	A	Repeat-mediated
bc79852e-3288-11e6-a32f-5b79a178171f	11_73158611_AAC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	11	73158611	A	AC	420	PASS	FAM168A	Ins	intronic	1	1	FANCC	child	11_73158611_AAC_FANCC	1	1	-	-	-	-	Ins
bc80fb86-3258-11e6-8cd9-139b7872c165	3_94299524_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	94299524	AT	A	300	PASS	-	Del	-	1	4	MSH6	child	3_94299524_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
bc877ab8-328c-11e6-bcba-4aab4430f757	2_32111648_TAT	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	2	32111648	TA	T	600	PASS	MEMO1	Del	intronic	1	5	POLE	child	2_32111648_TAT_POLE	1	1	1	A	4	A	Repeat-mediated
bc9048b2-3270-11e6-a777-d57d9cdf095d	10_127051450_TAT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	10	127051450	TA	T	480	PASS	-	Del	-	1	9	EXO1	parent	10_127051450_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
bc911dfc-328c-11e6-8256-94c36f39e758	17_60370304_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	60370304	TA	T	290	PASS	-	Del	-	1	9	MSH6	child	17_60370304_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
bc914026-3321-11e6-881c-c18230158702	10_87286016_ATA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	10	87286016	AT	A	540	PASS	-	Del	-	1	9	POLE	child	10_87286016_ATA_POLE	1	1	1	T	8	T	Repeat-mediated
bc99c31c-3287-11e6-baf1-58044530f757	3_32189750_GAGAG	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	3	32189750	GAGA	G	660	PASS	GPD1L	Del	intronic	3	2	EXO1	child	3_32189750_GAGAG_EXO1	3	3	3	AGA	1	AGA	Repeat-mediated
bc9efe56-328a-11e6-a380-15ec54de4fc4	1_164156227_GTG	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	1	164156227	GT	G	300	PASS	-	Del	-	1	5	CHK2	child	1_164156227_GTG_CHK2	1	1	1	T	4	T	Repeat-mediated
bc9f57b2-3275-11e6-a71d-236235cec73b	X_33496925_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	33496925	GA	G	780	PASS	-	Del	-	1	7	MSH6	child	X_33496925_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
bca188e2-3285-11e6-86e9-d4770d016689	X_31497361_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	X	31497361	AT	A	300	PASS	DMD	Del	intronic	1	8	EXO1	child	X_31497361_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
bcae0aa2-3273-11e6-8418-1c5942c4520d	3_156252511_CCCCAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	156252511	C	CCCAG	660	PASS	KCNAB1	Ins	intronic	4	0	MSH6	child	3_156252511_CCCCAG_MSH6	4	4	-	-	-	-	Ins
bcae91c6-328b-11e6-8256-94c36f39e758	17_10041446_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	10041446	AT	A	420	PASS	GAS7	Del	intronic	1	9	MSH6	child	17_10041446_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
bcbc918c-328f-11e6-9d97-efe56f39e758	4_74925796_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	74925796	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	4_74925796_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
bcbd1d72-326d-11e6-9d68-ac9acab49462	15_67207488_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	67207488	AT	A	720	PASS	RP11-798K3.4	Del	upstream	1	8	MSH6	child	15_67207488_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
bcbec9bc-3275-11e6-a71d-236235cec73b	X_33631872_ATTGTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	33631872	ATTGT	A	600	PASS	-	Del	-	4	2	MSH6	child	X_33631872_ATTGTA_MSH6	4	4	4	TTGT	1	TTGT	Repeat-mediated
bcc2a722-328d-11e6-84e9-d36dfd44d094	2_140733640_GATG	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	2	140733640	GAT	G	480	PASS	-	Del	-	2	5	POLM	child	2_140733640_GATG_POLM	2	2	2	AT	4	AT	Repeat-mediated
bcc886aa-327f-11e6-97a4-78cfaa716c52	5_150718078_TAT	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	5	150718078	TA	T	780	PASS	SLC36A2	Del	intronic	1	9	POLB	parent	5_150718078_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
bccc22ac-328d-11e6-94e1-63e1191589db	3_33250135_GTATTCTCTTTTTTCTCTGTATTGATG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	3	33250135	GTATTCTCTTTTTTCTCTGTATTGAT	G	300	PASS	SUSD5	Del	intronic	25	1	FANCC	child	3_33250135_GTATTCTCTTTTTTCTCTGTATTGATG_FANCC	25	>=10	1	T	0	-	Microhomology-mediated
bcce7b7e-3256-11e6-885f-d1947872c165	4_41775920_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	41775920	CA	C	420	PASS	RNU1-49P	Del	upstream	1	9	MSH6	child	4_41775920_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
bcef5094-3272-11e6-b439-e34b3cfdbd24	2_123822871_CTC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	2	123822871	CT	C	540	PASS	AC062020.2	Del	upstream	1	9	MSH6	parent	2_123822871_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
bcf6b62a-3288-11e6-9453-299c20e7b7a8	2_114549941_GTCG	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	2	114549941	GTC	G	475	PASS	-	Del	-	2	2	POLE	child	2_114549941_GTCG_POLE	2	2	2	TC	1	TC	Repeat-mediated
bcfedd9a-3289-11e6-b1ba-6def1da8ec0e	1_205528921_AAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	1	205528921	A	AG	360	PASS	-	Ins	-	1	1	EXO1	child	1_205528921_AAG_EXO1	1	1	-	-	-	-	Ins
bd063bb0-3326-11e6-9eb4-dd99cf737e61	8_116547723_AGCATATATATAGCA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	8	116547723	AGCATATATATAGC	A	360	PASS	TRPS1	Del	intronic	13	2	EXO1	child	8_116547723_AGCATATATATAGCA_EXO1	13	>=10	13	GCATATATATAGC	1	AT	Microhomology-mediated
bd09c09e-334b-11e6-be18-768ca20b69d5	3_194720464_CACTTC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	3	194720464	CACTT	C	360	PASS	-	Del	-	4	1	FANCC	child	3_194720464_CACTTC_FANCC	4	4	2	AC	0	-	Microhomology-mediated
bd0a20ec-3284-11e6-91c1-9ac3b0dab373	21_45242493_AAGA	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	21	45242493	AAG	A	480	PASS	-	Del	-	2	2	POLE	parent	21_45242493_AAGA_POLE	2	2	2	AG	1	AG	Repeat-mediated
bd101fdc-3280-11e6-9a3a-b76f2aaffa45	16_7699218_TAT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	16	7699218	TA	T	780	PASS	RBFOX1	Del	intronic	1	9	POLE	child	16_7699218_TAT_POLE	1	1	1	A	8	A	Repeat-mediated
bd13b386-3271-11e6-961c-b84b3cfdbd24	18_53424478_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	18	53424478	AT	A	480	PASS	RP11-397A16.1	Del	intronic	1	9	MSH6	parent	18_53424478_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
bd17bd00-3253-11e6-8ebc-3ef212ae24cf	15_26360063_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	26360063	GT	G	540	PASS	LINC00929	Del	upstream	1	6	MSH6	child	15_26360063_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
bd226bba-3325-11e6-bd6e-9bc7cde16804	6_88262351_TAT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	6	88262351	TA	T	720	PASS	RARS2	Del	intronic	1	8	CHK2	child	6_88262351_TAT_CHK2	1	1	1	A	7	A	Repeat-mediated
bd265c9e-3275-11e6-83cd-a472a178171f	4_47536764_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	47536764	GT	G	900	PASS	ATP10D	Del	intronic	1	3	MSH6	child	4_47536764_GTG_MSH6	1	1	1	T	2	T	Repeat-mediated
bd269aa8-3287-11e6-839a-bb9738e8a824	8_92473682_CCACTT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	8	92473682	C	CACTT	540	PASS	-	Ins	-	4	0	POLE	parent	8_92473682_CCACTT_POLE	4	4	-	-	-	-	Ins
bd291174-3274-11e6-a5d0-4fd14a47a305	2_204251016_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	204251016	CT	C	300	PASS	ABI2	Del	intronic	1	8	MSH6	child	2_204251016_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
bd2eca0c-32a0-11e6-a04f-c66a25c9da85	6_94328354_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	94328354	GA	G	900	PASS	-	Del	-	1	8	MSH6	child	6_94328354_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
bd2f1422-3290-11e6-9401-04ed6f39e758	3_50693165_TGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	50693165	TG	T	540	PASS	-	Del	-	1	6	MSH6	child	3_50693165_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
bd3356e0-3272-11e6-b636-ce0fead19ece	12_82426045_ATA	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	12	82426045	AT	A	480	PASS	-	Del	-	1	7	NEIL1	child	12_82426045_ATA_NEIL1	1	1	1	T	6	T	Repeat-mediated
bd3412ce-329f-11e6-bc2c-2a5e25c9da85	4_180227315_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	180227315	AT	A	720	PASS	-	Del	-	1	7	MSH6	child	4_180227315_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
bd35bb6c-3284-11e6-a1ac-fd6da2c71c31	13_49257628_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	49257628	CT	C	600	PASS	-	Del	-	1	8	MSH6	child	13_49257628_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
bd3d1874-3254-11e6-b4d0-327a7872c165	11_78157012_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	78157012	AT	A	300	PASS	NARS2	Del	intronic	1	1	MSH6	child	11_78157012_ATA_MSH6	1	1	0	-	0	T	None
bd3d51fe-3290-11e6-bd11-15ea6f39e758	21_40232784_TTTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	21	40232784	T	TTG	480	PASS	-	Ins	-	2	4	MSH6	child	21_40232784_TTTG_MSH6	2	2	-	-	-	-	Ins
bd47f3b4-3283-11e6-b412-3b859cdf095d	2_230212633_GTG	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	2	230212633	GT	G	420	PASS	-	Del	-	1	8	POLE	child	2_230212633_GTG_POLE	1	1	1	T	7	T	Repeat-mediated
bd482312-3287-11e6-a8ac-a28ea2c71c31	3_12094949_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	12094949	CA	C	540	PASS	-	Del	-	1	7	MSH6	child	3_12094949_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
bd490726-328e-11e6-81d1-7ea5e7d0bdd7	3_107192403_CAC	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	3	107192403	CA	C	720	PASS	-	Del	-	1	9	POLM	child	3_107192403_CAC_POLM	1	1	1	A	8	A	Repeat-mediated
bd4a3cf6-328c-11e6-919e-92c36f39e758	2_82915285_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	82915285	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	2_82915285_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
bd5168ec-3290-11e6-919e-92c36f39e758	2_98569379_GGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	98569379	G	GA	600	PASS	TMEM131	Ins	intronic	1	3	MSH6	child	2_98569379_GGA_MSH6	1	1	-	-	-	-	Ins
bd524590-328c-11e6-b6a6-1f1e0e01a414	4_18692584_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	18692584	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	4_18692584_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
bd539fa6-329d-11e6-a5cf-e5abcc638e3d	9_115222699_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	115222699	CT	C	480	PASS	HSDL2	Del	intronic	1	7	MSH6	child	9_115222699_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
bd602982-3253-11e6-8ebc-3ef212ae24cf	15_26475395_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	26475395	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	15_26475395_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
bd646460-329a-11e6-8069-175325c9da85	12_53587403_TGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	53587403	TG	T	300	PASS	ZNF740	Del	downstream	1	7	MSH6	child	12_53587403_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
bd646d02-3259-11e6-8340-da9012ae24cf	6_85664912_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	85664912	TA	T	540	PASS	-	Del	-	1	6	MSH6	child	6_85664912_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
bd67beb8-326c-11e6-b2ac-b6204b47a305	17_6732123_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	6732123	CT	C	960	PASS	TEKT1	Del	intronic	1	9	MSH6	child	17_6732123_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
bd6ee86e-328a-11e6-bbaf-7c090e01a414	19_50458856_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	50458856	TA	T	300	PASS	SIGLEC11	Del	intronic	1	9	MSH6	child	19_50458856_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
bd71110c-3271-11e6-8454-c65566a58581	13_89134975_TAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	13	89134975	TA	T	300	PASS	-	Del	-	1	9	FANCC	child	13_89134975_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
bd7c71e8-326f-11e6-8c6e-e9d52aaffa45	18_10587000_GGT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	18	10587000	G	GT	420	PASS	-	Ins	-	1	8	POLM	child	18_10587000_GGT_POLM	1	1	-	-	-	-	Ins
bd7efad6-3282-11e6-9d44-8fbe2daed38e	5_40732713_ATA	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	5	40732713	AT	A	780	PASS	TTC33	Del	intronic	1	9	POLB	child	5_40732713_ATA_POLB	1	1	1	T	8	T	Repeat-mediated
bd81a264-3272-11e6-b539-d702ebb8d062	7_39768687_CTC	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	7	39768687	CT	C	420	PASS	LINC00265	Del	upstream	1	8	NUDT1	child	7_39768687_CTC_NUDT1	1	1	1	T	7	T	Repeat-mediated
bd820832-3284-11e6-821e-69f1bbe6aa09	16_31400833_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	31400833	CA	C	420	PASS	ITGAD	Del	upstream	1	7	MSH6	child	16_31400833_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
bd857296-328f-11e6-9d24-ade56f39e758	7_75471664_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	75471664	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	7_75471664_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
bd89fd86-3323-11e6-8ccd-5c056323ba5a	2_147474554_CAC	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	2	147474554	CA	C	480	PASS	-	Del	-	1	4	EXO1	child	2_147474554_CAC_EXO1	1	1	1	A	3	A	Repeat-mediated
bd9347b2-3272-11e6-83ef-69fb06e9a829	18_24176229_GCTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	24176229	GCT	G	540	PASS	KCTD1	Del	intronic	2	8	MSH6	child	18_24176229_GCTG_MSH6	2	2	2	CT	7	CT	Repeat-mediated
bd93f188-3274-11e6-ab69-1c1607e9a829	9_8083283_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	8083283	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	9_8083283_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
bdadd4a4-327e-11e6-94ee-5ee4b41afd22	9_115592061_GTG	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	9	115592061	GT	G	300	PASS	SNX30	Del	intronic	1	9	POLM	child	9_115592061_GTG_POLM	1	1	1	T	8	T	Repeat-mediated
bdb6eeea-3292-11e6-9458-5f42ead19ece	2_84736527_CTC	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	2	84736527	CT	C	408	PASS	-	Del	-	1	7	NUDT1	child	2_84736527_CTC_NUDT1	1	1	1	T	6	T	Repeat-mediated
bdbcba88-329b-11e6-ae71-0c5325c9da85	1_101911202_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	101911202	CT	C	660	PASS	-	Del	-	1	7	MSH6	child	1_101911202_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
bdc36190-3290-11e6-b3a9-d5afe7d0bdd7	4_61463614_CTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	4	61463614	CT	C	300	PASS	-	Del	-	1	8	FANCC	child	4_61463614_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
bdd284ee-3287-11e6-956d-004290e2c2e6	X_133712696_CTC	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	X	133712696	CT	C	346	PASS	PLAC1	Del	intronic	1	9	POLE	child	X_133712696_CTC_POLE	1	1	1	T	8	T	Repeat-mediated
bdd34976-3276-11e6-83cd-a472a178171f	4_124030021_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	124030021	AT	A	360	PASS	SPATA5	Del	intronic	1	9	MSH6	child	4_124030021_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
bdd8c2c2-328d-11e6-88c1-95c36f39e758	14_56055694_GGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	56055694	G	GA	360	PASS	KTN1	Ins	intronic	1	8	MSH6	child	14_56055694_GGA_MSH6	1	1	-	-	-	-	Ins
bddd98c6-3277-11e6-90fa-056466a58581	4_93567593_AAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	4	93567593	A	AT	300	PASS	GRID2	Ins	intronic	1	5	FANCC	child	4_93567593_AAT_FANCC	1	1	-	-	-	-	Ins
bdde5f62-3296-11e6-b3f4-ce65a178171f	X_64693957_TCTAT	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	X	64693957	TCTA	T	900	PASS	-	Del	-	3	2	POLB	child	X_64693957_TCTAT_POLB	3	3	3	CTA	1	CTA	Repeat-mediated
bdde87dc-328a-11e6-8eee-76090e01a414	10_95867640_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	95867640	CA	C	420	PASS	PLCE1	Del	intronic	1	8	MSH6	child	10_95867640_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
bde6b476-328e-11e6-b81f-4ee66f39e758	8_4483166_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	4483166	TA	T	660	PASS	CSMD1	Del	intronic	1	9	MSH6	child	8_4483166_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
bdea6c56-3289-11e6-88e0-fc9512ae24cf	14_56847633_ATA	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	14	56847633	AT	A	480	PASS	-	Del	-	1	7	CHK2	child	14_56847633_ATA_CHK2	1	1	1	T	6	T	Repeat-mediated
bdeb6dce-3273-11e6-88b6-40832aaffa45	1_28068061_TAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	28068061	TA	T	420	PASS	FAM76A	Del	intronic	1	8	EXO1	child	1_28068061_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
bdfc0f56-329d-11e6-b696-dd6225c9da85	5_41803435_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	41803435	CA	C	660	PASS	OXCT1	Del	intronic	1	9	MSH6	child	5_41803435_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
bdff79c4-328f-11e6-9230-fb250e01a414	3_121925856_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	121925856	CA	C	360	PASS	CASR	Del	intronic	1	7	MSH6	child	3_121925856_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
be0758ea-3287-11e6-ab7a-289c20e7b7a8	19_10177262_CTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGCAGATCACAAGGTCAGGAGATCCAGACCATCCTGGCTAACGCGGTGAAACCCTGTCTCTACTAAAAATACAAAAAATTAGCCAGGCGTGGCGGCATGTGCCTGTATTCCCAGCTGCTGGGGAGGCTGAGGCAGGAGAATGGCCTGAACCCAGGAGGTGGAGCTTGCAGGGAGCCGAGATCGCACCACTGCACTCCAGCCTGGGCAACAGAGCAAGACTCTGTCTCAAAATAAATAAATAAATAAAATAAAATAAATAAGTAATCTATTATACTCATATTATTATTTATTTATAACCTAAATAAATAAATATAGGCCAGTCAGTGTGATC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	19	10177262	CTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGCAGATCACAAGGTCAGGAGATCCAGACCATCCTGGCTAACGCGGTGAAACCCTGTCTCTACTAAAAATACAAAAAATTAGCCAGGCGTGGCGGCATGTGCCTGTATTCCCAGCTGCTGGGGAGGCTGAGGCAGGAGAATGGCCTGAACCCAGGAGGTGGAGCTTGCAGGGAGCCGAGATCGCACCACTGCACTCCAGCCTGGGCAACAGAGCAAGACTCTGTCTCAAAATAAATAAATAAATAAAATAAAATAAATAAGTAATCTATTATACTCATATTATTATTTATTTATAACCTAAATAAATAAATATAGGCCAGTCAGTGTGAT	C	300	PASS	-	Del	-	368	1	POLE	child	19_10177262_CTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGCAGATCACAAGGTCAGGAGATCCAGACCATCCTGGCTAACGCGGTGAAACCCTGTCTCTACTAAAAATACAAAAAATTAGCCAGGCGTGGCGGCATGTGCCTGTATTCCCAGCTGCTGGGGAGGCTGAGGCAGGAGAATGGCCTGAACCCAGGAGGTGGAGCTTGCAGGGAGCCGAGATCGCACCACTGCACTCCAGCCTGGGCAACAGAGCAAGACTCTGTCTCAAAATAAATAAATAAATAAAATAAAATAAATAAGTAATCTATTATACTCATATTATTATTTATTTATAACCTAAATAAATAAATATAGGCCAGTCAGTGTGATC_POLE	368	>=10	31	TCATGCCTGTAATCCCAGCACTTTGGGAGGC	0	-	Microhomology-mediated
be0be63a-3273-11e6-8f33-a6d9cde16804	11_121972432_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	121972432	GA	G	300	PASS	MIR125B1	Del	upstream	1	9	MSH6	child	11_121972432_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
be1886ae-329d-11e6-b696-dd6225c9da85	5_41881769_CATC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	41881769	CAT	C	540	PASS	-	Del	-	2	6	MSH6	child	5_41881769_CATC_MSH6	2	2	2	AT	5	AT	Repeat-mediated
be1d49d6-3258-11e6-8340-da9012ae24cf	6_18392098_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	18392098	CA	C	360	PASS	RNF144B	Del	intronic	1	9	MSH6	child	6_18392098_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
be1eb862-3289-11e6-a100-84090e01a414	18_34058479_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	34058479	AT	A	540	PASS	FHOD3	Del	intronic	1	8	MSH6	child	18_34058479_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
be230ed0-3284-11e6-8ebc-68f1bbe6aa09	18_43674631_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	43674631	CA	C	300	PASS	ATP5A1	Del	intronic	1	9	MSH6	child	18_43674631_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
be264f20-3287-11e6-8404-8e1fbce6aa09	8_49297840_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	49297840	TA	T	540	PASS	-	Del	-	1	9	MSH6	child	8_49297840_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
be2657d6-3273-11e6-a42e-2f51e7d0bdd7	1_63282516_GTG	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	1	63282516	GT	G	300	PASS	ATG4C	Del	intronic	1	7	POLB	child	1_63282516_GTG_POLB	1	1	1	T	6	T	Repeat-mediated
be2dd03a-328f-11e6-b837-bf257a852e0e	13_39725147_GAG	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	13	39725147	GA	G	300	PASS	-	Del	-	1	8	CHK2	child	13_39725147_GAG_CHK2	1	1	1	A	7	A	Repeat-mediated
be358076-32a0-11e6-bc66-17b4cc638e3d	8_130333809_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	130333809	GA	G	600	PASS	-	Del	-	1	8	MSH6	child	8_130333809_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
be38cc6a-3276-11e6-8c34-46e27872c165	5_94354027_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	94354027	AT	A	600	PASS	MCTP1	Del	intronic	1	9	MSH6	child	5_94354027_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
be3b6eb6-3320-11e6-9963-fc8c38e8a824	11_59191178_GCAG	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	11	59191178	GCA	G	960	PASS	OR5A2	Del	upstream	2	5	POLE	child	11_59191178_GCAG_POLE	2	2	2	CA	4	CA	Repeat-mediated
be418e6e-3284-11e6-97d5-6cf1bbe6aa09	17_28124949_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	28124949	GT	G	1020	PASS	SSH2	Del	intronic	1	9	MSH6	child	17_28124949_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
be49e852-3257-11e6-91d3-a68412ae24cf	7_94617125_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	94617125	GT	G	600	PASS	PPP1R9A	Del	intronic	1	6	MSH6	child	7_94617125_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
be4d3d74-328c-11e6-b4fe-93c36f39e758	12_71091356_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	71091356	AT	A	480	PASS	PTPRR	Del	intronic	1	9	MSH6	child	12_71091356_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
be50cba4-327f-11e6-afd6-7a186ee4ab00	7_10388596_AAGA	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	7	10388596	AAG	A	420	PASS	-	Del	-	2	5	POLB	parent	7_10388596_AAGA_POLB	2	2	2	AG	4	AG	Repeat-mediated
be515f1e-3280-11e6-ae55-ef338e4678dd	14_36348080_CTTC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	14	36348080	CTT	C	600	PASS	RP11-317N8.3	Del	downstream	2	4	EXO1	child	14_36348080_CTTC_EXO1	2	2	2	TT	2	T	Repeat-mediated
be5bbee0-3286-11e6-baa3-81ed1da8ec0e	X_109044886_TTA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	X	109044886	T	TA	360	PASS	-	Ins	-	1	4	EXO1	child	X_109044886_TTA_EXO1	1	1	-	-	-	-	Ins
be603272-328b-11e6-bd84-429305ad5bc4	1_27386638_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	27386638	GT	G	360	PASS	-	Del	-	1	9	MSH6	child	1_27386638_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
be669010-328e-11e6-919e-92c36f39e758	2_217113453_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	217113453	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	2_217113453_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
be709bf8-328b-11e6-ae83-60cc977b3f23	19_14417398_ATA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	19	14417398	AT	A	900	PASS	CTC-548K16.2	Del	intronic	1	7	NEIL1	child	19_14417398_ATA_NEIL1	1	1	1	T	6	T	Repeat-mediated
be76bd00-3257-11e6-9d15-298312ae24cf	X_63120757_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	63120757	GA	G	300	PASS	-	Del	-	1	8	MSH6	child	X_63120757_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
be77fabc-3257-11e6-acc5-308412ae24cf	5_96306398_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	96306398	CT	C	780	PASS	LNPEP	Del	intronic	1	5	MSH6	child	5_96306398_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
be78ab08-3282-11e6-be4f-569ffc77b11e	6_85908144_GAG	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	6	85908144	GA	G	420	PASS	-	Del	-	1	9	POLB	parent	6_85908144_GAG_POLB	1	1	1	A	8	A	Repeat-mediated
be87a31c-326c-11e6-9d68-ac9acab49462	15_24515730_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	24515730	AT	A	420	PASS	RP11-580I1.2	Del	intronic	1	9	MSH6	child	15_24515730_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
be89507e-328d-11e6-9d41-3ba5e7d0bdd7	11_11105976_ATA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	11	11105976	AT	A	360	PASS	-	Del	-	1	9	FANCC	child	11_11105976_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
be910790-3271-11e6-b439-e34b3cfdbd24	2_48018103_ATGGAGGGTTACCCCA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	2	48018103	ATGGAGGGTTACCCC	A	960	PASS	MSH6	Del	frameshift	14	1	MSH6	parent	2_48018103_ATGGAGGGTTACCCCA_MSH6	14	>=10	3	TGG	0	-	Microhomology-mediated
be92982a-3290-11e6-90b2-d6ec98816cf3	8_69032158_TAGAT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	8	69032158	TAGA	T	480	PASS	PREX2	Del	intronic	3	2	POLB	child	8_69032158_TAGAT_POLB	3	3	3	AGA	1	AGA	Repeat-mediated
be94897c-329b-11e6-b129-195325c9da85	16_88913542_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	88913542	CT	C	600	PASS	GALNS	Del	intronic	1	7	MSH6	child	16_88913542_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
be99327c-328e-11e6-b837-1e9fe7d0bdd7	4_184773835_CTC	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	4	184773835	CT	C	286	PASS	-	Del	-	1	7	POLM	child	4_184773835_CTC_POLM	1	1	1	T	6	T	Repeat-mediated
be9dbb30-327f-11e6-ba36-88d64dc77248	7_100094465_ATA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	7	100094465	AT	A	1020	PASS	NYAP1	Del	downstream	1	9	NUDT1	child	7_100094465_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
bea0550a-3286-11e6-8404-8e1fbce6aa09	8_22638964_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	22638964	CT	C	660	PASS	PEBP4	Del	intronic	1	9	MSH6	child	8_22638964_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
bea14426-3289-11e6-ad64-7189a178171f	5_90378657_CTTC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	5	90378657	CTT	C	300	PASS	GPR98	Del	intronic	2	5	FANCC	child	5_90378657_CTTC_FANCC	2	2	2	TT	3	T	Repeat-mediated
bea53d42-3284-11e6-8b67-086ea2c71c31	1_27616747_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	27616747	AT	A	624	PASS	WDTC1	Del	intronic	1	8	MSH6	child	1_27616747_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
bea92c2e-326e-11e6-9d68-ac9acab49462	15_89032549_CGC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	89032549	CG	C	840	PASS	-	Del	-	1	6	MSH6	child	15_89032549_CGC_MSH6	1	1	1	G	5	G	Repeat-mediated
beab99c4-3281-11e6-a980-68393dc9300a	18_21176549_TAT	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	18	21176549	TA	T	420	PASS	ANKRD29	Del	downstream	1	9	FANCC	child	18_21176549_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
bead0324-3284-11e6-a0a8-096ea2c71c31	11_34207952_TCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	34207952	TC	T	720	PASS	ABTB2	Del	intronic	1	6	MSH6	child	11_34207952_TCT_MSH6	1	1	1	C	5	C	Repeat-mediated
beb3aa46-3273-11e6-b113-44c2bbe6aa09	16_72643349_CTC	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	16	72643349	CT	C	420	PASS	AC004158.2	Del	intronic	1	6	POLB	child	16_72643349_CTC_POLB	1	1	1	T	5	T	Repeat-mediated
bec5094c-3324-11e6-8b24-4ab97d6a9fc7	4_17294722_AAACA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	4	17294722	AAAC	A	540	PASS	-	Del	-	3	6	EXO1	child	4_17294722_AAACA_EXO1	3	3	3	AAC	5	AAC	Repeat-mediated
becad8da-3280-11e6-8767-7cd94dc77248	6_131966130_ATA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	6	131966130	AT	A	360	PASS	ENPP3	Del	intronic	1	8	NUDT1	child	6_131966130_ATA_NUDT1	1	1	1	T	7	T	Repeat-mediated
bed5b3ae-3320-11e6-a17c-098c64f80bad	14_23799879_ACCACCATGCCTGGCTAATTTTTTGTTTTTTTATTATTTATTTATTTTTTTGAGATGGAGTCTTGCTCTGTCACCCAGGCTGGAGAGCAATGGAGCGATCTTGGCTCACTGCAACCTCAGTCTCCCGGGTTCCAGCAATTCTCCTGCCTCAGCCCCCCAAGTAGCTGGGACTACAGCCGTGCACCACCAAGCTCGTCTAATTTTTTTATTTTTTAGTAGAGATGGCGTTTCACCATATTGGCCAGGCTGGTCTTGAACTCCTGACCTCATGATCCGCCCGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCATCGCGCAGGGCCAGAATTTTATTATATTTTATTTTTTGTAAAGATGAGATCTTGCTATGTTGCCCAAGCTGGCCTCAAACTCCTGGGCTCAAGTGATCCTCCCACCTCAGCCTCACAAAGTGCTTGGATTACAGGCATAAGA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	14	23799879	ACCACCATGCCTGGCTAATTTTTTGTTTTTTTATTATTTATTTATTTTTTTGAGATGGAGTCTTGCTCTGTCACCCAGGCTGGAGAGCAATGGAGCGATCTTGGCTCACTGCAACCTCAGTCTCCCGGGTTCCAGCAATTCTCCTGCCTCAGCCCCCCAAGTAGCTGGGACTACAGCCGTGCACCACCAAGCTCGTCTAATTTTTTTATTTTTTAGTAGAGATGGCGTTTCACCATATTGGCCAGGCTGGTCTTGAACTCCTGACCTCATGATCCGCCCGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCATCGCGCAGGGCCAGAATTTTATTATATTTTATTTTTTGTAAAGATGAGATCTTGCTATGTTGCCCAAGCTGGCCTCAAACTCCTGGGCTCAAGTGATCCTCCCACCTCAGCCTCACAAAGTGCTTGGATTACAGGCATAAG	A	300	PASS	PABPN1	Del	downstream	460	1	EXO1	child	14_23799879_ACCACCATGCCTGGCTAATTTTTTGTTTTTTTATTATTTATTTATTTTTTTGAGATGGAGTCTTGCTCTGTCACCCAGGCTGGAGAGCAATGGAGCGATCTTGGCTCACTGCAACCTCAGTCTCCCGGGTTCCAGCAATTCTCCTGCCTCAGCCCCCCAAGTAGCTGGGACTACAGCCGTGCACCACCAAGCTCGTCTAATTTTTTTATTTTTTAGTAGAGATGGCGTTTCACCATATTGGCCAGGCTGGTCTTGAACTCCTGACCTCATGATCCGCCCGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCATCGCGCAGGGCCAGAATTTTATTATATTTTATTTTTTGTAAAGATGAGATCTTGCTATGTTGCCCAAGCTGGCCTCAAACTCCTGGGCTCAAGTGATCCTCCCACCTCAGCCTCACAAAGTGCTTGGATTACAGGCATAAGA_EXO1	460	>=10	14	CCACCATGCCTGGC	0	-	Microhomology-mediated
bedbcc88-32a0-11e6-a04f-c66a25c9da85	6_94618469_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	94618469	GT	G	420	PASS	-	Del	-	1	7	MSH6	child	6_94618469_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
bee1e84e-328b-11e6-ac7a-a3c36f39e758	18_13863286_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	13863286	GA	G	480	PASS	-	Del	-	1	7	MSH6	child	18_13863286_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
bee1f724-328d-11e6-b9c4-751d0e01a414	5_99446309_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	99446309	AT	A	720	PASS	-	Del	-	1	8	MSH6	child	5_99446309_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
beefd8f8-326f-11e6-aff7-9ad52aaffa45	1_78971333_ATA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	1	78971333	AT	A	720	PASS	PTGFR	Del	intronic	1	8	NEIL1	child	1_78971333_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
bef0dede-3278-11e6-be3d-b594a20b69d5	4_96098826_CCAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	4	96098826	C	CAT	480	PASS	UNC5C	Ins	intronic	2	4	EXO1	child	4_96098826_CCAT_EXO1	2	2	-	-	-	-	Ins
bef14e42-329a-11e6-9048-b49fcc638e3d	17_38649418_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	38649418	CA	C	780	PASS	TNS4	Del	intronic	1	8	MSH6	child	17_38649418_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
befc6772-329b-11e6-a5cf-205325c9da85	11_119015951_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	119015951	CT	C	960	PASS	ABCG4	Del	upstream	1	7	MSH6	child	11_119015951_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
befd2154-3286-11e6-b093-c9c7b0dab373	2_193141111_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	193141111	TA	T	300	PASS	-	Del	-	1	6	MSH6	child	2_193141111_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
befdca1e-3277-11e6-bc24-bc6e3cfdbd24	6_108425819_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	6	108425819	AT	A	720	PASS	-	Del	-	1	8	MSH6	parent	6_108425819_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
bf1bb954-329d-11e6-a5ec-650998ba1142	6_107723482_CCA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	6	107723482	C	CA	480	PASS	PDSS2	Ins	intronic	1	9	CHK2	child	6_107723482_CCA_CHK2	1	1	-	-	-	-	Ins
bf269bf4-3283-11e6-ae26-b8936f39e758	16_2189128_CACAAAAC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	16	2189128	CACAAAA	C	360	PASS	PKD1	Del	upstream	6	2	EXO1	child	16_2189128_CACAAAAC_EXO1	6	6	6	ACAAAA	1	A	Microhomology-mediated
bf3dff0c-328c-11e6-bd84-429305ad5bc4	1_165492949_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	165492949	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	1_165492949_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
bf415d90-3283-11e6-9607-56b01ac527ab	4_115533374_TAT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	4	115533374	TA	T	540	PASS	UGT8	Del	intronic	1	9	FANCC	child	4_115533374_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
bf458640-32a1-11e6-94ca-0aaecc638e3d	X_150741495_CCG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	150741495	C	CG	360	PASS	PASD1	Ins	intronic	1	5	MSH6	child	X_150741495_CCG_MSH6	1	1	-	-	-	-	Ins
bf4d58c8-3258-11e6-9a2b-33a52aaffa45	3_117679002_TCT	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	3	117679002	TC	T	600	PASS	LSAMP	Del	intronic	1	7	POLM	child	3_117679002_TCT_POLM	1	1	1	C	6	C	Repeat-mediated
bf50385e-328a-11e6-9c89-8d090e01a414	1_81582345_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	81582345	CT	C	420	PASS	-	Del	-	1	8	MSH6	child	1_81582345_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
bf5172f6-3284-11e6-a032-41f0137bb207	1_225509135_GAG	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	1	225509135	GA	G	420	PASS	DNAH14	Del	intronic	1	8	NEIL1	parent	1_225509135_GAG_NEIL1	1	1	1	A	7	A	Repeat-mediated
bf5a3648-328e-11e6-b21e-ac230625f869	13_51555816_CCTTC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	13	51555816	CCTT	C	420	PASS	-	Del	-	3	1	NEIL1	child	13_51555816_CCTTC_NEIL1	3	3	2	CT	0	-	Microhomology-mediated
bf613b52-3278-11e6-9e0f-7959cab49462	7_55585636_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	55585636	C	CA	480	PASS	VOPP1	Ins	intronic	1	6	MSH6	child	7_55585636_CCA_MSH6	1	1	-	-	-	-	Ins
bf67a688-3271-11e6-8418-1c5942c4520d	3_170127066_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	170127066	CT	C	360	PASS	RP11-469J4.3	Del	upstream	1	9	MSH6	child	3_170127066_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
bf6aa8c0-327a-11e6-ab1d-16d9ecf1e924	20_60979236_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	60979236	CA	C	540	PASS	CABLES2	Del	intronic	1	9	MSH6	child	20_60979236_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
bf6c090a-327e-11e6-a700-ff0e9ecd0b3a	4_74661753_GAG	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	4	74661753	GA	G	534	PASS	-	Del	-	1	9	POLM	child	4_74661753_GAG_POLM	1	1	1	A	8	A	Repeat-mediated
bf773b98-3271-11e6-b5b8-e0c24a47a305	X_4287729_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	4287729	T	TA	420	PASS	-	Ins	-	1	7	MSH6	child	X_4287729_TTA_MSH6	1	1	-	-	-	-	Ins
bf7a5972-3271-11e6-9aa1-4a144530f757	13_23031861_TTCTTCACAAGGT	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	13	23031861	TTCTTCACAAGG	T	360	PASS	-	Del	-	11	1	NUDT1	child	13_23031861_TTCTTCACAAGGT_NUDT1	11	>=10	1	T	0	-	Microhomology-mediated
bf8129e4-326e-11e6-bc62-6d4742c4520d	16_70282837_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	70282837	T	TA	360	PASS	AARS	Ins	downstream	1	9	MSH6	child	16_70282837_TTA_MSH6	1	1	-	-	-	-	Ins
bf818302-3274-11e6-bfb2-2749c225ee11	12_13978992_GGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	13978992	G	GT	600	PASS	GRIN2B	Ins	intronic	1	6	MSH6	child	12_13978992_GGT_MSH6	1	1	-	-	-	-	Ins
bf8775a0-329c-11e6-aca6-b39fcc638e3d	2_193185480_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	193185480	TA	T	280	PASS	-	Del	-	1	8	MSH6	child	2_193185480_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
bf87d59c-329a-11e6-ae71-0c5325c9da85	1_41533827_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	41533827	CT	C	600	PASS	SCMH1	Del	intronic	1	3	MSH6	child	1_41533827_CTC_MSH6	1	1	1	T	2	T	Repeat-mediated
bf8cd3a4-328a-11e6-b805-77090e01a414	2_96645522_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	96645522	GA	G	520	PASS	ANKRD36C	Del	intronic	1	8	MSH6	child	2_96645522_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
bf8e2838-3287-11e6-a21c-b819bce6aa09	X_123069628_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	123069628	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	X_123069628_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
bf979140-3285-11e6-a0a8-096ea2c71c31	11_127566125_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	127566125	GT	G	540	PASS	-	Del	-	1	7	MSH6	child	11_127566125_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
bf9ad6a6-328b-11e6-b90a-464ed5dcf142	5_74237323_CTC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	5	74237323	CT	C	420	PASS	CTD-2503O16.4	Del	intronic	1	7	NUDT1	child	5_74237323_CTC_NUDT1	1	1	1	T	6	T	Repeat-mediated
bf9dd7d4-3281-11e6-9cfc-ec8590e2c2e6	1_119199586_GGT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	1	119199586	G	GT	300	PASS	-	Ins	-	1	7	NUDT1	child	1_119199586_GGT_NUDT1	1	1	-	-	-	-	Ins
bfa3a7ba-3284-11e6-9f05-70ef1da8ec0e	10_90623371_ACA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	10	90623371	AC	A	360	PASS	-	Del	-	1	3	EXO1	child	10_90623371_ACA_EXO1	1	1	1	C	2	C	Repeat-mediated
bfa43cda-328d-11e6-b6a6-1f1e0e01a414	4_78932770_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	78932770	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	4_78932770_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
bfa9db18-3256-11e6-9d15-298312ae24cf	X_46718079_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	46718079	AT	A	540	PASS	RP2	Del	intronic	1	9	MSH6	child	X_46718079_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
bfad6158-328c-11e6-ae4c-6bbfcc638e3d	7_95201974_GTAG	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	7	95201974	GTA	G	300	PASS	-	Del	-	2	6	NUDT1	child	7_95201974_GTAG_NUDT1	2	2	2	TA	5	TA	Repeat-mediated
bfb590a2-3274-11e6-b332-88ba7d6a9fc7	15_96812955_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	96812955	GA	G	840	PASS	-	Del	-	1	9	MSH6	child	15_96812955_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
bfb95e14-3272-11e6-b332-88ba7d6a9fc7	15_35357891_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	35357891	TA	T	540	PASS	-	Del	-	1	7	MSH6	child	15_35357891_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
bfbd7664-328d-11e6-bf99-1e6bfc77b11e	11_99137767_TAT	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	11	99137767	TA	T	540	PASS	CNTN5	Del	intronic	1	9	POLE	child	11_99137767_TAT_POLE	1	1	1	A	8	A	Repeat-mediated
bfc3ee78-3273-11e6-8f33-a6d9cde16804	11_122512248_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	122512248	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	11_122512248_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
bfc3fe6a-3285-11e6-a722-38d09b6d3b88	3_169327071_CTC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	3	169327071	CT	C	420	PASS	MECOM	Del	intronic	1	8	EXO1	child	3_169327071_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
bfc953f6-3271-11e6-b923-6726694da5d2	5_167178734_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	167178734	GT	G	420	PASS	TENM2	Del	intronic	1	8	MSH6	child	5_167178734_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
bfca96da-3253-11e6-a4a7-35f212ae24cf	14_32318122_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	32318122	GA	G	660	PASS	NUBPL	Del	intronic	1	7	MSH6	child	14_32318122_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
bfcbfde6-328e-11e6-9432-c0e56f39e758	5_13747332_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	13747332	CT	C	648	PASS	DNAH5	Del	intronic	1	6	MSH6	child	5_13747332_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
bfe3572c-3278-11e6-92d2-c259c225ee11	3_179020402_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	179020402	CA	C	780	PASS	-	Del	-	1	5	MSH6	child	3_179020402_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
bfe96614-326c-11e6-b9f4-5d1d694da5d2	14_30990780_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	30990780	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	14_30990780_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
bfed87c6-3285-11e6-bb60-c21d694da5d2	6_69797521_GGT	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	6	69797521	G	GT	360	PASS	BAI3	Ins	intronic	1	2	NEIL1	child	6_69797521_GGT_NEIL1	1	1	-	-	-	-	Ins
bfedf738-328a-11e6-8459-82090e01a414	12_88366430_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	88366430	CT	C	604	PASS	-	Del	-	1	7	MSH6	child	12_88366430_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
bff1d204-3276-11e6-9732-2a7ea2c71c31	22_31190183_TAT	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	22	31190183	TA	T	540	PASS	OSBP2	Del	intronic	1	8	NEIL1	child	22_31190183_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
bff7288e-329a-11e6-8069-175325c9da85	12_53911256_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	53911256	CT	C	300	PASS	ATF7	Del	intronic	1	8	MSH6	child	12_53911256_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
bff86f50-329a-11e6-b74d-b59fcc638e3d	18_59400071_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	59400071	AT	A	840	PASS	RP11-879F14.1	Del	intronic	1	5	MSH6	child	18_59400071_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
c005f622-3284-11e6-a8af-066ea2c71c31	15_43545411_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	43545411	TA	T	420	PASS	TGM5	Del	intronic	1	6	MSH6	child	15_43545411_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
c0104a54-328f-11e6-9d97-efe56f39e758	4_76129335_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	76129335	CA	C	900	PASS	-	Del	-	1	8	MSH6	child	4_76129335_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
c01210fe-329f-11e6-aea7-956725c9da85	3_79653387_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	79653387	CA	C	780	PASS	ROBO1	Del	intronic	1	8	MSH6	child	3_79653387_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
c0162a02-3292-11e6-b77d-2eef6f39e758	6_155074308_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	155074308	CA	C	480	PASS	SCAF8	Del	intronic	1	5	MSH6	child	6_155074308_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
c017be92-326c-11e6-9fba-41ebd8b4fa2c	11_9213564_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	9213564	AT	A	360	PASS	DENND5A	Del	intronic	1	8	MSH6	child	11_9213564_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c01b95f2-3286-11e6-ba61-6079a178171f	2_69700868_GAG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	2	69700868	GA	G	480	PASS	AAK1	Del	3prime_UTR_variant	1	7	FANCC	child	2_69700868_GAG_FANCC	1	1	1	A	6	A	Repeat-mediated
c030fc58-3272-11e6-bfb2-2749c225ee11	12_26593935_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	26593935	GA	G	840	PASS	ITPR2	Del	intronic	1	7	MSH6	child	12_26593935_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
c040e4aa-3282-11e6-8fa3-1d15038949d4	4_32456267_CCTC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	4	32456267	CCT	C	360	PASS	-	Del	-	2	5	POLM	child	4_32456267_CCTC_POLM	2	2	2	CT	4	CT	Repeat-mediated
c0431afc-329d-11e6-b696-dd6225c9da85	5_42653020_ATCTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	42653020	ATCT	A	420	PASS	GHR	Del	intronic	3	3	MSH6	child	5_42653020_ATCTA_MSH6	3	3	3	TCT	2	TCT	Repeat-mediated
c0454288-3288-11e6-a8ac-a28ea2c71c31	3_109194772_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	109194772	CT	C	720	PASS	RP11-702L6.4	Del	intronic	1	7	MSH6	child	3_109194772_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
c0474e12-3278-11e6-92a4-517690e2c2e6	20_25224832_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	20	25224832	AT	A	540	PASS	PYGB	Del	upstream	1	8	MSH6	parent	20_25224832_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c04ef55a-3259-11e6-a39a-dc8512ae24cf	8_142388178_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	142388178	CT	C	300	PASS	-	Del	-	1	4	MSH6	child	8_142388178_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
c0500b48-3290-11e6-b81f-4ee66f39e758	8_69037997_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	69037997	AT	A	660	PASS	PREX2	Del	intronic	1	8	MSH6	child	8_69037997_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c0570a7c-326f-11e6-a539-0e5542c4520d	7_55925681_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	55925681	GA	G	480	PASS	SEPT14	Del	intronic	1	9	MSH6	child	7_55925681_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c058f75c-328c-11e6-b9c4-751d0e01a414	5_33709631_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	33709631	TA	T	540	PASS	ADAMTS12	Del	intronic	1	5	MSH6	child	5_33709631_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
c063fa82-328a-11e6-aff5-85090e01a414	16_80682579_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	80682579	GA	G	480	PASS	CDYL2	Del	intronic	1	8	MSH6	child	16_80682579_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
c06d5894-328e-11e6-b4fe-93c36f39e758	12_53697251_GGAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	53697251	G	GAC	780	PASS	AAAS	Ins	downstream	2	3	MSH6	child	12_53697251_GGAC_MSH6	2	2	-	-	-	-	Ins
c06eb984-3273-11e6-8418-1c5942c4520d	3_158089216_CCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	158089216	C	CT	300	PASS	RSRC1	Ins	intronic	1	8	MSH6	child	3_158089216_CCT_MSH6	1	1	-	-	-	-	Ins
c0732cd6-3259-11e6-a304-347a7872c165	1_190792036_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	190792036	C	CA	300	PASS	-	Ins	-	1	7	MSH6	child	1_190792036_CCA_MSH6	1	1	-	-	-	-	Ins
c07d0e1a-329d-11e6-91d0-016425c9da85	7_17400545_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	17400545	CT	C	660	PASS	-	Del	-	1	7	MSH6	child	7_17400545_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
c07def66-326f-11e6-a0a7-943dc225ee11	1_50546815_AATCA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	1	50546815	AATC	A	480	PASS	ELAVL4	Del	intronic	3	2	EXO1	parent	1_50546815_AATCA_EXO1	3	3	3	ATC	1	ATC	Repeat-mediated
c080429c-3270-11e6-b923-6726694da5d2	5_89650627_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	89650627	CA	C	300	PASS	RP11-61G23.2	Del	intronic	1	8	MSH6	child	5_89650627_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
c0867314-3271-11e6-b923-6726694da5d2	5_167411664_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	167411664	GA	G	360	PASS	TENM2	Del	intronic	1	9	MSH6	child	5_167411664_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c086d17c-325a-11e6-8cd9-139b7872c165	3_36715216_GGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	36715216	G	GA	600	PASS	-	Ins	-	1	7	MSH6	child	3_36715216_GGA_MSH6	1	1	-	-	-	-	Ins
c08b49a8-329d-11e6-91d0-016425c9da85	7_17407404_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	17407404	AT	A	480	PASS	-	Del	-	1	6	MSH6	child	7_17407404_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
c08f3652-3285-11e6-a722-38d09b6d3b88	3_169692437_ACTA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	3	169692437	ACT	A	720	PASS	SEC62	Del	intronic	2	2	EXO1	child	3_169692437_ACTA_EXO1	2	2	2	CT	1	CT	Repeat-mediated
c08f747c-329a-11e6-8069-175325c9da85	12_53975663_TTGGGAGGCTAAAGCAGGAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	53975663	TTGGGAGGCTAAAGCAGGA	T	720	PASS	ATF7	Del	intronic	18	1	MSH6	child	12_53975663_TTGGGAGGCTAAAGCAGGAT_MSH6	18	>=10	0	-	0	-	None
c091aed2-329e-11e6-bc2c-2a5e25c9da85	4_121795051_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	121795051	GT	G	660	PASS	PRDM5	Del	intronic	1	7	MSH6	child	4_121795051_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
c0938ffe-3271-11e6-8418-1c5942c4520d	3_170604774_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	170604774	CT	C	360	PASS	EIF5A2	Del	downstream	1	9	MSH6	child	3_170604774_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c0989508-3280-11e6-a31e-d655f7d33ce3	1_1423294_TGTGAT	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	1	1423294	TGTGA	T	480	PASS	ATAD3B	Del	ess_splice	4	1	NUDT1	child	1_1423294_TGTGAT_NUDT1	4	4	3	GTG	0	-	Microhomology-mediated
c09c7b30-3322-11e6-8a20-9a0d75253f64	9_14823015_CTC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	9	14823015	CT	C	660	PASS	FREM1	Del	intronic	1	8	CHK2	child	9_14823015_CTC_CHK2	1	1	1	T	7	T	Repeat-mediated
c0a12730-3290-11e6-92cf-bf2a0e01a414	6_124923455_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	124923455	AT	A	360	PASS	NKAIN2	Del	intronic	1	6	MSH6	child	6_124923455_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
c0b4bcb8-3282-11e6-8597-c8186ee4ab00	8_140494489_GAG	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	8	140494489	GA	G	600	PASS	-	Del	-	1	9	POLB	parent	8_140494489_GAG_POLB	1	1	1	A	8	A	Repeat-mediated
c0b57494-3270-11e6-bfba-13bf4a47a305	9_84327551_CCAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	84327551	C	CAT	300	PASS	RP11-154D17.1	Ins	intronic	2	0	MSH6	child	9_84327551_CCAT_MSH6	2	2	-	-	-	-	Ins
c0b6a374-326f-11e6-9f48-94df41c4520d	12_120420683_AAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	120420683	A	AG	660	PASS	-	Ins	-	1	3	MSH6	child	12_120420683_AAG_MSH6	1	1	-	-	-	-	Ins
c0b6c1aa-3284-11e6-a2c9-149290e2c2e6	3_191735242_GGA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	3	191735242	G	GA	420	PASS	-	Ins	-	1	5	NUDT1	child	3_191735242_GGA_NUDT1	1	1	-	-	-	-	Ins
c0b8881a-326f-11e6-b923-6726694da5d2	5_20087443_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	20087443	TA	T	300	PASS	CDH18	Del	intronic	1	8	MSH6	child	5_20087443_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
c0bd0a7c-3281-11e6-ba12-fc09694da5d2	3_39574781_ATATA	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	3	39574781	ATAT	A	300	PASS	-	Del	-	3	2	NEIL1	child	3_39574781_ATATA_NEIL1	3	3	3	TAT	1	TAT	Repeat-mediated
c0bee0e0-3259-11e6-9d15-298312ae24cf	X_94764877_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	94764877	C	CA	420	PASS	-	Ins	-	1	7	MSH6	child	X_94764877_CCA_MSH6	1	1	-	-	-	-	Ins
c0c14168-3287-11e6-b32c-fd87a2c71c31	5_167958098_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	167958098	TA	T	780	PASS	-	Del	-	1	1	MSH6	child	5_167958098_TAT_MSH6	1	1	0	-	0	A	None
c0c2cbd6-3288-11e6-baf1-58044530f757	3_124143107_ATA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	3	124143107	AT	A	420	PASS	KALRN	Del	intronic	1	9	EXO1	child	3_124143107_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
c0c83070-3289-11e6-a100-84090e01a414	18_34694997_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	34694997	CA	C	360	PASS	KIAA1328	Del	intronic	1	8	MSH6	child	18_34694997_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
c0cc7564-3274-11e6-a60b-c9c89d7ad846	7_17555096_CAC	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	7	17555096	CA	C	720	PASS	AC017060.1	Del	intronic	1	7	NEIL1	child	7_17555096_CAC_NEIL1	1	1	1	A	6	A	Repeat-mediated
c0d43844-328d-11e6-b6a6-1f1e0e01a414	4_79216161_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	79216161	CT	C	660	PASS	FRAS1	Del	intronic	1	9	MSH6	child	4_79216161_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c0d5ed6e-328e-11e6-919e-92c36f39e758	2_217702204_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	217702204	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	2_217702204_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c0e40de8-3272-11e6-b4c7-c8d4ed3c4f5d	10_104164966_TGAGT	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	10	104164966	TGAG	T	600	PASS	PSD	Del	inframe	3	1	NEIL1	child	10_104164966_TGAGT_NEIL1	3	3	2	GA	0	-	Microhomology-mediated
c0eba09e-3290-11e6-b81f-4ee66f39e758	8_69192037_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	69192037	CA	C	323	PASS	-	Del	-	1	8	MSH6	child	8_69192037_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
c0ee31e6-328c-11e6-b8e6-91c36f39e758	11_79739193_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	79739193	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	11_79739193_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
c104d808-326c-11e6-b2ac-b6204b47a305	17_7471913_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	7471913	GA	G	280	PASS	EIF4A1	Del	upstream	1	9	MSH6	child	17_7471913_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c1054a7c-3276-11e6-9241-55e60d01a414	8_130034736_TGAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	8	130034736	TGA	T	360	PASS	-	Del	-	2	5	MSH6	parent	8_130034736_TGAT_MSH6	2	2	2	GA	4	GA	Repeat-mediated
c1056b0e-3287-11e6-af7e-81c435cec73b	4_83421757_TAAGT	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	4	83421757	TAAG	T	480	PASS	TMEM150C	Del	intronic	3	1	POLE	child	4_83421757_TAAGT_POLE	3	3	1	A	0	-	Microhomology-mediated
c10c721c-3275-11e6-88aa-2d54a966024e	7_124931128_CTC	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	7	124931128	CT	C	480	PASS	RP11-3B12.2	Del	intronic	1	6	MSH6	parent	7_124931128_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
c10fb50e-327e-11e6-97a4-78cfaa716c52	5_38206455_TAT	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	5	38206455	TA	T	360	PASS	-	Del	-	1	9	POLB	parent	5_38206455_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
c119c340-3289-11e6-a7cf-80090e01a414	15_41636835_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	41636835	CA	C	360	PASS	NUSAP1	Del	intronic	1	9	MSH6	child	15_41636835_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
c1207a5c-3287-11e6-8404-8e1fbce6aa09	8_51097372_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	51097372	GA	G	480	PASS	SNTG1	Del	intronic	1	8	MSH6	child	8_51097372_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
c12590f6-328b-11e6-88c1-95c36f39e758	14_32427350_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	32427350	TA	T	720	PASS	-	Del	-	1	6	MSH6	child	14_32427350_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
c13bfd92-3285-11e6-a8af-066ea2c71c31	15_79901847_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	79901847	TA	T	660	PASS	-	Del	-	1	3	MSH6	child	15_79901847_TAT_MSH6	1	1	1	A	2	A	Repeat-mediated
c13c79d2-328c-11e6-8256-94c36f39e758	17_61212887_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	61212887	CT	C	720	PASS	TANC2	Del	intronic	1	9	MSH6	child	17_61212887_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c13ec1de-3290-11e6-9401-04ed6f39e758	3_51489624_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	51489624	CA	C	300	PASS	VPRBP	Del	intronic	1	8	MSH6	child	3_51489624_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
c144698a-3291-11e6-9230-fb250e01a414	3_46565375_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	46565375	A	AT	420	PASS	LRRC2	Ins	intronic	1	7	MSH6	child	3_46565375_AAT_MSH6	1	1	-	-	-	-	Ins
c14856be-3276-11e6-92d2-c259c225ee11	3_32525252_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	32525252	TA	T	540	PASS	CMTM6	Del	3prime_UTR_variant	1	9	MSH6	child	3_32525252_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
c14fea6a-3293-11e6-8b9f-eea73adbad45	3_43506810_AAC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	3	43506810	A	AC	540	PASS	ANO10	Ins	intronic	1	1	NEIL1	child	3_43506810_AAC_NEIL1	1	1	-	-	-	-	Ins
c1548bfe-328b-11e6-a80b-87090e01a414	11_13327345_TTTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	13327345	T	TTG	540	PASS	ARNTL	Ins	intronic	2	6	MSH6	child	11_13327345_TTTG_MSH6	2	2	-	-	-	-	Ins
c1626394-3256-11e6-a304-347a7872c165	1_223497265_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	223497265	TA	T	300	PASS	SUSD4	Del	intronic	1	9	MSH6	child	1_223497265_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
c1663604-326f-11e6-b923-6726694da5d2	5_20307263_TAGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	20307263	TAG	T	300	PASS	CDH18	Del	intronic	2	5	MSH6	child	5_20307263_TAGT_MSH6	2	2	2	AG	4	AG	Repeat-mediated
c16c3d6c-326d-11e6-9d68-ac9acab49462	15_67600076_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	67600076	TA	T	300	PASS	IQCH	Del	intronic	1	7	MSH6	child	15_67600076_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
c16f8100-3256-11e6-a39a-dc8512ae24cf	8_7001104_CAATC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	7001104	CAAT	C	337	PASS	-	Del	-	3	2	MSH6	child	8_7001104_CAATC_MSH6	3	3	3	AAT	1	AAT	Repeat-mediated
c1703b6e-3273-11e6-b332-88ba7d6a9fc7	15_71452615_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	71452615	CT	C	420	PASS	THSD4	Del	intronic	1	8	MSH6	child	15_71452615_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
c1798e18-329a-11e6-a5cf-205325c9da85	11_59315905_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	59315905	AC	A	420	PASS	-	Del	-	1	8	MSH6	child	11_59315905_ACA_MSH6	1	1	1	C	7	C	Repeat-mediated
c17dc908-3293-11e6-a1c8-fb347a852e0e	7_78497309_GAG	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	7	78497309	GA	G	622	PASS	MAGI2	Del	intronic	1	9	CHK2	child	7_78497309_GAG_CHK2	1	1	1	A	8	A	Repeat-mediated
c17e0d2a-3282-11e6-b933-8181c042253c	10_87393331_CAC	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	10	87393331	CA	C	300	PASS	GRID1	Del	intronic	1	4	FANCC	child	10_87393331_CAC_FANCC	1	1	1	A	3	A	Repeat-mediated
c183f2da-325a-11e6-8b28-55ad7872c165	20_7695750_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	7695750	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	20_7695750_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
c1944e48-328a-11e6-aff5-85090e01a414	16_81003796_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	81003796	GA	G	420	PASS	-	Del	-	1	7	MSH6	child	16_81003796_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
c19812da-328f-11e6-bb1e-70e16f39e758	X_113624486_TTAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	113624486	TTA	T	360	PASS	-	Del	-	2	5	MSH6	child	X_113624486_TTAT_MSH6	2	2	2	TA	4	TA	Repeat-mediated
c19cfdaa-3275-11e6-9e25-e58e2aaffa45	4_26436734_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	4	26436734	AT	A	600	PASS	RBPJ	Del	downstream	1	8	EXO1	child	4_26436734_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
c1a51950-3323-11e6-925a-9564694da5d2	2_221779338_ATA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	2	221779338	AT	A	420	PASS	-	Del	-	1	8	POLE	child	2_221779338_ATA_POLE	1	1	1	T	7	T	Repeat-mediated
c1ac83ae-326d-11e6-92dd-fda8977b3f23	10_88651419_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	88651419	CT	C	420	PASS	BMPR1A	Del	intronic	1	8	MSH6	child	10_88651419_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
c1b29358-3285-11e6-839a-bb9738e8a824	8_94208488_TCTCT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	8	94208488	TCTC	T	540	PASS	-	Del	-	3	1	POLE	parent	8_94208488_TCTCT_POLE	3	3	2	CT	0	-	Microhomology-mediated
c1c5ef24-3272-11e6-ba3c-6216cd638e3d	7_48543593_ATTATA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	7	48543593	ATTAT	A	300	PASS	ABCA13	Del	intronic	4	1	NEIL1	child	7_48543593_ATTATA_NEIL1	4	4	2	TT	0	-	Microhomology-mediated
c1d51e9e-3282-11e6-9f1b-17f0137bb207	16_89855048_ATA	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	16	89855048	AT	A	420	PASS	FANCA	Del	intronic	1	8	FANCC	child	16_89855048_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
c1d70c18-3273-11e6-9c0f-f6f412ae24cf	16_52637428_ATA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	16	52637428	AT	A	420	PASS	CASC16	Del	intronic	1	1	EXO1	child	16_52637428_ATA_EXO1	1	1	0	-	0	T	None
c1d804dc-326f-11e6-9309-bdc34a47a305	8_42921566_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	42921566	AT	A	300	PASS	FNTA	Del	intronic	1	7	MSH6	child	8_42921566_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
c1dae384-3254-11e6-89d3-d29498816cf3	2_135832632_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	135832632	TA	T	540	PASS	RAB3GAP1	Del	intronic	1	9	MSH6	child	2_135832632_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
c1dc209c-326c-11e6-9fba-41ebd8b4fa2c	11_9393325_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	9393325	GT	G	300	PASS	-	Del	-	1	7	MSH6	child	11_9393325_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
c1e2538a-3290-11e6-9777-62d8191589db	5_163341107_TTA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	5	163341107	T	TA	660	PASS	-	Ins	-	1	7	FANCC	child	5_163341107_TTA_FANCC	1	1	-	-	-	-	Ins
c1e5b97e-3274-11e6-b332-88ba7d6a9fc7	15_97382899_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	97382899	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	15_97382899_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
c1e61172-328c-11e6-b4fe-93c36f39e758	12_72163688_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	72163688	CT	C	360	PASS	RAB21	Del	intronic	1	9	MSH6	child	12_72163688_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c1ea5916-3288-11e6-8404-8e1fbce6aa09	8_139913050_TCCATCCAGCTTTGGAGGCTGG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	139913050	TCCATCCAGCTT	TGGAGGCTGG	420	PASS	COL22A1	Complex	intronic	11	0	MSH6	child	8_139913050_TCCATCCAGCTTTGGAGGCTGG_MSH6	2	2	-	-	-	-	Complex
c1ebf284-32a2-11e6-bc66-17b4cc638e3d	8_93080333_GGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	93080333	G	GT	780	PASS	RUNX1T1	Ins	intronic	1	7	MSH6	child	8_93080333_GGT_MSH6	1	1	-	-	-	-	Ins
c1f5574a-326e-11e6-bfba-13bf4a47a305	9_29484590_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	29484590	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	9_29484590_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
c2026292-3272-11e6-826a-adb6fa52e078	17_21526577_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	17	21526577	CT	C	292	PASS	-	Del	-	1	8	MSH6	child	17_21526577_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
c202a652-3291-11e6-b3a9-d5afe7d0bdd7	4_154468294_GAG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	4	154468294	GA	G	660	PASS	KIAA0922	Del	intronic	1	9	FANCC	child	4_154468294_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
c204287e-32a0-11e6-bc66-17b4cc638e3d	8_131146597_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	131146597	TA	T	1020	PASS	ASAP1	Del	splice_region	1	9	MSH6	child	8_131146597_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
c208ce24-328c-11e6-b43c-7ec36f39e758	16_73358137_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	73358137	GT	G	600	PASS	-	Del	-	1	8	MSH6	child	16_73358137_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
c20981c8-328e-11e6-b960-ae6919a91649	15_41147297_TGCCAGGCGTGGTGGCTCACACTTATAATCCCAGCGCTTTGAGAGGCCGAGGCTGGCAGATTGCTTGAGCTCAGGAGTTCAAGACCAGCGTGGGCAATATGGCAAAACCCCATCTCTACAAAAAATACAAAAATTAGCCGGATGTGGTTGCGCGTTCCTGTACTCCCAGCTACTCAGAAGGCTGAGGTAGGAGGATCACTTGAACCTGGGAGGTAGAGACTGCAGTCAGTTGAGATGGAACCACTGCACCTCAGCCTGGGCAACAGAGTGAGACCCTGTCTCAAAACAATAATAATAATAATAAGCTCTAGCTAGTTGCTTGCCTGCCAAGGCTCAGACCCTGAGGCCCATCCTCTTTTTTAAGAAAGGTAAACCAT	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	15	41147297	TGCCAGGCGTGGTGGCTCACACTTATAATCCCAGCGCTTTGAGAGGCCGAGGCTGGCAGATTGCTTGAGCTCAGGAGTTCAAGACCAGCGTGGGCAATATGGCAAAACCCCATCTCTACAAAAAATACAAAAATTAGCCGGATGTGGTTGCGCGTTCCTGTACTCCCAGCTACTCAGAAGGCTGAGGTAGGAGGATCACTTGAACCTGGGAGGTAGAGACTGCAGTCAGTTGAGATGGAACCACTGCACCTCAGCCTGGGCAACAGAGTGAGACCCTGTCTCAAAACAATAATAATAATAATAAGCTCTAGCTAGTTGCTTGCCTGCCAAGGCTCAGACCCTGAGGCCCATCCTCTTTTTTAAGAAAGGTAAACCA	T	300	PASS	SPINT1	Del	intronic	375	1	NEIL1	child	15_41147297_TGCCAGGCGTGGTGGCTCACACTTATAATCCCAGCGCTTTGAGAGGCCGAGGCTGGCAGATTGCTTGAGCTCAGGAGTTCAAGACCAGCGTGGGCAATATGGCAAAACCCCATCTCTACAAAAAATACAAAAATTAGCCGGATGTGGTTGCGCGTTCCTGTACTCCCAGCTACTCAGAAGGCTGAGGTAGGAGGATCACTTGAACCTGGGAGGTAGAGACTGCAGTCAGTTGAGATGGAACCACTGCACCTCAGCCTGGGCAACAGAGTGAGACCCTGTCTCAAAACAATAATAATAATAATAAGCTCTAGCTAGTTGCTTGCCTGCCAAGGCTCAGACCCTGAGGCCCATCCTCTTTTTTAAGAAAGGTAAACCAT_NEIL1	375	>=10	16	GCCAGGCGTGGTGGCT	0	-	Microhomology-mediated
c20b1ede-3275-11e6-a862-bc9becf1e924	1_226422078_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	226422078	TA	T	480	PASS	LIN9	Del	intronic	1	6	MSH6	child	1_226422078_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
c20efacc-3324-11e6-a066-657f12ae24cf	X_130604960_CTC	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	X	130604960	CT	C	340	PASS	-	Del	-	1	9	POLE	child	X_130604960_CTC_POLE	1	1	1	T	8	T	Repeat-mediated
c2108582-327e-11e6-b73f-448daea0a4d2	2_227585569_GAG	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	2	227585569	GA	G	540	PASS	-	Del	-	1	9	POLB	parent	2_227585569_GAG_POLB	1	1	1	A	8	A	Repeat-mediated
c21317be-328a-11e6-b805-77090e01a414	2_97321455_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	97321455	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	2_97321455_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c22845a8-326c-11e6-9d68-ac9acab49462	15_25631878_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	25631878	GA	G	300	PASS	UBE3A	Del	intronic	1	7	MSH6	child	15_25631878_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
c237478c-326d-11e6-9f48-94df41c4520d	12_92563739_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	92563739	GT	G	660	PASS	-	Del	-	1	8	MSH6	child	12_92563739_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
c2437e10-3274-11e6-975f-8246cab49462	16_51097867_CCAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	51097867	C	CAT	660	PASS	-	Ins	-	2	2	MSH6	child	16_51097867_CCAT_MSH6	2	2	-	-	-	-	Ins
c243dab8-3323-11e6-9c20-925172d7bc54	3_7403853_ATA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	3	7403853	AT	A	360	PASS	GRM7	Del	intronic	1	7	EXO1	child	3_7403853_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
c2550294-328c-11e6-bd84-429305ad5bc4	1_166972784_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	166972784	TA	T	540	PASS	MAEL	Del	intronic	1	4	MSH6	child	1_166972784_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
c260ae54-3292-11e6-8c3d-0ab4e7d0bdd7	3_171460731_CTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	3	171460731	CT	C	300	PASS	PLD1	Del	intronic	1	9	FANCC	child	3_171460731_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
c2629738-3291-11e6-b81f-4ee66f39e758	8_145281364_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	145281364	CT	C	420	PASS	MROH1	Del	intronic	1	9	MSH6	child	8_145281364_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c265ecce-328e-11e6-bec1-ca1d0e01a414	X_121893719_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	121893719	AT	A	660	PASS	-	Del	-	1	5	MSH6	child	X_121893719_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
c26addbe-329e-11e6-aea7-956725c9da85	3_17582928_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	17582928	AT	A	840	PASS	TBC1D5	Del	intronic	1	8	MSH6	child	3_17582928_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c27d0c22-3286-11e6-a284-4b89a2c71c31	4_20001188_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	20001188	GA	G	360	PASS	-	Del	-	1	9	MSH6	child	4_20001188_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c27d5a06-3272-11e6-94cc-1ec335cec73b	19_11195291_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	11195291	CA	C	695	PASS	LDLR	Del	upstream	1	9	MSH6	child	19_11195291_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
c2815442-3288-11e6-a8ac-a28ea2c71c31	3_110341897_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	110341897	GT	G	600	PASS	-	Del	-	1	7	MSH6	child	3_110341897_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
c28f04c2-3290-11e6-9401-04ed6f39e758	3_51787502_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	51787502	GT	G	480	PASS	-	Del	-	1	8	MSH6	child	3_51787502_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
c28ff18a-3258-11e6-8cd9-139b7872c165	3_96898137_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	96898137	AT	A	540	PASS	EPHA6	Del	intronic	1	7	MSH6	child	3_96898137_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
c291acf0-3285-11e6-be43-0a6ea2c71c31	10_116988973_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	116988973	TA	T	540	PASS	ATRNL1	Del	intronic	1	6	MSH6	child	10_116988973_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
c299334a-3289-11e6-815f-e4cd191589db	14_73020253_ATA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	14	73020253	AT	A	300	PASS	RGS6	Del	intronic	1	6	FANCC	child	14_73020253_ATA_FANCC	1	1	1	T	5	T	Repeat-mediated
c299848c-327d-11e6-9c0f-26bd1da8ec0e	8_48164346_AGA	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	8	48164346	AG	A	720	PASS	-	Del	-	1	7	FANCC	parent	8_48164346_AGA_FANCC	1	1	1	G	6	G	Repeat-mediated
c29a11dc-328b-11e6-8770-3e160e01a414	9_8090489_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	8090489	AT	A	420	PASS	-	Del	-	1	4	MSH6	child	9_8090489_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
c2a31f3c-326f-11e6-9f48-94df41c4520d	12_120946194_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	120946194	C	CA	480	PASS	COQ5	Ins	intronic	1	8	MSH6	child	12_120946194_CCA_MSH6	1	1	-	-	-	-	Ins
c2acd72a-3274-11e6-a5d0-4fd14a47a305	2_206168065_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	206168065	AT	A	720	PASS	PARD3B	Del	intronic	1	6	MSH6	child	2_206168065_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
c2b06c34-329f-11e6-bc66-17b4cc638e3d	8_59512589_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	59512589	GA	G	720	PASS	NSMAF	Del	splice_region	1	9	MSH6	child	8_59512589_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c2b423dc-3282-11e6-845d-6b29bce6aa09	X_115733130_TAT	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	X	115733130	TA	T	420	PASS	-	Del	-	1	9	POLM	child	X_115733130_TAT_POLM	1	1	1	A	8	A	Repeat-mediated
c2ccef40-3253-11e6-b4d0-327a7872c165	11_16411095_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	16411095	AT	A	720	PASS	SOX6	Del	intronic	1	9	MSH6	child	11_16411095_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
c2df5994-3273-11e6-90ac-b4c37872c165	8_60052316_CTCTGC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	8	60052316	CTCTG	C	660	PASS	-	Del	-	4	2	NEIL1	child	8_60052316_CTCTGC_NEIL1	4	4	4	TCTG	1	TCTG	Repeat-mediated
c2e30e54-328c-11e6-919e-92c36f39e758	2_84228614_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	84228614	GA	G	540	PASS	-	Del	-	1	9	MSH6	child	2_84228614_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c2e916f2-327b-11e6-92d2-c259c225ee11	3_196147045_AAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	196147045	A	AG	300	PASS	UBXN7	Ins	intronic	1	6	MSH6	child	3_196147045_AAG_MSH6	1	1	-	-	-	-	Ins
c2ee5522-3276-11e6-8caa-7235b51afd22	9_135111110_TGT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	9	135111110	TG	T	720	PASS	NTNG2	Del	intronic	1	7	EXO1	child	9_135111110_TGT_EXO1	1	1	1	G	6	G	Repeat-mediated
c2ee687e-3275-11e6-a71d-236235cec73b	X_36836842_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	36836842	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	X_36836842_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
c2f2398a-328f-11e6-b97d-a8b305ad5bc4	20_18204754_CTTTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	18204754	CTTT	C	540	PASS	-	Del	-	3	3	MSH6	child	20_18204754_CTTTC_MSH6	3	3	0	-	0	-	None
c2f5ae54-3275-11e6-ab69-1c1607e9a829	9_95359017_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	95359017	TA	T	420	PASS	CENPP	Del	intronic	1	8	MSH6	child	9_95359017_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
c2f5cf44-3287-11e6-a284-4b89a2c71c31	4_113035988_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	113035988	CA	C	1260	PASS	-	Del	-	1	9	MSH6	child	4_113035988_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
c30ced9c-327c-11e6-864f-47be4dc77248	17_44069504_TAT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	17	44069504	TA	T	540	PASS	MAPT	Del	intronic	1	9	NUDT1	child	17_44069504_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
c30e5bba-3258-11e6-8cd9-139b7872c165	3_97395432_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	97395432	CT	C	360	PASS	EPHA6	Del	intronic	1	6	MSH6	child	3_97395432_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
c30fad78-326f-11e6-9309-bdc34a47a305	8_43307167_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	43307167	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	8_43307167_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c3131888-3278-11e6-83cd-a472a178171f	4_64473819_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	64473819	A	AT	480	PASS	-	Ins	-	1	8	MSH6	child	4_64473819_AAT_MSH6	1	1	-	-	-	-	Ins
c31ab14e-326c-11e6-acc7-e55219a91649	1_31926862_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	31926862	TA	T	480	PASS	-	Del	-	1	5	MSH6	child	1_31926862_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
c32f26a2-3270-11e6-b5b8-e0c24a47a305	X_85159043_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	85159043	TA	T	300	PASS	CHM	Del	intronic	1	7	MSH6	child	X_85159043_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
c338bfb2-329a-11e6-8069-175325c9da85	12_54424862_CGC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	54424862	CG	C	780	PASS	HOXC6	Del	downstream	1	6	MSH6	child	12_54424862_CGC_MSH6	1	1	1	G	5	G	Repeat-mediated
c339bc9a-3278-11e6-92d2-c259c225ee11	3_179702140_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	179702140	AT	A	960	PASS	PEX5L	Del	intronic	1	9	MSH6	child	3_179702140_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
c33c161e-328e-11e6-8e48-791e0e01a414	8_77310107_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	77310107	GA	G	300	PASS	-	Del	-	1	7	MSH6	child	8_77310107_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
c3400136-3273-11e6-94cc-1ec335cec73b	19_48610106_GTCG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	48610106	GTC	G	360	PASS	PLA2G4C	Del	intronic	2	5	MSH6	child	19_48610106_GTCG_MSH6	2	2	2	TC	4	TC	Repeat-mediated
c345c2fe-3275-11e6-a71d-236235cec73b	X_37242860_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	37242860	AT	A	660	PASS	PRRG1	Del	intronic	1	7	MSH6	child	X_37242860_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
c34c5416-328e-11e6-92cf-bf2a0e01a414	6_6119681_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	6119681	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	6_6119681_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
c35129da-3321-11e6-84e3-a2cceab8d062	2_140733640_GATG	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	2	140733640	GAT	G	600	PASS	-	Del	-	2	5	CHK2	parent	2_140733640_GATG_CHK2	2	2	2	AT	4	AT	Repeat-mediated
c35eec6a-328f-11e6-9d24-ade56f39e758	7_76718965_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	76718965	GT	G	441	PASS	-	Del	-	1	7	MSH6	child	7_76718965_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
c369d16a-3281-11e6-a980-68393dc9300a	18_23662034_CAC	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	18	23662034	CA	C	660	PASS	SS18	Del	intronic	1	9	FANCC	child	18_23662034_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
c36b5746-3273-11e6-a279-106e671699ea	3_54072447_ATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	3	54072447	AT	A	720	PASS	-	Del	-	1	8	EXO1	parent	3_54072447_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
c36b9a22-3277-11e6-9074-69cc19a91649	X_44719633_CCA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	X	44719633	C	CA	480	PASS	-	Ins	-	1	8	EXO1	child	X_44719633_CCA_EXO1	1	1	-	-	-	-	Ins
c36e8340-3277-11e6-8c34-46e27872c165	5_169777688_TCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	169777688	TC	T	480	PASS	KCNIP1	Del	upstream	1	7	MSH6	child	5_169777688_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
c36f8758-329b-11e6-8069-175325c9da85	12_112241551_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	112241551	AT	A	360	PASS	ALDH2	Del	intronic	1	9	MSH6	child	12_112241551_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
c3721168-3290-11e6-850b-ec0b9c6d3b88	4_126643330_CTTC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	4	126643330	CTT	C	420	PASS	RP11-399F2.2	Del	intronic	2	3	POLB	child	4_126643330_CTTC_POLB	2	2	1	T	0	-	Microhomology-mediated
c374f73c-329c-11e6-ae71-0c5325c9da85	1_167154061_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	167154061	AT	A	780	PASS	-	Del	-	1	7	MSH6	child	1_167154061_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
c3779f84-328b-11e6-bd84-429305ad5bc4	1_28943252_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	28943252	AT	A	600	PASS	TAF12	Del	intronic	1	1	MSH6	child	1_28943252_ATA_MSH6	1	1	0	-	0	T	None
c39411fe-326e-11e6-bfba-13bf4a47a305	9_30224693_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	30224693	TA	T	660	PASS	-	Del	-	1	7	MSH6	child	9_30224693_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
c39a4afe-3324-11e6-b0c6-e1e369062303	5_9616167_GTGCAGGAAGACG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	5	9616167	GTGCAGGAAGAC	G	832	PASS	-	Del	-	11	1	EXO1	child	5_9616167_GTGCAGGAAGACG_EXO1	11	>=10	3	TGC	0	-	Microhomology-mediated
c39a998c-3270-11e6-8418-1c5942c4520d	3_73239920_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	73239920	GT	G	300	PASS	-	Del	-	1	9	MSH6	child	3_73239920_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
c39ab604-3286-11e6-b093-c9c7b0dab373	2_195190617_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	195190617	GT	G	660	PASS	-	Del	-	1	9	MSH6	child	2_195190617_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
c3a9a7a0-3271-11e6-991b-161a987b3f23	X_23472774_ATTTTCTCCCATTCTGTAGGTCGCCTGTTCACTCTGACGGTAGTTCTTTTTGCTGGACAGAAGCTCTTTAGTTTAATTAGATCTCATTTGTCAATTTTGGCTTTTATTGCCATTGCTTTTGGTGTA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	X	23472774	ATTTTCTCCCATTCTGTAGGTCGCCTGTTCACTCTGACGGTAGTTCTTTTTGCTGGACAGAAGCTCTTTAGTTTAATTAGATCTCATTTGTCAATTTTGGCTTTTATTGCCATTGCTTTTGGTGT	A	533	PASS	-	Del	-	124	1	NEIL1	child	X_23472774_ATTTTCTCCCATTCTGTAGGTCGCCTGTTCACTCTGACGGTAGTTCTTTTTGCTGGACAGAAGCTCTTTAGTTTAATTAGATCTCATTTGTCAATTTTGGCTTTTATTGCCATTGCTTTTGGTGTA_NEIL1	124	>=10	3	TTT	0	-	Microhomology-mediated
c3b24294-3289-11e6-8459-82090e01a414	12_27493522_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	27493522	CT	C	360	PASS	ARNTL2	Del	intronic	1	9	MSH6	child	12_27493522_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c3b702e2-328f-11e6-8bc2-1045046f68b1	7_127623586_AGA	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	7	127623586	AG	A	780	PASS	SND1	Del	intronic	1	1	POLE	child	7_127623586_AGA_POLE	1	1	0	-	0	G	None
c3bc5f94-3280-11e6-884f-bffbf121c733	19_24121158_CAC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	19	24121158	CA	C	300	PASS	ZNF726	Del	downstream	1	8	FANCC	child	19_24121158_CAC_FANCC	1	1	1	A	7	A	Repeat-mediated
c3be7f84-328c-11e6-8952-77c36f39e758	10_76170981_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	76170981	GA	G	360	PASS	ADK	Del	intronic	1	9	MSH6	child	10_76170981_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c3c1155c-328f-11e6-9432-c0e56f39e758	5_79991162_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	79991162	CT	C	300	PASS	MSH3	Del	intronic	1	9	MSH6	child	5_79991162_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c3c27d26-328e-11e6-8e48-791e0e01a414	8_77405312_TGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	77405312	TG	T	420	PASS	LINC01111	Del	intronic	1	1	MSH6	child	8_77405312_TGT_MSH6	1	1	0	-	0	G	None
c3c51fec-3278-11e6-83cd-a472a178171f	4_64644130_GGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	64644130	G	GA	480	PASS	-	Ins	-	1	7	MSH6	child	4_64644130_GGA_MSH6	1	1	-	-	-	-	Ins
c3d00552-328b-11e6-b8e6-91c36f39e758	11_16039466_GCG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	16039466	GC	G	720	PASS	SOX6	Del	intronic	1	4	MSH6	child	11_16039466_GCG_MSH6	1	1	1	C	3	C	Repeat-mediated
c3d03336-328d-11e6-ba48-afb3cc638e3d	2_107108013_AAT	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	2	107108013	A	AT	333	PASS	-	Ins	-	1	7	NUDT1	child	2_107108013_AAT_NUDT1	1	1	-	-	-	-	Ins
c3d2f1bc-3291-11e6-8d18-13cc0d01a414	20_4676746_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	20	4676746	CT	C	360	PASS	PRNP	Del	intronic	1	9	MSH6	child	20_4676746_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c3d6bfa0-3290-11e6-a081-1bb7a178171f	X_123574265_TAT	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	X	123574265	TA	T	480	PASS	TENM1	Del	intronic	1	6	POLE	child	X_123574265_TAT_POLE	1	1	1	A	5	A	Repeat-mediated
c3dd595e-3278-11e6-9f35-f4a21da8ec0e	7_157741202_CAC	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	7	157741202	CA	C	360	PASS	PTPRN2	Del	intronic	1	7	NEIL1	child	7_157741202_CAC_NEIL1	1	1	1	A	6	A	Repeat-mediated
c3defa48-329b-11e6-b549-1e5325c9da85	10_115190618_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	115190618	CA	C	780	PASS	-	Del	-	1	9	MSH6	child	10_115190618_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
c3e87258-3296-11e6-8905-04ffd8b4fa2c	7_130997429_GAG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	7	130997429	GA	G	300	PASS	-	Del	-	1	7	NUDT1	child	7_130997429_GAG_NUDT1	1	1	1	A	6	A	Repeat-mediated
c3ebf2c8-3289-11e6-a7cf-80090e01a414	15_41834046_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	41834046	CA	C	360	PASS	RPAP1	Del	intronic	1	9	MSH6	child	15_41834046_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
c3eef2e2-329e-11e6-aea7-956725c9da85	3_18097741_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	18097741	GT	G	600	PASS	-	Del	-	1	7	MSH6	child	3_18097741_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
c3f4948e-3287-11e6-aa79-5da038e8a824	6_170657021_TAT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	6	170657021	TA	T	780	PASS	FAM120B	Del	intronic	1	7	POLE	parent	6_170657021_TAT_POLE	1	1	1	A	6	A	Repeat-mediated
c3f8d718-329d-11e6-91d0-016425c9da85	7_18106455_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	18106455	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	7_18106455_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
c400b658-3271-11e6-abaf-4642cab49462	6_17937073_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	17937073	GA	G	480	PASS	KIF13A	Del	intronic	1	9	MSH6	child	6_17937073_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c401befc-3273-11e6-8418-1c5942c4520d	3_160387956_CCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	160387956	C	CT	660	PASS	-	Ins	-	1	1	MSH6	child	3_160387956_CCT_MSH6	1	1	-	-	-	-	Ins
c40951dc-3276-11e6-83cd-a472a178171f	4_125240090_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	125240090	TA	T	600	PASS	-	Del	-	1	6	MSH6	child	4_125240090_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
c41f4868-3274-11e6-acf7-070eebb8d062	6_78060101_TAT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	6	78060101	TA	T	360	PASS	-	Del	-	1	6	NUDT1	child	6_78060101_TAT_NUDT1	1	1	1	A	5	A	Repeat-mediated
c4283b24-329e-11e6-94ca-0aaecc638e3d	X_66972843_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	66972843	GA	G	720	PASS	-	Del	-	1	8	MSH6	child	X_66972843_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
c42bf560-3272-11e6-a539-0e5542c4520d	7_129727085_GGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	129727085	G	GT	420	PASS	KLHDC10	Ins	intronic	1	7	MSH6	child	7_129727085_GGT_MSH6	1	1	-	-	-	-	Ins
c4314fa2-3294-11e6-84ea-9945fa52e078	7_122452299_TAT	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	7	122452299	TA	T	540	PASS	CADPS2	Del	intronic	1	9	NUDT1	child	7_122452299_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
c439b8c0-3278-11e6-a391-f6d67d6a9fc7	6_87192822_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	87192822	CT	C	480	PASS	-	Del	-	1	7	MSH6	child	6_87192822_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
c439de78-3272-11e6-b209-994b3cfdbd24	15_78712118_TAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	15	78712118	TA	T	480	PASS	-	Del	-	1	1	MSH6	parent	15_78712118_TAT_MSH6	1	1	0	-	0	A	None
c43c0a40-3290-11e6-a77d-d5257a852e0e	19_50469688_CTC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	19	50469688	CT	C	360	PASS	-	Del	-	1	9	CHK2	child	19_50469688_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
c4427e38-3287-11e6-a5b3-3f1ebce6aa09	7_124894844_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	124894844	CA	C	600	PASS	RP11-3B12.3	Del	intronic	1	9	MSH6	child	7_124894844_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
c447b27a-3270-11e6-a812-e11198ba1142	9_235005_GTG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	9	235005	GT	G	660	PASS	DOCK8	Del	intronic	1	7	EXO1	parent	9_235005_GTG_EXO1	1	1	1	T	6	T	Repeat-mediated
c4484142-3278-11e6-92d2-c259c225ee11	3_180405886_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	180405886	CA	C	960	PASS	CCDC39	Del	intronic	1	8	MSH6	child	3_180405886_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
c44a535e-3289-11e6-aff5-85090e01a414	16_25399026_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	25399026	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	16_25399026_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
c453917e-3272-11e6-94cc-1ec335cec73b	19_11341766_GCG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	11341766	GC	G	480	PASS	DOCK6	Del	intronic	1	7	MSH6	child	19_11341766_GCG_MSH6	1	1	1	C	6	C	Repeat-mediated
c45b9696-328e-11e6-81d1-7ea5e7d0bdd7	3_110142593_CAC	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	3	110142593	CA	C	360	PASS	-	Del	-	1	5	POLM	child	3_110142593_CAC_POLM	1	1	1	A	4	A	Repeat-mediated
c473f1ac-3273-11e6-a5d0-4fd14a47a305	2_120344968_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	120344968	AT	A	540	PASS	PCDP1	Del	intronic	1	5	MSH6	child	2_120344968_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
c4851c5a-3257-11e6-89d3-d29498816cf3	2_211203742_GGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	211203742	G	GT	300	PASS	-	Ins	-	1	8	MSH6	child	2_211203742_GGT_MSH6	1	1	-	-	-	-	Ins
c48c9c46-3289-11e6-b093-c9c7b0dab373	2_205953171_CCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	205953171	C	CT	300	PASS	PARD3B	Ins	intronic	1	1	MSH6	child	2_205953171_CCT_MSH6	1	1	-	-	-	-	Ins
c49c6db8-329f-11e6-a04f-c66a25c9da85	6_31328332_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	31328332	GA	G	660	PASS	HLA-B	Del	upstream	1	8	MSH6	child	6_31328332_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
c4a0ddf2-32a0-11e6-bc66-17b4cc638e3d	8_131710968_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	131710968	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	8_131710968_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c4a85d44-3321-11e6-8b61-fad5c042253c	12_103179717_GAG	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	12	103179717	GA	G	300	PASS	-	Del	-	1	7	CHK2	child	12_103179717_GAG_CHK2	1	1	1	A	6	A	Repeat-mediated
c4acb2e8-3256-11e6-91d3-a68412ae24cf	7_19024841_ACA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	19024841	AC	A	580	PASS	HDAC9	Del	intronic	1	7	MSH6	child	7_19024841_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
c4b5f944-3322-11e6-a5dc-75b8cde16804	1_100567176_GAG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	1	100567176	GA	G	780	PASS	SASS6	Del	intronic	1	8	EXO1	child	1_100567176_GAG_EXO1	1	1	1	A	7	A	Repeat-mediated
c4bbf11c-3284-11e6-b093-c9c7b0dab373	2_32971090_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	32971090	CA	C	420	PASS	TTC27	Del	intronic	1	8	MSH6	child	2_32971090_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
c4bd5b8a-328c-11e6-b4fe-93c36f39e758	12_73530462_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	73530462	AC	A	600	PASS	RP11-314D7.1	Del	intronic	1	5	MSH6	child	12_73530462_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
c4c6dc8c-328c-11e6-8eee-76090e01a414	10_94586927_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	94586927	A	AT	300	PASS	EXOC6	Ins	upstream	1	8	MSH6	child	10_94586927_AAT_MSH6	1	1	-	-	-	-	Ins
c4c8ff6e-326c-11e6-9793-9a8fb0dab373	13_31375061_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	31375061	CT	C	420	PASS	LINC00398	Del	upstream	1	9	MSH6	child	13_31375061_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c4cbbed8-326d-11e6-b2ac-b6204b47a305	17_70905695_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	70905695	GA	G	360	PASS	SLC39A11	Del	intronic	1	8	MSH6	child	17_70905695_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
c4d19dc8-3252-11e6-8831-5505ee3c4f5d	1_88749967_CAC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	1	88749967	CA	C	600	PASS	-	Del	-	1	4	POLB	child	1_88749967_CAC_POLB	1	1	1	A	3	A	Repeat-mediated
c4e0cc7a-328f-11e6-9d97-efe56f39e758	4_77161179_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	77161179	GT	G	420	PASS	FAM47E	Del	intronic	1	7	MSH6	child	4_77161179_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
c4e4af00-328c-11e6-88c1-95c36f39e758	14_92724685_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	92724685	TA	T	360	PASS	RP11-472N19.3	Del	intronic	1	5	MSH6	child	14_92724685_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
c4e9cc02-3290-11e6-bc00-90df977b3f23	X_154173447_TAT	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	X	154173447	TA	T	468	PASS	F8	Del	intronic	1	9	NEIL1	child	X_154173447_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
c4ed5a90-3289-11e6-b805-77090e01a414	2_35915974_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	35915974	AT	A	300	PASS	-	Del	-	1	6	MSH6	child	2_35915974_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
c4f78a12-3255-11e6-92eb-77832aaffa45	10_121180386_TCCTGT	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	10	121180386	TCCTG	T	960	PASS	GRK5	Del	intronic	4	2	POLM	child	10_121180386_TCCTGT_POLM	4	4	4	CCTG	1	CCTG	Repeat-mediated
c4f98c28-3254-11e6-bb62-81f712ae24cf	X_40347784_ATTA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	X	40347784	ATT	A	540	PASS	-	Del	-	2	9	POLB	child	X_40347784_ATTA_POLB	2	2	2	TT	7	T	Repeat-mediated
c4fd4cda-3292-11e6-b4ea-e05798ba1142	18_39067163_AAATA	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	18	39067163	AAAT	A	360	PASS	RP11-142I20.1	Del	intronic	3	4	POLB	child	18_39067163_AAATA_POLB	3	3	3	AAT	3	AAT	Repeat-mediated
c4fe344a-3325-11e6-9c15-89c8cde16804	6_71062456_CGC	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	6	71062456	CG	C	600	PASS	-	Del	-	1	1	POLE	child	6_71062456_CGC_POLE	1	1	0	-	0	G	None
c504fc52-3277-11e6-a47c-77abeab8d062	5_109864901_CTC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	5	109864901	CT	C	300	PASS	TMEM232	Del	intronic	1	8	EXO1	child	5_109864901_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
c5052652-3252-11e6-96f0-d07d12ae24cf	15_69643164_GAG	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	15	69643164	GA	G	780	PASS	PAQR5	Del	intronic	1	4	POLB	child	15_69643164_GAG_POLB	1	1	1	A	3	A	Repeat-mediated
c5061f08-3289-11e6-9c89-8d090e01a414	1_25672720_ACTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	25672720	ACT	A	600	PASS	TMEM50A	Del	intronic	2	4	MSH6	child	1_25672720_ACTA_MSH6	2	2	2	CT	3	CT	Repeat-mediated
c509b978-3253-11e6-b4d0-327a7872c165	11_17026294_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	17026294	TA	T	360	PASS	PLEKHA7	Del	intronic	1	7	MSH6	child	11_17026294_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
c50ada32-329f-11e6-a04f-c66a25c9da85	6_31402896_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	31402896	GA	G	960	PASS	-	Del	-	1	9	MSH6	child	6_31402896_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c50c6fc2-3287-11e6-b32c-fd87a2c71c31	5_170300813_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	170300813	CT	C	420	PASS	RANBP17	Del	intronic	1	7	MSH6	child	5_170300813_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
c50cd7fe-3274-11e6-8d20-7365cde16804	5_103552222_GAG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	5	103552222	GA	G	660	PASS	-	Del	-	1	8	MSH6	parent	5_103552222_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
c51544da-328c-11e6-b8e6-91c36f39e758	11_81170320_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	81170320	AT	A	540	PASS	-	Del	-	1	6	MSH6	child	11_81170320_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
c51a04a4-3271-11e6-be8c-25f524864c47	12_74347848_GTG	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	12	74347848	GT	G	360	PASS	-	Del	-	1	5	CHK2	child	12_74347848_GTG_CHK2	1	1	1	T	4	T	Repeat-mediated
c5206740-3258-11e6-8d59-25a02aaffa45	4_180121464_GAG	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	4	180121464	GA	G	540	PASS	-	Del	-	1	9	POLM	child	4_180121464_GAG_POLM	1	1	1	A	8	A	Repeat-mediated
c52212cc-3288-11e6-b9eb-c78fa2c71c31	6_89916921_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	89916921	AT	A	480	PASS	GABRR1	Del	intronic	1	9	MSH6	child	6_89916921_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
c52347c0-3272-11e6-9e18-3a69671699ea	10_27087237_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	27087237	TG	T	540	PASS	ABI1	Del	intronic	1	8	MSH6	child	10_27087237_TGT_MSH6	1	1	1	G	7	G	Repeat-mediated
c5280258-328e-11e6-bec1-ca1d0e01a414	X_122849338_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	122849338	GA	G	600	PASS	THOC2	Del	intronic	1	9	MSH6	child	X_122849338_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c53573da-3251-11e6-8c4a-b6e612ae24cf	16_10909278_CAC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	16	10909278	CA	C	480	PASS	TVP23A	Del	intronic	1	5	POLB	child	16_10909278_CAC_POLB	1	1	1	A	4	A	Repeat-mediated
c5504684-3287-11e6-8404-8e1fbce6aa09	8_53049234_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	53049234	GA	G	420	PASS	ST18	Del	intronic	1	7	MSH6	child	8_53049234_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
c553cb68-328e-11e6-ace9-29a5e7d0bdd7	16_82900405_AGA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	16	82900405	AG	A	300	PASS	CDH13	Del	intronic	1	5	FANCC	child	16_82900405_AGA_FANCC	1	1	1	G	4	G	Repeat-mediated
c553f5e0-3345-11e6-aa8a-bd633cfdbd24	15_37171586_ATTACTGGGATAGAAATAGCCCTA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	15	37171586	ATTACTGGGATAGAAATAGCCCT	A	360	PASS	RP11-122D10.1	Del	intronic	22	1	FANCC	child	15_37171586_ATTACTGGGATAGAAATAGCCCTA_FANCC	22	>=10	0	-	0	-	None
c55737d0-32a2-11e6-b970-398625c9da85	20_30352409_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	30352409	AT	A	840	PASS	TPX2	Del	intronic	1	7	MSH6	child	20_30352409_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
c55975f2-3326-11e6-a1ba-785d038949d4	6_85908144_GAG	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	6	85908144	GA	G	420	PASS	-	Del	-	1	9	CHK2	parent	6_85908144_GAG_CHK2	1	1	1	A	8	A	Repeat-mediated
c560ac74-3276-11e6-9122-d5aacc638e3d	9_110463052_AGA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	9	110463052	AG	A	720	PASS	-	Del	-	1	3	NEIL1	child	9_110463052_AGA_NEIL1	1	1	1	G	2	G	Repeat-mediated
c58a937c-326c-11e6-9f48-94df41c4520d	12_15822935_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	15822935	GT	G	300	PASS	EPS8	Del	intronic	1	8	MSH6	child	12_15822935_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
c5901486-3281-11e6-83f7-b4262eaed38e	15_85891596_GTCG	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	15	85891596	GTC	G	660	PASS	-	Del	-	2	2	POLB	child	15_85891596_GTCG_POLB	2	2	2	TC	1	TC	Repeat-mediated
c5909c48-328c-11e6-8256-94c36f39e758	17_62290527_ACTCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	62290527	ACTC	A	360	PASS	TEX2	Del	inframe	3	3	MSH6	child	17_62290527_ACTCA_MSH6	3	3	3	CTC	2	CTC	Repeat-mediated
c5916cf6-328a-11e6-a80b-87090e01a414	11_93529282_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	93529282	AT	A	360	PASS	MED17	Del	intronic	1	8	MSH6	child	11_93529282_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c5930444-329e-11e6-9c44-d26625c9da85	21_30280373_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	21	30280373	TA	T	420	PASS	-	Del	-	1	7	MSH6	child	21_30280373_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
c5a5bc46-3290-11e6-9d24-ade56f39e758	7_142596065_CCTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	142596065	CCT	C	300	PASS	-	Del	-	2	6	MSH6	child	7_142596065_CCTC_MSH6	2	2	2	CT	5	CT	Repeat-mediated
c5abd23e-3290-11e6-9d24-ade56f39e758	7_142614240_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	142614240	GT	G	480	PASS	TRPV5	Del	intronic	1	9	MSH6	child	7_142614240_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
c5ae107c-328f-11e6-bc00-90df977b3f23	X_62036468_ATTGTA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	X	62036468	ATTGT	A	840	PASS	-	Del	-	4	2	NEIL1	child	X_62036468_ATTGTA_NEIL1	4	4	4	TTGT	1	TTGT	Repeat-mediated
c5b9b646-329b-11e6-b549-1e5325c9da85	10_115675379_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	115675379	GT	G	360	PASS	NHLRC2	Del	3prime_UTR_variant	1	9	MSH6	child	10_115675379_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
c5bbc2a8-328a-11e6-9c89-8d090e01a414	1_83278708_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	83278708	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	1_83278708_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
c5c611cc-3276-11e6-8c34-46e27872c165	5_96509054_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	96509054	AG	A	300	PASS	RIOK2	Del	intronic	1	1	MSH6	child	5_96509054_AGA_MSH6	1	1	0	-	0	G	None
c5c79cf4-3280-11e6-a2c9-149290e2c2e6	3_83666846_TCT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	3	83666846	TC	T	480	PASS	-	Del	-	1	1	NUDT1	child	3_83666846_TCT_NUDT1	1	1	0	-	0	C	None
c5ce510e-3256-11e6-acc5-308412ae24cf	5_28761291_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	28761291	GA	G	443	PASS	-	Del	-	1	7	MSH6	child	5_28761291_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
c5cf15ee-3292-11e6-b77d-2eef6f39e758	6_156638665_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	156638665	CA	C	360	PASS	-	Del	-	1	5	MSH6	child	6_156638665_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
c5d0c7ae-3274-11e6-9b52-2fdc6de4ab00	12_96840751_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	12	96840751	AT	A	480	PASS	RP11-510I5.4	Del	intronic	1	9	EXO1	child	12_96840751_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
c5da7dbe-3321-11e6-8301-82209a696edf	18_6395449_AGA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	18	6395449	AG	A	540	PASS	L3MBTL4	Del	intronic	1	7	EXO1	child	18_6395449_AGA_EXO1	1	1	1	G	6	G	Repeat-mediated
c5dab8ba-326d-11e6-bc62-6d4742c4520d	16_87456989_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	87456989	TA	T	600	PASS	ZCCHC14	Del	intronic	1	7	MSH6	child	16_87456989_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
c5dbd378-3289-11e6-821d-8c090e01a414	13_46480031_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	46480031	GT	G	660	PASS	-	Del	-	1	8	MSH6	child	13_46480031_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
c5edab66-3275-11e6-9fd1-e163e7d0bdd7	8_28349570_CTTC	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	8	28349570	CTT	C	360	PASS	FZD3	Del	upstream	2	3	POLB	child	8_28349570_CTTC_POLB	2	2	1	T	0	-	Microhomology-mediated
c5ef2a56-328c-11e6-b6a6-1f1e0e01a414	4_21042472_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	21042472	GT	G	300	PASS	KCNIP4	Del	intronic	1	9	MSH6	child	4_21042472_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
c5faa172-3284-11e6-870e-6af1bbe6aa09	19_23676195_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	23676195	AT	A	720	PASS	-	Del	-	1	7	MSH6	child	19_23676195_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
c5fd1e12-3279-11e6-8a64-801e9a696edf	3_89995642_CTC	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	3	89995642	CT	C	720	PASS	-	Del	-	1	2	POLM	child	3_89995642_CTC_POLM	1	1	1	T	1	T	Repeat-mediated
c600d4f2-328e-11e6-8e48-791e0e01a414	8_78192783_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	78192783	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	8_78192783_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
c601e6b0-329f-11e6-b696-dd6225c9da85	5_175925132_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	175925132	CA	C	360	PASS	FAF2	Del	intronic	1	9	MSH6	child	5_175925132_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
c6026f10-3257-11e6-8cd9-139b7872c165	3_16515084_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	16515084	AT	A	360	PASS	RFTN1	Del	intronic	1	9	MSH6	child	3_16515084_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
c611278c-328c-11e6-8e48-791e0e01a414	8_18589663_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	18589663	TA	T	360	PASS	PSD3	Del	intronic	1	7	MSH6	child	8_18589663_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
c6255402-3320-11e6-881c-c18230158702	10_8550154_ATA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	10	8550154	AT	A	360	PASS	-	Del	-	1	2	POLE	child	10_8550154_ATA_POLE	1	1	1	T	1	T	Repeat-mediated
c627350c-328e-11e6-b805-77090e01a414	2_106186147_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	106186147	C	CA	480	PASS	-	Ins	-	1	1	MSH6	child	2_106186147_CCA_MSH6	1	1	-	-	-	-	Ins
c62c94ea-325a-11e6-8b28-55ad7872c165	20_9273742_AAGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	9273742	AAG	A	480	PASS	PLCB4	Del	intronic	2	5	MSH6	child	20_9273742_AAGA_MSH6	2	2	2	AG	4	AG	Repeat-mediated
c62e0dc0-3255-11e6-a304-347a7872c165	1_152752795_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	152752795	GA	G	300	PASS	LCE1F	Del	downstream	1	9	MSH6	child	1_152752795_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c634a41c-3284-11e6-99f7-076ea2c71c31	12_31959180_TGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	31959180	TG	T	820	PASS	RNU6-1069P	Del	upstream	1	7	MSH6	child	12_31959180_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
c63ffbfa-3270-11e6-b5b8-e0c24a47a305	X_86086500_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	86086500	AT	A	300	PASS	DACH2	Del	intronic	1	9	MSH6	child	X_86086500_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
c6485110-3270-11e6-9309-bdc34a47a305	8_63049911_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	63049911	CT	C	600	PASS	-	Del	-	1	8	MSH6	child	8_63049911_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
c64a23b8-328a-11e6-9c89-8d090e01a414	1_83432129_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	83432129	CT	C	540	PASS	RP4-601K24.1	Del	intronic	1	9	MSH6	child	1_83432129_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c64af32c-326e-11e6-93c5-fd61ecf1e924	11_10907151_ATA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	11	10907151	AT	A	540	PASS	CTD-2003C8.2	Del	intronic	1	9	NEIL1	child	11_10907151_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
c64d60c8-3285-11e6-a0a8-096ea2c71c31	11_130282119_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	130282119	CT	C	720	PASS	ADAMTS8	Del	intronic	1	9	MSH6	child	11_130282119_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c6516906-3290-11e6-bd11-15ea6f39e758	21_42470658_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	21	42470658	A	AT	420	PASS	-	Ins	-	1	7	MSH6	child	21_42470658_AAT_MSH6	1	1	-	-	-	-	Ins
c6518d72-3287-11e6-a0f6-76a56f39e758	7_119790976_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	7	119790976	AT	A	540	PASS	-	Del	-	1	8	EXO1	child	7_119790976_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
c65acbc8-3276-11e6-9e0f-7959cab49462	7_87322819_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	87322819	AT	A	660	PASS	ABCB1	Del	intronic	1	8	MSH6	child	7_87322819_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c65febfc-328b-11e6-b805-77090e01a414	2_170044295_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	170044295	CA	C	420	PASS	LRP2	Del	intronic	1	7	MSH6	child	2_170044295_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
c65ff412-328b-11e6-aac2-75bb5d753391	4_106338650_CAAAC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	4	106338650	CAAA	C	300	PASS	PPA2	Del	intronic	3	5	POLE	child	4_106338650_CAAAC_POLE	3	3	2	AA	0	-	Microhomology-mediated
c666a9f4-328d-11e6-b6a6-1f1e0e01a414	4_80593729_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	80593729	CA	C	480	PASS	RP11-452C8.1	Del	intronic	1	8	MSH6	child	4_80593729_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
c66771e4-328e-11e6-bec1-ca1d0e01a414	X_122966899_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	122966899	TA	T	540	PASS	-	Del	-	1	9	MSH6	child	X_122966899_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
c66cd656-3320-11e6-aebd-38d38877c0b2	17_66306520_CACTTC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	17	66306520	CACTT	C	1196	PASS	ARSG	Del	intronic	4	1	CHK2	parent	17_66306520_CACTTC_CHK2	4	4	1	A	0	-	Microhomology-mediated
c6790f06-329a-11e6-ae71-0c5325c9da85	1_43163345_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	43163345	CT	C	900	PASS	YBX1	Del	intronic	1	8	MSH6	child	1_43163345_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
c686a988-328e-11e6-bec1-ca1d0e01a414	X_122976626_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	122976626	CA	C	392	PASS	-	Del	-	1	7	MSH6	child	X_122976626_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
c68b9d7e-3254-11e6-a4a7-35f212ae24cf	14_97991682_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	97991682	AT	A	660	PASS	CTD-2506J14.1	Del	intronic	1	9	MSH6	child	14_97991682_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
c690c928-3274-11e6-975f-8246cab49462	16_52494246_TTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	52494246	T	TG	720	PASS	TOX3	Ins	intronic	1	5	MSH6	child	16_52494246_TTG_MSH6	1	1	-	-	-	-	Ins
c694b570-327d-11e6-b73f-448daea0a4d2	2_134203200_CTC	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	2	134203200	CT	C	540	PASS	NCKAP5	Del	intronic	1	4	POLB	parent	2_134203200_CTC_POLB	1	1	1	T	3	T	Repeat-mediated
c699d5c0-328f-11e6-9d97-efe56f39e758	4_77625903_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	77625903	AT	A	300	PASS	SHROOM3	Del	intronic	1	6	MSH6	child	4_77625903_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
c6a290b2-3324-11e6-95a6-476ac042253c	3_3213243_GCAG	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	3	3213243	GCA	G	480	PASS	CRBN	Del	intronic	2	2	CHK2	child	3_3213243_GCAG_CHK2	2	2	2	CA	1	CA	Repeat-mediated
c6c49254-3296-11e6-bfe3-c11ec7271a47	2_39159272_ATA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	2	39159272	AT	A	420	PASS	ARHGEF33	Del	intronic	1	9	CHK2	child	2_39159272_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
c6c604fc-3289-11e6-821d-8c090e01a414	13_46921561_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	46921561	CA	C	300	PASS	KIAA0226L	Del	intronic	1	8	MSH6	child	13_46921561_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
c6c9613c-3280-11e6-9f9b-29bd9b6d3b88	11_18274347_CATC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	11	18274347	CAT	C	780	PASS	SAA2	Del	upstream	2	6	EXO1	child	11_18274347_CATC_EXO1	2	2	2	AT	5	AT	Repeat-mediated
c6d541c0-328d-11e6-9721-bd9fb868caf4	18_50664193_ATA	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	18	50664193	AT	A	300	PASS	DCC	Del	intronic	1	9	POLB	child	18_50664193_ATA_POLB	1	1	1	T	8	T	Repeat-mediated
c6d5a6f4-3276-11e6-83cd-a472a178171f	4_125927590_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	125927590	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	4_125927590_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c6e5b08a-328f-11e6-bb1e-70e16f39e758	X_115026748_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	115026748	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	X_115026748_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
c6edb3ee-329d-11e6-ae71-0c5325c9da85	1_227546237_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	227546237	CA	C	660	PASS	-	Del	-	1	9	MSH6	child	1_227546237_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
c6eea92a-3284-11e6-a1ac-fd6da2c71c31	13_52239611_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	52239611	TA	T	720	PASS	WDFY2	Del	intronic	1	5	MSH6	child	13_52239611_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
c6f17c08-3325-11e6-ba48-d8ad2aaffa45	8_113273751_ATGA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	8	113273751	ATG	A	360	PASS	CSMD3	Del	intronic	2	8	POLE	child	8_113273751_ATGA_POLE	2	2	2	TG	7	TG	Repeat-mediated
c6f35494-328d-11e6-b8e0-dcb35d753391	7_141670076_CCA	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	7	141670076	C	CA	540	PASS	TAS2R38	Ins	downstream	1	7	POLE	child	7_141670076_CCA_POLE	1	1	-	-	-	-	Ins
c6fb2e08-3256-11e6-91d3-a68412ae24cf	7_19811747_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	19811747	CA	C	300	PASS	TMEM196	Del	intronic	1	7	MSH6	child	7_19811747_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
c6fecc82-3271-11e6-b630-aeceb41afd22	17_52825403_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	17	52825403	AT	A	540	PASS	-	Del	-	1	7	FANCC	child	17_52825403_ATA_FANCC	1	1	1	T	6	T	Repeat-mediated
c708d5ce-3320-11e6-8b1d-08e579852e0e	10_62718927_TAT	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	10	62718927	TA	T	660	PASS	RHOBTB1	Del	intronic	1	7	POLE	child	10_62718927_TAT_POLE	1	1	1	A	6	A	Repeat-mediated
c70f1492-329f-11e6-bc2c-2a5e25c9da85	4_182009161_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	182009161	TA	T	300	PASS	LINC00290	Del	intronic	1	9	MSH6	child	4_182009161_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
c7117774-3280-11e6-a2e8-f2338e4678dd	15_33105621_CTC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	15	33105621	CT	C	360	PASS	FMN1	Del	intronic	1	9	EXO1	child	15_33105621_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
c7198892-3271-11e6-b209-994b3cfdbd24	15_58356928_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	15	58356928	AT	A	300	PASS	ALDH1A2	Del	intronic	1	8	MSH6	parent	15_58356928_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c722c604-329a-11e6-ae71-0c5325c9da85	1_43371734_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	43371734	TA	T	660	PASS	-	Del	-	1	8	MSH6	child	1_43371734_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
c723c2f6-328c-11e6-aaf7-8f5c694da5d2	19_14901852_TAT	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	19	14901852	TA	T	480	PASS	-	Del	-	1	6	POLM	child	19_14901852_TAT_POLM	1	1	1	A	5	A	Repeat-mediated
c729050e-329b-11e6-8069-175325c9da85	12_113057515_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	113057515	CT	C	660	PASS	RPH3A	Del	intronic	1	9	MSH6	child	12_113057515_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c72a8344-3286-11e6-a5b3-3f1ebce6aa09	7_30771633_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	30771633	TA	T	540	PASS	-	Del	-	1	8	MSH6	child	7_30771633_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
c72c3828-328c-11e6-bd1b-5fcc977b3f23	11_91601945_GAG	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	11	91601945	GA	G	360	PASS	-	Del	-	1	9	NEIL1	child	11_91601945_GAG_NEIL1	1	1	1	A	8	A	Repeat-mediated
c735123a-329c-11e6-b129-195325c9da85	16_56231958_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	56231958	G	GA	720	PASS	GNAO1	Ins	intronic	1	6	MSH6	child	16_56231958_GGA_MSH6	1	1	-	-	-	-	Ins
c736e828-3281-11e6-9ece-78393dc9300a	11_15375576_ATA	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	11	15375576	AT	A	480	PASS	-	Del	-	1	8	NEIL1	parent	11_15375576_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
c73a8990-3292-11e6-b77d-2eef6f39e758	6_157048103_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	157048103	GT	G	1020	PASS	-	Del	-	1	9	MSH6	child	6_157048103_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
c73b94ae-3286-11e6-a5b3-3f1ebce6aa09	7_30798569_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	30798569	AT	A	480	PASS	INMT	Del	downstream	1	8	MSH6	child	7_30798569_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c744d2fa-3257-11e6-a7ac-209a7872c165	22_38930852_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	22	38930852	CA	C	360	PASS	DMC1	Del	intronic	1	8	MSH6	child	22_38930852_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
c74a591c-3290-11e6-b6a6-1f1e0e01a414	4_69123451_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	69123451	A	AT	660	PASS	-	Ins	-	1	4	MSH6	child	4_69123451_AAT_MSH6	1	1	-	-	-	-	Ins
c74b9194-3275-11e6-972b-b65bfc77b11e	1_192080856_TAT	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	1	192080856	TA	T	480	PASS	-	Del	-	1	9	CHK2	child	1_192080856_TAT_CHK2	1	1	1	A	8	A	Repeat-mediated
c751d0e6-328d-11e6-8dad-8fe0191589db	21_46699309_CAC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	21	46699309	CA	C	480	PASS	POFUT2	Del	intronic	1	8	FANCC	child	21_46699309_CAC_FANCC	1	1	1	A	7	A	Repeat-mediated
c75a7480-327e-11e6-9c0f-26bd1da8ec0e	8_129513390_TCTGTTGATTCTCTCCATCTTTCAATGAAGT	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	8	129513390	TCTGTTGATTCTCTCCATCTTTCAATGAAG	T	660	PASS	RP11-89M16.1	Del	intronic	29	1	FANCC	parent	8_129513390_TCTGTTGATTCTCTCCATCTTTCAATGAAGT_FANCC	29	>=10	3	CTG	0	-	Microhomology-mediated
c75cb086-3320-11e6-91bf-3d785e975b79	11_7175104_GTG	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	11	7175104	GT	G	720	PASS	-	Del	-	1	9	POLE	child	11_7175104_GTG_POLE	1	1	1	T	8	T	Repeat-mediated
c75d454c-329d-11e6-bc66-17b4cc638e3d	8_19161592_AAGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	19161592	AAG	A	600	PASS	-	Del	-	2	6	MSH6	child	8_19161592_AAGA_MSH6	2	2	2	AG	5	AG	Repeat-mediated
c75dcb86-329b-11e6-b549-1e5325c9da85	10_116186265_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	116186265	GA	G	660	PASS	ABLIM1	Del	downstream	1	6	MSH6	child	10_116186265_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
c76d5b8c-326e-11e6-b306-b5204b47a305	2_192887732_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	192887732	CT	C	540	PASS	TMEFF2	Del	intronic	1	9	MSH6	child	2_192887732_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c76e8d6a-3276-11e6-9732-2a7ea2c71c31	22_33542706_GAG	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	22	33542706	GA	G	360	PASS	-	Del	-	1	8	NEIL1	child	22_33542706_GAG_NEIL1	1	1	1	A	7	A	Repeat-mediated
c77b09e6-3258-11e6-885f-d1947872c165	4_183422937_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	183422937	CT	C	540	PASS	TENM3	Del	intronic	1	7	MSH6	child	4_183422937_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
c78302de-328c-11e6-b68c-9fa420e7b7a8	8_87219300_CATAC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	8	87219300	CATA	C	420	PASS	-	Del	-	3	2	POLE	child	8_87219300_CATAC_POLE	3	3	3	ATA	1	ATA	Repeat-mediated
c7845732-3256-11e6-acc5-308412ae24cf	5_29390942_GTCG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	29390942	GTC	G	540	PASS	CTD-2010I22.2	Del	intronic	2	2	MSH6	child	5_29390942_GTCG_MSH6	2	2	2	TC	1	TC	Repeat-mediated
c78b59d8-326f-11e6-8a6f-43b190e2c2e6	11_57314607_TAT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	11	57314607	TA	T	420	PASS	UBE2L6	Del	downstream	1	9	POLB	child	11_57314607_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
c7972d14-3295-11e6-a9b2-67393dc9300a	7_92479722_GTG	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	7	92479722	GT	G	840	PASS	-	Del	-	1	4	POLB	child	7_92479722_GTG_POLB	1	1	1	T	3	T	Repeat-mediated
c7975358-3299-11e6-8de1-2d9afaf1a024	7_119705282_TCAAAT	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	7	119705282	TCAAA	T	420	PASS	-	Del	-	4	1	CHK2	child	7_119705282_TCAAAT_CHK2	4	4	2	CA	0	-	Microhomology-mediated
c79c8048-3272-11e6-8f10-bfc27872c165	4_114391445_ACA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	4	114391445	AC	A	300	PASS	CAMK2D	Del	intronic	1	8	EXO1	parent	4_114391445_ACA_EXO1	1	1	1	C	7	C	Repeat-mediated
c7b1192a-32a1-11e6-a04f-c66a25c9da85	6_160089044_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	160089044	TA	T	420	PASS	SOD2	Del	downstream	1	5	MSH6	child	6_160089044_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
c7c40464-3287-11e6-a284-4b89a2c71c31	4_114629315_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	114629315	CT	C	480	PASS	CAMK2D	Del	intronic	1	8	MSH6	child	4_114629315_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
c7c8cecc-3322-11e6-a5ff-2d2ef7d33ce3	10_100797175_GGTACT	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	10	100797175	G	GTACT	480	PASS	HPSE2	Ins	intronic	4	0	CHK2	child	10_100797175_GGTACT_CHK2	4	4	-	-	-	-	Ins
c7c9bb90-326c-11e6-9f48-94df41c4520d	12_16555112_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	16555112	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	12_16555112_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c7cccb78-3253-11e6-8ebc-3ef212ae24cf	15_28965295_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	28965295	GA	G	477	PASS	RP11-578F21.6	Del	intronic	1	9	MSH6	child	15_28965295_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c7ce5546-3272-11e6-b332-88ba7d6a9fc7	15_37363071_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	37363071	AT	A	720	PASS	MEIS2	Del	intronic	1	8	MSH6	child	15_37363071_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c7d3c33c-329f-11e6-aea7-956725c9da85	3_81400201_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	81400201	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	3_81400201_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
c7d7e6d2-3273-11e6-94cc-1ec335cec73b	19_49287074_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	49287074	AT	A	480	PASS	-	Del	-	1	6	MSH6	child	19_49287074_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
c7de01ee-3290-11e6-b81f-4ee66f39e758	8_71117841_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	71117841	GA	G	600	PASS	NCOA2	Del	intronic	1	9	MSH6	child	8_71117841_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c7de849e-3348-11e6-b3a1-d0f2137bb207	5_42869227_ATA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	5	42869227	AT	A	300	PASS	SEPP1	Del	intronic	1	6	FANCC	child	5_42869227_ATA_FANCC	1	1	1	T	5	T	Repeat-mediated
c7edf78c-328d-11e6-a450-805c694da5d2	16_83608699_ATA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	16	83608699	AT	A	480	PASS	CDH13	Del	intronic	1	5	POLM	child	16_83608699_ATA_POLM	1	1	1	T	4	T	Repeat-mediated
c7f4a6fe-3274-11e6-8bd4-92b28a20d9eb	9_140492120_ATA	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	9	140492120	AT	A	420	PASS	-	Del	-	1	5	NEIL1	child	9_140492120_ATA_NEIL1	1	1	1	T	4	T	Repeat-mediated
c7f8bdb6-3279-11e6-92d2-c259c225ee11	3_46565375_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	46565375	A	AT	600	PASS	LRRC2	Ins	intronic	1	7	MSH6	child	3_46565375_AAT_MSH6	1	1	-	-	-	-	Ins
c7fe3eba-3285-11e6-be43-0a6ea2c71c31	10_118890665_AAGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	118890665	AAG	A	360	PASS	VAX1	Del	3prime_UTR_variant	2	6	MSH6	child	10_118890665_AAGA_MSH6	2	2	2	AG	5	AG	Repeat-mediated
c800ad40-3284-11e6-8b67-086ea2c71c31	1_29315395_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	29315395	GA	G	780	PASS	EPB41	Del	intronic	1	9	MSH6	child	1_29315395_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c80178d6-329a-11e6-a5cf-205325c9da85	11_60842942_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	60842942	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	11_60842942_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
c80ee480-328b-11e6-bd84-429305ad5bc4	1_31282181_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	31282181	CT	C	720	PASS	RP5-1125N11.1	Del	downstream	1	8	MSH6	child	1_31282181_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
c8109a46-3290-11e6-9230-fb250e01a414	3_187229110_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	187229110	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	3_187229110_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
c813bc7c-328a-11e6-940d-53a538e8a824	2_28836329_TTG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	2	28836329	T	TG	300	PASS	PLB1	Ins	intronic	1	5	NUDT1	parent	2_28836329_TTG_NUDT1	1	1	-	-	-	-	Ins
c813c022-3286-11e6-bb1d-5179a178171f	13_94956815_AATCA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	13	94956815	AATC	A	360	PASS	GPC6	Del	intronic	3	2	FANCC	child	13_94956815_AATCA_FANCC	3	3	3	ATC	1	ATC	Repeat-mediated
c820bdc6-3273-11e6-975f-8246cab49462	16_81570653_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	81570653	AT	A	600	PASS	CMIP	Del	intronic	1	5	MSH6	child	16_81570653_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
c8238f9e-3285-11e6-be43-0a6ea2c71c31	10_118920804_AGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	118920804	AG	A	600	PASS	RP11-501J20.2	Del	intronic	1	7	MSH6	child	10_118920804_AGA_MSH6	1	1	1	G	6	G	Repeat-mediated
c825ff68-3271-11e6-af89-7600ebb8d062	5_14708896_ATATA	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	5	14708896	ATAT	A	540	PASS	ANKH	Del	3prime_UTR_variant	3	2	NUDT1	child	5_14708896_ATATA_NUDT1	3	3	3	TAT	1	TAT	Repeat-mediated
c82d914e-329c-11e6-8069-175325c9da85	12_26860923_TTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	26860923	T	TA	660	PASS	ITPR2	Ins	intronic	1	6	MSH6	child	12_26860923_TTA_MSH6	1	1	-	-	-	-	Ins
c84357be-328c-11e6-b9c4-751d0e01a414	5_34797497_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	34797497	TA	T	300	PASS	RAI14	Del	intronic	1	8	MSH6	child	5_34797497_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
c847eaaa-3272-11e6-83ef-69fb06e9a829	18_27658304_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	27658304	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	18_27658304_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
c8601854-329b-11e6-ae71-0c5325c9da85	1_104795171_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	104795171	GT	G	720	PASS	-	Del	-	1	8	MSH6	child	1_104795171_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
c861a9c8-3285-11e6-a8af-066ea2c71c31	15_80902938_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	80902938	CA	C	840	PASS	-	Del	-	1	7	MSH6	child	15_80902938_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
c867556c-3280-11e6-a62e-ba6f2aaffa45	10_11884434_GTG	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	10	11884434	GT	G	360	PASS	PROSER2	Del	intronic	1	9	POLE	child	10_11884434_GTG_POLE	1	1	1	T	8	T	Repeat-mediated
c869d9ee-3290-11e6-b81f-4ee66f39e758	8_71312622_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	71312622	GT	G	600	PASS	NCOA2	Del	intronic	1	7	MSH6	child	8_71312622_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
c87134a0-3272-11e6-a5d0-4fd14a47a305	2_34060760_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	34060760	TA	T	600	PASS	AC009499.1	Del	intronic	1	5	MSH6	child	2_34060760_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
c873df88-334a-11e6-a997-309d38e8a824	4_177377694_GAG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	4	177377694	GA	G	420	PASS	-	Del	-	1	9	FANCC	child	4_177377694_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
c8766966-3277-11e6-ae4b-5451694da5d2	X_56749010_CAC	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	X	56749010	CA	C	660	PASS	-	Del	-	1	9	POLM	child	X_56749010_CAC_POLM	1	1	1	A	8	A	Repeat-mediated
c877c8aa-328c-11e6-8106-81c36f39e758	19_56909999_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	56909999	GT	G	480	PASS	ZNF582-AS1	Del	nc_variant	1	6	MSH6	child	19_56909999_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
c89362dc-329a-11e6-ae71-0c5325c9da85	1_43610784_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	43610784	CT	C	480	PASS	FAM183A	Del	upstream	1	8	MSH6	child	1_43610784_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
c8970722-329d-11e6-b696-dd6225c9da85	5_45563569_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	45563569	TA	T	360	PASS	HCN1	Del	intronic	1	4	MSH6	child	5_45563569_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
c89d384c-328c-11e6-8e48-791e0e01a414	8_19118876_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	19118876	CA	C	360	PASS	RP11-1080G15.1	Del	upstream	1	6	MSH6	child	8_19118876_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
c89faf24-3272-11e6-826a-adb6fa52e078	17_22243509_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	17	22243509	CT	C	263	PASS	-	Del	-	1	8	MSH6	child	17_22243509_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
c8a3584c-3257-11e6-acc5-308412ae24cf	5_100310675_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	100310675	GA	G	600	PASS	-	Del	-	1	8	MSH6	child	5_100310675_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
c8acb346-326c-11e6-9f48-94df41c4520d	12_16994402_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	16994402	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	12_16994402_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
c8b0162a-3277-11e6-bb6d-38aec042253c	3_48010516_AAACTA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	3	48010516	AAACT	A	660	PASS	MAP4	Del	intronic	4	2	CHK2	child	3_48010516_AAACTA_CHK2	4	4	4	AACT	1	AACT	Repeat-mediated
c8b2398a-328d-11e6-9dfc-339fe7d0bdd7	5_110144508_GTAG	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	5	110144508	GTA	G	420	PASS	-	Del	-	2	7	POLM	child	5_110144508_GTAG_POLM	2	2	2	TA	6	TA	Repeat-mediated
c8b396bc-3289-11e6-a100-84090e01a414	18_36886188_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	36886188	TA	T	360	PASS	LINC00669	Del	intronic	1	7	MSH6	child	18_36886188_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
c8b3e84e-3273-11e6-8f33-a6d9cde16804	11_124965584_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	124965584	CA	C	600	PASS	TMEM218	Del	downstream	1	7	MSH6	child	11_124965584_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
c8bb6d16-326f-11e6-b923-6726694da5d2	5_22193135_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	22193135	GA	G	330	PASS	CDH12	Del	intronic	1	9	MSH6	child	5_22193135_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c8bcab02-328f-11e6-bc00-90df977b3f23	X_64115856_TAT	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	X	64115856	TA	T	360	PASS	-	Del	-	1	9	NEIL1	child	X_64115856_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
c8c30fb4-3272-11e6-a775-7b5b25c9da85	22_18158021_ATGTA	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	22	18158021	ATGT	A	480	PASS	BCL2L13	Del	intronic	3	2	POLM	child	22_18158021_ATGTA_POLM	3	3	3	TGT	1	TGT	Repeat-mediated
c8c55b2a-3272-11e6-83ef-69fb06e9a829	18_27730093_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	27730093	TA	T	600	PASS	-	Del	-	1	8	MSH6	child	18_27730093_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
c8c890e2-3272-11e6-8f33-a6d9cde16804	11_36705327_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	36705327	CT	C	420	PASS	-	Del	-	1	8	MSH6	child	11_36705327_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
c8c8b460-328f-11e6-9230-fb250e01a414	3_124238312_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	124238312	CT	C	600	PASS	KALRN	Del	3prime_UTR_variant	1	7	MSH6	child	3_124238312_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
c8ca278a-3296-11e6-a8ac-ea4f3dc9300a	6_45733453_TTCT	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	6	45733453	TTC	T	360	PASS	-	Del	-	2	7	POLB	child	6_45733453_TTCT_POLB	2	2	2	TC	6	TC	Repeat-mediated
c8ce4df4-3284-11e6-90da-f3a469062303	6_30430766_AGAGATGGACAGATGGGCCCATGCTGAAGGCAGTCAGTCACCTGTGCCTGCAGATGAGAAACCGCCGCCTAACCTTTCTGAACCTCATGCGGAAAAAATGTTTGCACCACTAGCCTCCAGCACAGAGATTCCATCCCAGCTCAGTATTTAGTATTTAGAGATTTAGTATTTAGTATTTAGAGATTCCTAAATACCGAGGACTCTGCCCAGTCTGGTTTGACCATGCTCCTCCTTCCTCACACTGTGGGGCCCCAGCTTTCCCTCCCAATTCCACACCCCCAGATGCTGGTACCATGCTCAGGTTCATCGTGGACACCACTCCATCCGACATGGCAACACTTTTGATCCAGCCGCTTTGACAACCTCGTTCAGTCTCCTCTGGAGACAGCCACCCAGACCTTTGCTGATGAGCTGGGACTGAGGGGAAAAGGCCTGCGATCTCTGATGGGGTTGGCAATGGACACCAAAGTCGTCTTCTAAAGACCAAGTACGCTCTAACCACGGAAATCGTCTCTAACCACTGACTCCTCCAGAAAAGGAAGAAAGAAGCCTCTCTACACTAAGCTGAAACACTAAATACACTAAGTGTTGATTAAGTAGACTAGGTACACTAAGTGGTAAACTTGGTAAACTTAGAGCACTAAGTACACTAAGTACAATAAATGGTAAACTTGGTAAACTTAGAGCACTAAGTGCACTAAGTTCACTAAGTAATAATATTAGTACTAAGTGGTACACTAAGCTGAAACCGCAAACCGCAGCCATGGCAGAGGAACCTCAGCTTAAATAGTGTGGAGCGGCCACTGGTTTCCGCGGCTCGTAGTCGCGCCCGCGAGGAAACGCCAGGGAGGCTTCCTGCCCCGCCCAGCGGTGGCCCAGGGCACAGGGAACCACGGCTGCTTCTCTCCGAGGTTTGTGGCCTGAGAAACTCTCCA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	6	30430766	AGAGATGGACAGATGGGCCCATGCTGAAGGCAGTCAGTCACCTGTGCCTGCAGATGAGAAACCGCCGCCTAACCTTTCTGAACCTCATGCGGAAAAAATGTTTGCACCACTAGCCTCCAGCACAGAGATTCCATCCCAGCTCAGTATTTAGTATTTAGAGATTTAGTATTTAGTATTTAGAGATTCCTAAATACCGAGGACTCTGCCCAGTCTGGTTTGACCATGCTCCTCCTTCCTCACACTGTGGGGCCCCAGCTTTCCCTCCCAATTCCACACCCCCAGATGCTGGTACCATGCTCAGGTTCATCGTGGACACCACTCCATCCGACATGGCAACACTTTTGATCCAGCCGCTTTGACAACCTCGTTCAGTCTCCTCTGGAGACAGCCACCCAGACCTTTGCTGATGAGCTGGGACTGAGGGGAAAAGGCCTGCGATCTCTGATGGGGTTGGCAATGGACACCAAAGTCGTCTTCTAAAGACCAAGTACGCTCTAACCACGGAAATCGTCTCTAACCACTGACTCCTCCAGAAAAGGAAGAAAGAAGCCTCTCTACACTAAGCTGAAACACTAAATACACTAAGTGTTGATTAAGTAGACTAGGTACACTAAGTGGTAAACTTGGTAAACTTAGAGCACTAAGTACACTAAGTACAATAAATGGTAAACTTGGTAAACTTAGAGCACTAAGTGCACTAAGTTCACTAAGTAATAATATTAGTACTAAGTGGTACACTAAGCTGAAACCGCAAACCGCAGCCATGGCAGAGGAACCTCAGCTTAAATAGTGTGGAGCGGCCACTGGTTTCCGCGGCTCGTAGTCGCGCCCGCGAGGAAACGCCAGGGAGGCTTCCTGCCCCGCCCAGCGGTGGCCCAGGGCACAGGGAACCACGGCTGCTTCTCTCCGAGGTTTGTGGCCTGAGAAACTCTCC	A	540	PASS	-	Del	-	933	1	FANCC	child	6_30430766_AGAGATGGACAGATGGGCCCATGCTGAAGGCAGTCAGTCACCTGTGCCTGCAGATGAGAAACCGCCGCCTAACCTTTCTGAACCTCATGCGGAAAAAATGTTTGCACCACTAGCCTCCAGCACAGAGATTCCATCCCAGCTCAGTATTTAGTATTTAGAGATTTAGTATTTAGTATTTAGAGATTCCTAAATACCGAGGACTCTGCCCAGTCTGGTTTGACCATGCTCCTCCTTCCTCACACTGTGGGGCCCCAGCTTTCCCTCCCAATTCCACACCCCCAGATGCTGGTACCATGCTCAGGTTCATCGTGGACACCACTCCATCCGACATGGCAACACTTTTGATCCAGCCGCTTTGACAACCTCGTTCAGTCTCCTCTGGAGACAGCCACCCAGACCTTTGCTGATGAGCTGGGACTGAGGGGAAAAGGCCTGCGATCTCTGATGGGGTTGGCAATGGACACCAAAGTCGTCTTCTAAAGACCAAGTACGCTCTAACCACGGAAATCGTCTCTAACCACTGACTCCTCCAGAAAAGGAAGAAAGAAGCCTCTCTACACTAAGCTGAAACACTAAATACACTAAGTGTTGATTAAGTAGACTAGGTACACTAAGTGGTAAACTTGGTAAACTTAGAGCACTAAGTACACTAAGTACAATAAATGGTAAACTTGGTAAACTTAGAGCACTAAGTGCACTAAGTTCACTAAGTAATAATATTAGTACTAAGTGGTACACTAAGCTGAAACCGCAAACCGCAGCCATGGCAGAGGAACCTCAGCTTAAATAGTGTGGAGCGGCCACTGGTTTCCGCGGCTCGTAGTCGCGCCCGCGAGGAAACGCCAGGGAGGCTTCCTGCCCCGCCCAGCGGTGGCCCAGGGCACAGGGAACCACGGCTGCTTCTCTCCGAGGTTTGTGGCCTGAGAAACTCTCCA_FANCC	933	>=10	1	G	0	-	Microhomology-mediated
c8d6310e-3275-11e6-bd08-5b1c630e6611	9_20867414_CTC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	9	20867414	CT	C	660	PASS	FOCAD	Del	intronic	1	8	CHK2	child	9_20867414_CTC_CHK2	1	1	1	T	7	T	Repeat-mediated
c8d96726-3297-11e6-9c5d-eaf997ba1142	12_116546890_TTTGT	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	12	116546890	TTTG	T	300	PASS	MED13L	Del	intronic	3	1	CHK2	child	12_116546890_TTTGT_CHK2	3	3	0	-	0	-	None
c8e31cea-3287-11e6-8bbd-f88da2c71c31	21_26917593_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	21	26917593	GT	G	540	PASS	-	Del	-	1	5	MSH6	child	21_26917593_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
c8e35e42-3270-11e6-9dd9-e411987b3f23	2_169549274_TGT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	2	169549274	TG	T	360	PASS	CERS6	Del	intronic	1	7	NEIL1	child	2_169549274_TGT_NEIL1	1	1	1	G	6	G	Repeat-mediated
c8e6afba-328a-11e6-a80b-87090e01a414	11_94344142_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	94344142	GT	G	420	PASS	PIWIL4	Del	intronic	1	7	MSH6	child	11_94344142_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
c8e8d1ee-328c-11e6-ae53-96c36f39e758	15_69569462_GCAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	69569462	GCA	G	300	PASS	GLCE	Del	downstream	2	8	MSH6	child	15_69569462_GCAG_MSH6	2	2	2	CA	7	CA	Repeat-mediated
c8ea9326-328c-11e6-bd84-429305ad5bc4	1_169981901_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	169981901	GA	G	480	PASS	KIFAP3	Del	intronic	1	7	MSH6	child	1_169981901_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
c8f48548-329b-11e6-b549-1e5325c9da85	10_116640283_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	116640283	CA	C	780	PASS	FAM160B1	Del	intronic	1	7	MSH6	child	10_116640283_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
c8fab33c-3273-11e6-90ac-b4c37872c165	8_61826865_CTC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	8	61826865	CT	C	300	PASS	AC022182.1	Del	upstream	1	8	NEIL1	child	8_61826865_CTC_NEIL1	1	1	1	T	7	T	Repeat-mediated
c8fcbce6-326d-11e6-9f48-94df41c4520d	12_94182849_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	94182849	CT	C	420	PASS	CRADD	Del	intronic	1	8	MSH6	child	12_94182849_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
c9024966-3283-11e6-9e76-639d69062303	8_35875197_GAG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	8	35875197	GA	G	960	PASS	RP11-89M20.2	Del	intronic	1	5	FANCC	child	8_35875197_GAG_FANCC	1	1	1	A	4	A	Repeat-mediated
c909ba94-328c-11e6-bec1-ca1d0e01a414	X_33297470_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	33297470	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	X_33297470_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c9117c38-3292-11e6-9432-c0e56f39e758	5_127936355_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	127936355	G	GT	540	PASS	FBN2	Ins	intronic	1	7	MSH6	child	5_127936355_GGT_MSH6	1	1	-	-	-	-	Ins
c912ae88-3255-11e6-8ebc-3ef212ae24cf	15_92442499_TGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	92442499	TG	T	540	PASS	SLCO3A1	Del	intronic	1	7	MSH6	child	15_92442499_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
c91635f2-328d-11e6-b805-77090e01a414	2_34203559_AAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	34203559	A	AC	420	PASS	AC009499.1	Ins	intronic	1	2	MSH6	child	2_34203559_AAC_MSH6	1	1	-	-	-	-	Ins
c9292366-3273-11e6-bfb2-2749c225ee11	12_96167508_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	96167508	AT	A	600	PASS	NTN4	Del	intronic	1	9	MSH6	child	12_96167508_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
c929faa2-328c-11e6-9c89-8d090e01a414	1_208169981_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	208169981	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	1_208169981_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
c92a5ddc-328a-11e6-821d-8c090e01a414	13_113446640_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	113446640	GA	G	300	PASS	ATP11A	Del	intronic	1	9	MSH6	child	13_113446640_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c9319bbe-3286-11e6-b32c-fd87a2c71c31	5_56677026_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	56677026	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	5_56677026_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
c933508c-329d-11e6-ae71-0c5325c9da85	1_228237495_CTTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	228237495	CTT	C	780	PASS	WNT3A	Del	intronic	2	8	MSH6	child	1_228237495_CTTC_MSH6	2	2	2	TT	6	T	Repeat-mediated
c93529de-3275-11e6-98dc-d270cde16804	22_40387611_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	22	40387611	CT	C	540	PASS	FAM83F	Del	upstream	1	9	MSH6	child	22_40387611_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c935e38c-328a-11e6-8459-82090e01a414	12_90949242_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	90949242	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	12_90949242_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c93fa792-328e-11e6-b9c4-751d0e01a414	5_172739992_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	172739992	CT	C	420	PASS	STC2	Del	downstream	1	8	MSH6	child	5_172739992_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
c951d7ee-328b-11e6-bd84-429305ad5bc4	1_31580545_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	31580545	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	1_31580545_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
c953f7ea-3272-11e6-a862-bc9becf1e924	1_26458835_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	26458835	GA	G	480	PASS	-	Del	-	1	7	MSH6	child	1_26458835_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
c955345c-328b-11e6-9340-3a91e7d0bdd7	12_118097723_TCAAAT	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	12	118097723	TCAAA	T	360	PASS	KSR2	Del	intronic	4	1	POLM	child	12_118097723_TCAAAT_POLM	4	4	3	CAA	0	-	Microhomology-mediated
c95b48bc-329d-11e6-91d0-016425c9da85	7_19482748_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	19482748	AT	A	420	PASS	AC007091.1	Del	intronic	1	6	MSH6	child	7_19482748_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
c95d33e2-329e-11e6-9c44-d26625c9da85	21_31321250_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	21	31321250	CT	C	660	PASS	-	Del	-	1	9	MSH6	child	21_31321250_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c96bf35e-329a-11e6-9048-b49fcc638e3d	17_40488624_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	40488624	GA	G	300	PASS	STAT3	Del	intronic	1	9	MSH6	child	17_40488624_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c96bfbb4-328c-11e6-b8e6-91c36f39e758	11_82355817_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	82355817	GA	G	300	PASS	RP11-179A16.2	Del	upstream	1	9	MSH6	child	11_82355817_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c9783b0e-3287-11e6-9a8e-d2b1f6dffcf6	1_118980102_TTAAT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	1	118980102	TTAA	T	660	PASS	-	Del	-	3	3	NUDT1	parent	1_118980102_TTAAT_NUDT1	3	3	3	TAA	2	TAA	Repeat-mediated
c97ac282-3284-11e6-a0a8-096ea2c71c31	11_38535167_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	38535167	GT	G	420	PASS	-	Del	-	1	6	MSH6	child	11_38535167_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
c9811162-329a-11e6-9048-b49fcc638e3d	17_40503576_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	40503576	CT	C	420	PASS	STAT3	Del	intronic	1	8	MSH6	child	17_40503576_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
c98353cc-329b-11e6-ae71-0c5325c9da85	1_105039671_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	105039671	GA	G	420	PASS	-	Del	-	1	8	MSH6	child	1_105039671_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
c985af6c-329d-11e6-a5cf-e5abcc638e3d	9_117243299_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	117243299	GA	G	540	PASS	DFNB31	Del	intronic	1	9	MSH6	child	9_117243299_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
c989aa42-32a0-11e6-a04f-c66a25c9da85	6_97717076_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	97717076	TA	T	660	PASS	MMS22L	Del	intronic	1	8	MSH6	child	6_97717076_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
c98c6550-329d-11e6-bc2c-2a5e25c9da85	4_56595834_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	56595834	AC	A	720	PASS	-	Del	-	1	6	MSH6	child	4_56595834_ACA_MSH6	1	1	1	C	5	C	Repeat-mediated
c99a9b7e-326c-11e6-bc62-6d4742c4520d	16_15985713_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	15985713	TA	T	420	PASS	FOPNL	Del	upstream	1	9	MSH6	child	16_15985713_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
c99d76d0-32a0-11e6-aea7-956725c9da85	3_155655366_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	155655366	AT	A	660	PASS	GMPS	Del	intronic	1	8	MSH6	child	3_155655366_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c99dd766-3254-11e6-a4a7-35f212ae24cf	14_98944221_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	98944221	TA	T	600	PASS	-	Del	-	1	9	MSH6	child	14_98944221_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
c99e76c8-328e-11e6-bfa2-581f0e01a414	7_126649900_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	126649900	CT	C	300	PASS	GRM8	Del	intronic	1	9	MSH6	child	7_126649900_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
c9a3675c-3255-11e6-a304-347a7872c165	1_153779818_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	153779818	GA	G	360	PASS	GATAD2B	Del	3prime_UTR_variant	1	8	MSH6	child	1_153779818_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
c9a6edce-329a-11e6-bda6-065325c9da85	13_77253451_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	77253451	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	13_77253451_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
c9b6d32c-3288-11e6-b9eb-c78fa2c71c31	6_92211307_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	92211307	GT	G	480	PASS	-	Del	-	1	8	MSH6	child	6_92211307_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
c9beb632-328d-11e6-8c87-38240e01a414	22_26524462_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	22	26524462	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	22_26524462_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c9c65734-3256-11e6-9d15-298312ae24cf	X_49056271_ACA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	49056271	AC	A	300	PASS	SYP	Del	intronic	1	6	MSH6	child	X_49056271_ACA_MSH6	1	1	1	C	5	C	Repeat-mediated
c9c88fc6-328e-11e6-8952-77c36f39e758	10_87458820_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	87458820	G	GT	360	PASS	GRID1	Ins	intronic	1	6	MSH6	child	10_87458820_GGT_MSH6	1	1	-	-	-	-	Ins
c9d755ec-3270-11e6-b89d-b2d6b0dab373	4_85181361_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	85181361	AT	A	660	PASS	RP11-8L2.1	Del	intronic	1	8	MSH6	child	4_85181361_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c9e0b176-3272-11e6-a685-a844e7d0bdd7	10_1714082_TGT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	10	1714082	TG	T	360	PASS	ADARB2	Del	intronic	1	7	EXO1	child	10_1714082_TGT_EXO1	1	1	1	G	6	G	Repeat-mediated
c9e9881e-3272-11e6-975f-8246cab49462	16_23360648_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	23360648	AT	A	360	PASS	SCNN1B	Del	intronic	1	8	MSH6	child	16_23360648_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
c9e99ca8-3274-11e6-afb6-12832aaffa45	8_55701695_TGGCAGGT	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	8	55701695	TGGCAGG	T	360	PASS	-	Del	-	6	1	CHK2	child	8_55701695_TGGCAGGT_CHK2	6	6	2	GG	0	-	Microhomology-mediated
c9ead0ec-328c-11e6-b9c4-751d0e01a414	5_35265585_TGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	35265585	TG	T	360	PASS	-	Del	-	1	8	MSH6	child	5_35265585_TGT_MSH6	1	1	1	G	7	G	Repeat-mediated
c9ef6f9c-328e-11e6-ae53-96c36f39e758	15_61494373_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	61494373	A	AT	300	PASS	RORA	Ins	intronic	1	8	MSH6	child	15_61494373_AAT_MSH6	1	1	-	-	-	-	Ins
ca00edae-3274-11e6-b7b8-aca7ecf1e924	12_80926546_CCTGGC	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	12	80926546	CCTGG	C	500	PASS	PTPRQ	Del	intronic	4	1	NEIL1	child	12_80926546_CCTGGC_NEIL1	4	4	2	CT	0	-	Microhomology-mediated
ca00fa4e-328b-11e6-ae53-96c36f39e758	15_29448554_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	29448554	AT	A	360	PASS	FAM189A1	Del	intronic	1	8	MSH6	child	15_29448554_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ca015ba6-329a-11e6-b549-1e5325c9da85	10_59897260_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	59897260	CT	C	1020	PASS	-	Del	-	1	8	MSH6	child	10_59897260_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
ca11e876-3278-11e6-a391-f6d67d6a9fc7	6_88427413_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	88427413	TG	T	840	PASS	-	Del	-	1	6	MSH6	child	6_88427413_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
ca15d356-3286-11e6-b32c-fd87a2c71c31	5_57209084_TCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	57209084	TC	T	300	PASS	-	Del	-	1	4	MSH6	child	5_57209084_TCT_MSH6	1	1	1	C	3	C	Repeat-mediated
ca216a9a-328b-11e6-b805-77090e01a414	2_170653589_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	170653589	GT	G	420	PASS	SSB	Del	upstream	1	8	MSH6	child	2_170653589_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
ca27520c-3290-11e6-aa67-b667694da5d2	5_113067437_GAG	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	5	113067437	GA	G	480	PASS	-	Del	-	1	1	POLM	child	5_113067437_GAG_POLM	1	1	0	-	0	A	None
ca29b1f0-3321-11e6-be49-204207e9a829	1_65787202_ATA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	1	65787202	AT	A	480	PASS	DNAJC6	Del	intronic	1	9	POLE	child	1_65787202_ATA_POLE	1	1	1	T	8	T	Repeat-mediated
ca3ec5bc-3278-11e6-a47c-77abeab8d062	5_130503292_AGTGTATTG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	5	130503292	AGTGT	ATTG	1080	PASS	LYRM7	Complex	upstream	4	0	EXO1	child	5_130503292_AGTGTATTG_EXO1	1	1	-	-	-	-	Complex
ca47555a-32a1-11e6-94ca-0aaecc638e3d	X_154806160_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	154806160	G	GA	540	PASS	TMLHE	Ins	intronic	1	7	MSH6	child	X_154806160_GGA_MSH6	1	1	-	-	-	-	Ins
ca48131a-32a0-11e6-aea7-956725c9da85	3_155859055_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	155859055	AT	A	420	PASS	KCNAB1	Del	upstream	1	5	MSH6	child	3_155859055_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
ca49d504-328e-11e6-9d24-ade56f39e758	7_13785591_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	13785591	CA	C	660	PASS	-	Del	-	1	7	MSH6	child	7_13785591_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
ca5b4d8c-3272-11e6-bbeb-70bd19a91649	20_2852159_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	20	2852159	T	TA	300	PASS	PTPRA	Ins	upstream	1	8	MSH6	child	20_2852159_TTA_MSH6	1	1	-	-	-	-	Ins
ca5d7f2a-3296-11e6-9baf-ebf997ba1142	14_54455195_TAT	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	14	54455195	TA	T	300	PASS	-	Del	-	1	7	CHK2	child	14_54455195_TAT_CHK2	1	1	1	A	6	A	Repeat-mediated
ca5dba36-328b-11e6-8952-77c36f39e758	10_14862563_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	14862563	TA	T	420	PASS	CDNF	Del	intronic	1	7	MSH6	child	10_14862563_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
ca6a9000-329d-11e6-bc66-17b4cc638e3d	8_19896642_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	19896642	CT	C	600	PASS	-	Del	-	1	8	MSH6	child	8_19896642_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
ca79db54-326c-11e6-9f48-94df41c4520d	12_17744157_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	17744157	CT	C	360	PASS	RP11-871F6.3	Del	upstream	1	7	MSH6	child	12_17744157_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
ca817c56-3271-11e6-a721-59c27872c165	5_39749393_GAG	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	5	39749393	GA	G	420	PASS	-	Del	-	1	9	NEIL1	child	5_39749393_GAG_NEIL1	1	1	1	A	8	A	Repeat-mediated
ca818138-326c-11e6-b2ac-b6204b47a305	17_9378552_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	9378552	AT	A	300	PASS	STX8	Del	intronic	1	4	MSH6	child	17_9378552_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
ca84323a-3284-11e6-99f7-076ea2c71c31	12_32611052_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	32611052	AT	A	660	PASS	-	Del	-	1	8	MSH6	child	12_32611052_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ca86003e-3283-11e6-83b0-2c6e0d016689	2_9996834_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	2	9996834	TA	T	420	PASS	TAF1B	Del	intronic	1	7	EXO1	child	2_9996834_TAT_EXO1	1	1	1	A	6	A	Repeat-mediated
ca87ac92-3286-11e6-a5b3-3f1ebce6aa09	7_32419686_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	32419686	AT	A	720	PASS	-	Del	-	1	6	MSH6	child	7_32419686_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
ca8dbabc-3257-11e6-885f-d1947872c165	4_118296969_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	118296969	CT	C	720	PASS	AC113617.1	Del	downstream	1	8	MSH6	child	4_118296969_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
ca8e765c-3273-11e6-8f33-a6d9cde16804	11_125611225_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	125611225	AT	A	300	PASS	PATE1	Del	upstream	1	7	MSH6	child	11_125611225_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
ca8f3a48-3290-11e6-81a8-bb257a852e0e	16_77832594_TGACATCAAAAT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	16	77832594	TGACATCAAAA	T	360	PASS	VAT1L	Del	intronic	10	1	CHK2	child	16_77832594_TGACATCAAAAT_CHK2	10	>=10	1	G	0	-	Microhomology-mediated
ca90d038-329a-11e6-aca6-b39fcc638e3d	2_66890914_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	66890914	AT	A	780	PASS	AC007392.3	Del	intronic	1	5	MSH6	child	2_66890914_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
ca972222-3285-11e6-89eb-f2eacdacbbbf	4_131709669_AAT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	4	131709669	A	AT	420	PASS	-	Ins	-	1	1	EXO1	child	4_131709669_AAT_EXO1	1	1	-	-	-	-	Ins
ca9bc5a4-3288-11e6-b9eb-c78fa2c71c31	6_92811104_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	92811104	TA	T	540	PASS	-	Del	-	1	5	MSH6	child	6_92811104_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
caa66384-32a0-11e6-bc2c-2a5e25c9da85	4_44769597_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	44769597	A	AT	480	PASS	-	Ins	-	1	1	MSH6	child	4_44769597_AAT_MSH6	1	1	-	-	-	-	Ins
caa6cea6-3321-11e6-a632-bec270cce0de	15_22503779_GGCTGCAGTG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	15	22503779	GGCTGCAGT	G	600	PASS	-	Del	-	8	1	EXO1	child	15_22503779_GGCTGCAGTG_EXO1	8	8	2	GC	0	-	Microhomology-mediated
caa8ad9c-3273-11e6-9ac5-e82e84482639	11_43773485_ACA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	11	43773485	AC	A	420	PASS	HSD17B12	Del	intronic	1	1	EXO1	child	11_43773485_ACA_EXO1	1	1	0	-	0	C	None
caaa3310-32a0-11e6-a04f-c66a25c9da85	6_97974494_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	97974494	AT	A	660	PASS	-	Del	-	1	9	MSH6	child	6_97974494_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
cab44066-328d-11e6-b6a6-1f1e0e01a414	4_81951746_TCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	81951746	TC	T	480	PASS	BMP3	Del	upstream	1	7	MSH6	child	4_81951746_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
cab47714-3276-11e6-92d2-c259c225ee11	3_34889606_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	34889606	TA	T	540	PASS	-	Del	-	1	9	MSH6	child	3_34889606_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
cab9b35e-3272-11e6-b5b8-e0c24a47a305	X_121677949_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	121677949	T	TA	300	PASS	-	Ins	-	1	9	MSH6	child	X_121677949_TTA_MSH6	1	1	-	-	-	-	Ins
cabf6ef2-3272-11e6-9b10-3e7da20b69d5	15_70075524_ATA	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	15	70075524	AT	A	780	PASS	-	Del	-	1	6	NUDT1	child	15_70075524_ATA_NUDT1	1	1	1	T	5	T	Repeat-mediated
cac3d970-328a-11e6-b9eb-c78fa2c71c31	6_120857022_AAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	120857022	A	AT	300	PASS	-	Ins	-	1	6	MSH6	child	6_120857022_AAT_MSH6	1	1	-	-	-	-	Ins
cac9a556-328c-11e6-b805-77090e01a414	2_231989300_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	231989300	GA	G	420	PASS	PSMD1	Del	intronic	1	9	MSH6	child	2_231989300_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
cad575ae-3253-11e6-bc65-c9667872c165	13_36526323_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	36526323	GA	G	600	PASS	DCLK1	Del	intronic	1	6	MSH6	child	13_36526323_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
cae07614-3287-11e6-b093-c9c7b0dab373	2_27964196_TTTTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	27964196	T	TTTG	300	PASS	-	Ins	-	3	7	MSH6	child	2_27964196_TTTTG_MSH6	3	3	-	-	-	-	Ins
cae7969c-326e-11e6-bfba-13bf4a47a305	9_32921103_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	32921103	GA	G	300	PASS	-	Del	-	1	8	MSH6	child	9_32921103_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
caea2350-329e-11e6-bc2c-2a5e25c9da85	4_124537145_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	124537145	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	4_124537145_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
caeabbca-328b-11e6-a7cf-80090e01a414	15_94766675_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	94766675	GT	G	540	PASS	-	Del	-	1	9	MSH6	child	15_94766675_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
caf27e64-3254-11e6-89d3-d29498816cf3	2_139578556_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	139578556	CA	C	540	PASS	-	Del	-	1	7	MSH6	child	2_139578556_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
caf3677a-329f-11e6-aea7-956725c9da85	3_82460595_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	82460595	AT	A	780	PASS	RP11-260O18.1	Del	intronic	1	7	MSH6	child	3_82460595_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
caf71018-3282-11e6-aa13-78428e4678dd	5_11412569_CTC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	5	11412569	CT	C	420	PASS	CTNND2	Del	intronic	1	7	EXO1	child	5_11412569_CTC_EXO1	1	1	1	T	6	T	Repeat-mediated
cafee652-326f-11e6-819e-9d1aa20b69d5	11_81925506_ATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	11	81925506	AT	A	420	PASS	RP11-179A16.1	Del	intronic	1	8	EXO1	parent	11_81925506_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
cb06bf3e-3284-11e6-a0a8-096ea2c71c31	11_39056320_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	39056320	TA	T	348	PASS	-	Del	-	1	7	MSH6	child	11_39056320_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
cb0b42f6-326c-11e6-b9f4-5d1d694da5d2	14_33377283_GCG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	33377283	GC	G	300	PASS	-	Del	-	1	6	MSH6	child	14_33377283_GCG_MSH6	1	1	1	C	5	C	Repeat-mediated
cb0d7312-3287-11e6-a96d-ca044530f757	21_19062864_CACAC	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	21	19062864	CACA	C	720	PASS	-	Del	-	3	3	EXO1	child	21_19062864_CACAC_EXO1	3	3	3	ACA	2	ACA	Repeat-mediated
cb0ed992-3286-11e6-b093-c9c7b0dab373	2_197408031_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	197408031	GT	G	720	PASS	HECW2	Del	intronic	1	5	MSH6	child	2_197408031_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
cb133f0a-3277-11e6-8c34-46e27872c165	5_172164410_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	172164410	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	5_172164410_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
cb1b6040-3290-11e6-9230-fb250e01a414	3_187953871_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	187953871	TA	T	360	PASS	LPP	Del	intronic	1	8	MSH6	child	3_187953871_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
cb1bafd4-3293-11e6-89b3-f12a3dc9300a	15_81752867_ATA	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	15	81752867	AT	A	300	PASS	CTD-2034I4.1	Del	intronic	1	9	POLB	child	15_81752867_ATA_POLB	1	1	1	T	8	T	Repeat-mediated
cb2c69a6-3346-11e6-994a-5ae3e9d19ece	11_101292410_ATTTTTATGA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	11	101292410	ATTTTTATG	A	360	PASS	-	Del	-	8	1	FANCC	child	11_101292410_ATTTTTATGA_FANCC	8	8	5	TTTTT	0	-	Microhomology-mediated
cb318e52-3271-11e6-a0a7-943dc225ee11	1_204366694_CAC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	1	204366694	CA	C	660	PASS	-	Del	-	1	8	EXO1	parent	1_204366694_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
cb3337d0-3257-11e6-b4fa-e69a7872c165	21_18964946_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	21	18964946	AT	A	480	PASS	BTG3	Del	downstream	1	9	MSH6	child	21_18964946_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
cb33ed1e-3253-11e6-8ebc-3ef212ae24cf	15_30010054_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	30010054	CT	C	480	PASS	TJP1	Del	intronic	1	7	MSH6	child	15_30010054_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
cb3b1664-328c-11e6-9f30-37ab4430f757	11_26366807_TAT	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	11	26366807	TA	T	660	PASS	ANO3	Del	intronic	1	8	POLE	child	11_26366807_TAT_POLE	1	1	1	A	7	A	Repeat-mediated
cb46c3a2-3321-11e6-be49-204207e9a829	1_66103459_ATA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	1	66103459	AT	A	720	PASS	LEPR	Del	3prime_UTR_variant	1	6	POLE	child	1_66103459_ATA_POLE	1	1	1	T	5	T	Repeat-mediated
cb47119c-327a-11e6-a05d-037890e2c2e6	12_131031766_TAT	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	12	131031766	TA	T	540	PASS	RIMBP2	Del	intronic	1	9	FANCC	parent	12_131031766_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
cb47d7b6-3271-11e6-abaf-4642cab49462	6_19464810_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	19464810	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	6_19464810_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
cb55e4ee-328c-11e6-bd84-429305ad5bc4	1_171140167_TGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	171140167	TG	T	480	PASS	-	Del	-	1	1	MSH6	child	1_171140167_TGT_MSH6	1	1	0	-	0	G	None
cb57ec08-3255-11e6-a304-347a7872c165	1_154025200_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	154025200	CA	C	840	PASS	NUP210L	Del	intronic	1	5	MSH6	child	1_154025200_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
cb5d0332-334a-11e6-8b31-52813cfdbd24	7_122918158_GAG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	7	122918158	GA	G	420	PASS	-	Del	-	1	5	FANCC	child	7_122918158_GAG_FANCC	1	1	1	A	4	A	Repeat-mediated
cb64f120-329e-11e6-aea7-956725c9da85	3_20468035_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	20468035	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	3_20468035_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
cb6f2fc2-3286-11e6-a284-4b89a2c71c31	4_23919852_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	23919852	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	4_23919852_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
cb6f8f4e-3254-11e6-a304-347a7872c165	1_78302117_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	78302117	TA	T	300	PASS	FAM73A	Del	intronic	1	8	MSH6	child	1_78302117_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
cb79cd36-326f-11e6-815d-97ef65a58581	12_58363560_TAT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	12	58363560	TA	T	840	PASS	-	Del	-	1	7	NUDT1	child	12_58363560_TAT_NUDT1	1	1	1	A	6	A	Repeat-mediated
cb7d1916-3281-11e6-8ed4-2098faf1a024	20_34135263_TGT	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	20	34135263	TG	T	600	PASS	ERGIC3	Del	splice_region	1	7	POLB	parent	20_34135263_TGT_POLB	1	1	1	G	6	G	Repeat-mediated
cb7e57d8-3275-11e6-ab69-1c1607e9a829	9_97107397_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	97107397	GA	G	289	PASS	RP11-307E17.8	Del	intronic	1	8	MSH6	child	9_97107397_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
cb870d9c-3284-11e6-a8af-066ea2c71c31	15_47152178_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	47152178	CA	C	540	PASS	-	Del	-	1	9	MSH6	child	15_47152178_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
cb88d518-326c-11e6-b2ac-b6204b47a305	17_9527423_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	9527423	AT	A	420	PASS	WDR16	Del	intronic	1	6	MSH6	child	17_9527423_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
cb8985d0-328a-11e6-a80b-87090e01a414	11_95118554_AGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	95118554	AG	A	300	PASS	-	Del	-	1	2	MSH6	child	11_95118554_AGA_MSH6	1	1	1	G	1	G	Repeat-mediated
cb8a71ee-328e-11e6-9d97-efe56f39e758	4_11685109_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	11685109	GA	G	480	PASS	RP11-281P23.2	Del	intronic	1	3	MSH6	child	4_11685109_GAG_MSH6	1	1	1	A	2	A	Repeat-mediated
cb8dc41a-3280-11e6-88ca-c78169062303	16_24531335_GTG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	16	24531335	GT	G	300	PASS	-	Del	-	1	5	FANCC	child	16_24531335_GTG_FANCC	1	1	1	T	4	T	Repeat-mediated
cb8e5988-328b-11e6-bd84-429305ad5bc4	1_32425467_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	32425467	AT	A	540	PASS	-	Del	-	1	8	MSH6	child	1_32425467_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
cb93556c-3292-11e6-9401-04ed6f39e758	3_196118446_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	196118446	AT	A	420	PASS	UBXN7	Del	intronic	1	7	MSH6	child	3_196118446_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
cb94ff28-3285-11e6-a0a8-096ea2c71c31	11_133221720_CAAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	133221720	CAA	C	300	PASS	OPCML	Del	intronic	2	3	MSH6	child	11_133221720_CAAC_MSH6	2	2	1	A	0	-	Microhomology-mediated
cb952ee8-3286-11e6-a035-b215987b3f23	7_154841315_ATA	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	7	154841315	AT	A	300	PASS	-	Del	-	1	8	NEIL1	parent	7_154841315_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
cba4e336-3283-11e6-888b-2d6e0d016689	18_7064154_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	18	7064154	AT	A	420	PASS	LAMA1	Del	intronic	1	9	EXO1	child	18_7064154_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
cba7676a-3291-11e6-881f-a0bf4430f757	6_64320899_TAT	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	6	64320899	TA	T	300	PASS	-	Del	-	1	8	POLE	child	6_64320899_TAT_POLE	1	1	1	A	7	A	Repeat-mediated
cba7aa84-3289-11e6-a70a-47793adbad45	3_5749388_TCT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	3	5749388	TC	T	600	PASS	-	Del	-	1	8	NUDT1	parent	3_5749388_TCT_NUDT1	1	1	1	C	7	C	Repeat-mediated
cba87c0a-329f-11e6-aea7-956725c9da85	3_82798119_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	82798119	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	3_82798119_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
cbb5adb2-3286-11e6-b093-c9c7b0dab373	2_197700546_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	197700546	TA	T	720	PASS	PGAP1	Del	3prime_UTR_variant	1	6	MSH6	child	2_197700546_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
cbb7ba9e-328b-11e6-8e38-06cf69062303	4_32094416_GAG	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	4	32094416	GA	G	420	PASS	RP11-734I18.1	Del	intronic	1	7	CHK2	child	4_32094416_GAG_CHK2	1	1	1	A	6	A	Repeat-mediated
cbb995f0-3270-11e6-9309-bdc34a47a305	8_64486113_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	64486113	AT	A	360	PASS	-	Del	-	1	5	MSH6	child	8_64486113_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
cbc73d8e-3272-11e6-8f33-a6d9cde16804	11_38046519_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	38046519	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	11_38046519_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
cbc954b0-328c-11e6-bba4-c0bdcc638e3d	9_140823049_CTC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	9	140823049	CT	C	540	PASS	CACNA1B	Del	intronic	1	8	NUDT1	child	9_140823049_CTC_NUDT1	1	1	1	T	7	T	Repeat-mediated
cbce15ce-3285-11e6-9e76-639d69062303	8_123537434_ATCTA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	8	123537434	ATCT	A	300	PASS	-	Del	-	3	2	FANCC	child	8_123537434_ATCTA_FANCC	3	3	3	TCT	1	TCT	Repeat-mediated
cbd0bfe6-3289-11e6-a4b4-e6cd191589db	17_43294188_TCAT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	17	43294188	TCA	T	540	PASS	FMNL1	Del	upstream	2	6	FANCC	child	17_43294188_TCAT_FANCC	2	2	2	CA	5	CA	Repeat-mediated
cbd38cea-3279-11e6-a391-f6d67d6a9fc7	6_158968398_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	158968398	GT	G	540	PASS	TMEM181	Del	intronic	1	8	MSH6	child	6_158968398_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
cbd59608-329b-11e6-aca6-b39fcc638e3d	2_132510494_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	132510494	GA	G	1029	PASS	C2orf27A	Del	intronic	1	8	MSH6	child	2_132510494_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
cbd960d6-3272-11e6-b332-88ba7d6a9fc7	15_38556012_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	38556012	TA	T	540	PASS	SPRED1	Del	intronic	1	8	MSH6	child	15_38556012_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
cbe484c6-3271-11e6-9850-b83e75253f64	12_65296651_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	12	65296651	AT	A	420	PASS	RP11-766N7.3	Del	intronic	1	9	FANCC	child	12_65296651_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
cbe5ff9a-3276-11e6-9e25-e58e2aaffa45	4_129864049_CAC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	4	129864049	CA	C	480	PASS	SCLT1	Del	intronic	1	9	EXO1	child	4_129864049_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
cbea56de-328b-11e6-a7cf-80090e01a414	15_94984229_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	94984229	CT	C	360	PASS	MCTP2	Del	intronic	1	9	MSH6	child	15_94984229_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
cbfb8c00-328c-11e6-bd84-429305ad5bc4	1_171585385_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	171585385	CA	C	600	PASS	-	Del	-	1	7	MSH6	child	1_171585385_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
cc0d3848-328b-11e6-919e-92c36f39e758	2_22481013_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	22481013	AT	A	660	PASS	AC068490.2	Del	intronic	1	8	MSH6	child	2_22481013_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
cc0e361e-329d-11e6-bc66-17b4cc638e3d	8_20476208_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	20476208	GA	G	360	PASS	-	Del	-	1	9	MSH6	child	8_20476208_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
cc20bd3a-329c-11e6-ae71-0c5325c9da85	1_169261078_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	169261078	GT	G	900	PASS	NME7	Del	intronic	1	8	MSH6	child	1_169261078_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
cc26fad0-3290-11e6-9432-c0e56f39e758	5_156488349_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	156488349	CA	C	480	PASS	HAVCR1	Del	upstream	1	7	MSH6	child	5_156488349_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
cc275b7e-329a-11e6-bda6-065325c9da85	13_78129251_TTGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	78129251	TTG	T	780	PASS	SCEL	Del	intronic	2	6	MSH6	child	13_78129251_TTGT_MSH6	2	2	2	TG	5	TG	Repeat-mediated
cc37e43e-328c-11e6-8f4b-33ab4430f757	13_45070664_CAC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	13	45070664	CA	C	840	PASS	TSC22D1	Del	intronic	1	7	POLE	child	13_45070664_CAC_POLE	1	1	1	A	6	A	Repeat-mediated
cc37f414-3274-11e6-ab69-1c1607e9a829	9_11149767_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	11149767	CA	C	720	PASS	-	Del	-	1	3	MSH6	child	9_11149767_CAC_MSH6	1	1	1	A	2	A	Repeat-mediated
cc41f950-329c-11e6-b549-1e5325c9da85	10_36681498_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	36681498	A	AT	660	PASS	-	Ins	-	1	6	MSH6	child	10_36681498_AAT_MSH6	1	1	-	-	-	-	Ins
cc42bee4-3323-11e6-a632-bec270cce0de	15_89705373_GGTTACG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	15	89705373	GGTTAC	G	660	PASS	ABHD2	Del	intronic	5	1	EXO1	child	15_89705373_GGTTACG_EXO1	5	5	1	G	0	-	Microhomology-mediated
cc43b4b2-329b-11e6-aca6-b39fcc638e3d	2_132631952_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	132631952	CT	C	418	PASS	-	Del	-	1	8	MSH6	child	2_132631952_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
cc4d070a-3274-11e6-a5d0-4fd14a47a305	2_208608309_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	208608309	TA	T	660	PASS	CCNYL1	Del	intronic	1	7	MSH6	child	2_208608309_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
cc4d9ba2-326f-11e6-9fba-41ebd8b4fa2c	11_121599531_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	121599531	TA	T	780	PASS	-	Del	-	1	8	MSH6	child	11_121599531_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
cc4e729c-3289-11e6-a100-84090e01a414	18_37833495_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	37833495	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	18_37833495_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
cc50189a-3270-11e6-8418-1c5942c4520d	3_77056489_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	77056489	AT	A	360	PASS	ROBO2	Del	intronic	1	7	MSH6	child	3_77056489_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
cc526c8e-329e-11e6-bc2c-2a5e25c9da85	4_124776493_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	124776493	CT	C	840	PASS	LINC01091	Del	intronic	1	8	MSH6	child	4_124776493_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
cc53ef50-3320-11e6-86a6-3f737098ee92	14_23183165_GATATTACTCCCAATATCGCAGGGGGTGTGCACCCTCCCTGTGATTTTATTCCTAATATTCAGGTGGGAAGAGGATGATATTACTCCCAATATCGCAGGTGGGGAAAACACCCCGCCTGTGATATTGTTCTTAATATCCATTAAGGGAGCAGATGATATTACTCCCAAAATTGCAGTGAGTGTACACCCACCCTGTAATATTGTTCCTAATATCCCGGGAGGGAGAGTATGTTGTTACTACCAATTTCGAAGGGGGCGTACACCCCCTCTGTGATACTGTTTTTAATATCCAAGGGGAAAGAGGATTG	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	14	23183165	GATATTACTCCCAATATCGCAGGGGGTGTGCACCCTCCCTGTGATTTTATTCCTAATATTCAGGTGGGAAGAGGATGATATTACTCCCAATATCGCAGGTGGGGAAAACACCCCGCCTGTGATATTGTTCTTAATATCCATTAAGGGAGCAGATGATATTACTCCCAAAATTGCAGTGAGTGTACACCCACCCTGTAATATTGTTCCTAATATCCCGGGAGGGAGAGTATGTTGTTACTACCAATTTCGAAGGGGGCGTACACCCCCTCTGTGATACTGTTTTTAATATCCAAGGGGAAAGAGGATT	G	360	PASS	-	Del	-	306	1	POLE	child	14_23183165_GATATTACTCCCAATATCGCAGGGGGTGTGCACCCTCCCTGTGATTTTATTCCTAATATTCAGGTGGGAAGAGGATGATATTACTCCCAATATCGCAGGTGGGGAAAACACCCCGCCTGTGATATTGTTCTTAATATCCATTAAGGGAGCAGATGATATTACTCCCAAAATTGCAGTGAGTGTACACCCACCCTGTAATATTGTTCCTAATATCCCGGGAGGGAGAGTATGTTGTTACTACCAATTTCGAAGGGGGCGTACACCCCCTCTGTGATACTGTTTTTAATATCCAAGGGGAAAGAGGATTG_POLE	306	>=10	32	ATATTACTCCCAATATCGCAGGGGGTGTGCAC	0	-	Microhomology-mediated
cc5717a6-329f-11e6-ae71-0c5325c9da85	1_83131544_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	83131544	A	AT	600	PASS	-	Ins	-	1	6	MSH6	child	1_83131544_AAT_MSH6	1	1	-	-	-	-	Ins
cc572b20-3253-11e6-89d3-d29498816cf3	2_32857041_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	32857041	AT	A	300	PASS	TTC27	Del	intronic	1	8	MSH6	child	2_32857041_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
cc576798-328f-11e6-aeaf-bc257a852e0e	14_45931771_CTC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	14	45931771	CT	C	300	PASS	-	Del	-	1	9	CHK2	child	14_45931771_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
cc5f5fba-329a-11e6-aca6-b39fcc638e3d	2_67313110_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	67313110	TA	T	480	PASS	AC023115.2	Del	upstream	1	6	MSH6	child	2_67313110_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
cc631e36-328e-11e6-b10a-17a5e7d0bdd7	1_91890408_GTCG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	1	91890408	GTC	G	342	PASS	-	Del	-	2	2	FANCC	child	1_91890408_GTCG_FANCC	2	2	2	TC	1	TC	Repeat-mediated
cc6994d2-328e-11e6-bec1-ca1d0e01a414	X_124385497_ATCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	124385497	ATC	A	300	PASS	-	Del	-	2	6	MSH6	child	X_124385497_ATCA_MSH6	2	2	2	TC	5	TC	Repeat-mediated
cc6a4f7e-3321-11e6-842f-4d64694da5d2	19_47638772_CTC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	19	47638772	CT	C	540	PASS	SAE1	Del	intronic	1	8	EXO1	child	19_47638772_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
cc6fc2fe-3251-11e6-a0fd-5905ee3c4f5d	10_15229510_CAC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	10	15229510	CA	C	420	PASS	-	Del	-	1	8	POLB	child	10_15229510_CAC_POLB	1	1	1	A	7	A	Repeat-mediated
cc79950e-3274-11e6-a5d0-4fd14a47a305	2_208654832_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	208654832	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	2_208654832_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
cc8da4a8-3275-11e6-a862-bc9becf1e924	1_228791909_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	228791909	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	1_228791909_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
cc90ae3c-3270-11e6-9628-9094dcd214c4	14_82561384_GGA	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	14	82561384	G	GA	960	PASS	-	Ins	-	1	4	POLM	child	14_82561384_GGA_POLM	1	1	-	-	-	-	Ins
cc928616-3285-11e6-8313-52c92daed38e	6_31272547_AGAAACC	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	6	31272547	AGAA	ACC	660	PASS	XXbac-BPG248L24.13	Complex	upstream	3	0	POLB	child	6_31272547_AGAAACC_POLB	1	1	-	-	-	-	Complex
cc93585e-3256-11e6-9d15-298312ae24cf	X_50533490_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	50533490	CA	C	600	PASS	SHROOM4	Del	intronic	1	7	MSH6	child	X_50533490_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
cc982960-328d-11e6-9d41-3ba5e7d0bdd7	11_16321408_TAT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	11	16321408	TA	T	360	PASS	SOX6	Del	intronic	1	7	FANCC	child	11_16321408_TAT_FANCC	1	1	1	A	6	A	Repeat-mediated
cc9f79b0-3272-11e6-83ef-69fb06e9a829	18_29006549_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	29006549	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	18_29006549_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
ccbc6e6c-3272-11e6-9e18-3a69671699ea	10_28510245_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	28510245	AT	A	300	PASS	MPP7	Del	intronic	1	8	MSH6	child	10_28510245_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ccbf5f20-3289-11e6-8459-82090e01a414	12_29818083_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	29818083	CA	C	1200	PASS	TMTC1	Del	intronic	1	9	MSH6	child	12_29818083_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
ccc00f3c-328a-11e6-b805-77090e01a414	2_100599836_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	100599836	GT	G	480	PASS	AFF3	Del	intronic	1	9	MSH6	child	2_100599836_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
ccc167de-3293-11e6-8669-5f48a178171f	15_73170802_CTTTTAATTGACATTTTGTC	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	15	73170802	CTTTTAATTGACATTTTGT	C	420	PASS	-	Del	-	18	1	NEIL1	child	15_73170802_CTTTTAATTGACATTTTGTC_NEIL1	18	>=10	17	TTTTAATTGACATTTTG	0	-	Microhomology-mediated
ccc27874-328c-11e6-88c1-95c36f39e758	14_94589499_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	94589499	CT	C	840	PASS	IFI27L2	Del	downstream	1	9	MSH6	child	14_94589499_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
ccc522e6-3281-11e6-a31e-d655f7d33ce3	1_102492112_CTC	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	1	102492112	CT	C	540	PASS	-	Del	-	1	7	NUDT1	child	1_102492112_CTC_NUDT1	1	1	1	T	6	T	Repeat-mediated
ccc72916-3285-11e6-821e-69f1bbe6aa09	16_27974329_CCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	27974329	C	CT	540	PASS	GSG1L	Ins	intronic	1	2	MSH6	child	16_27974329_CCT_MSH6	1	1	-	-	-	-	Ins
cccc9c8e-3276-11e6-83cd-a472a178171f	4_127368383_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	127368383	GA	G	660	PASS	-	Del	-	1	5	MSH6	child	4_127368383_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
cccf2f40-328e-11e6-b6a6-1f1e0e01a414	4_146542744_TGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	146542744	TG	T	360	PASS	MMAA	Del	intronic	1	8	MSH6	child	4_146542744_TGT_MSH6	1	1	1	G	7	G	Repeat-mediated
ccdd5e32-326e-11e6-9d68-ac9acab49462	15_90484388_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	90484388	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	15_90484388_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
ccec6a9a-329a-11e6-8d0f-075325c9da85	14_73941737_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	73941737	TA	T	660	PASS	HEATR4	Del	downstream	1	9	MSH6	child	14_73941737_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
cced08b8-326f-11e6-bfba-13bf4a47a305	9_130957105_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	130957105	CA	C	420	PASS	CIZ1	Del	intronic	1	9	MSH6	child	9_130957105_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
ccf1f002-3275-11e6-9e25-e58e2aaffa45	4_31114663_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	4	31114663	AT	A	300	PASS	PCDH7	Del	intronic	1	8	EXO1	child	4_31114663_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
ccffbfa8-3251-11e6-b4e1-b8e612ae24cf	18_14788046_CTC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	18	14788046	CT	C	660	PASS	ANKRD30B	Del	intronic	1	5	POLB	child	18_14788046_CTC_POLB	1	1	1	T	4	T	Repeat-mediated
cd07fa14-3284-11e6-9daa-026ea2c71c31	14_62577384_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	62577384	AT	A	360	PASS	RP11-355I22.2	Del	intronic	1	9	MSH6	child	14_62577384_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
cd16f530-329a-11e6-b74d-b59fcc638e3d	18_62461060_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	62461060	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	18_62461060_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
cd1b1fa8-329e-11e6-aea7-956725c9da85	3_20940950_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	20940950	TA	T	540	PASS	-	Del	-	1	7	MSH6	child	3_20940950_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
cd2349fa-3256-11e6-89d3-d29498816cf3	2_101200758_AAAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	101200758	A	AAG	420	PASS	-	Ins	-	2	1	MSH6	child	2_101200758_AAAG_MSH6	2	2	-	-	-	-	Ins
cd292e34-328c-11e6-bd84-429305ad5bc4	1_172264997_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	172264997	GA	G	780	PASS	DNM3	Del	intronic	1	7	MSH6	child	1_172264997_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
cd2e0d1a-3272-11e6-83ef-69fb06e9a829	18_29302122_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	29302122	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	18_29302122_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
cd2f8fb8-3291-11e6-a24a-86b34430f757	5_26785051_AAAT	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	5	26785051	A	AAT	480	PASS	-	Ins	-	2	5	POLE	child	5_26785051_AAAT_POLE	2	2	-	-	-	-	Ins
cd2fd7fe-3325-11e6-91f6-970e147bb207	6_1968336_CCCCTCCAAACTCATTAC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	6	1968336	CCCCTCCAAACTCATTA	C	300	PASS	GMDS	Del	intronic	16	1	EXO1	child	6_1968336_CCCCTCCAAACTCATTAC_EXO1	16	>=10	0	-	0	-	None
cd3f5a6c-328f-11e6-9d97-efe56f39e758	4_78936284_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	78936284	GA	G	300	PASS	-	Del	-	1	8	MSH6	child	4_78936284_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
cd41d166-3325-11e6-913e-809e7098ee92	5_137883914_GACG	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	5	137883914	GAC	G	360	PASS	ETF1	Del	upstream	2	1	POLE	child	5_137883914_GACG_POLE	2	2	1	A	0	-	Microhomology-mediated
cd43cebc-328a-11e6-9c89-8d090e01a414	1_85074572_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	85074572	TA	T	660	PASS	-	Del	-	1	7	MSH6	child	1_85074572_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
cd450e1c-3276-11e6-b332-88ba7d6a9fc7	15_80458799_GGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	80458799	G	GT	300	PASS	FAH	Ins	intronic	1	4	MSH6	child	15_80458799_GGT_MSH6	1	1	-	-	-	-	Ins
cd49f69e-328e-11e6-8e48-791e0e01a414	8_80332678_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	80332678	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	8_80332678_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
cd4bf506-328a-11e6-8459-82090e01a414	12_92033689_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	92033689	CT	C	600	PASS	-	Del	-	1	5	MSH6	child	12_92033689_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
cd54a196-328b-11e6-b43c-7ec36f39e758	16_15882412_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	15882412	GA	G	360	PASS	MYH11	Del	intronic	1	9	MSH6	child	16_15882412_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
cd665416-328d-11e6-8d77-b5d8191589db	7_124007543_GAGGAAAAATG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	7	124007543	GAGGAAAAAT	G	420	PASS	-	Del	-	9	1	FANCC	child	7_124007543_GAGGAAAAATG_FANCC	9	9	1	A	0	-	Microhomology-mediated
cd6c0544-326c-11e6-adc2-b7204b47a305	18_14441510_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	14441510	TA	T	251	PASS	-	Del	-	1	7	MSH6	child	18_14441510_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
cd6fa910-328a-11e6-aff5-85090e01a414	16_83304394_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	83304394	CT	C	540	PASS	CDH13	Del	intronic	1	7	MSH6	child	16_83304394_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
cd712754-3253-11e6-8a2a-3af212ae24cf	16_16309943_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	16	16309943	CT	C	359	PASS	ABCC6	Del	intronic	1	7	MSH6	child	16_16309943_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
cd815a92-3259-11e6-8cd9-139b7872c165	3_176610595_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	176610595	AT	A	660	PASS	-	Del	-	1	4	MSH6	child	3_176610595_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
cd8d1ffa-3284-11e6-8ebc-68f1bbe6aa09	18_48579822_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	48579822	GT	G	480	PASS	SMAD4	Del	intronic	1	8	MSH6	child	18_48579822_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
cd92524a-3289-11e6-821d-8c090e01a414	13_48486408_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	48486408	CA	C	360	PASS	LINC00444	Del	upstream	1	5	MSH6	child	13_48486408_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
cd946812-328b-11e6-b4fe-93c36f39e758	12_15412538_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	15412538	CA	C	540	PASS	RERG	Del	intronic	1	7	MSH6	child	12_15412538_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
cda3a220-3270-11e6-90e8-e7f6620e6611	19_2462056_TCAT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	19	2462056	TCA	T	300	PASS	AC005624.2	Del	nc_variant	2	1	FANCC	child	19_2462056_TCAT_FANCC	2	2	0	-	0	-	None
cdb06ec2-3272-11e6-83ef-69fb06e9a829	18_29422929_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	29422929	GT	G	720	PASS	TRAPPC8	Del	intronic	1	9	MSH6	child	18_29422929_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
cdb3062e-328f-11e6-ae53-96c36f39e758	15_79587977_CCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	79587977	C	CT	360	PASS	ANKRD34C	Ins	3prime_UTR_variant	1	1	MSH6	child	15_79587977_CCT_MSH6	1	1	-	-	-	-	Ins
cdb69468-325a-11e6-8340-da9012ae24cf	6_160162537_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	160162537	AT	A	420	PASS	WTAP	Del	intronic	1	9	MSH6	child	6_160162537_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
cdb7a182-328c-11e6-b6a6-1f1e0e01a414	4_22913323_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	22913323	CT	C	780	PASS	-	Del	-	1	7	MSH6	child	4_22913323_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
cdb9b65c-3287-11e6-b024-69a4b0dab373	20_17085057_GAG	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	20	17085057	GA	G	540	PASS	-	Del	-	1	7	POLE	parent	20_17085057_GAG_POLE	1	1	1	A	6	A	Repeat-mediated
cdbca0c0-3281-11e6-8c30-2208694da5d2	4_74951135_CAC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	4	74951135	CA	C	360	PASS	-	Del	-	1	9	NEIL1	child	4_74951135_CAC_NEIL1	1	1	1	A	8	A	Repeat-mediated
cdbe0406-329a-11e6-bda6-065325c9da85	13_78700316_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	78700316	TA	T	1080	PASS	-	Del	-	1	7	MSH6	child	13_78700316_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
cdbe754c-326f-11e6-b89d-b2d6b0dab373	4_20819584_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	20819584	TA	T	660	PASS	KCNIP4	Del	intronic	1	7	MSH6	child	4_20819584_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
cdc0ca6e-328c-11e6-8e48-791e0e01a414	8_21049383_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	21049383	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	8_21049383_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
cdccc39c-3290-11e6-b81f-4ee66f39e758	8_72941621_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	72941621	AT	A	600	PASS	TRPA1	Del	intronic	1	7	MSH6	child	8_72941621_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
cdd3391e-326f-11e6-b89d-b2d6b0dab373	4_20846520_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	20846520	CA	C	360	PASS	KCNIP4	Del	intronic	1	9	MSH6	child	4_20846520_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
cde1663e-3287-11e6-86fa-e88f1da8ec0e	21_31062077_GGT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	21	31062077	G	GT	660	PASS	GRIK1	Ins	frameshift	1	3	EXO1	child	21_31062077_GGT_EXO1	1	1	-	-	-	-	Ins
cde1b324-328b-11e6-b805-77090e01a414	2_171254151_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	171254151	GT	G	300	PASS	MYO3B	Del	intronic	1	5	MSH6	child	2_171254151_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
cde48f3a-3273-11e6-9e18-3a69671699ea	10_96150009_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	96150009	CA	C	660	PASS	-	Del	-	1	9	MSH6	child	10_96150009_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
cdea28c0-3280-11e6-a399-39859cdf095d	17_8411760_CTTAC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	17	8411760	CTTA	C	780	PASS	MYH10	Del	intronic	3	3	POLE	child	17_8411760_CTTAC_POLE	3	3	3	TTA	2	TTA	Repeat-mediated
cdea64b0-3272-11e6-aa3b-ca60a178171f	13_44568726_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	44568726	GT	G	600	PASS	LINC00284	Del	intronic	1	9	MSH6	child	13_44568726_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
cdecf8b2-3284-11e6-94be-6cfa4430f757	12_69531313_TAT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	12	69531313	TA	T	360	PASS	-	Del	-	1	8	EXO1	child	12_69531313_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
cdf281d2-326c-11e6-bc62-6d4742c4520d	16_17105948_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	17105948	GA	G	480	PASS	-	Del	-	1	8	MSH6	child	16_17105948_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
cdf50d96-3288-11e6-a8ac-a28ea2c71c31	3_115194977_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	115194977	TA	T	540	PASS	-	Del	-	1	6	MSH6	child	3_115194977_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
cdfa78fe-3287-11e6-b32c-fd87a2c71c31	5_173942015_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	173942015	GT	G	540	PASS	RP11-267A15.1	Del	intronic	1	9	MSH6	child	5_173942015_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
cdfe45ce-3287-11e6-b32c-fd87a2c71c31	5_173956486_GCG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	173956486	GC	G	660	PASS	RP11-267A15.1	Del	downstream	1	7	MSH6	child	5_173956486_GCG_MSH6	1	1	1	C	6	C	Repeat-mediated
ce07281a-32a0-11e6-bc2c-2a5e25c9da85	4_46317981_CCACACAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	46317981	C	CACACAT	300	PASS	GABRA2	Ins	intronic	6	0	MSH6	child	4_46317981_CCACACAT_MSH6	6	6	-	-	-	-	Ins
ce087856-328b-11e6-8952-77c36f39e758	10_15459140_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	15459140	CA	C	360	PASS	-	Del	-	1	6	MSH6	child	10_15459140_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
ce10a804-3291-11e6-bb4c-05a29b6d3b88	3_114367402_CAATC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	3	114367402	CAAT	C	660	PASS	ZBTB20	Del	intronic	3	3	POLB	child	3_114367402_CAATC_POLB	3	3	3	AAT	2	AAT	Repeat-mediated
ce12029a-3272-11e6-975f-8246cab49462	16_24390705_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	24390705	GA	G	480	PASS	-	Del	-	1	7	MSH6	child	16_24390705_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
ce16d78e-3254-11e6-89d3-d29498816cf3	2_140757065_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	140757065	AT	A	600	PASS	-	Del	-	1	6	MSH6	child	2_140757065_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
ce1b5be2-3286-11e6-8b67-086ea2c71c31	1_215795232_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	215795232	TA	T	360	PASS	USH2A	Del	downstream	1	8	MSH6	child	1_215795232_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
ce1e5084-326f-11e6-b89d-b2d6b0dab373	4_21042472_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	21042472	GT	G	840	PASS	KCNIP4	Del	intronic	1	9	MSH6	child	4_21042472_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
ce24d810-329b-11e6-a0ea-135325c9da85	15_80461736_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	80461736	CA	C	600	PASS	FAH	Del	intronic	1	6	MSH6	child	15_80461736_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
ce303ac0-328c-11e6-b6a6-1f1e0e01a414	4_23213010_AGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	23213010	AG	A	300	PASS	-	Del	-	1	5	MSH6	child	4_23213010_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
ce31cef0-3258-11e6-8cd9-139b7872c165	3_101328370_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	101328370	AT	A	600	PASS	-	Del	-	1	9	MSH6	child	3_101328370_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
ce372d32-3285-11e6-90da-f3a469062303	6_123158286_CTC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	6	123158286	CT	C	540	PASS	-	Del	-	1	9	FANCC	child	6_123158286_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
ce47c7b4-3280-11e6-a363-a68d191589db	2_113006763_ACTA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	2	113006763	ACT	A	480	PASS	ZC3H8	Del	intronic	2	2	POLM	child	2_113006763_ACTA_POLM	2	2	2	CT	1	CT	Repeat-mediated
ce494fbc-328a-11e6-8feb-e6ab6f39e758	3_48062287_GGT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	3	48062287	G	GT	300	PASS	MAP4	Ins	intronic	1	7	EXO1	child	3_48062287_GGT_EXO1	1	1	-	-	-	-	Ins
ce55b536-328a-11e6-bbaf-7c090e01a414	19_52384316_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	52384316	CT	C	300	PASS	ZNF577	Del	intronic	1	9	MSH6	child	19_52384316_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
ce5c5ea4-32a3-11e6-b970-398625c9da85	20_32408481_TTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	32408481	T	TG	780	PASS	CHMP4B	Ins	intronic	1	5	MSH6	child	20_32408481_TTG_MSH6	1	1	-	-	-	-	Ins
ce646e94-32a0-11e6-aea7-956725c9da85	3_157610310_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	157610310	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	3_157610310_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
ce6cdb00-3292-11e6-9070-b1a39b6d3b88	6_159987659_CTC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	6	159987659	CT	C	360	PASS	-	Del	-	1	9	POLB	child	6_159987659_CTC_POLB	1	1	1	T	8	T	Repeat-mediated
ce6fc346-3275-11e6-ae53-82ab977b3f23	3_36048298_TAT	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	3	36048298	TA	T	360	PASS	-	Del	-	1	6	NUDT1	child	3_36048298_TAT_NUDT1	1	1	1	A	5	A	Repeat-mediated
ce6ffd12-328d-11e6-b6a6-1f1e0e01a414	4_82998445_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	82998445	AT	A	420	PASS	-	Del	-	1	7	MSH6	child	4_82998445_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
ce774268-329a-11e6-aca6-b39fcc638e3d	2_67686340_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	67686340	GT	G	480	PASS	-	Del	-	1	8	MSH6	child	2_67686340_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
ce78c16a-3290-11e6-9401-04ed6f39e758	3_54291495_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	54291495	AT	A	540	PASS	CACNA2D3	Del	intronic	1	7	MSH6	child	3_54291495_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
ce7beeb2-3290-11e6-9230-fb250e01a414	3_188990241_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	188990241	AT	A	480	PASS	TPRG1	Del	intronic	1	9	MSH6	child	3_188990241_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
ce7e1732-3254-11e6-b4d0-327a7872c165	11_83934395_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	83934395	TA	T	300	PASS	DLG2	Del	intronic	1	8	MSH6	child	11_83934395_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
ce866676-3290-11e6-bb1e-70e16f39e758	X_46926674_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	46926674	A	AT	480	PASS	-	Ins	-	1	7	MSH6	child	X_46926674_AAT_MSH6	1	1	-	-	-	-	Ins
ce8c689a-328c-11e6-aa75-90c36f39e758	13_100961223_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	100961223	GT	G	300	PASS	PCCA	Del	intronic	1	7	MSH6	child	13_100961223_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
ce8f8fac-329b-11e6-b085-e50098ba1142	4_103139606_AAATTTAC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	4	103139606	A	AATTTAC	480	PASS	-	Ins	-	6	0	CHK2	child	4_103139606_AAATTTAC_CHK2	6	6	-	-	-	-	Ins
ce9537da-328d-11e6-919e-92c36f39e758	2_157597357_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	157597357	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	2_157597357_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
cea14888-3286-11e6-b093-c9c7b0dab373	2_198389367_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	198389367	AT	A	960	PASS	MOB4	Del	intronic	1	8	MSH6	child	2_198389367_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
cea41156-3274-11e6-88b6-40832aaffa45	1_117296254_ACTGTA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	1	117296254	ACTGT	A	660	PASS	CD2	Del	upstream	4	2	EXO1	child	1_117296254_ACTGTA_EXO1	4	4	4	CTGT	1	CTGT	Repeat-mediated
ceb3b11a-329c-11e6-a5cf-e5abcc638e3d	9_36729395_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	36729395	CA	C	1020	PASS	-	Del	-	1	6	MSH6	child	9_36729395_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
ceb4f482-3277-11e6-a71d-236235cec73b	X_144717545_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	144717545	CT	C	420	PASS	-	Del	-	1	9	MSH6	child	X_144717545_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
ceb531f6-3284-11e6-821e-69f1bbe6aa09	16_34501726_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	34501726	TA	T	540	PASS	RP11-488I20.8	Del	intronic	1	9	MSH6	child	16_34501726_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
cebc18e0-3284-11e6-9d58-b7936f39e758	17_69486583_CAC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	17	69486583	CA	C	480	PASS	-	Del	-	1	9	EXO1	child	17_69486583_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
cec4f62e-334a-11e6-8b31-52813cfdbd24	7_124007543_GAGGAAAAATG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	7	124007543	GAGGAAAAAT	G	300	PASS	-	Del	-	9	1	FANCC	child	7_124007543_GAGGAAAAATG_FANCC	9	9	1	A	0	-	Microhomology-mediated
cec8e4a6-328b-11e6-bd84-429305ad5bc4	1_33884265_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	33884265	CA	C	420	PASS	PHC2	Del	intronic	1	8	MSH6	child	1_33884265_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
cecf80e0-329a-11e6-a0ea-135325c9da85	15_63547586_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	63547586	CT	C	1140	PASS	RAB8B	Del	intronic	1	5	MSH6	child	15_63547586_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
ced21a72-329e-11e6-aea7-956725c9da85	3_21391730_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	21391730	CT	C	540	PASS	-	Del	-	1	5	MSH6	child	3_21391730_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
ced495f0-3289-11e6-a284-4b89a2c71c31	4_104188605_CCA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	104188605	C	CA	900	PASS	RP11-328K4.1	Ins	intronic	1	6	MSH6	child	4_104188605_CCA_MSH6	1	1	-	-	-	-	Ins
cedc6422-3254-11e6-a304-347a7872c165	1_79406426_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	79406426	GA	G	480	PASS	ELTD1	Del	intronic	1	5	MSH6	child	1_79406426_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
cee6d186-328c-11e6-8e48-791e0e01a414	8_21580216_TCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	21580216	TC	T	360	PASS	GFRA2	Del	intronic	1	7	MSH6	child	8_21580216_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
ceeaabe0-326d-11e6-b306-b5204b47a305	2_104306912_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	104306912	GA	G	360	PASS	-	Del	-	1	8	MSH6	child	2_104306912_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
ceeabc2a-327c-11e6-809e-fbdaeff7a29c	12_31562713_ATA	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	12	31562713	AT	A	600	PASS	DENND5B	Del	intronic	1	8	POLB	parent	12_31562713_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
cef0debc-3276-11e6-9e0f-7959cab49462	7_90133334_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	90133334	GA	G	480	PASS	-	Del	-	1	7	MSH6	child	7_90133334_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
cef370d8-329d-11e6-b549-1e5325c9da85	10_104449606_CCAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	104449606	C	CAT	360	PASS	ARL3	Ins	intronic	2	5	MSH6	child	10_104449606_CCAT_MSH6	2	2	-	-	-	-	Ins
cefffc04-3252-11e6-bb07-5705ee3c4f5d	11_102578224_CTC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	11	102578224	CT	C	828	PASS	MMP8	Del	downstream	1	9	POLB	child	11_102578224_CTC_POLB	1	1	1	T	8	T	Repeat-mediated
cf041150-328d-11e6-8459-82090e01a414	12_130276372_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	130276372	C	CA	480	PASS	TMEM132D	Ins	intronic	1	2	MSH6	child	12_130276372_CCA_MSH6	1	1	-	-	-	-	Ins
cf0968c4-3280-11e6-971a-ac2236fc2f7d	19_3981973_CAGAC	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	19	3981973	CAGA	C	300	PASS	EEF2	Del	inframe	3	1	NUDT1	child	19_3981973_CAGAC_NUDT1	3	3	2	AG	0	-	Microhomology-mediated
cf0ec054-3257-11e6-885f-d1947872c165	4_119587458_GCG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	119587458	GC	G	345	PASS	-	Del	-	1	7	MSH6	child	4_119587458_GCG_MSH6	1	1	1	C	6	C	Repeat-mediated
cf102d72-3298-11e6-bfe3-c11ec7271a47	2_216213045_GTG	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	2	216213045	GT	G	360	PASS	ATIC	Del	intronic	1	7	CHK2	child	2_216213045_GTG_CHK2	1	1	1	T	6	T	Repeat-mediated
cf194cd6-3347-11e6-b0ff-c495e84777f6	10_11315694_GGTT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	10	11315694	G	GTT	300	PASS	CELF2	Ins	intronic	2	7	FANCC	child	10_11315694_GGTT_FANCC	2	2	-	-	-	-	Ins
cf1e074a-326f-11e6-9fba-41ebd8b4fa2c	11_122059451_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	122059451	CT	C	300	PASS	RP11-820L6.1	Del	intronic	1	9	MSH6	child	11_122059451_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
cf2043f2-3274-11e6-a2ca-20c1f7be831b	5_110144508_GTAG	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	5	110144508	GTA	G	360	PASS	-	Del	-	2	7	CHK2	child	5_110144508_GTAG_CHK2	2	2	2	TA	6	TA	Repeat-mediated
cf20ae92-328c-11e6-a2f5-49ab4430f757	15_40410155_ATA	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	15	40410155	AT	A	480	PASS	-	Del	-	1	9	POLE	child	15_40410155_ATA_POLE	1	1	1	T	8	T	Repeat-mediated
cf233e34-328a-11e6-8459-82090e01a414	12_92563739_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	92563739	GT	G	600	PASS	-	Del	-	1	8	MSH6	child	12_92563739_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
cf251a60-328f-11e6-92cf-bf2a0e01a414	6_63869183_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	63869183	TA	T	284	PASS	-	Del	-	1	7	MSH6	child	6_63869183_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
cf25c18c-3284-11e6-9170-b6936f39e758	12_76664656_CAC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	12	76664656	CA	C	480	PASS	RP11-54A9.1	Del	intronic	1	8	EXO1	child	12_76664656_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
cf271b18-3289-11e6-821d-8c090e01a414	13_48967071_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	48967071	CT	C	420	PASS	RB1	Del	intronic	1	6	MSH6	child	13_48967071_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
cf271ee6-3280-11e6-ba13-7508694da5d2	8_3130244_GCTG	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	8	3130244	GCT	G	529	PASS	CSMD1	Del	intronic	2	3	NEIL1	child	8_3130244_GCTG_NEIL1	2	2	2	CT	2	CT	Repeat-mediated
cf2d0fa8-3272-11e6-abaf-4642cab49462	6_84911492_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	84911492	TA	T	420	PASS	KIAA1009	Del	splice_region	1	6	MSH6	child	6_84911492_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
cf471972-3270-11e6-b923-6726694da5d2	5_95300942_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	95300942	GT	G	600	PASS	ELL2	Del	upstream	1	9	MSH6	child	5_95300942_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
cf4fec44-328b-11e6-bd84-429305ad5bc4	1_34125927_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	34125927	CT	C	360	PASS	CSMD2	Del	intronic	1	9	MSH6	child	1_34125927_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
cf590ea6-328a-11e6-a7cf-80090e01a414	15_72567220_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	72567220	AT	A	540	PASS	PARP6	Del	upstream	1	9	MSH6	child	15_72567220_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
cf5f9326-3270-11e6-a539-0e5542c4520d	7_133569367_TGTGTGTGCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	133569367	TGTGTGTGC	T	300	PASS	EXOC4	Del	intronic	8	1	MSH6	child	7_133569367_TGTGTGTGCT_MSH6	8	8	1	G	0	-	Microhomology-mediated
cf635dc8-3291-11e6-9d97-efe56f39e758	4_10906122_GGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	10906122	G	GA	480	PASS	-	Ins	-	1	5	MSH6	child	4_10906122_GGA_MSH6	1	1	-	-	-	-	Ins
cf6396aa-3276-11e6-92d2-c259c225ee11	3_37105146_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	37105146	AT	A	420	PASS	LRRFIP2	Del	intronic	1	7	MSH6	child	3_37105146_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
cf641a92-3273-11e6-9065-cc4890e2c2e6	1_191431259_GAG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	1	191431259	GA	G	420	PASS	-	Del	-	1	7	MSH6	parent	1_191431259_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
cf65125c-327e-11e6-bf31-92cf1f4bbf9c	2_124765127_GGCCCC	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	2	124765127	G	GCCCC	420	PASS	-	Ins	-	4	4	POLM	child	2_124765127_GGCCCC_POLM	4	4	-	-	-	-	Ins
cf693b6e-3294-11e6-ae2c-d2ab9b6d3b88	3_88729622_GTG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	3	88729622	GT	G	840	PASS	-	Del	-	1	7	NUDT1	child	3_88729622_GTG_NUDT1	1	1	1	T	6	T	Repeat-mediated
cf6c38c4-3275-11e6-9e0f-7959cab49462	7_24863229_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	24863229	GA	G	720	PASS	OSBPL3	Del	intronic	1	8	MSH6	child	7_24863229_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
cf731752-3289-11e6-821d-8c090e01a414	13_49050462_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	49050462	CA	C	660	PASS	RB1	Del	intronic	1	7	MSH6	child	13_49050462_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
cf75de60-3284-11e6-870e-6af1bbe6aa09	19_30260725_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	19	30260725	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	19_30260725_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
cf885414-3324-11e6-819a-262af46126f1	X_130604960_CTC	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	X	130604960	CT	C	300	PASS	-	Del	-	1	9	POLE	child	X_130604960_CTC_POLE	1	1	1	T	8	T	Repeat-mediated
cf9ee384-3273-11e6-9e18-3a69671699ea	10_96645636_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	96645636	TA	T	360	PASS	-	Del	-	1	8	MSH6	child	10_96645636_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
cfa5ee96-328b-11e6-a7cf-80090e01a414	15_96131748_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	96131748	CT	C	480	PASS	-	Del	-	1	4	MSH6	child	15_96131748_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
cfae6e86-329a-11e6-a5ec-650998ba1142	6_41049403_AATCA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	6	41049403	AATC	A	540	PASS	NFYA	Del	intronic	3	1	CHK2	child	6_41049403_AATCA_CHK2	3	3	2	AT	0	-	Microhomology-mediated
cfafd498-3294-11e6-800c-01f9d8b4fa2c	5_34638782_GTG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	5	34638782	GT	G	360	PASS	-	Del	-	1	8	NUDT1	child	5_34638782_GTG_NUDT1	1	1	1	T	7	T	Repeat-mediated
cfb05178-3273-11e6-a2ca-20c1f7be831b	5_33038672_GAG	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	5	33038672	GA	G	420	PASS	CTD-2066L21.3	Del	intronic	1	5	CHK2	child	5_33038672_GAG_CHK2	1	1	1	A	4	A	Repeat-mediated
cfb6a2e6-3285-11e6-a8af-066ea2c71c31	15_82049197_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	82049197	AT	A	480	PASS	RP11-499F3.2	Del	intronic	1	8	MSH6	child	15_82049197_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
cfb8fbfe-3276-11e6-83cd-a472a178171f	4_128080514_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	128080514	CT	C	600	PASS	RP11-125O18.1	Del	intronic	1	5	MSH6	child	4_128080514_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
cfc12d16-3289-11e6-9996-bebd38e8a824	X_10732603_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	X	10732603	AT	A	360	PASS	MID1	Del	intronic	1	8	NUDT1	parent	X_10732603_ATA_NUDT1	1	1	1	T	7	T	Repeat-mediated
cfc98f10-3284-11e6-95c7-6dfa4430f757	11_70869300_TAT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	11	70869300	TA	T	647	PASS	-	Del	-	1	8	EXO1	child	11_70869300_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
cfc9dcc6-3253-11e6-a4a7-35f212ae24cf	14_36178327_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	36178327	CA	C	600	PASS	RALGAPA1	Del	intronic	1	9	MSH6	child	14_36178327_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
cfd02530-3281-11e6-9b5a-3d2f3dc9300a	X_64316092_GTCGGGAGATGGGGTGGGGGGAGGGAGAGCATTAGAAAAATAGCTAATGCATGCTGGGCTTAATACTTAGGTGATGGGTTAATGATGCAGCTAACCACTATGGCACACGTTTACCTATGTAACAAACCTGCACGTCCTGCACATGTACCCCAGAACTAAAAATAAAAACAAATTAAAAAACGATGATTAATATGCTAAGGATTCTAATGGAAAAATAGACAACATGTAAGAATAGATTAGTAATGTAAGCAGAGACATGGAAATTCTAAGAATCAAAAAGAAAGGCTGGATAGAAATGAAGAATGCTTTTAATGGGCCTGTTAATAGACTGGGTATTGTTGAGAAAAGACATTCTGAGCTTGAGGATATATCAGTAGAAAACTGCAAAACTGAAAAGCAAAAAGAAGAAACATTGAAGAAAATGGGGCAGAGAATCATTTTTTGGCCTTTTGGCTAAGAAGTAAAAT	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	X	64316092	GTCGGGAGATGGGGTGGGGGGAGGGAGAGCATTAGAAAAATAGCTAATGCATGCTGGGCTTAATACTTAGGTGATGGGTTAATGATGCAGCTAACCACTATGGCACACGTTTACCTATGTAACAAACCTGCACGTCCTGCACATGTACCCCAGAACTAAAAATAAAAACAAATTAAAAAACGATGATTAATATGCTAAGGATTCTAATGGAAAAATAGACAACATGTAAGAATAGATTAGTAATGTAAGCAGAGACATGGAAATTCTAAGAATCAAAAAGAAAGGCTGGATAGAAATGAAGAATGCTTTTAATGGGCCTGTTAATAGACTGGGTATTGTTGAGAAAAGACATTCTGAGCTTGAGGATATATCAGTAGAAAACTGCAAAACTGAAAAGCAAAAAGAAGAAACATTGAAGAAAATGGGGCAGAGAATCATTTTTTGGCCTTTTGGCTAAGAA	GTAAAAT	480	PASS	-	Complex	-	459	0	NEIL1	child	X_64316092_GTCGGGAGATGGGGTGGGGGGAGGGAGAGCATTAGAAAAATAGCTAATGCATGCTGGGCTTAATACTTAGGTGATGGGTTAATGATGCAGCTAACCACTATGGCACACGTTTACCTATGTAACAAACCTGCACGTCCTGCACATGTACCCCAGAACTAAAAATAAAAACAAATTAAAAAACGATGATTAATATGCTAAGGATTCTAATGGAAAAATAGACAACATGTAAGAATAGATTAGTAATGTAAGCAGAGACATGGAAATTCTAAGAATCAAAAAGAAAGGCTGGATAGAAATGAAGAATGCTTTTAATGGGCCTGTTAATAGACTGGGTATTGTTGAGAAAAGACATTCTGAGCTTGAGGATATATCAGTAGAAAACTGCAAAACTGAAAAGCAAAAAGAAGAAACATTGAAGAAAATGGGGCAGAGAATCATTTTTTGGCCTTTTGGCTAAGAAGTAAAAT_NEIL1	453	>=10	-	-	-	-	Complex
cfd2021c-328e-11e6-bec1-ca1d0e01a414	X_125684447_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	125684447	TA	T	420	PASS	DCAF12L1	Del	3prime_UTR_variant	1	9	MSH6	child	X_125684447_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
cfd24fc2-328b-11e6-aff5-85090e01a414	16_47208941_GGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	47208941	G	GA	840	PASS	ITFG1	Ins	intronic	1	2	MSH6	child	16_47208941_GGA_MSH6	1	1	-	-	-	-	Ins
cfe2f98e-3287-11e6-afcf-0311bce6aa09	9_94129185_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	94129185	T	TA	420	PASS	AUH	Ins	upstream	1	9	MSH6	child	9_94129185_TTA_MSH6	1	1	-	-	-	-	Ins
cfea6b44-328f-11e6-9432-c0e56f39e758	5_82515561_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	82515561	GA	G	480	PASS	XRCC4	Del	intronic	1	6	MSH6	child	5_82515561_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
cfec4890-328c-11e6-8952-77c36f39e758	10_79821833_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	79821833	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	10_79821833_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
cfedc888-326d-11e6-b306-b5204b47a305	2_105154303_TCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	105154303	TC	T	660	PASS	-	Del	-	1	7	MSH6	child	2_105154303_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
cff296c6-3324-11e6-925b-cca72aaffa45	X_144717545_CTC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	X	144717545	CT	C	480	PASS	-	Del	-	1	9	CHK2	child	X_144717545_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
cff67ebe-3273-11e6-bf90-64cd7872c165	6_8820316_GAG	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	6	8820316	GA	G	600	PASS	-	Del	-	1	6	POLM	child	6_8820316_GAG_POLM	1	1	1	A	5	A	Repeat-mediated
cffd486a-3292-11e6-b014-6aecb41afd22	2_29334669_ATA	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	2	29334669	AT	A	300	PASS	CLIP4	Del	upstream	1	9	NEIL1	child	2_29334669_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
d0115682-3258-11e6-8cd9-139b7872c165	3_101653175_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	101653175	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	3_101653175_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
d0147d96-3274-11e6-a8b6-76174530f757	12_132060630_CAC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	12	132060630	CA	C	321	PASS	-	Del	-	1	4	EXO1	child	12_132060630_CAC_EXO1	1	1	1	A	3	A	Repeat-mediated
d019e9da-3287-11e6-8392-fc5a51c54cdd	7_65789450_TGT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	7	65789450	TG	T	300	PASS	TPST1	Del	intronic	1	4	EXO1	child	7_65789450_TGT_EXO1	1	1	1	G	3	G	Repeat-mediated
d0203f52-326d-11e6-b306-b5204b47a305	2_105343923_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	105343923	AT	A	420	PASS	-	Del	-	1	7	MSH6	child	2_105343923_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
d0212002-326d-11e6-b9f4-5d1d694da5d2	14_100197960_TCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	100197960	TC	T	420	PASS	CYP46A1	Del	downstream	1	7	MSH6	child	14_100197960_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
d027ab1a-329b-11e6-ae71-0c5325c9da85	1_106561035_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	106561035	TA	T	600	PASS	RP11-24P14.1	Del	intronic	1	9	MSH6	child	1_106561035_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
d02ac716-328a-11e6-9539-3490a178171f	3_98050378_ACCTAATAGTA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	3	98050378	ACCTAATAGT	A	540	PASS	RP11-325B23.2	Del	intronic	9	1	FANCC	child	3_98050378_ACCTAATAGTA_FANCC	9	9	1	C	0	-	Microhomology-mediated
d037a2ee-327e-11e6-85d6-b940d5957ca3	10_95530850_CAC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	10	95530850	CA	C	300	PASS	LGI1	Del	intronic	1	9	NEIL1	child	10_95530850_CAC_NEIL1	1	1	1	A	8	A	Repeat-mediated
d050d5a8-3287-11e6-a21c-b819bce6aa09	X_132798475_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	132798475	TA	T	540	PASS	GPC3	Del	intronic	1	6	MSH6	child	X_132798475_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
d05b7740-3289-11e6-94b1-74090e01a414	17_28390551_AGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	28390551	AG	A	300	PASS	EFCAB5	Del	intronic	1	5	MSH6	child	17_28390551_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
d0639026-3287-11e6-a5b3-3f1ebce6aa09	7_128937509_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	128937509	AT	A	600	PASS	AHCYL2	Del	intronic	1	9	MSH6	child	7_128937509_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
d066a1c0-329c-11e6-aca6-b39fcc638e3d	2_197710401_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	197710401	CA	C	420	PASS	PGAP1	Del	intronic	1	7	MSH6	child	2_197710401_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
d07a1e0a-328b-11e6-bbaf-7c090e01a414	19_37390545_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	37390545	T	TA	360	PASS	ZNF829	Ins	intronic	1	8	MSH6	child	19_37390545_TTA_MSH6	1	1	-	-	-	-	Ins
d07dbed2-3283-11e6-b1ba-6def1da8ec0e	1_8927316_CAGAAGC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	1	8927316	CAGAAG	C	300	PASS	ENO1	Del	splice_region	5	1	EXO1	child	1_8927316_CAGAAGC_EXO1	5	5	4	AGAA	0	-	Microhomology-mediated
d07f71b2-329e-11e6-bc2c-2a5e25c9da85	4_125933869_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	125933869	AT	A	780	PASS	-	Del	-	1	7	MSH6	child	4_125933869_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
d0847278-328c-11e6-b537-8a5c694da5d2	13_44743714_ATA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	13	44743714	AT	A	840	PASS	-	Del	-	1	1	POLM	child	13_44743714_ATA_POLM	1	1	0	-	0	T	None
d08dcf86-328b-11e6-919e-92c36f39e758	2_23966804_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	23966804	TA	T	540	PASS	ATAD2B	Del	downstream	1	7	MSH6	child	2_23966804_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
d08fd4aa-3274-11e6-8607-751ad9b4fa2c	22_50913798_TCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	22	50913798	TC	T	300	PASS	SBF1	Del	upstream	1	5	MSH6	child	22_50913798_TCT_MSH6	1	1	1	C	4	C	Repeat-mediated
d09fe4c4-3253-11e6-a4a7-35f212ae24cf	14_36405691_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	36405691	CT	C	324	PASS	-	Del	-	1	9	MSH6	child	14_36405691_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
d0a02910-328b-11e6-aa75-90c36f39e758	13_36393318_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	36393318	GA	G	480	PASS	DCLK1	Del	intronic	1	5	MSH6	child	13_36393318_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
d0a3f81e-3273-11e6-94a5-6c01ebb8d062	8_66107409_ATA	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	8	66107409	AT	A	540	PASS	-	Del	-	1	8	NUDT1	child	8_66107409_ATA_NUDT1	1	1	1	T	7	T	Repeat-mediated
d0a804a8-32a1-11e6-bc2c-2a5e25c9da85	4_119183688_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	119183688	G	GA	840	PASS	NDST3	Ins	downstream	1	7	MSH6	child	4_119183688_GGA_MSH6	1	1	-	-	-	-	Ins
d0ae66f0-3287-11e6-a5b3-3f1ebce6aa09	7_129061147_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	129061147	CT	C	780	PASS	AHCYL2	Del	intronic	1	8	MSH6	child	7_129061147_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
d0afee2c-328b-11e6-919e-92c36f39e758	2_23995362_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	23995362	TA	T	480	PASS	ATAD2B	Del	intronic	1	9	MSH6	child	2_23995362_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
d0bf0990-3289-11e6-9996-bebd38e8a824	X_11496129_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	X	11496129	AT	A	720	PASS	ARHGAP6	Del	intronic	1	8	NUDT1	parent	X_11496129_ATA_NUDT1	1	1	1	T	7	T	Repeat-mediated
d0c0509e-3292-11e6-b3a9-d5afe7d0bdd7	4_56918486_AAT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	4	56918486	A	AT	420	PASS	-	Ins	-	1	5	FANCC	child	4_56918486_AAT_FANCC	1	1	-	-	-	-	Ins
d0c1cc4e-3292-11e6-9401-04ed6f39e758	3_196804371_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	196804371	TA	T	420	PASS	DLG1	Del	intronic	1	8	MSH6	child	3_196804371_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
d0c31460-326e-11e6-81de-443e72d7bc54	2_18966303_CTC	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	2	18966303	CT	C	720	PASS	AC106053.1	Del	intronic	1	8	POLM	child	2_18966303_CTC_POLM	1	1	1	T	7	T	Repeat-mediated
d0d4c554-3280-11e6-b1f4-d855f7d33ce3	10_7079890_TAT	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	10	7079890	TA	T	557	PASS	-	Del	-	1	4	NUDT1	child	10_7079890_TAT_NUDT1	1	1	1	A	3	A	Repeat-mediated
d0d9900c-3253-11e6-bf41-357a7872c165	10_17815342_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	17815342	AT	A	286	PASS	TMEM236	Del	intronic	1	7	MSH6	child	10_17815342_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
d0f5e62c-3275-11e6-aafd-c7dee9d19ece	2_92095540_TTA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	2	92095540	T	TA	614	PASS	-	Ins	-	1	6	CHK2	child	2_92095540_TTA_CHK2	1	1	-	-	-	-	Ins
d0f7aba0-3299-11e6-a5cf-205325c9da85	11_246500_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	246500	CA	C	780	PASS	PSMD13	Del	intronic	1	9	MSH6	child	11_246500_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
d0fa3350-3282-11e6-bb60-c21d694da5d2	6_4058246_TTTGT	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	6	4058246	TTTG	T	300	PASS	PRPF4B	Del	intronic	3	5	NEIL1	child	6_4058246_TTTGT_NEIL1	3	3	3	TTG	4	TTG	Repeat-mediated
d1137778-328e-11e6-9432-c0e56f39e758	5_17461075_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	17461075	GT	G	360	PASS	RP11-321E2.4	Del	intronic	1	7	MSH6	child	5_17461075_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
d11a7758-328e-11e6-b9c4-751d0e01a414	5_174866582_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	174866582	GA	G	300	PASS	DRD1	Del	downstream	1	9	MSH6	child	5_174866582_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
d121753a-3270-11e6-b89d-b2d6b0dab373	4_87768709_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	87768709	AT	A	420	PASS	SLC10A6	Del	intronic	1	9	MSH6	child	4_87768709_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
d130daf8-3274-11e6-983a-1d8bcf737e61	7_86974072_CAC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	7	86974072	CA	C	360	PASS	CROT	Del	upstream	1	7	POLB	child	7_86974072_CAC_POLB	1	1	1	A	6	A	Repeat-mediated
d134a584-326f-11e6-819e-9d1aa20b69d5	11_84727098_TAT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	11	84727098	TA	T	600	PASS	DLG2	Del	intronic	1	9	EXO1	parent	11_84727098_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
d13cda74-3346-11e6-b0ff-c495e84777f6	10_91327012_AGAGCTGTACATGTCTTTGA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	10	91327012	AGAGCTGTACATGTCTTTG	A	360	PASS	-	Del	-	18	1	FANCC	child	10_91327012_AGAGCTGTACATGTCTTTGA_FANCC	18	>=10	4	GAGC	0	-	Microhomology-mediated
d15982f8-3294-11e6-9ac5-d165046f68b1	7_36120543_CTCAGC	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	7	36120543	CTCAG	C	360	PASS	-	Del	-	4	2	NEIL1	child	7_36120543_CTCAGC_NEIL1	4	4	4	TCAG	1	TCAG	Repeat-mediated
d16473ec-3277-11e6-acb5-bbf1bbe6aa09	7_117980619_AAT	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	7	117980619	A	AT	360	PASS	-	Ins	-	1	7	POLB	child	7_117980619_AAT_POLB	1	1	-	-	-	-	Ins
d167212e-3280-11e6-a8de-13fc028949d4	12_93065850_CTC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	12	93065850	CT	C	420	PASS	-	Del	-	1	8	POLM	child	12_93065850_CTC_POLM	1	1	1	T	7	T	Repeat-mediated
d16cd8a4-3284-11e6-b0da-c38569062303	12_133257827_CCG	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	12	133257827	C	CG	900	PASS	POLE	Ins	frameshift	1	0	POLE	parent	12_133257827_CCG_POLE	1	1	-	-	-	-	Ins
d16f7940-329f-11e6-aea7-956725c9da85	3_84820126_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	84820126	TA	T	660	PASS	LINC00971	Del	intronic	1	5	MSH6	child	3_84820126_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
d171645c-327d-11e6-94ee-5ee4b41afd22	9_29618920_CTC	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	9	29618920	CT	C	480	PASS	-	Del	-	1	8	POLM	child	9_29618920_CTC_POLM	1	1	1	T	7	T	Repeat-mediated
d171f732-3322-11e6-a947-acb5cde16804	15_22391216_AAT	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	15	22391216	A	AT	540	PASS	-	Ins	-	1	5	POLE	child	15_22391216_AAT_POLE	1	1	-	-	-	-	Ins
d1758c78-3325-11e6-aad6-fc2b9a696edf	9_134705602_TAT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	9	134705602	TA	T	300	PASS	-	Del	-	1	9	EXO1	child	9_134705602_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
d1857e66-328b-11e6-8770-3e160e01a414	9_12613916_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	12613916	AT	A	540	PASS	-	Del	-	1	8	MSH6	child	9_12613916_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
d1890e6a-3276-11e6-8629-39703cfdbd24	4_35751902_CTGC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	4	35751902	CTG	C	480	PASS	-	Del	-	2	1	CHK2	child	4_35751902_CTGC_CHK2	2	2	0	-	0	-	None
d193c2c8-3290-11e6-9d24-ade56f39e758	7_147385211_CCTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	147385211	CCT	C	540	PASS	CNTNAP2	Del	intronic	2	7	MSH6	child	7_147385211_CCTC_MSH6	2	2	2	CT	6	CT	Repeat-mediated
d1a186b4-326e-11e6-a202-899bcc638e3d	16_7957004_ATA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	16	7957004	AT	A	540	PASS	-	Del	-	1	3	NEIL1	child	16_7957004_ATA_NEIL1	1	1	1	T	2	T	Repeat-mediated
d1a19f66-328a-11e6-9c89-8d090e01a414	1_85898832_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	85898832	GT	G	300	PASS	DDAH1	Del	intronic	1	5	MSH6	child	1_85898832_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
d1a98458-3274-11e6-94cc-1ec335cec73b	19_37290714_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	37290714	T	TA	660	PASS	-	Ins	-	1	7	MSH6	child	19_37290714_TTA_MSH6	1	1	-	-	-	-	Ins
d1b6a9b4-3259-11e6-9d15-298312ae24cf	X_100565775_GGAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	100565775	G	GAT	300	PASS	-	Ins	-	2	7	MSH6	child	X_100565775_GGAT_MSH6	2	2	-	-	-	-	Ins
d1cd594c-325a-11e6-a39a-dc8512ae24cf	8_51563742_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	51563742	A	AT	300	PASS	SNTG1	Ins	intronic	1	7	MSH6	child	8_51563742_AAT_MSH6	1	1	-	-	-	-	Ins
d1e18cc8-3322-11e6-917a-b666694da5d2	11_85204749_GAG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	11	85204749	GA	G	300	PASS	DLG2	Del	intronic	1	4	EXO1	child	11_85204749_GAG_EXO1	1	1	1	A	3	A	Repeat-mediated
d1ed6402-3256-11e6-885f-d1947872c165	4_48011859_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	48011859	CT	C	420	PASS	CNGA1	Del	intronic	1	8	MSH6	child	4_48011859_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
d1f5f448-328b-11e6-af7e-81c435cec73b	4_181418247_TTA	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	4	181418247	T	TA	641	PASS	-	Ins	-	1	6	POLE	child	4_181418247_TTA_POLE	1	1	-	-	-	-	Ins
d1f8b5de-326d-11e6-acc7-e55219a91649	1_116609871_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	116609871	GT	G	360	PASS	SLC22A15	Del	3prime_UTR_variant	1	5	MSH6	child	1_116609871_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
d1f90b84-3271-11e6-8418-1c5942c4520d	3_174846715_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	174846715	AT	A	300	PASS	NAALADL2	Del	intronic	1	9	MSH6	child	3_174846715_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
d1fb07bc-3326-11e6-9eb4-dd99cf737e61	8_124018127_CTC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	8	124018127	CT	C	480	PASS	-	Del	-	1	9	EXO1	child	8_124018127_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
d1fde888-329f-11e6-aea7-956725c9da85	3_84899617_AGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	84899617	AG	A	660	PASS	LINC00971	Del	intronic	1	6	MSH6	child	3_84899617_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
d1fe41c2-3284-11e6-b093-c9c7b0dab373	2_36384864_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	36384864	TA	T	660	PASS	-	Del	-	1	8	MSH6	child	2_36384864_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
d1fec77a-329b-11e6-ae71-0c5325c9da85	1_107269793_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	107269793	CA	C	480	PASS	-	Del	-	1	6	MSH6	child	1_107269793_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
d1ff3544-3272-11e6-b332-88ba7d6a9fc7	15_40208870_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	40208870	GA	G	600	PASS	GPR176	Del	intronic	1	5	MSH6	child	15_40208870_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
d2033ab8-326d-11e6-845f-b7e0c125ee11	11_127689039_CAC	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	11	127689039	CA	C	300	PASS	-	Del	-	1	6	POLM	parent	11_127689039_CAC_POLM	1	1	1	A	5	A	Repeat-mediated
d2050656-3270-11e6-a777-d57d9cdf095d	10_135005525_AACA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	10	135005525	AAC	A	600	PASS	KNDC1	Del	intronic	2	2	EXO1	parent	10_135005525_AACA_EXO1	2	2	2	AC	1	AC	Repeat-mediated
d2059478-3256-11e6-a39a-dc8512ae24cf	8_9252908_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	9252908	CA	C	480	PASS	RP11-115J16.1	Del	intronic	1	8	MSH6	child	8_9252908_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
d20e2654-3271-11e6-8418-1c5942c4520d	3_174858321_ACA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	174858321	AC	A	600	PASS	NAALADL2	Del	intronic	1	1	MSH6	child	3_174858321_ACA_MSH6	1	1	0	-	0	C	None
d211ac5a-328c-11e6-b4fe-93c36f39e758	12_77200318_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	77200318	AT	A	360	PASS	ZDHHC17	Del	intronic	1	8	MSH6	child	12_77200318_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
d213f916-326d-11e6-b306-b5204b47a305	2_106087928_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	106087928	CT	C	300	PASS	-	Del	-	1	6	MSH6	child	2_106087928_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
d2144f70-3258-11e6-acc5-308412ae24cf	5_177392374_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	177392374	CA	C	480	PASS	-	Del	-	1	8	MSH6	child	5_177392374_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
d2195caa-3284-11e6-8ebc-68f1bbe6aa09	18_50462899_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	50462899	AT	A	540	PASS	DCC	Del	intronic	1	6	MSH6	child	18_50462899_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
d2213f44-328c-11e6-b8e6-91c36f39e758	11_84586788_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	84586788	CT	C	600	PASS	DLG2	Del	intronic	1	9	MSH6	child	11_84586788_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
d229ffec-328e-11e6-b960-ae6919a91649	15_44669988_GTG	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	15	44669988	GT	G	360	PASS	CASC4	Del	intronic	1	1	NEIL1	child	15_44669988_GTG_NEIL1	1	1	0	-	0	T	None
d22b4ea2-3323-11e6-b21a-c2d124864c47	9_28306271_ATGAAGAAGGTGAAAAGGAAAGGAAAGGAAAG	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	9	28306271	ATGAAGAAGGTGAAAAGGA	AAGGAAAGGAAAG	284	PASS	LINGO2	Complex	intronic	18	0	POLE	child	9_28306271_ATGAAGAAGGTGAAAAGGAAAGGAAAGGAAAG_POLE	6	6	-	-	-	-	Complex
d2339544-3274-11e6-b332-88ba7d6a9fc7	15_101429218_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	101429218	AT	A	300	PASS	ALDH1A3	Del	intronic	1	6	MSH6	child	15_101429218_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
d236fad2-3291-11e6-8d00-b1b0e7d0bdd7	5_148663513_AAACTTGGTCA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	5	148663513	AAACTTGGTC	A	360	PASS	AFAP1L1	Del	intronic	9	1	FANCC	child	5_148663513_AAACTTGGTCA_FANCC	9	9	1	A	0	-	Microhomology-mediated
d249f8fe-328b-11e6-bd95-63cc977b3f23	1_26543760_TACT	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	1	26543760	TAC	T	900	PASS	-	Del	-	2	1	NEIL1	child	1_26543760_TACT_NEIL1	2	2	0	-	0	-	None
d24c8ce4-3287-11e6-b0bc-c7a46f39e758	5_153871606_GCAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	5	153871606	GCA	G	300	PASS	-	Del	-	2	3	EXO1	child	5_153871606_GCAG_EXO1	2	2	2	CA	2	CA	Repeat-mediated
d24cf2bc-3299-11e6-b74d-b59fcc638e3d	18_471947_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	471947	TA	T	780	PASS	COLEC12	Del	intronic	1	8	MSH6	child	18_471947_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
d2545eb2-328f-11e6-850b-ec0b9c6d3b88	4_33187811_GTCG	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	4	33187811	GTC	G	360	PASS	-	Del	-	2	1	POLB	child	4_33187811_GTCG_POLB	2	2	0	-	0	-	None
d254d848-3293-11e6-b77d-2eef6f39e758	6_41746363_GGC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	41746363	G	GC	480	PASS	FRS3	Ins	intronic	1	7	MSH6	child	6_41746363_GGC_MSH6	1	1	-	-	-	-	Ins
d2621136-3255-11e6-8ebc-3ef212ae24cf	15_94379424_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	94379424	GA	G	540	PASS	CTD-3049M7.1	Del	intronic	1	6	MSH6	child	15_94379424_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
d2660866-3293-11e6-9d97-efe56f39e758	4_184570274_GGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	184570274	G	GA	420	PASS	RWDD4	Ins	intronic	1	8	MSH6	child	4_184570274_GGA_MSH6	1	1	-	-	-	-	Ins
d267ca36-32a0-11e6-bc66-17b4cc638e3d	8_136200501_GACG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	136200501	GAC	G	540	PASS	-	Del	-	2	6	MSH6	child	8_136200501_GACG_MSH6	2	2	2	AC	5	AC	Repeat-mediated
d26a0f5c-32a1-11e6-91d0-016425c9da85	7_99069481_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	99069481	C	CA	600	PASS	ZNF789	Ins	upstream	1	9	MSH6	child	7_99069481_CCA_MSH6	1	1	-	-	-	-	Ins
d26ef33e-329a-11e6-b74d-b59fcc638e3d	18_63990405_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	63990405	AT	A	480	PASS	-	Del	-	1	6	MSH6	child	18_63990405_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
d280d572-3254-11e6-a304-347a7872c165	1_80559145_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	80559145	CT	C	600	PASS	-	Del	-	1	9	MSH6	child	1_80559145_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
d2849c8e-3326-11e6-868e-d16670cce0de	6_7589349_TAT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	6	7589349	TA	T	480	PASS	DSP	Del	downstream	1	9	EXO1	child	6_7589349_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
d28e1fea-3284-11e6-a032-41f0137bb207	1_231308410_TAT	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	1	231308410	TA	T	480	PASS	TRIM67	Del	intronic	1	7	NEIL1	parent	1_231308410_TAT_NEIL1	1	1	1	A	6	A	Repeat-mediated
d290cb28-328e-11e6-8f31-bfe16f39e758	9_79744647_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	79744647	CT	C	420	PASS	-	Del	-	1	6	MSH6	child	9_79744647_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
d29220be-3274-11e6-bc97-1f91a20b69d5	10_21666877_CTC	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	10	21666877	CT	C	600	PASS	RP11-275N1.1	Del	upstream	1	9	POLM	child	10_21666877_CTC_POLM	1	1	1	T	8	T	Repeat-mediated
d29ccc5e-32a0-11e6-aea7-956725c9da85	3_158864109_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	158864109	TA	T	780	PASS	IQCJ-SCHIP1	Del	intronic	1	9	MSH6	child	3_158864109_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
d2a1dbde-3257-11e6-8cd9-139b7872c165	3_20690517_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	20690517	TA	T	300	PASS	-	Del	-	1	5	MSH6	child	3_20690517_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
d2acd00e-3282-11e6-a79b-fd3eee3c4f5d	4_12456845_CAC	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	4	12456845	CA	C	540	PASS	-	Del	-	1	5	POLB	child	4_12456845_CAC_POLB	1	1	1	A	4	A	Repeat-mediated
d2b2b8a2-328c-11e6-8e48-791e0e01a414	8_22155058_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	22155058	TA	T	420	PASS	PIWIL2	Del	intronic	1	9	MSH6	child	8_22155058_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
d2b2c870-3272-11e6-8f33-a6d9cde16804	11_40433351_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	40433351	TA	T	540	PASS	LRRC4C	Del	intronic	1	5	MSH6	child	11_40433351_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
d2b981fa-329b-11e6-ae71-0c5325c9da85	1_107604108_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	107604108	GA	G	360	PASS	PRMT6	Del	downstream	1	7	MSH6	child	1_107604108_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
d2bc0e00-3284-11e6-8ebc-68f1bbe6aa09	18_50775614_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	50775614	GT	G	540	PASS	DCC	Del	intronic	1	8	MSH6	child	18_50775614_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
d2bcb74a-3272-11e6-9e18-3a69671699ea	10_29377561_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	29377561	TA	T	420	PASS	-	Del	-	1	5	MSH6	child	10_29377561_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
d2bd34fa-328a-11e6-af7e-81c435cec73b	4_107961903_TTA	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	4	107961903	T	TA	540	PASS	DKK2	Ins	upstream	1	7	POLE	child	4_107961903_TTA_POLE	1	1	-	-	-	-	Ins
d2c80908-3270-11e6-b5b8-e0c24a47a305	X_89772296_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	89772296	TA	T	272	PASS	-	Del	-	1	7	MSH6	child	X_89772296_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
d2d0cc8c-3293-11e6-8d91-0b8730158702	1_211293167_ATA	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	1	211293167	AT	A	420	PASS	KCNH1	Del	intronic	1	6	NUDT1	child	1_211293167_ATA_NUDT1	1	1	1	T	5	T	Repeat-mediated
d2db51f4-328c-11e6-b805-77090e01a414	2_233646920_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	233646920	AT	A	300	PASS	GIGYF2	Del	intronic	1	9	MSH6	child	2_233646920_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
d2f0de7c-329e-11e6-94ca-0aaecc638e3d	X_71042535_AGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	71042535	AG	A	420	PASS	-	Del	-	1	6	MSH6	child	X_71042535_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
d302700a-3281-11e6-88ca-c78169062303	16_87761798_GAAGAG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	16	87761798	GAAGA	G	600	PASS	KLHDC4	Del	intronic	4	2	FANCC	child	16_87761798_GAAGAG_FANCC	4	4	4	AAGA	1	AAGA	Repeat-mediated
d304856c-3271-11e6-b89d-b2d6b0dab373	4_157546401_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	157546401	GA	G	300	PASS	-	Del	-	1	8	MSH6	child	4_157546401_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
d3048cf6-3253-11e6-9f9d-2c7a7872c165	12_18468333_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	18468333	GA	G	360	PASS	PIK3C2G	Del	intronic	1	9	MSH6	child	12_18468333_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
d3065294-3275-11e6-8c34-46e27872c165	5_32080117_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	32080117	AT	A	720	PASS	PDZD2	Del	intronic	1	7	MSH6	child	5_32080117_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
d30b7226-328c-11e6-9777-62d8191589db	5_61670273_ATA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	5	61670273	AT	A	360	PASS	KIF2A	Del	intronic	1	7	FANCC	child	5_61670273_ATA_FANCC	1	1	1	T	6	T	Repeat-mediated
d30f95a6-328f-11e6-b6a6-1f1e0e01a414	4_4457990_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	4457990	C	CA	480	PASS	STX18	Ins	intronic	1	7	MSH6	child	4_4457990_CCA_MSH6	1	1	-	-	-	-	Ins
d31346c8-3286-11e6-b84c-a2a0fc1f1540	1_165323142_GAG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	1	165323142	GA	G	420	PASS	LMX1A	Del	intronic	1	7	FANCC	child	1_165323142_GAG_FANCC	1	1	1	A	6	A	Repeat-mediated
d32583c2-3288-11e6-8f40-4aa538e8a824	17_16611891_AAT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	17	16611891	A	AT	722	PASS	CCDC144A	Ins	intronic	1	8	NUDT1	parent	17_16611891_AAT_NUDT1	1	1	-	-	-	-	Ins
d327f508-3256-11e6-acc5-308412ae24cf	5_32047144_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	32047144	CA	C	300	PASS	PDZD2	Del	intronic	1	7	MSH6	child	5_32047144_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
d3305150-3272-11e6-81c8-19f506e9a829	2_141349752_TAATATAAAATTTTATTAGAACAGT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	2	141349752	TAATATAAAATTTTATTAGAACAG	T	300	PASS	LRP1B	Del	intronic	23	1	FANCC	child	2_141349752_TAATATAAAATTTTATTAGAACAGT_FANCC	23	>=10	2	AA	0	-	Microhomology-mediated
d332a7c4-3273-11e6-bfb2-2749c225ee11	12_98858520_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	98858520	AT	A	960	PASS	-	Del	-	1	5	MSH6	child	12_98858520_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
d3399a7e-3274-11e6-af88-fed9cde16804	3_194433523_GAG	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	3	194433523	GA	G	480	PASS	AC090505.6	Del	intronic	1	7	NEIL1	child	3_194433523_GAG_NEIL1	1	1	1	A	6	A	Repeat-mediated
d341699e-328c-11e6-b43c-7ec36f39e758	16_75958446_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	75958446	GA	G	540	PASS	-	Del	-	1	6	MSH6	child	16_75958446_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
d34255cc-3325-11e6-aad6-fc2b9a696edf	9_135111110_TGT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	9	135111110	TG	T	960	PASS	NTNG2	Del	intronic	1	7	EXO1	child	9_135111110_TGT_EXO1	1	1	1	G	6	G	Repeat-mediated
d3473bd6-328b-11e6-b4fe-93c36f39e758	12_16676506_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	16676506	TA	T	720	PASS	-	Del	-	1	8	MSH6	child	12_16676506_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
d34919b8-326f-11e6-be3d-925130158702	1_45636263_ATA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	1	45636263	AT	A	600	PASS	ZSWIM5	Del	intronic	1	7	POLB	child	1_45636263_ATA_POLB	1	1	1	T	6	T	Repeat-mediated
d34b3daa-3270-11e6-9d19-c216987b3f23	21_40321463_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	21	40321463	GA	G	360	PASS	AF064858.6	Del	intronic	1	8	MSH6	child	21_40321463_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
d34ccb36-328c-11e6-8fa6-65cc977b3f23	15_73170802_CTTTTAATTGACATTTTGTC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	15	73170802	CTTTTAATTGACATTTTGT	C	600	PASS	-	Del	-	18	1	NEIL1	child	15_73170802_CTTTTAATTGACATTTTGTC_NEIL1	18	>=10	17	TTTTAATTGACATTTTG	0	-	Microhomology-mediated
d34f347c-328a-11e6-a100-84090e01a414	18_21806861_TTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	21806861	T	TC	600	PASS	OSBPL1A	Ins	intronic	1	3	MSH6	child	18_21806861_TTC_MSH6	1	1	-	-	-	-	Ins
d35068c4-3253-11e6-9f9d-2c7a7872c165	12_18713071_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	18713071	AT	A	420	PASS	PIK3C2G	Del	intronic	1	9	MSH6	child	12_18713071_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
d3527156-3289-11e6-a94a-059612ae24cf	19_32663184_GTG	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	19	32663184	GT	G	420	PASS	-	Del	-	1	5	CHK2	child	19_32663184_GTG_CHK2	1	1	1	T	4	T	Repeat-mediated
d355fb9c-334b-11e6-9f94-b3873cfdbd24	6_72409101_CTC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	6	72409101	CT	C	360	PASS	-	Del	-	1	9	FANCC	child	6_72409101_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
d3571b76-328d-11e6-ae53-96c36f39e758	15_99624677_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	99624677	CA	C	900	PASS	-	Del	-	1	7	MSH6	child	15_99624677_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
d35f3044-328e-11e6-b9c4-751d0e01a414	5_175437456_AGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	175437456	AG	A	300	PASS	-	Del	-	1	5	MSH6	child	5_175437456_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
d3601af8-3253-11e6-8a2a-3af212ae24cf	16_17921872_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	16	17921872	GA	G	780	PASS	CTD-3229J4.1	Del	downstream	1	8	MSH6	child	16_17921872_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
d36029b6-328b-11e6-b805-77090e01a414	2_172013752_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	172013752	CA	C	300	PASS	TLK1	Del	intronic	1	4	MSH6	child	2_172013752_CAC_MSH6	1	1	1	A	3	A	Repeat-mediated
d36208f4-3258-11e6-8cd9-139b7872c165	3_103268831_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	103268831	GA	G	600	PASS	-	Del	-	1	7	MSH6	child	3_103268831_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
d36b4436-328b-11e6-bd1b-5fcc977b3f23	11_28949888_CTC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	11	28949888	CT	C	360	PASS	RP11-115J23.1	Del	intronic	1	7	NEIL1	child	11_28949888_CTC_NEIL1	1	1	1	T	6	T	Repeat-mediated
d3758096-3258-11e6-8340-da9012ae24cf	6_22825186_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	22825186	CA	C	420	PASS	RP1-209A6.1	Del	intronic	1	5	MSH6	child	6_22825186_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
d37a2ad4-3270-11e6-a539-0e5542c4520d	7_134669275_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	134669275	CT	C	300	PASS	AGBL3	Del	upstream	1	8	MSH6	child	7_134669275_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
d385c1a4-3280-11e6-b263-76d64dc77248	8_139391622_ATA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	8	139391622	AT	A	480	PASS	FAM135B	Del	intronic	1	9	NUDT1	child	8_139391622_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
d3868e72-3280-11e6-86cf-8f288e4678dd	10_31524781_CAC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	10	31524781	CA	C	420	PASS	RP11-192P3.4	Del	intronic	1	8	FANCC	child	10_31524781_CAC_FANCC	1	1	1	A	7	A	Repeat-mediated
d386e572-328d-11e6-9e01-8e5c694da5d2	12_102650270_CTGC	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	12	102650270	CTG	C	660	PASS	-	Del	-	2	1	POLM	child	12_102650270_CTGC_POLM	2	2	1	T	0	-	Microhomology-mediated
d38a55d8-3349-11e6-be18-768ca20b69d5	3_62321845_GTGCATATTTATTTG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	3	62321845	GTGCATATTTATTT	G	840	PASS	C3orf14	Del	3prime_UTR_variant	13	1	FANCC	child	3_62321845_GTGCATATTTATTTG_FANCC	13	>=10	2	TG	0	-	Microhomology-mediated
d391ce26-3281-11e6-8ed4-2098faf1a024	20_36703409_CTGC	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	20	36703409	CTG	C	480	PASS	RPRD1B	Del	intronic	2	2	POLB	parent	20_36703409_CTGC_POLB	2	2	2	TG	1	TG	Repeat-mediated
d393cd4e-3285-11e6-9955-19979cdf095d	8_89378226_ATA	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	8	89378226	AT	A	600	PASS	-	Del	-	1	9	POLE	child	8_89378226_ATA_POLE	1	1	1	T	8	T	Repeat-mediated
d39a18be-3291-11e6-8e48-791e0e01a414	8_143706087_AAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	143706087	A	AC	540	PASS	-	Ins	-	1	3	MSH6	child	8_143706087_AAC_MSH6	1	1	-	-	-	-	Ins
d3a81b12-32a0-11e6-aea7-956725c9da85	3_159416428_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	159416428	AT	A	540	PASS	IQCJ-SCHIP1	Del	intronic	1	7	MSH6	child	3_159416428_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
d3ae51ac-326f-11e6-b89d-b2d6b0dab373	4_22750410_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	22750410	CT	C	300	PASS	-	Del	-	1	7	MSH6	child	4_22750410_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
d3bf5d16-3329-11e6-9981-3a2d5e975b79	20_41318234_GAG	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	20	41318234	GA	G	900	PASS	PTPRT	Del	intronic	1	1	CHK2	parent	20_41318234_GAG_CHK2	1	1	0	-	0	A	None
d3c09a54-3271-11e6-9dfc-541498ba1142	8_35373283_ATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	8	35373283	AT	A	780	PASS	UNC5D	Del	intronic	1	6	EXO1	parent	8_35373283_ATA_EXO1	1	1	1	T	5	T	Repeat-mediated
d3dca744-3276-11e6-998e-ba48fa52e078	8_82480813_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	82480813	CA	C	660	PASS	-	Del	-	1	7	MSH6	child	8_82480813_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
d3dde92c-3291-11e6-b88b-bca9fa52e078	17_20004740_CTC	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	17	20004740	CT	C	480	PASS	SPECC1	Del	intronic	1	7	NUDT1	child	17_20004740_CTC_NUDT1	1	1	1	T	6	T	Repeat-mediated
d3e8e1ac-326d-11e6-b2ac-b6204b47a305	17_74087711_TGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	74087711	TG	T	360	PASS	EXOC7	Del	intronic	1	6	MSH6	child	17_74087711_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
d3eb1794-3284-11e6-be43-0a6ea2c71c31	10_35074915_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	35074915	CA	C	660	PASS	PARD3	Del	intronic	1	8	MSH6	child	10_35074915_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
d3ec79ae-327a-11e6-92d2-c259c225ee11	3_125707417_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	125707417	T	TA	360	PASS	-	Ins	-	1	7	MSH6	child	3_125707417_TTA_MSH6	1	1	-	-	-	-	Ins
d3f512be-326e-11e6-a202-899bcc638e3d	16_8550249_CAC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	16	8550249	CA	C	300	PASS	-	Del	-	1	8	NEIL1	child	16_8550249_CAC_NEIL1	1	1	1	A	7	A	Repeat-mediated
d404d154-3278-11e6-8de8-fc8b5d753391	10_10420505_GAG	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	10	10420505	GA	G	480	PASS	-	Del	-	1	9	FANCC	parent	10_10420505_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
d408aa5a-3277-11e6-a391-f6d67d6a9fc7	6_23521934_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	23521934	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	6_23521934_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
d40abba2-327b-11e6-a391-f6d67d6a9fc7	6_122523473_CCACAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	122523473	C	CACAT	360	PASS	-	Ins	-	4	0	MSH6	child	6_122523473_CCACAT_MSH6	4	4	-	-	-	-	Ins
d4103f5c-326f-11e6-b89d-b2d6b0dab373	4_22913323_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	22913323	CT	C	300	PASS	-	Del	-	1	7	MSH6	child	4_22913323_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
d4110994-3280-11e6-8a95-4ae6b41afd22	X_32453518_AAT	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	X	32453518	A	AT	420	PASS	DMD	Ins	intronic	1	2	POLM	child	X_32453518_AAT_POLM	1	1	-	-	-	-	Ins
d4148850-3279-11e6-be3d-b594a20b69d5	4_187829652_GGT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	4	187829652	G	GT	300	PASS	-	Ins	-	1	6	EXO1	child	4_187829652_GGT_EXO1	1	1	-	-	-	-	Ins
d415c044-3323-11e6-8a20-9a0d75253f64	9_103671776_CTC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	9	103671776	CT	C	480	PASS	-	Del	-	1	3	CHK2	child	9_103671776_CTC_CHK2	1	1	1	T	2	T	Repeat-mediated
d41aa0b2-328f-11e6-b1b9-2968694da5d2	8_28956810_CAC	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	8	28956810	CA	C	600	PASS	KIF13B	Del	intronic	1	9	POLM	child	8_28956810_CAC_POLM	1	1	1	A	8	A	Repeat-mediated
d41d254e-328f-11e6-9d24-ade56f39e758	7_80963166_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	80963166	GA	G	540	PASS	-	Del	-	1	5	MSH6	child	7_80963166_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
d421bfea-3272-11e6-9210-65fa620e6611	5_65204859_TAT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	5	65204859	TA	T	420	PASS	-	Del	-	1	9	EXO1	parent	5_65204859_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
d42e9f00-3275-11e6-8607-751ad9b4fa2c	22_44668796_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	22	44668796	C	CA	480	PASS	KIAA1644	Ins	intronic	1	3	MSH6	child	22_44668796_CCA_MSH6	1	1	-	-	-	-	Ins
d44c2112-326e-11e6-9d68-ac9acab49462	15_91819056_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	91819056	CA	C	540	PASS	SV2B	Del	intronic	1	8	MSH6	child	15_91819056_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
d4532d7e-329e-11e6-aea7-956725c9da85	3_23082012_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	23082012	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	3_23082012_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
d4553e2e-3254-11e6-9f9d-2c7a7872c165	12_87720374_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	87720374	GT	G	660	PASS	-	Del	-	1	9	MSH6	child	12_87720374_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
d4590824-3259-11e6-8cd9-139b7872c165	3_178387149_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	178387149	CA	C	420	PASS	KCNMB2	Del	intronic	1	8	MSH6	child	3_178387149_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
d4842aa2-3346-11e6-994a-5ae3e9d19ece	11_103641650_CAC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	11	103641650	CA	C	540	PASS	RP11-563P16.1	Del	intronic	1	9	FANCC	child	11_103641650_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
d4884e5e-328b-11e6-8106-81c36f39e758	19_12344580_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	12344580	TA	T	420	PASS	CTD-2666L21.1	Del	intronic	1	6	MSH6	child	19_12344580_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
d49a176a-3272-11e6-9e18-3a69671699ea	10_29726883_GTCG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	29726883	GTC	G	720	PASS	-	Del	-	2	7	MSH6	child	10_29726883_GTCG_MSH6	2	2	2	TC	6	TC	Repeat-mediated
d49a8cf0-3271-11e6-b89d-b2d6b0dab373	4_158158987_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	158158987	GT	G	480	PASS	GRIA2	Del	intronic	1	7	MSH6	child	4_158158987_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
d49d762a-328c-11e6-8e48-791e0e01a414	8_22397691_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	22397691	CT	C	420	PASS	PPP3CC	Del	intronic	1	8	MSH6	child	8_22397691_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
d49e7e4a-3254-11e6-b4d0-327a7872c165	11_85927529_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	85927529	GA	G	600	PASS	-	Del	-	1	9	MSH6	child	11_85927529_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
d49f8efc-3254-11e6-8f56-7d832aaffa45	13_61186169_TCCT	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	13	61186169	TCC	T	480	PASS	RNA5SP31	Del	upstream	2	3	POLM	child	13_61186169_TCCT_POLM	2	2	1	C	0	-	Microhomology-mediated
d4a67712-3281-11e6-9c55-78e41da8ec0e	19_51498836_GTG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	19	51498836	GT	G	300	PASS	KLK9	Del	downstream	1	4	EXO1	child	19_51498836_GTG_EXO1	1	1	1	T	3	T	Repeat-mediated
d4aca306-3292-11e6-92cf-bf2a0e01a414	6_75203087_CCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	75203087	C	CT	360	PASS	RP11-554D15.1	Ins	intronic	1	8	MSH6	child	6_75203087_CCT_MSH6	1	1	-	-	-	-	Ins
d4b1d412-3273-11e6-abaf-4642cab49462	6_155143693_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	155143693	TA	T	360	PASS	SCAF8	Del	intronic	1	9	MSH6	child	6_155143693_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
d4b2881a-328e-11e6-bcba-4aab4430f757	2_226463176_TAT	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	2	226463176	TA	T	780	PASS	NYAP2	Del	intronic	1	6	POLE	child	2_226463176_TAT_POLE	1	1	1	A	5	A	Repeat-mediated
d4b59b52-329a-11e6-aca6-b39fcc638e3d	2_69155780_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	69155780	AC	A	720	PASS	-	Del	-	1	6	MSH6	child	2_69155780_ACA_MSH6	1	1	1	C	5	C	Repeat-mediated
d4b60e6e-329c-11e6-aca6-b39fcc638e3d	2_198485328_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	198485328	AT	A	900	PASS	RFTN2	Del	intronic	1	7	MSH6	child	2_198485328_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
d4bee3d4-327b-11e6-9adb-fb799ecd0b3a	13_61186169_TCCT	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	13	61186169	TCC	T	360	PASS	RNA5SP31	Del	upstream	2	3	POLM	child	13_61186169_TCCT_POLM	2	2	1	C	0	-	Microhomology-mediated
d4d272a0-328a-11e6-9c89-8d090e01a414	1_86347435_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	86347435	CT	C	300	PASS	COL24A1	Del	intronic	1	7	MSH6	child	1_86347435_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
d4d42f42-3275-11e6-b48f-cc371daa6045	9_18594150_ATA	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	9	18594150	AT	A	480	PASS	ADAMTSL1	Del	intronic	1	9	EXO1	child	9_18594150_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
d4d95b5a-328b-11e6-b805-77090e01a414	2_172295247_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	172295247	CT	C	420	PASS	DCAF17	Del	intronic	1	9	MSH6	child	2_172295247_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
d4de806e-3252-11e6-bb07-5705ee3c4f5d	11_104562947_CAC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	11	104562947	CA	C	360	PASS	-	Del	-	1	9	POLB	child	11_104562947_CAC_POLB	1	1	1	A	8	A	Repeat-mediated
d4df13d2-328c-11e6-b8e6-91c36f39e758	11_85326801_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	85326801	GT	G	360	PASS	DLG2	Del	intronic	1	8	MSH6	child	11_85326801_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
d4e18e00-326e-11e6-9fba-41ebd8b4fa2c	11_81737973_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	81737973	CT	C	300	PASS	RP11-179A16.1	Del	intronic	1	4	MSH6	child	11_81737973_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
d4ea3228-328f-11e6-b52f-4eeb6f39e758	22_25277558_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	22	25277558	CA	C	420	PASS	SGSM1	Del	intronic	1	8	MSH6	child	22_25277558_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
d4eb9c98-3290-11e6-9230-fb250e01a414	3_190749199_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	190749199	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	3_190749199_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
d4ecb8ea-3299-11e6-8de1-2d9afaf1a024	7_125284531_ACTA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	7	125284531	ACT	A	600	PASS	-	Del	-	2	2	CHK2	child	7_125284531_ACTA_CHK2	2	2	2	CT	1	CT	Repeat-mediated
d4ee566c-328c-11e6-bec1-ca1d0e01a414	X_35988480_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	35988480	AT	A	406	PASS	CXorf22	Del	intronic	1	9	MSH6	child	X_35988480_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
d4ef1a16-3291-11e6-9070-b1a39b6d3b88	6_62319629_GAAG	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	6	62319629	GAA	G	540	PASS	-	Del	-	2	2	POLB	child	6_62319629_GAAG_POLB	2	2	0	-	0	-	None
d4f53fb8-32a0-11e6-bc66-17b4cc638e3d	8_136901889_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	136901889	AT	A	360	PASS	-	Del	-	1	9	MSH6	child	8_136901889_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
d4ff3d56-328c-11e6-8770-3e160e01a414	9_94485254_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	94485254	CA	C	360	PASS	ROR2	Del	3prime_UTR_variant	1	7	MSH6	child	9_94485254_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
d50a3da2-3299-11e6-bda6-065325c9da85	13_20214256_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	20214256	GA	G	600	PASS	MPHOSPH8	Del	intronic	1	9	MSH6	child	13_20214256_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
d510615a-3280-11e6-9a3a-b76f2aaffa45	16_13926776_ATA	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	16	13926776	AT	A	600	PASS	-	Del	-	1	8	POLE	child	16_13926776_ATA_POLE	1	1	1	T	7	T	Repeat-mediated
d51466e8-3257-11e6-9d15-298312ae24cf	X_72458559_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	72458559	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	X_72458559_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
d51e1d5a-327f-11e6-ab3d-fefad0959d89	X_121639274_ATA	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	X	121639274	AT	A	420	PASS	-	Del	-	1	6	POLB	parent	X_121639274_ATA_POLB	1	1	1	T	5	T	Repeat-mediated
d52dfb56-3254-11e6-9f9d-2c7a7872c165	12_88021331_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	88021331	CT	C	600	PASS	-	Del	-	1	7	MSH6	child	12_88021331_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
d54a032a-3252-11e6-b45a-b9e612ae24cf	17_65882484_CTC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	17	65882484	CT	C	840	PASS	BPTF	Del	intronic	1	8	POLB	child	17_65882484_CTC_POLB	1	1	1	T	7	T	Repeat-mediated
d54fcece-327d-11e6-831c-60fe684da5d2	12_1542062_CAC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	12	1542062	CA	C	300	PASS	ERC1	Del	intronic	1	8	NEIL1	child	12_1542062_CAC_NEIL1	1	1	1	A	7	A	Repeat-mediated
d5524302-3282-11e6-a62e-ba6f2aaffa45	10_38671756_CCT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	10	38671756	C	CT	509	PASS	-	Ins	-	1	8	POLE	child	10_38671756_CCT_POLE	1	1	-	-	-	-	Ins
d552ade4-3280-11e6-971a-ac2236fc2f7d	19_5275501_AATCCTCCCACCTTGGCCTCCCAAGTAGCTGGGACTACAGGTGAAGGCCATCACATCTGTAACCCCAGCACTTTGGGAGGCTGAGGCCGGAGGATCACCTGAGGTCAGCAGTTCGAGACCAGCCTGACCAACATGGTGAAACCCCGTCTCTACTAAGGAAACAAACATTAGCCAGACATAGTGGTGGGCACCTGTAATCCCAACTACTTGGCAGGCTGAGGCAGAAGAATTGCTTGAACCTGGGAGATGGAGGCTGCAGTGAGCCAAGATCATGGCACCACACTTCAACCTGGGCGACAGAGTGAGACTCCGTCTCAAAAAACAAAAACAAAAACAAAAACCAGCCTGGGGTCTCACTATGTTGCCCAGGCTGGTCTGGAACTCCTGGCCTCAAGTGA	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	19	5275501	AATCCTCCCACCTTGGCCTCCCAAGTAGCTGGGACTACAGGTGAAGGCCATCACATCTGTAACCCCAGCACTTTGGGAGGCTGAGGCCGGAGGATCACCTGAGGTCAGCAGTTCGAGACCAGCCTGACCAACATGGTGAAACCCCGTCTCTACTAAGGAAACAAACATTAGCCAGACATAGTGGTGGGCACCTGTAATCCCAACTACTTGGCAGGCTGAGGCAGAAGAATTGCTTGAACCTGGGAGATGGAGGCTGCAGTGAGCCAAGATCATGGCACCACACTTCAACCTGGGCGACAGAGTGAGACTCCGTCTCAAAAAACAAAAACAAAAACAAAAACCAGCCTGGGGTCTCACTATGTTGCCCAGGCTGGTCTGGAACTCCTGGCCTCAAGTG	A	417	PASS	PTPRS	Del	intronic	396	1	NUDT1	child	19_5275501_AATCCTCCCACCTTGGCCTCCCAAGTAGCTGGGACTACAGGTGAAGGCCATCACATCTGTAACCCCAGCACTTTGGGAGGCTGAGGCCGGAGGATCACCTGAGGTCAGCAGTTCGAGACCAGCCTGACCAACATGGTGAAACCCCGTCTCTACTAAGGAAACAAACATTAGCCAGACATAGTGGTGGGCACCTGTAATCCCAACTACTTGGCAGGCTGAGGCAGAAGAATTGCTTGAACCTGGGAGATGGAGGCTGCAGTGAGCCAAGATCATGGCACCACACTTCAACCTGGGCGACAGAGTGAGACTCCGTCTCAAAAAACAAAAACAAAAACAAAAACCAGCCTGGGGTCTCACTATGTTGCCCAGGCTGGTCTGGAACTCCTGGCCTCAAGTGA_NUDT1	396	>=10	29	ATCCTCCCACCTTGGCCTCCCAAGTAGCT	0	-	Microhomology-mediated
d555a6fa-3278-11e6-9fd1-e163e7d0bdd7	8_106278823_TTC	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	8	106278823	T	TC	300	PASS	-	Ins	-	1	2	POLB	child	8_106278823_TTC_POLB	1	1	-	-	-	-	Ins
d55e1cd8-328a-11e6-a8ac-a28ea2c71c31	3_129932274_GGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	129932274	G	GT	300	PASS	-	Ins	-	1	7	MSH6	child	3_129932274_GGT_MSH6	1	1	-	-	-	-	Ins
d56350cc-328a-11e6-a42b-8cc430158702	18_45444976_GAAG	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	18	45444976	GAA	G	300	PASS	SMAD2	Del	intronic	2	4	POLM	child	18_45444976_GAAG_POLM	2	2	2	AA	2	A	Repeat-mediated
d566744c-331f-11e6-a0b4-eb1c51c54cdd	16_15587447_CCTTC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	16	15587447	CCTT	C	480	PASS	C16orf45	Del	intronic	3	2	CHK2	parent	16_15587447_CCTTC_CHK2	3	3	3	CTT	1	CTT	Repeat-mediated
d568e7fa-3323-11e6-8ccd-5c056323ba5a	2_153944141_ATA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	2	153944141	AT	A	720	PASS	-	Del	-	1	8	EXO1	child	2_153944141_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
d56a055a-3273-11e6-b332-88ba7d6a9fc7	15_72903112_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	72903112	CA	C	440	PASS	RP11-1006G14.2	Del	intronic	1	9	MSH6	child	15_72903112_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
d5734172-3270-11e6-bfba-13bf4a47a305	9_92861676_CCCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	92861676	C	CCA	420	PASS	-	Ins	-	2	4	MSH6	child	9_92861676_CCCA_MSH6	2	2	-	-	-	-	Ins
d573925e-326f-11e6-b89d-b2d6b0dab373	4_23574866_AGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	23574866	AG	A	300	PASS	-	Del	-	1	5	MSH6	child	4_23574866_AGA_MSH6	1	1	1	G	4	G	Repeat-mediated
d576f9e2-328f-11e6-bb1e-70e16f39e758	X_119575704_AGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	119575704	AG	A	720	PASS	LAMP2	Del	frameshift	1	6	MSH6	child	X_119575704_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
d57bdeec-3296-11e6-80cc-ecf997ba1142	13_62516720_GTG	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	13	62516720	GT	G	600	PASS	-	Del	-	1	1	CHK2	child	13_62516720_GTG_CHK2	1	1	0	-	0	T	None
d57c0a78-3284-11e6-8ebc-68f1bbe6aa09	18_51866348_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	51866348	TA	T	300	PASS	STARD6	Del	intronic	1	8	MSH6	child	18_51866348_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
d5919c60-329f-11e6-b696-dd6225c9da85	5_178455469_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	178455469	GT	G	720	PASS	ZNF879	Del	intronic	1	9	MSH6	child	5_178455469_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
d59777ea-3270-11e6-8fc7-e8702aaffa45	9_38520474_CTGC	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	9	38520474	CTG	C	780	PASS	-	Del	-	2	2	POLM	child	9_38520474_CTGC_POLM	2	2	2	TG	1	TG	Repeat-mediated
d5990414-329a-11e6-a0ea-135325c9da85	15_63997244_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	63997244	AT	A	660	PASS	HERC1	Del	intronic	1	9	MSH6	child	15_63997244_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
d59dd296-3254-11e6-89d3-d29498816cf3	2_143683994_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	143683994	TA	T	414	PASS	KYNU	Del	intronic	1	9	MSH6	child	2_143683994_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
d5a720e2-328d-11e6-ae53-96c36f39e758	15_100349293_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	100349293	AT	A	341	PASS	-	Del	-	1	8	MSH6	child	15_100349293_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
d5a7c1cc-3298-11e6-8de1-2d9afaf1a024	7_32403858_ATA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	7	32403858	AT	A	480	PASS	-	Del	-	1	7	CHK2	child	7_32403858_ATA_CHK2	1	1	1	T	6	T	Repeat-mediated
d5aa0f56-3273-11e6-983a-1d8bcf737e61	7_20607061_CTC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	7	20607061	CT	C	540	PASS	-	Del	-	1	8	POLB	child	7_20607061_CTC_POLB	1	1	1	T	7	T	Repeat-mediated
d5acb078-328f-11e6-b97d-a8b305ad5bc4	20_32610679_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	32610679	AT	A	360	PASS	RALY	Del	intronic	1	6	MSH6	child	20_32610679_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
d5af9a68-328f-11e6-9d97-efe56f39e758	4_81339503_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	81339503	TA	T	480	PASS	C4orf22	Del	intronic	1	8	MSH6	child	4_81339503_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
d5b31c78-3326-11e6-8030-ef8819a91649	6_147260948_ATA	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	6	147260948	AT	A	300	PASS	-	Del	-	1	9	CHK2	child	6_147260948_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
d5b7f2f2-3272-11e6-aebf-545f42c4520d	5_136451565_ATAACA	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	5	136451565	ATAAC	A	360	PASS	SPOCK1	Del	intronic	4	2	POLB	child	5_136451565_ATAACA_POLB	4	4	4	TAAC	1	TAAC	Repeat-mediated
d5bbc920-3274-11e6-9162-5cdb6de4ab00	11_117114576_GTCG	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	11	117114576	GTC	G	960	PASS	RNF214	Del	intronic	2	3	CHK2	child	11_117114576_GTCG_CHK2	2	2	2	TC	2	TC	Repeat-mediated
d5bf910a-329b-11e6-b549-1e5325c9da85	10_119860943_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	119860943	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	10_119860943_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
d5c02fa4-328a-11e6-94b1-74090e01a414	17_78125399_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	78125399	TA	T	420	PASS	EIF4A3	Del	upstream	1	6	MSH6	child	17_78125399_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
d5c9cce6-3292-11e6-87b7-f22a3dc9300a	16_29310677_TATGCTAGGAAAAGAATGT	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	16	29310677	TATGCTAGGAAAAGAATG	T	308	PASS	SNX29P2	Del	intronic	17	1	POLB	child	16_29310677_TATGCTAGGAAAAGAATGT_POLB	17	>=10	1	A	0	-	Microhomology-mediated
d5ca46ec-3276-11e6-83cd-a472a178171f	4_129646620_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	129646620	GA	G	480	PASS	-	Del	-	1	6	MSH6	child	4_129646620_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
d5cac2bc-328e-11e6-b9c4-751d0e01a414	5_175876939_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	175876939	TA	T	480	PASS	FAF2	Del	intronic	1	4	MSH6	child	5_175876939_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
d5cdc41c-328e-11e6-ba48-afb3cc638e3d	2_192002942_CCA	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	2	192002942	C	CA	420	PASS	STAT4	Ins	intronic	1	7	NUDT1	child	2_192002942_CCA_NUDT1	1	1	-	-	-	-	Ins
d5d04400-3273-11e6-9065-cc4890e2c2e6	1_193190675_GGAATGTTAAAAAAAAG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	1	193190675	GGAATGTTAAAAAAAA	G	1020	PASS	CDC73	Del	intronic	15	1	MSH6	parent	1_193190675_GGAATGTTAAAAAAAAG_MSH6	15	>=10	3	GAA	0	-	Microhomology-mediated
d5d3bfcc-3273-11e6-b1f2-34f6620e6611	1_219971766_GAAG	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	1	219971766	GAA	G	420	PASS	-	Del	-	2	4	CHK2	child	1_219971766_GAAG_CHK2	2	2	2	AA	2	A	Repeat-mediated
d5d8118c-3285-11e6-9b68-79e41da8ec0e	2_157779654_AAAG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	2	157779654	A	AAG	300	PASS	-	Ins	-	2	0	EXO1	child	2_157779654_AAAG_EXO1	2	2	-	-	-	-	Ins
d5de1cd0-3299-11e6-aca6-b39fcc638e3d	2_2745547_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	2745547	TA	T	420	PASS	-	Del	-	1	8	MSH6	child	2_2745547_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
d5f199b0-3256-11e6-b04f-1ca12aaffa45	8_4795036_CAC	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	8	4795036	CA	C	480	PASS	CSMD1	Del	intronic	1	8	POLM	child	8_4795036_CAC_POLM	1	1	1	A	7	A	Repeat-mediated
d5f20268-329e-11e6-b696-dd6225c9da85	5_114406400_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	114406400	GA	G	420	PASS	-	Del	-	1	8	MSH6	child	5_114406400_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
d5f6fd32-3293-11e6-83fc-8f4c0d016689	4_43895321_TTGTCT	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	4	43895321	TTGTC	T	406	PASS	-	Del	-	4	1	NUDT1	child	4_43895321_TTGTCT_NUDT1	4	4	3	TGT	0	-	Microhomology-mediated
d5f863f2-327a-11e6-891f-f872fc77b11e	20_43006874_ATA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	20	43006874	AT	A	600	PASS	HNF4A	Del	intronic	1	6	CHK2	child	20_43006874_ATA_CHK2	1	1	1	T	5	T	Repeat-mediated
d60be938-3273-11e6-bb57-2543fa52e078	22_23595946_TTCT	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	22	23595946	TTC	T	420	PASS	BCR	Del	intronic	2	2	CHK2	child	22_23595946_TTCT_CHK2	2	2	2	TC	1	TC	Repeat-mediated
d60dd002-328e-11e6-bec1-ca1d0e01a414	X_127817925_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	127817925	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	X_127817925_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
d6141ad8-3325-11e6-aad6-fc2b9a696edf	9_135532335_GAG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	9	135532335	GA	G	720	PASS	DDX31	Del	intronic	1	7	EXO1	child	9_135532335_GAG_EXO1	1	1	1	A	6	A	Repeat-mediated
d6246ca0-329c-11e6-a5cf-205325c9da85	11_48719941_TTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	48719941	T	TA	398	PASS	-	Ins	-	1	5	MSH6	child	11_48719941_TTA_MSH6	1	1	-	-	-	-	Ins
d6305080-3286-11e6-8b67-086ea2c71c31	1_218828828_ACA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	218828828	AC	A	480	PASS	-	Del	-	1	5	MSH6	child	1_218828828_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
d64c833a-32a0-11e6-aea7-956725c9da85	3_160425857_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	160425857	GA	G	720	PASS	-	Del	-	1	9	MSH6	child	3_160425857_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
d65751a4-3299-11e6-b129-195325c9da85	16_1168226_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	1168226	AC	A	480	PASS	LA16c-381G6.1	Del	downstream	1	7	MSH6	child	16_1168226_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
d6579d02-3277-11e6-a391-f6d67d6a9fc7	6_23968625_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	23968625	CT	C	420	PASS	-	Del	-	1	8	MSH6	child	6_23968625_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
d65b2b04-3257-11e6-89d3-d29498816cf3	2_218820864_GGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	218820864	G	GT	300	PASS	TNS1	Ins	intronic	1	7	MSH6	child	2_218820864_GGT_MSH6	1	1	-	-	-	-	Ins
d6621b0e-326f-11e6-b264-9097fa52e078	17_73894603_CCTC	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	17	73894603	CCT	C	480	PASS	TRIM65	Del	upstream	2	1	POLM	child	17_73894603_CCTC_POLM	2	2	0	-	0	-	None
d6632874-326e-11e6-bf40-308964f80bad	4_20707331_TTAAT	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	4	20707331	TTAA	T	480	PASS	PACRGL	Del	intronic	3	2	POLM	parent	4_20707331_TTAAT_POLM	3	3	3	TAA	1	TAA	Repeat-mediated
d667cb0a-329f-11e6-91d0-016425c9da85	7_139153918_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	139153918	AT	A	415	PASS	KLRG2	Del	intronic	1	7	MSH6	child	7_139153918_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
d667e80a-3255-11e6-8ebc-3ef212ae24cf	15_95679713_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	95679713	GA	G	480	PASS	RP11-255M2.2	Del	upstream	1	9	MSH6	child	15_95679713_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
d6763398-3281-11e6-a761-0604987b3f23	14_34064885_CTC	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	14	34064885	CT	C	540	PASS	NPAS3	Del	intronic	1	9	NEIL1	parent	14_34064885_CTC_NEIL1	1	1	1	T	8	T	Repeat-mediated
d68d7ca2-3253-11e6-bc65-c9667872c165	13_39792604_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	39792604	TA	T	600	PASS	-	Del	-	1	9	MSH6	child	13_39792604_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
d697acc4-3279-11e6-b5ff-0de46de4ab00	5_125816993_AAT	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	5	125816993	A	AT	360	PASS	GRAMD3	Ins	intronic	1	1	POLB	child	5_125816993_AAT_POLB	1	1	-	-	-	-	Ins
d699e362-328e-11e6-9d97-efe56f39e758	4_15033714_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	15033714	TA	T	420	PASS	CPEB2	Del	intronic	1	7	MSH6	child	4_15033714_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
d69f3484-3284-11e6-85df-bb936f39e758	14_103171468_CAC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	14	103171468	CA	C	480	PASS	RCOR1	Del	intronic	1	9	EXO1	child	14_103171468_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
d6a255e6-3253-11e6-89d3-d29498816cf3	2_36603618_GGGAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	36603618	GGGA	G	600	PASS	CRIM1	Del	intronic	3	3	MSH6	child	2_36603618_GGGAG_MSH6	3	3	3	GGA	2	GGA	Repeat-mediated
d6a9bf40-3283-11e6-85df-bb936f39e758	14_23408118_CAC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	14	23408118	CA	C	575	PASS	-	Del	-	1	7	EXO1	child	14_23408118_CAC_EXO1	1	1	1	A	6	A	Repeat-mediated
d6abe8a6-329c-11e6-ae71-0c5325c9da85	1_172588195_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	172588195	GA	G	360	PASS	-	Del	-	1	6	MSH6	child	1_172588195_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
d6b43c4a-3274-11e6-bde9-8c1aead19ece	10_85724950_TAT	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	10	85724950	TA	T	480	PASS	-	Del	-	1	8	NEIL1	child	10_85724950_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
d6b6acca-329a-11e6-b549-1e5325c9da85	10_62866584_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	62866584	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	10_62866584_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
d6b6d092-3290-11e6-9d97-efe56f39e758	4_150311019_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	150311019	GA	G	360	PASS	RP11-526A4.1	Del	intronic	1	9	MSH6	child	4_150311019_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
d6b83fb8-3286-11e6-a5b3-3f1ebce6aa09	7_36579299_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	36579299	GT	G	720	PASS	AOAH	Del	intronic	1	7	MSH6	child	7_36579299_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
d6b9c416-3257-11e6-8cd9-139b7872c165	3_21965817_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	21965817	GT	G	420	PASS	-	Del	-	1	8	MSH6	child	3_21965817_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
d6baca28-3284-11e6-a8af-066ea2c71c31	15_50487039_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	50487039	GA	G	660	PASS	SLC27A2	Del	intronic	1	9	MSH6	child	15_50487039_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
d6c3a48c-3283-11e6-83b0-2c6e0d016689	2_14685622_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	2	14685622	AT	A	420	PASS	-	Del	-	1	8	EXO1	child	2_14685622_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
d6c4332c-3272-11e6-8f33-a6d9cde16804	11_41916970_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	41916970	CT	C	660	PASS	-	Del	-	1	5	MSH6	child	11_41916970_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
d6c58514-329b-11e6-aca6-b39fcc638e3d	2_135708210_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	135708210	GA	G	600	PASS	CCNT2	Del	intronic	1	9	MSH6	child	2_135708210_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
d6d575fe-327e-11e6-ba36-88d64dc77248	7_23406102_CTC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	7	23406102	CT	C	660	PASS	IGF2BP3	Del	intronic	1	7	NUDT1	child	7_23406102_CTC_NUDT1	1	1	1	T	6	T	Repeat-mediated
d6d9b094-3259-11e6-9f82-71a92aaffa45	6_133326394_GAG	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	6	133326394	GA	G	480	PASS	-	Del	-	1	5	POLM	child	6_133326394_GAG_POLM	1	1	1	A	4	A	Repeat-mediated
d6dccfbe-3325-11e6-9eb4-dd99cf737e61	8_56545973_CAC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	8	56545973	CA	C	300	PASS	-	Del	-	1	8	EXO1	child	8_56545973_CAC_EXO1	1	1	1	A	7	A	Repeat-mediated
d6deb7be-3296-11e6-8313-913e8cd8cd69	10_61138269_CAC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	10	61138269	CA	C	540	PASS	-	Del	-	1	7	CHK2	child	10_61138269_CAC_CHK2	1	1	1	A	6	A	Repeat-mediated
d6f37932-326f-11e6-b923-6726694da5d2	5_26408031_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	26408031	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	5_26408031_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
d6f8d858-3285-11e6-9955-19979cdf095d	8_90520725_AGA	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	8	90520725	AG	A	600	PASS	-	Del	-	1	2	POLE	child	8_90520725_AGA_POLE	1	1	1	G	1	G	Repeat-mediated
d6f94cee-3270-11e6-b923-6726694da5d2	5_97814606_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	97814606	CA	C	360	PASS	-	Del	-	1	9	MSH6	child	5_97814606_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
d6fb7b76-328f-11e6-b97d-a8b305ad5bc4	20_33054129_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	33054129	AT	A	600	PASS	ITCH	Del	intronic	1	9	MSH6	child	20_33054129_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
d6ff11f2-329c-11e6-ae71-0c5325c9da85	1_172647543_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	172647543	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	1_172647543_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
d7049528-3279-11e6-8c34-46e27872c165	5_138919186_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	138919186	A	AT	381	PASS	UBE2D2	Ins	intronic	1	8	MSH6	child	5_138919186_AAT_MSH6	1	1	-	-	-	-	Ins
d7099f98-3272-11e6-826a-adb6fa52e078	17_26039634_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	17	26039634	AG	A	840	PASS	-	Del	-	1	2	MSH6	child	17_26039634_AGA_MSH6	1	1	1	G	1	G	Repeat-mediated
d70da830-326e-11e6-9d68-ac9acab49462	15_92574445_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	92574445	GA	G	360	PASS	SLCO3A1	Del	intronic	1	8	MSH6	child	15_92574445_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
d70f2300-3277-11e6-9a3d-a569e7d0bdd7	3_113077173_CAC	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	3	113077173	CA	C	360	PASS	WDR52	Del	intronic	1	9	POLB	child	3_113077173_CAC_POLB	1	1	1	A	8	A	Repeat-mediated
d712f040-329d-11e6-bc2c-2a5e25c9da85	4_58892333_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	58892333	CT	C	766	PASS	-	Del	-	1	7	MSH6	child	4_58892333_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
d719e51e-3273-11e6-bfcc-6defed3c4f5d	2_2598832_CAC	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	2	2598832	CA	C	300	PASS	-	Del	-	1	8	NEIL1	child	2_2598832_CAC_NEIL1	1	1	1	A	7	A	Repeat-mediated
d71d52e8-3288-11e6-a8a6-92e95d753391	10_90834142_CAAATC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	10	90834142	CAAAT	C	660	PASS	-	Del	-	4	1	POLE	child	10_90834142_CAAATC_POLE	4	4	3	AAA	0	-	Microhomology-mediated
d7206b7e-3321-11e6-8c1c-2deb137bb207	15_67785997_ATA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	15	67785997	AT	A	660	PASS	IQCH	Del	intronic	1	8	EXO1	child	15_67785997_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
d725529a-3292-11e6-bc47-5448a178171f	12_23529938_AACA	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	12	23529938	AAC	A	360	PASS	-	Del	-	2	2	NEIL1	child	12_23529938_AACA_NEIL1	2	2	2	AC	1	AC	Repeat-mediated
d7266f12-3284-11e6-a0a8-096ea2c71c31	11_42759944_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	42759944	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	11_42759944_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
d73bf54a-326f-11e6-a777-d57d9cdf095d	10_65473593_CTTC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	10	65473593	CTT	C	600	PASS	RP11-170M17.1	Del	intronic	2	4	EXO1	parent	10_65473593_CTTC_EXO1	2	2	2	TT	2	T	Repeat-mediated
d748ba8e-3277-11e6-a71d-236235cec73b	X_147695236_ATCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	147695236	ATC	A	660	PASS	AFF2	Del	intronic	2	7	MSH6	child	X_147695236_ATCA_MSH6	2	2	2	TC	6	TC	Repeat-mediated
d74a7346-328c-11e6-bec1-ca1d0e01a414	X_37242860_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	37242860	AT	A	1080	PASS	PRRG1	Del	intronic	1	7	MSH6	child	X_37242860_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
d74be3a4-3294-11e6-9ac5-d165046f68b1	7_38601797_GAG	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	7	38601797	GA	G	300	PASS	AMPH	Del	intronic	1	9	NEIL1	child	7_38601797_GAG_NEIL1	1	1	1	A	8	A	Repeat-mediated
d750c0c6-3295-11e6-b04a-0c16b968caf4	4_160597709_GTG	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	4	160597709	GT	G	360	PASS	RP11-6C14.1	Del	intronic	1	9	POLB	child	4_160597709_GTG_POLB	1	1	1	T	8	T	Repeat-mediated
d75d9eae-3290-11e6-b81f-4ee66f39e758	8_75477933_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	75477933	CA	C	480	PASS	-	Del	-	1	8	MSH6	child	8_75477933_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
d75dc7f6-326f-11e6-bfba-13bf4a47a305	9_132849915_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	132849915	TA	T	360	PASS	GPR107	Del	intronic	1	8	MSH6	child	9_132849915_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
d775e134-328c-11e6-b43c-7ec36f39e758	16_77336237_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	77336237	CT	C	360	PASS	ADAMTS18	Del	intronic	1	8	MSH6	child	16_77336237_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
d779b100-328d-11e6-8770-3e160e01a414	9_2825399_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	2825399	T	TA	300	PASS	KIAA0020	Ins	intronic	1	5	MSH6	child	9_2825399_TTA_MSH6	1	1	-	-	-	-	Ins
d78aa0c6-329e-11e6-8c2e-3f6625c9da85	22_50420702_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	22	50420702	AT	A	540	PASS	-	Del	-	1	8	MSH6	child	22_50420702_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
d794abb0-329f-11e6-bc2c-2a5e25c9da85	4_185349958_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	185349958	GA	G	540	PASS	IRF2	Del	intronic	1	7	MSH6	child	4_185349958_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
d796040a-3287-11e6-8404-8e1fbce6aa09	8_60376664_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	60376664	CT	C	625	PASS	-	Del	-	1	9	MSH6	child	8_60376664_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
d7963e54-3299-11e6-aca6-b39fcc638e3d	2_3204435_AGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	3204435	AG	A	960	PASS	TSSC1	Del	intronic	1	6	MSH6	child	2_3204435_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
d796e012-3347-11e6-a9cc-a0a270cce0de	2_126409071_CAC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	2	126409071	CA	C	300	PASS	-	Del	-	1	9	FANCC	child	2_126409071_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
d79c2396-3271-11e6-abaf-4642cab49462	6_21877940_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	21877940	CA	C	300	PASS	CASC15	Del	intronic	1	9	MSH6	child	6_21877940_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
d7a2e95c-3289-11e6-94b1-74090e01a414	17_29687463_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	29687463	TA	T	960	PASS	NF1	Del	intronic	1	8	MSH6	child	17_29687463_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
d7aa4e56-3282-11e6-a072-0fc02daed38e	7_20478689_ATA	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	7	20478689	AT	A	480	PASS	-	Del	-	1	8	POLB	child	7_20478689_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
d7aaf3f6-3278-11e6-9972-dabcecf1e924	3_113971369_ATA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	3	113971369	AT	A	600	PASS	-	Del	-	1	7	NEIL1	child	3_113971369_ATA_NEIL1	1	1	1	T	6	T	Repeat-mediated
d7b24f58-329a-11e6-9048-b49fcc638e3d	17_42220855_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	42220855	CA	C	900	PASS	C17orf53	Del	intronic	1	9	MSH6	child	17_42220855_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
d7bb24f8-3253-11e6-9f9d-2c7a7872c165	12_19515478_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	19515478	GA	G	360	PASS	PLEKHA5	Del	intronic	1	9	MSH6	child	12_19515478_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
d7bd52b6-3328-11e6-8b1e-ddf006e9a829	20_48906227_CATTC	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	20	48906227	CATT	C	480	PASS	RP11-290F20.1	Del	upstream	3	1	POLE	child	20_48906227_CATTC_POLE	3	3	2	AT	0	-	Microhomology-mediated
d7c34bf0-3259-11e6-8340-da9012ae24cf	6_92811104_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	92811104	TA	T	540	PASS	-	Del	-	1	5	MSH6	child	6_92811104_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
d7cb9ad4-3287-11e6-8404-8e1fbce6aa09	8_60483611_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	60483611	TA	T	720	PASS	RP11-379I19.1	Del	intronic	1	7	MSH6	child	8_60483611_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
d7cd2e4c-3275-11e6-83cd-a472a178171f	4_55073102_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	55073102	TA	T	540	PASS	-	Del	-	1	9	MSH6	child	4_55073102_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
d7d64350-3276-11e6-9019-27a01da8ec0e	6_54673816_AGA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	6	54673816	AG	A	360	PASS	-	Del	-	1	3	FANCC	child	6_54673816_AGA_FANCC	1	1	1	G	2	G	Repeat-mediated
d7dd48e2-3291-11e6-8a53-36c05d753391	X_104459474_CAAATTAGAGCTCAC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	X	104459474	CAAATTAGAGCTCA	C	420	PASS	IL1RAPL2	Del	intronic	13	1	POLB	child	X_104459474_CAAATTAGAGCTCAC_POLB	13	>=10	1	A	0	-	Microhomology-mediated
d7ddb926-3278-11e6-a391-f6d67d6a9fc7	6_92338563_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	92338563	AT	A	660	PASS	CASC6	Del	downstream	1	7	MSH6	child	6_92338563_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
d7ef8826-3288-11e6-a941-5a85a178171f	9_96833625_ATA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	9	96833625	AT	A	600	PASS	PTPDC1	Del	intronic	1	9	FANCC	child	9_96833625_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
d7f1114c-3273-11e6-b923-6726694da5d2	5_143036113_CCAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	143036113	C	CAT	480	PASS	-	Ins	-	2	5	MSH6	child	5_143036113_CCAT_MSH6	2	2	-	-	-	-	Ins
d7f95e8e-3272-11e6-803d-c550e7d0bdd7	11_5076893_ATA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	11	5076893	AT	A	480	PASS	OR52E2	Del	downstream	1	8	EXO1	child	11_5076893_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
d7ff19c2-328c-11e6-ad95-4e7f30158702	X_47359963_AATGCGGTGTGGAAACTAAAGCAACTCCATCTTGGA	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	X	47359963	AATGCGGTGTGGAAACTAAAGCAACTCCATCTTGG	A	540	PASS	-	Del	-	34	1	POLM	child	X_47359963_AATGCGGTGTGGAAACTAAAGCAACTCCATCTTGGA_POLM	34	>=10	4	ATGC	0	-	Microhomology-mediated
d808137e-328c-11e6-8566-7f5c694da5d2	11_29038172_GTGTAAAAGTGTTCCG	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	11	29038172	GTGTAAAAGTGTTCC	G	600	PASS	RP11-115J23.1	Del	intronic	14	1	POLM	child	11_29038172_GTGTAAAAGTGTTCCG_POLM	14	>=10	1	T	0	-	Microhomology-mediated
d80afdcc-3256-11e6-91d3-a68412ae24cf	7_23932141_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	23932141	TA	T	780	PASS	AC009508.1	Del	intronic	1	9	MSH6	child	7_23932141_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
d80de97c-3280-11e6-971a-ac2236fc2f7d	19_5931724_TAT	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	19	5931724	TA	T	480	PASS	RANBP3	Del	intronic	1	9	NUDT1	child	19_5931724_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
d80fe608-329b-11e6-a5cf-205325c9da85	11_124614406_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	124614406	TA	T	660	PASS	NRGN	Del	intronic	1	5	MSH6	child	11_124614406_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
d81aba1a-3287-11e6-95fb-1402b5d65427	10_133623372_ATA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	10	133623372	AT	A	300	PASS	AL450307.1	Del	upstream	1	7	NUDT1	parent	10_133623372_ATA_NUDT1	1	1	1	T	6	T	Repeat-mediated
d81d9030-3284-11e6-a0a8-096ea2c71c31	11_43073079_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	43073079	GA	G	420	PASS	-	Del	-	1	5	MSH6	child	11_43073079_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
d825c0de-3257-11e6-acc5-308412ae24cf	5_105294165_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	105294165	GT	G	300	PASS	-	Del	-	1	9	MSH6	child	5_105294165_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
d82acf42-3325-11e6-898e-b9f2bbe6aa09	3_117066078_CCT	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	3	117066078	C	CT	360	PASS	LSAMP	Ins	intronic	1	8	POLE	child	3_117066078_CCT_POLE	1	1	-	-	-	-	Ins
d839d844-3284-11e6-a1ac-fd6da2c71c31	13_58627710_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	58627710	CT	C	420	PASS	-	Del	-	1	7	MSH6	child	13_58627710_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
d839f746-3254-11e6-a304-347a7872c165	1_82025610_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	82025610	TA	T	780	PASS	LPHN2	Del	intronic	1	6	MSH6	child	1_82025610_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
d83b2adc-3270-11e6-9d19-c216987b3f23	21_40998530_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	21	40998530	GT	G	960	PASS	B3GALT5	Del	intronic	1	9	MSH6	child	21_40998530_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
d83d339e-328a-11e6-9c89-8d090e01a414	1_87390484_TGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	87390484	TG	T	660	PASS	HS2ST1	Del	intronic	1	7	MSH6	child	1_87390484_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
d840ab2c-3290-11e6-9d97-efe56f39e758	4_150964987_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	150964987	GT	G	600	PASS	-	Del	-	1	8	MSH6	child	4_150964987_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
d842419e-328b-11e6-ae53-96c36f39e758	15_33438754_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	33438754	GA	G	360	PASS	FMN1	Del	intronic	1	9	MSH6	child	15_33438754_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
d848ec3a-3284-11e6-a8af-066ea2c71c31	15_50735674_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	50735674	GT	G	360	PASS	USP8	Del	intronic	1	8	MSH6	child	15_50735674_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
d8507930-3259-11e6-8340-da9012ae24cf	6_92938004_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	92938004	CT	C	420	PASS	-	Del	-	1	8	MSH6	child	6_92938004_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
d85fa492-326c-11e6-b9f4-5d1d694da5d2	14_36595201_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	36595201	AT	A	480	PASS	LINC00609	Del	intronic	1	8	MSH6	child	14_36595201_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
d85fb14e-3276-11e6-92d2-c259c225ee11	3_40145249_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	40145249	TA	T	600	PASS	MYRIP	Del	intronic	1	8	MSH6	child	3_40145249_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
d8616c56-3257-11e6-acc5-308412ae24cf	5_105369309_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	105369309	TA	T	600	PASS	-	Del	-	1	8	MSH6	child	5_105369309_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
d8692576-3299-11e6-8069-175325c9da85	12_1123066_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	1123066	TA	T	480	PASS	ERC1	Del	intronic	1	9	MSH6	child	12_1123066_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
d8702540-328c-11e6-b9c4-751d0e01a414	5_39049027_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	39049027	TA	T	420	PASS	RICTOR	Del	intronic	1	6	MSH6	child	5_39049027_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
d87e0d24-328a-11e6-a2c2-fa8aa178171f	8_69537645_AATA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	8	69537645	AAT	A	660	PASS	C8orf34	Del	intronic	2	1	FANCC	child	8_69537645_AATA_FANCC	2	2	0	-	0	-	None
d880a1e0-329b-11e6-aca6-b39fcc638e3d	2_136116548_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	136116548	GT	G	780	PASS	ZRANB3	Del	intronic	1	9	MSH6	child	2_136116548_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
d898c40e-3288-11e6-b9eb-c78fa2c71c31	6_98970352_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	98970352	CA	C	360	PASS	-	Del	-	1	9	MSH6	child	6_98970352_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
d8a19028-328f-11e6-9d97-efe56f39e758	4_82439852_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	82439852	CA	C	360	PASS	RASGEF1B	Del	intronic	1	7	MSH6	child	4_82439852_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
d8a40f16-3270-11e6-a539-0e5542c4520d	7_136138667_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	136138667	CT	C	720	PASS	-	Del	-	1	7	MSH6	child	7_136138667_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
d8a50404-329b-11e6-aca6-b39fcc638e3d	2_136140740_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	136140740	CA	C	360	PASS	ZRANB3	Del	intronic	1	9	MSH6	child	2_136140740_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
d8a6b7b4-3272-11e6-bfb2-2749c225ee11	12_32233308_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	32233308	AT	A	720	PASS	-	Del	-	1	9	MSH6	child	12_32233308_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
d8a722c8-328e-11e6-b9c4-751d0e01a414	5_176373513_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	176373513	CA	C	300	PASS	UIMC1	Del	intronic	1	9	MSH6	child	5_176373513_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
d8a905a2-325c-11e6-8cd9-139b7872c165	3_192438857_GGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	192438857	G	GA	480	PASS	FGF12	Ins	intronic	1	2	MSH6	child	3_192438857_GGA_MSH6	1	1	-	-	-	-	Ins
d8b0fb04-3289-11e6-8eee-76090e01a414	10_34919917_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	34919917	AT	A	300	PASS	PARD3	Del	intronic	1	7	MSH6	child	10_34919917_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
d8b515c0-328b-11e6-9539-3490a178171f	3_195252499_GAG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	3	195252499	GA	G	360	PASS	PPP1R2	Del	intronic	1	5	FANCC	child	3_195252499_GAG_FANCC	1	1	1	A	4	A	Repeat-mediated
d8bbccd2-3270-11e6-8418-1c5942c4520d	3_81336196_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	81336196	AT	A	360	PASS	RP11-520D19.2	Del	intronic	1	6	MSH6	child	3_81336196_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
d8c4a4f8-3255-11e6-8ebc-3ef212ae24cf	15_96482238_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	96482238	CA	C	480	PASS	-	Del	-	1	6	MSH6	child	15_96482238_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
d8c955c8-328e-11e6-b8e6-91c36f39e758	11_79575462_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	79575462	C	CA	600	PASS	-	Ins	-	1	1	MSH6	child	11_79575462_CCA_MSH6	1	1	-	-	-	-	Ins
d8d45d88-3289-11e6-821d-8c090e01a414	13_50763495_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	50763495	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	13_50763495_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
d8e32996-3287-11e6-a21c-b819bce6aa09	X_136291484_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	136291484	TA	T	600	PASS	-	Del	-	1	8	MSH6	child	X_136291484_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
d8e3580c-3292-11e6-8b9f-eea73adbad45	3_153334469_GAG	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	3	153334469	GA	G	300	PASS	-	Del	-	1	7	NEIL1	child	3_153334469_GAG_NEIL1	1	1	1	A	6	A	Repeat-mediated
d8e53ade-3281-11e6-86cf-8f288e4678dd	10_117768564_AAAGGAGATCAAACCAGCCACAACATTCCCTTAAGCCGAAGCCTAATCCAGAGCA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	10	117768564	AAAGGAGATCAAACCAGCCACAACATTCCCTTAAGCCGAAGCCTAATCCAGAGC	A	660	PASS	-	Del	-	53	1	FANCC	child	10_117768564_AAAGGAGATCAAACCAGCCACAACATTCCCTTAAGCCGAAGCCTAATCCAGAGCA_FANCC	53	>=10	4	AAGG	0	-	Microhomology-mediated
d8e6049c-3325-11e6-afff-8a61fc77b11e	7_46160506_TCT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	7	46160506	TC	T	360	PASS	-	Del	-	1	1	EXO1	child	7_46160506_TCT_EXO1	1	1	0	-	0	C	None
d8eb7712-3256-11e6-b950-8759fa52e078	X_51171818_GTG	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	X	51171818	GT	G	272	PASS	RP11-348F1.2	Del	intronic	1	6	POLM	child	X_51171818_GTG_POLM	1	1	1	T	5	T	Repeat-mediated
d8fc163e-327f-11e6-a6bc-51fe684da5d2	15_85867705_GTG	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	15	85867705	GT	G	480	PASS	-	Del	-	1	7	NEIL1	child	15_85867705_GTG_NEIL1	1	1	1	T	6	T	Repeat-mediated
d90e88f4-3325-11e6-a5c2-ba124530f757	8_14706904_CTC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	8	14706904	CT	C	300	PASS	SGCZ	Del	intronic	1	9	CHK2	child	8_14706904_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
d9128012-3280-11e6-befb-a32236fc2f7d	2_10825901_GAG	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	2	10825901	GA	G	360	PASS	NOL10	Del	intronic	1	8	NUDT1	child	2_10825901_GAG_NUDT1	1	1	1	A	7	A	Repeat-mediated
d91f13b4-3289-11e6-a80b-87090e01a414	11_34483593_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	34483593	CT	C	300	PASS	CAT	Del	intronic	1	9	MSH6	child	11_34483593_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
d91f6188-328f-11e6-92cf-bf2a0e01a414	6_66738407_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	66738407	AT	A	300	PASS	-	Del	-	1	5	MSH6	child	6_66738407_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
d923b02c-3270-11e6-b89d-b2d6b0dab373	4_89101136_AGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	89101136	AG	A	420	PASS	ABCG2	Del	intronic	1	1	MSH6	child	4_89101136_AGA_MSH6	1	1	0	-	0	G	None
d92b2bb6-3326-11e6-b0c6-e1e369062303	5_149885846_ATA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	5	149885846	AT	A	360	PASS	NDST1	Del	upstream	1	9	EXO1	child	5_149885846_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
d935a6a6-3270-11e6-9d19-c216987b3f23	21_41223226_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	21	41223226	TA	T	300	PASS	-	Del	-	1	6	MSH6	child	21_41223226_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
d93e52e4-32a0-11e6-ae71-0c5325c9da85	1_158592588_TTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	158592588	T	TA	300	PASS	SPTA1	Ins	intronic	1	7	MSH6	child	1_158592588_TTA_MSH6	1	1	-	-	-	-	Ins
d943752c-3290-11e6-b81f-4ee66f39e758	8_76248609_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	76248609	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	8_76248609_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
d943f36c-3290-11e6-8e48-791e0e01a414	8_61034012_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	61034012	C	CA	540	PASS	-	Ins	-	1	6	MSH6	child	8_61034012_CCA_MSH6	1	1	-	-	-	-	Ins
d9490cb8-328a-11e6-b805-77090e01a414	2_104306912_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	104306912	GA	G	300	PASS	-	Del	-	1	8	MSH6	child	2_104306912_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
d94b6c5e-32a0-11e6-a04f-c66a25c9da85	6_101480117_TTGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	101480117	TTG	T	840	PASS	-	Del	-	2	1	MSH6	child	6_101480117_TTGT_MSH6	2	2	1	T	0	-	Microhomology-mediated
d94d2d88-3277-11e6-92d2-c259c225ee11	3_112903913_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	112903913	CA	C	1020	PASS	-	Del	-	1	9	MSH6	child	3_112903913_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
d954036c-328e-11e6-b805-77090e01a414	2_112599422_GGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	112599422	G	GA	300	PASS	ANAPC1	Ins	intronic	1	6	MSH6	child	2_112599422_GGA_MSH6	1	1	-	-	-	-	Ins
d9555386-32a0-11e6-91d0-016425c9da85	7_35738868_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	35738868	C	CA	420	PASS	HERPUD2	Ins	upstream	1	5	MSH6	child	7_35738868_CCA_MSH6	1	1	-	-	-	-	Ins
d956617c-326e-11e6-9fba-41ebd8b4fa2c	11_82638957_TCAGAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	82638957	TCAGA	T	360	PASS	C11orf82	Del	intronic	4	1	MSH6	child	11_82638957_TCAGAT_MSH6	4	4	2	CA	0	-	Microhomology-mediated
d964bf30-3299-11e6-bda6-065325c9da85	13_20841182_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	20841182	CT	C	840	PASS	-	Del	-	1	9	MSH6	child	13_20841182_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
d96e19fc-328c-11e6-bd84-429305ad5bc4	1_178240658_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	178240658	GT	G	480	PASS	RASAL2	Del	intronic	1	9	MSH6	child	1_178240658_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
d970bc04-3276-11e6-a2b7-2d8b671699ea	21_29888518_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	21	29888518	CA	C	300	PASS	AF131217.1	Del	intronic	1	8	MSH6	child	21_29888518_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
d97ec310-32a0-11e6-bc66-17b4cc638e3d	8_137983134_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	137983134	CT	C	660	PASS	RP11-30J20.1	Del	intronic	1	9	MSH6	child	8_137983134_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
d987fad4-325a-11e6-8b28-55ad7872c165	20_15367592_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	15367592	CT	C	660	PASS	MACROD2	Del	intronic	1	6	MSH6	child	20_15367592_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
d9888790-328e-11e6-8e48-791e0e01a414	8_83572955_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	83572955	GT	G	660	PASS	RP11-653B10.1	Del	intronic	1	4	MSH6	child	8_83572955_GTG_MSH6	1	1	1	T	3	T	Repeat-mediated
d989123c-3270-11e6-a539-0e5542c4520d	7_136444219_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	136444219	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	7_136444219_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
d98a0944-3257-11e6-91d3-a68412ae24cf	7_101450304_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	101450304	CA	C	540	PASS	-	Del	-	1	9	MSH6	child	7_101450304_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
d98af8ee-3320-11e6-9b79-b58f0cfb5812	1_90841635_GTG	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	1	90841635	GT	G	540	PASS	-	Del	-	1	7	POLE	child	1_90841635_GTG_POLE	1	1	1	T	6	T	Repeat-mediated
d98f2370-3284-11e6-a0a8-096ea2c71c31	11_43614318_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	43614318	AT	A	660	PASS	-	Del	-	1	9	MSH6	child	11_43614318_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
d992bbc4-329e-11e6-94ca-0aaecc638e3d	X_73343300_TGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	73343300	TG	T	480	PASS	FTX	Del	intronic	1	9	MSH6	child	X_73343300_TGT_MSH6	1	1	1	G	8	G	Repeat-mediated
d99a4952-328a-11e6-b74f-549ba2c71c31	20_42407154_AAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	42407154	A	AC	360	PASS	-	Ins	-	1	2	MSH6	child	20_42407154_AAC_MSH6	1	1	-	-	-	-	Ins
d99bcb78-3290-11e6-aa67-b667694da5d2	5_117746318_CAC	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	5	117746318	CA	C	540	PASS	-	Del	-	1	7	POLM	child	5_117746318_CAC_POLM	1	1	1	A	6	A	Repeat-mediated
d9a2d86c-328d-11e6-b9c4-751d0e01a414	5_107647433_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	107647433	GA	G	300	PASS	FBXL17	Del	intronic	1	7	MSH6	child	5_107647433_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
d9aa692e-3279-11e6-b7b5-ce91a78019ab	5_52801610_AAT	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	5	52801610	A	AT	840	PASS	-	Ins	-	1	8	NEIL1	child	5_52801610_AAT_NEIL1	1	1	-	-	-	-	Ins
d9b04ede-327e-11e6-b263-76d64dc77248	8_27273606_TAT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	8	27273606	TA	T	480	PASS	PTK2B	Del	intronic	1	9	NUDT1	child	8_27273606_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
d9b5e08c-328e-11e6-8952-77c36f39e758	10_92947278_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	92947278	T	TA	480	PASS	-	Ins	-	1	7	MSH6	child	10_92947278_TTA_MSH6	1	1	-	-	-	-	Ins
d9bdae76-3323-11e6-8527-5503694da5d2	X_33068537_TAT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	X	33068537	TA	T	720	PASS	DMD	Del	intronic	1	7	EXO1	child	X_33068537_TAT_EXO1	1	1	1	A	6	A	Repeat-mediated
d9c29948-3294-11e6-ae2c-d2ab9b6d3b88	3_97538728_GAG	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	3	97538728	GA	G	300	PASS	-	Del	-	1	9	NUDT1	child	3_97538728_GAG_NUDT1	1	1	1	A	8	A	Repeat-mediated
d9c9b1a2-3289-11e6-94b1-74090e01a414	17_30146337_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	30146337	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	17_30146337_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
d9ce75c8-3290-11e6-9d97-efe56f39e758	4_151166517_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	151166517	CT	C	480	PASS	DCLK2	Del	intronic	1	8	MSH6	child	4_151166517_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
d9cf629e-329f-11e6-aea7-956725c9da85	3_87172608_TCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	87172608	TC	T	600	PASS	-	Del	-	1	4	MSH6	child	3_87172608_TCT_MSH6	1	1	1	C	3	C	Repeat-mediated
d9e6eb8e-329b-11e6-8069-175325c9da85	12_117062385_AGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	117062385	AG	A	300	PASS	-	Del	-	1	1	MSH6	child	12_117062385_AGA_MSH6	1	1	0	-	0	G	None
d9ebdefe-3297-11e6-bfe3-c11ec7271a47	2_139238458_ATA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	2	139238458	AT	A	360	PASS	AC097721.2	Del	intronic	1	8	CHK2	child	2_139238458_ATA_CHK2	1	1	1	T	7	T	Repeat-mediated
da048322-3289-11e6-a100-84090e01a414	18_41447892_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	41447892	TA	T	300	PASS	-	Del	-	1	7	MSH6	child	18_41447892_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
da080230-3271-11e6-893b-b9a58a20d9eb	18_29838327_GTCG	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	18	29838327	GTC	G	660	PASS	-	Del	-	2	2	NEIL1	child	18_29838327_GTCG_NEIL1	2	2	2	TC	1	TC	Repeat-mediated
da088132-3277-11e6-92d2-c259c225ee11	3_113239334_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	113239334	GA	G	660	PASS	-	Del	-	1	5	MSH6	child	3_113239334_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
da0ba164-3272-11e6-9e18-3a69671699ea	10_30723930_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	30723930	GA	G	480	PASS	MAP3K8	Del	intronic	1	9	MSH6	child	10_30723930_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
da202fb0-3297-11e6-a8ac-ea4f3dc9300a	6_150016513_ACA	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	6	150016513	AC	A	360	PASS	LATS1	Del	intronic	1	4	POLB	child	6_150016513_ACA_POLB	1	1	1	C	3	C	Repeat-mediated
da23f382-3325-11e6-8edd-1f307246d362	3_102698189_CTC	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	3	102698189	CT	C	720	PASS	-	Del	-	1	7	CHK2	parent	3_102698189_CTC_CHK2	1	1	1	T	6	T	Repeat-mediated
da27a3e0-3278-11e6-a47c-77abeab8d062	5_2777686_CCG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	5	2777686	C	CG	540	PASS	-	Ins	-	1	3	EXO1	child	5_2777686_CCG_EXO1	1	1	-	-	-	-	Ins
da2b5ef6-3285-11e6-b093-c9c7b0dab373	2_115212288_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	115212288	CT	C	660	PASS	DPP10	Del	intronic	1	9	MSH6	child	2_115212288_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
da2e3e40-3254-11e6-bf41-357a7872c165	10_90030469_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	90030469	AT	A	600	PASS	RNLS	Del	downstream	1	8	MSH6	child	10_90030469_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
da319432-328b-11e6-ac7a-a3c36f39e758	18_22812827_TCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	22812827	TC	T	480	PASS	ZNF521	Del	intronic	1	6	MSH6	child	18_22812827_TCT_MSH6	1	1	1	C	5	C	Repeat-mediated
da376908-328a-11e6-b576-9f9ccdacbbbf	X_11772522_GAG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	X	11772522	GA	G	360	PASS	MSL3	Del	upstream	1	9	FANCC	child	X_11772522_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
da3a14b8-334e-11e6-9f94-b3873cfdbd24	6_88802834_AATGAAAATGGGCCCTAAG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	6	88802834	A	ATGAAAATGGGCCCTAAG	780	PASS	-	Ins	-	17	0	FANCC	child	6_88802834_AATGAAAATGGGCCCTAAG_FANCC	17	>=10	-	-	-	-	Ins
da3c8bc0-3278-11e6-a391-f6d67d6a9fc7	6_93149085_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	93149085	TA	T	1080	PASS	-	Del	-	1	7	MSH6	child	6_93149085_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
da41546e-3270-11e6-9309-bdc34a47a305	8_70033471_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	70033471	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	8_70033471_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
da474d64-329e-11e6-9c44-d26625c9da85	21_34860482_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	21	34860482	AT	A	1080	PASS	DNAJC28	Del	downstream	1	4	MSH6	child	21_34860482_ATA_MSH6	1	1	1	T	3	T	Repeat-mediated
da594d3e-326c-11e6-9793-9a8fb0dab373	13_37233774_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	37233774	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	13_37233774_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
da5cd8f2-3323-11e6-a276-86dbeab8d062	X_50671583_CATC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	X	50671583	CAT	C	540	PASS	-	Del	-	2	1	CHK2	child	X_50671583_CATC_CHK2	2	2	1	A	0	-	Microhomology-mediated
da5f6c34-326f-11e6-a6cd-d6ad4dc77248	2_79962585_AGA	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	2	79962585	AG	A	360	PASS	CTNNA2	Del	intronic	1	1	NUDT1	child	2_79962585_AGA_NUDT1	1	1	0	-	0	G	None
da61de3e-3291-11e6-9401-04ed6f39e758	3_130459667_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	130459667	GA	G	720	PASS	PIK3R4	Del	intronic	1	6	MSH6	child	3_130459667_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
da653f20-3273-11e6-8f33-a6d9cde16804	11_131877756_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	131877756	AT	A	660	PASS	NTM	Del	intronic	1	6	MSH6	child	11_131877756_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
da68e3d8-3277-11e6-8717-f13d8a20d9eb	6_7695622_GGAT	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	6	7695622	G	GAT	420	PASS	-	Ins	-	2	5	CHK2	child	6_7695622_GGAT_CHK2	2	2	-	-	-	-	Ins
da6bd50e-3284-11e6-9daa-026ea2c71c31	14_67597213_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	67597213	CT	C	660	PASS	GPHN	Del	intronic	1	9	MSH6	child	14_67597213_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
da6e78f6-329b-11e6-aca6-b39fcc638e3d	2_136607086_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	136607086	TA	T	960	PASS	MCM6	Del	intronic	1	7	MSH6	child	2_136607086_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
da72d97c-328d-11e6-b9c4-751d0e01a414	5_107815583_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	107815583	CT	C	300	PASS	-	Del	-	1	7	MSH6	child	5_107815583_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
da738a6c-3287-11e6-8feb-e6ab6f39e758	3_22168217_ATA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	3	22168217	AT	A	600	PASS	-	Del	-	1	1	EXO1	child	3_22168217_ATA_EXO1	1	1	0	-	0	T	None
da743802-3289-11e6-a100-84090e01a414	18_41630474_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	18	41630474	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	18_41630474_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
da755a3e-3257-11e6-91d3-a68412ae24cf	7_101664587_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	101664587	AT	A	780	PASS	CUX1	Del	intronic	1	9	MSH6	child	7_101664587_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
da781c50-32a3-11e6-aea7-956725c9da85	3_154125508_CCACACACACACAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	154125508	C	CACACACACACAT	420	PASS	GPR149	Ins	intronic	12	0	MSH6	child	3_154125508_CCACACACACACAT_MSH6	12	>=10	-	-	-	-	Ins
da796628-3271-11e6-8418-1c5942c4520d	3_178387149_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	178387149	CA	C	420	PASS	KCNMB2	Del	intronic	1	8	MSH6	child	3_178387149_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
da7a749c-3270-11e6-b5b8-e0c24a47a305	X_92327926_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	92327926	CT	C	468	PASS	-	Del	-	1	9	MSH6	child	X_92327926_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
da7e8364-328b-11e6-b805-77090e01a414	2_173335325_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	173335325	CA	C	300	PASS	ITGA6	Del	intronic	1	8	MSH6	child	2_173335325_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
da843b30-3284-11e6-99f7-076ea2c71c31	12_42718460_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	42718460	TA	T	780	PASS	PPHLN1	Del	upstream	1	8	MSH6	child	12_42718460_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
da86bdd0-326e-11e6-b264-9097fa52e078	17_10913251_ACA	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	17	10913251	AC	A	480	PASS	-	Del	-	1	1	POLM	child	17_10913251_ACA_POLM	1	1	0	-	0	C	None
da8fdfbe-329b-11e6-ae71-0c5325c9da85	1_109565536_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	109565536	AT	A	420	PASS	WDR47	Del	intronic	1	7	MSH6	child	1_109565536_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
da94f014-3271-11e6-aebf-545f42c4520d	5_43408740_TAT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	5	43408740	TA	T	780	PASS	CCL28	Del	intronic	1	9	POLB	child	5_43408740_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
da9cdcf6-3272-11e6-aebf-545f42c4520d	5_137824743_TAGT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	5	137824743	TAG	T	540	PASS	-	Del	-	2	2	POLB	child	5_137824743_TAGT_POLB	2	2	2	AG	1	AG	Repeat-mediated
daa3f56a-329d-11e6-a5cf-e5abcc638e3d	9_122187139_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	122187139	AT	A	360	PASS	-	Del	-	1	6	MSH6	child	9_122187139_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
daa4eb84-3296-11e6-90ba-2866a178171f	5_114863543_CAC	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	5	114863543	CA	C	300	PASS	FEM1C	Del	intronic	1	5	NEIL1	child	5_114863543_CAC_NEIL1	1	1	1	A	4	A	Repeat-mediated
daa57ef6-3272-11e6-b332-88ba7d6a9fc7	15_41580023_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	41580023	CA	C	780	PASS	OIP5-AS1	Del	intronic	1	9	MSH6	child	15_41580023_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
daa78f52-326d-11e6-b306-b5204b47a305	2_109359254_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	109359254	AT	A	456	PASS	RANBP2	Del	intronic	1	8	MSH6	child	2_109359254_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
daa7d448-3287-11e6-b32c-fd87a2c71c31	5_177571977_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	177571977	GT	G	900	PASS	RMND5B	Del	intronic	1	7	MSH6	child	5_177571977_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
daaba9e4-3253-11e6-8ebc-3ef212ae24cf	15_33987756_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	33987756	CA	C	420	PASS	RYR3	Del	intronic	1	7	MSH6	child	15_33987756_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
daadd08e-326c-11e6-b2ac-b6204b47a305	17_13793665_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	13793665	CA	C	360	PASS	-	Del	-	1	6	MSH6	child	17_13793665_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
dab3648a-3281-11e6-81fd-f903987b3f23	2_21740467_CTC	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	2	21740467	CT	C	420	PASS	AC011752.1	Del	intronic	1	8	NEIL1	parent	2_21740467_CTC_NEIL1	1	1	1	T	7	T	Repeat-mediated
dab5507a-328a-11e6-b805-77090e01a414	2_105154303_TCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	105154303	TC	T	660	PASS	-	Del	-	1	7	MSH6	child	2_105154303_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
dab727a2-328e-11e6-9d24-ade56f39e758	7_18087144_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	18087144	TA	T	660	PASS	-	Del	-	1	9	MSH6	child	7_18087144_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
dabf1556-326c-11e6-9d68-ac9acab49462	15_31866437_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	31866437	GA	G	300	PASS	OTUD7A	Del	intronic	1	6	MSH6	child	15_31866437_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
dacab13a-328b-11e6-bd84-429305ad5bc4	1_39915068_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	39915068	CT	C	660	PASS	MACF1	Del	intronic	1	8	MSH6	child	1_39915068_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
dad20e00-328e-11e6-9432-c0e56f39e758	5_19714655_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	19714655	AT	A	420	PASS	CDH18	Del	intronic	1	8	MSH6	child	5_19714655_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
dad49ade-328f-11e6-9d24-ade56f39e758	7_82709780_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	82709780	AT	A	480	PASS	PCLO	Del	intronic	1	7	MSH6	child	7_82709780_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
dad9af84-3284-11e6-a8af-066ea2c71c31	15_51415449_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	51415449	GT	G	300	PASS	RP11-108K3.1	Del	intronic	1	7	MSH6	child	15_51415449_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
dae50954-328b-11e6-8952-77c36f39e758	10_18743312_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	18743312	GT	G	720	PASS	CACNB2	Del	intronic	1	7	MSH6	child	10_18743312_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
dae7cf2c-3254-11e6-bf41-357a7872c165	10_90257605_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	90257605	TA	T	540	PASS	RNLS	Del	intronic	1	6	MSH6	child	10_90257605_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
dae917ce-3326-11e6-95a6-476ac042253c	3_132353213_CCAGTTAGAATGGCGATC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	3	132353213	CCAGTTAGAATGGCGAT	C	328	PASS	ACAD11	Del	intronic	16	1	CHK2	child	3_132353213_CCAGTTAGAATGGCGATC_CHK2	16	>=10	2	CA	0	-	Microhomology-mediated
daec2742-3273-11e6-9c0f-f6f412ae24cf	16_58606440_AGA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	16	58606440	AG	A	300	PASS	CNOT1	Del	intronic	1	6	EXO1	child	16_58606440_AGA_EXO1	1	1	1	G	5	G	Repeat-mediated
dafb9b98-328f-11e6-9d24-ade56f39e758	7_82728632_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	82728632	GA	G	300	PASS	PCLO	Del	intronic	1	9	MSH6	child	7_82728632_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
dafbd4b0-327a-11e6-a391-f6d67d6a9fc7	6_43987775_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	43987775	A	AT	600	PASS	-	Ins	-	1	4	MSH6	child	6_43987775_AAT_MSH6	1	1	-	-	-	-	Ins
db0494ae-3290-11e6-b184-c4257a852e0e	12_103681499_CAC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	12	103681499	CA	C	300	PASS	C12orf42	Del	intronic	1	8	CHK2	child	12_103681499_CAC_CHK2	1	1	1	A	7	A	Repeat-mediated
db04f1e0-326f-11e6-a539-0e5542c4520d	7_64705189_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	64705189	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	7_64705189_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
db085a52-3273-11e6-97a4-7a51e7d0bdd7	12_70778506_ATA	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	12	70778506	AT	A	480	PASS	KCNMB4	Del	intronic	1	9	POLB	child	12_70778506_ATA_POLB	1	1	1	T	8	T	Repeat-mediated
db08d9f0-327d-11e6-b3cc-ea7df7be831b	4_152760379_ATA	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	4	152760379	AT	A	600	PASS	-	Del	-	1	6	FANCC	parent	4_152760379_ATA_FANCC	1	1	1	T	5	T	Repeat-mediated
db0aab74-3320-11e6-b73c-6a3781635058	1_42018997_CTC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	1	42018997	CT	C	420	PASS	HIVEP3	Del	intronic	1	8	CHK2	child	1_42018997_CTC_CHK2	1	1	1	T	7	T	Repeat-mediated
db0abaf8-328d-11e6-b9c4-751d0e01a414	5_108018019_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	108018019	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	5_108018019_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
db0cb612-326c-11e6-b9f4-5d1d694da5d2	14_37382184_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	37382184	CT	C	600	PASS	SLC25A21	Del	intronic	1	9	MSH6	child	14_37382184_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
db13da36-3290-11e6-92cf-bf2a0e01a414	6_132898895_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	132898895	CA	C	360	PASS	-	Del	-	1	7	MSH6	child	6_132898895_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
db2712aa-3276-11e6-b068-16d27d6a9fc7	6_30151359_CAGC	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	6	30151359	CAG	C	360	PASS	TRIM26	Del	downstream	2	3	NEIL1	child	6_30151359_CAGC_NEIL1	2	2	2	AG	2	AG	Repeat-mediated
db277ac2-328c-11e6-8256-94c36f39e758	17_66256996_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	66256996	GA	G	1020	PASS	ARSG	Del	intronic	1	9	MSH6	child	17_66256996_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
db2ab278-3273-11e6-a279-106e671699ea	3_60874835_ATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	3	60874835	AT	A	600	PASS	FHIT	Del	intronic	1	8	EXO1	parent	3_60874835_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
db2d13d8-3287-11e6-9bc8-5079a178171f	15_92953798_TGCACGTAACGGGATGTAGAAAAT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	15	92953798	TGCACGTAACGGGATGTAGAAAA	T	480	PASS	ST8SIA2	Del	intronic	22	1	FANCC	child	15_92953798_TGCACGTAACGGGATGTAGAAAAT_FANCC	22	>=10	2	GC	0	-	Microhomology-mediated
db2e8b12-3270-11e6-b923-6726694da5d2	5_99446309_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	99446309	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	5_99446309_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
db2f0bc4-3288-11e6-8909-3ebb38e8a824	9_235005_GTG	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	9	235005	GT	G	720	PASS	DOCK8	Del	intronic	1	7	NUDT1	parent	9_235005_GTG_NUDT1	1	1	1	T	6	T	Repeat-mediated
db3724de-3275-11e6-8c64-8432c7271a47	3_105178838_GAG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	3	105178838	GA	G	660	PASS	ALCAM	Del	intronic	1	6	MSH6	parent	3_105178838_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
db415f30-328e-11e6-9432-c0e56f39e758	5_19788402_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	19788402	CA	C	420	PASS	CDH18	Del	intronic	1	7	MSH6	child	5_19788402_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
db47ac0a-328e-11e6-9c89-8d090e01a414	1_62449838_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	62449838	T	TA	300	PASS	INADL	Ins	intronic	1	1	MSH6	child	1_62449838_TTA_MSH6	1	1	-	-	-	-	Ins
db4b8f7a-328c-11e6-ae53-96c36f39e758	15_71528623_GCG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	71528623	GC	G	360	PASS	THSD4	Del	intronic	1	6	MSH6	child	15_71528623_GCG_MSH6	1	1	1	C	5	C	Repeat-mediated
db4f7dd4-3272-11e6-a5d0-4fd14a47a305	2_40208126_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	40208126	CT	C	420	PASS	-	Del	-	1	8	MSH6	child	2_40208126_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
db5defbe-3276-11e6-9bb2-e658c225ee11	20_60349569_ATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	20	60349569	AT	A	660	PASS	CDH4	Del	intronic	1	8	EXO1	parent	20_60349569_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
db5e2d3a-3299-11e6-b723-b29fcc638e3d	19_2312866_GCG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	2312866	GC	G	600	PASS	LINGO3	Del	upstream	1	6	MSH6	child	19_2312866_GCG_MSH6	1	1	1	C	5	C	Repeat-mediated
db633ed2-326d-11e6-acc7-e55219a91649	1_120348731_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	120348731	CT	C	420	PASS	REG4	Del	intronic	1	9	MSH6	child	1_120348731_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
db69e694-3289-11e6-b74f-549ba2c71c31	20_2089154_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	2089154	CA	C	780	PASS	STK35	Del	intronic	1	9	MSH6	child	20_2089154_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
db740808-3299-11e6-ae71-0c5325c9da85	1_2194163_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	2194163	GT	G	660	PASS	SKI	Del	intronic	1	9	MSH6	child	1_2194163_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
db75ea7c-3287-11e6-a21c-b819bce6aa09	X_137547373_TCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	137547373	TC	T	300	PASS	-	Del	-	1	7	MSH6	child	X_137547373_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
db7944f4-3293-11e6-8d91-0b8730158702	1_213967243_CTC	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	1	213967243	CT	C	600	PASS	RP11-323I1.1	Del	intronic	1	8	NUDT1	child	1_213967243_CTC_NUDT1	1	1	1	T	7	T	Repeat-mediated
db7a20ca-3290-11e6-9230-fb250e01a414	3_192045499_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	192045499	CT	C	300	PASS	FGF12	Del	intronic	1	7	MSH6	child	3_192045499_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
db7b88de-3254-11e6-bf41-357a7872c165	10_90623371_ACA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	90623371	AC	A	540	PASS	-	Del	-	1	3	MSH6	child	10_90623371_ACA_MSH6	1	1	1	C	2	C	Repeat-mediated
db9360a2-3291-11e6-9401-04ed6f39e758	3_130906478_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	130906478	AT	A	420	PASS	NEK11	Del	intronic	1	8	MSH6	child	3_130906478_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
db988bd2-3290-11e6-92cf-bf2a0e01a414	6_133025780_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	133025780	AT	A	300	PASS	VNN1	Del	intronic	1	7	MSH6	child	6_133025780_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
db98a910-326c-11e6-9fba-41ebd8b4fa2c	11_12197028_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	12197028	CA	C	360	PASS	MICAL2	Del	intronic	1	8	MSH6	child	11_12197028_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
dba4088a-3287-11e6-817a-6b15987b3f23	8_19343649_CCA	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	8	19343649	C	CA	420	PASS	CSGALNACT1	Ins	intronic	1	7	NEIL1	parent	8_19343649_CCA_NEIL1	1	1	-	-	-	-	Ins
dbb4cf0c-3292-11e6-9eb4-6cb54430f757	3_49931343_AAT	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	3	49931343	A	AT	356	PASS	MST1R	Ins	intronic	1	1	POLE	child	3_49931343_AAT_POLE	1	1	-	-	-	-	Ins
dbbc3a82-3321-11e6-aa01-c73272d7bc54	12_109215867_TTGTCACCCAGGCTGGAGTGCAGTGGCGCAATCGTGGCTCACTGAGCAACACAGTGAGCAACATAGTGAGACCTCATTTACATACACACCCACAAAAAACTAGCTGGCTGTGGTGACACATCAGCCTCGACCTCCTGGGCTCAAGCAATCCTCCCACCTCAGCCCCCAACCTTGCTGGGATTACAGGCATGCGCCACCACGCCCAGCTAATTTTTGTATTTTTTGCAGAGATAGGGTTTCACTGTGTTGTTCGGGTTAGTCTGGAACTCCTGGGTTCAAGCGAGATCTGCCCACCTTGGCCTCCCAAATCCTGGAATTACAGGCAAGAGCCACCGTGCCTGGCCATAAGTGTGTTTTGTTGTTATTGTTTTTAAGAAACAGAGTCTCTCTCT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	12	109215867	TTGTCACCCAGGCTGGAGTGCAGTGGCGCAATCGTGGCTCACTGAGCAACACAGTGAGCAACATAGTGAGACCTCATTTACATACACACCCACAAAAAACTAGCTGGCTGTGGTGACACATCAGCCTCGACCTCCTGGGCTCAAGCAATCCTCCCACCTCAGCCCCCAACCTTGCTGGGATTACAGGCATGCGCCACCACGCCCAGCTAATTTTTGTATTTTTTGCAGAGATAGGGTTTCACTGTGTTGTTCGGGTTAGTCTGGAACTCCTGGGTTCAAGCGAGATCTGCCCACCTTGGCCTCCCAAATCCTGGAATTACAGGCAAGAGCCACCGTGCCTGGCCATAAGTGTGTTTTGTTGTTATTGTTTTTAAGAAACAGAGTCTCTCTC	T	300	PASS	SSH1	Del	intronic	390	1	EXO1	child	12_109215867_TTGTCACCCAGGCTGGAGTGCAGTGGCGCAATCGTGGCTCACTGAGCAACACAGTGAGCAACATAGTGAGACCTCATTTACATACACACCCACAAAAAACTAGCTGGCTGTGGTGACACATCAGCCTCGACCTCCTGGGCTCAAGCAATCCTCCCACCTCAGCCCCCAACCTTGCTGGGATTACAGGCATGCGCCACCACGCCCAGCTAATTTTTGTATTTTTTGCAGAGATAGGGTTTCACTGTGTTGTTCGGGTTAGTCTGGAACTCCTGGGTTCAAGCGAGATCTGCCCACCTTGGCCTCCCAAATCCTGGAATTACAGGCAAGAGCCACCGTGCCTGGCCATAAGTGTGTTTTGTTGTTATTGTTTTTAAGAAACAGAGTCTCTCTCT_EXO1	390	>=10	27	TGTCACCCAGGCTGGAGTGCAGTGGCG	0	-	Microhomology-mediated
dbbecb5c-3255-11e6-9d5a-0c8112ae24cf	9_1827864_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	1827864	AT	A	360	PASS	-	Del	-	1	1	MSH6	child	9_1827864_ATA_MSH6	1	1	0	-	0	T	None
dbcc645c-3286-11e6-a7ff-5779a178171f	10_78187563_TAT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	10	78187563	TA	T	300	PASS	C10orf11	Del	intronic	1	1	FANCC	child	10_78187563_TAT_FANCC	1	1	0	-	0	A	None
dbce66fa-328e-11e6-b4fe-93c36f39e758	12_60049488_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	60049488	G	GT	360	PASS	SLC16A7	Ins	intronic	1	6	MSH6	child	12_60049488_GGT_MSH6	1	1	-	-	-	-	Ins
dbf34e3c-3272-11e6-aa3b-ca60a178171f	13_48179820_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	48179820	GA	G	360	PASS	-	Del	-	1	7	MSH6	child	13_48179820_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
dbf5e2f2-3270-11e6-9309-bdc34a47a305	8_70609311_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	70609311	TA	T	300	PASS	SLCO5A1	Del	intronic	1	9	MSH6	child	8_70609311_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
dbfb3b36-329c-11e6-aca6-b39fcc638e3d	2_200312295_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	200312295	CA	C	600	PASS	SATB2	Del	intronic	1	9	MSH6	child	2_200312295_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
dc01785e-328b-11e6-88c1-95c36f39e758	14_38952178_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	38952178	GA	G	360	PASS	-	Del	-	1	8	MSH6	child	14_38952178_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
dc017e24-3323-11e6-8ccd-5c056323ba5a	2_155988068_GAG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	2	155988068	GA	G	420	PASS	-	Del	-	1	8	EXO1	child	2_155988068_GAG_EXO1	1	1	1	A	7	A	Repeat-mediated
dc04d1bc-3280-11e6-884f-bffbf121c733	19_36236213_ACA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	19	36236213	AC	A	480	PASS	PSENEN	Del	5prime_UTR_variant	1	6	FANCC	child	19_36236213_ACA_FANCC	1	1	1	C	5	C	Repeat-mediated
dc0e859a-3325-11e6-bd6e-9bc7cde16804	6_98471695_ACTA	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	6	98471695	ACT	A	660	PASS	RP11-436D23.1	Del	intronic	2	3	CHK2	child	6_98471695_ACTA_CHK2	2	2	2	CT	2	CT	Repeat-mediated
dc16385c-3277-11e6-909e-86e86de4ab00	3_33172757_CGC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	3	33172757	CG	C	360	PASS	CRTAP	Del	intronic	1	9	EXO1	child	3_33172757_CGC_EXO1	1	1	1	G	8	G	Repeat-mediated
dc17beb2-329e-11e6-91d0-016425c9da85	7_80954208_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	80954208	CT	C	840	PASS	-	Del	-	1	7	MSH6	child	7_80954208_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
dc1f4ebe-3287-11e6-a5b3-3f1ebce6aa09	7_132209335_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	132209335	CT	C	420	PASS	PLXNA4	Del	intronic	1	8	MSH6	child	7_132209335_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
dc21cf3e-3275-11e6-83cd-a472a178171f	4_56391642_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	56391642	TA	T	360	PASS	CLOCK	Del	intronic	1	7	MSH6	child	4_56391642_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
dc228cea-326f-11e6-819e-9d1aa20b69d5	11_88497056_TTAAATGT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	11	88497056	TTAAATG	T	480	PASS	GRM5	Del	intronic	6	1	EXO1	parent	11_88497056_TTAAATGT_EXO1	6	6	5	TAAAT	0	-	Microhomology-mediated
dc293102-329d-11e6-91d0-016425c9da85	7_23619377_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	23619377	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	7_23619377_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
dc30a19a-329c-11e6-94ca-0aaecc638e3d	X_407077_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	407077	AC	A	780	PASS	-	Del	-	1	5	MSH6	child	X_407077_ACA_MSH6	1	1	1	C	4	C	Repeat-mediated
dc3a5b08-3284-11e6-9daa-026ea2c71c31	14_68305934_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	68305934	CT	C	420	PASS	RAD51B	Del	intronic	1	7	MSH6	child	14_68305934_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
dc3f935a-3295-11e6-9985-7c540d016689	6_122187898_ACTA	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	6	122187898	ACT	A	360	PASS	-	Del	-	2	2	NUDT1	child	6_122187898_ACTA_NUDT1	2	2	2	CT	1	CT	Repeat-mediated
dc4106f6-3275-11e6-946d-9c2bc7271a47	2_80781002_ACATGAATT	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	2	80781002	ACATG	AATT	360	PASS	CTNNA2	Complex	intronic	4	0	POLB	child	2_80781002_ACATGAATT_POLB	1	1	-	-	-	-	Complex
dc430554-328a-11e6-b805-77090e01a414	2_105661507_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	105661507	GA	G	300	PASS	MRPS9	Del	intronic	1	7	MSH6	child	2_105661507_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
dc455368-3271-11e6-8418-1c5942c4520d	3_179020402_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	179020402	CA	C	480	PASS	-	Del	-	1	5	MSH6	child	3_179020402_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
dc4b2d46-329f-11e6-91d0-016425c9da85	7_140209122_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	140209122	CA	C	360	PASS	-	Del	-	1	7	MSH6	child	7_140209122_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
dc4b4f00-3291-11e6-b77d-2eef6f39e758	6_92545952_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	92545952	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	6_92545952_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
dc4b64d8-3299-11e6-b549-1e5325c9da85	10_2727081_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	2727081	GT	G	720	PASS	-	Del	-	1	6	MSH6	child	10_2727081_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
dc4c9206-3283-11e6-bab4-eb3afc1f1540	1_87789851_CCA	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	1	87789851	C	CA	300	PASS	LMO4	Ins	upstream	1	9	FANCC	child	1_87789851_CCA_FANCC	1	1	-	-	-	-	Ins
dc5073fc-3257-11e6-a7ac-209a7872c165	22_43229762_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	22	43229762	CA	C	720	PASS	ARFGAP3	Del	intronic	1	8	MSH6	child	22_43229762_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
dc5e67a6-3328-11e6-9673-d7281daa6045	X_40977940_GAG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	X	40977940	GA	G	780	PASS	USP9X	Del	intronic	1	8	EXO1	child	X_40977940_GAG_EXO1	1	1	1	A	7	A	Repeat-mediated
dc64174e-329e-11e6-94ca-0aaecc638e3d	X_74161636_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	74161636	GT	G	660	PASS	-	Del	-	1	9	MSH6	child	X_74161636_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
dc6944d0-3258-11e6-a39a-dc8512ae24cf	8_74637097_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	74637097	AT	A	480	PASS	STAU2	Del	intronic	1	6	MSH6	child	8_74637097_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
dc6a7d9c-3270-11e6-9d19-c216987b3f23	21_42296606_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	21	42296606	CA	C	420	PASS	-	Del	-	1	9	MSH6	child	21_42296606_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
dc72be1c-3289-11e6-8eee-76090e01a414	10_35605581_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	35605581	CA	C	540	PASS	CCNY	Del	intronic	1	8	MSH6	child	10_35605581_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
dc74e93a-3289-11e6-b74f-549ba2c71c31	20_2430509_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	2430509	TA	T	780	PASS	-	Del	-	1	8	MSH6	child	20_2430509_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
dc7b21ee-3273-11e6-8655-1dc619a91649	19_28437620_TTTCTTGCCT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	19	28437620	TTTCTTGCC	T	540	PASS	-	Del	-	8	1	EXO1	child	19_28437620_TTTCTTGCCT_EXO1	8	8	4	TTCT	0	-	Microhomology-mediated
dc84e1e8-3282-11e6-aa13-78428e4678dd	5_17802191_CTC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	5	17802191	CT	C	660	PASS	RP11-454P21.1	Del	intronic	1	9	EXO1	child	5_17802191_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
dc852da6-3291-11e6-a2c1-b9370d016689	12_24568356_GTG	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	12	24568356	GT	G	300	PASS	RP11-444D3.1	Del	intronic	1	8	NUDT1	child	12_24568356_GTG_NUDT1	1	1	1	T	7	T	Repeat-mediated
dc86601e-3290-11e6-84a5-b1e2977b3f23	7_147364903_TAT	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	7	147364903	TA	T	300	PASS	CNTNAP2	Del	intronic	1	8	NEIL1	child	7_147364903_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
dc8f7146-3276-11e6-a2b7-2d8b671699ea	21_30568651_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	21	30568651	CT	C	420	PASS	BACH1	Del	intronic	1	8	MSH6	child	21_30568651_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
dc91a680-3291-11e6-8d18-13cc0d01a414	20_10581068_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	20	10581068	CT	C	420	PASS	SLX4IP	Del	intronic	1	7	MSH6	child	20_10581068_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
dc9faff0-3287-11e6-a21c-b819bce6aa09	X_138534938_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	138534938	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	X_138534938_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
dca190b8-32a0-11e6-aea7-956725c9da85	3_161924953_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	161924953	AT	A	660	PASS	-	Del	-	1	9	MSH6	child	3_161924953_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
dca8d3b2-328e-11e6-9d97-efe56f39e758	4_16667382_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	16667382	GA	G	720	PASS	LDB2	Del	intronic	1	9	MSH6	child	4_16667382_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
dcae44bc-326d-11e6-9fba-41ebd8b4fa2c	11_49452709_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	49452709	CA	C	288	PASS	-	Del	-	1	8	MSH6	child	11_49452709_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
dcb0b302-328e-11e6-9230-fb250e01a414	3_60092083_ATCTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	60092083	ATCT	A	1020	PASS	FHIT	Del	intronic	3	2	MSH6	child	3_60092083_ATCTA_MSH6	3	3	3	TCT	1	TCT	Repeat-mediated
dcb94d94-3277-11e6-9484-e5b5cc638e3d	6_9547173_GTG	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	6	9547173	GT	G	360	PASS	-	Del	-	1	2	EXO1	child	6_9547173_GTG_EXO1	1	1	1	T	1	T	Repeat-mediated
dcd03240-3257-11e6-8cd9-139b7872c165	3_24114569_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	24114569	AT	A	600	PASS	-	Del	-	1	7	MSH6	child	3_24114569_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
dcd25716-32a0-11e6-bc66-17b4cc638e3d	8_139057705_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	139057705	CT	C	280	PASS	RP11-238K6.1	Del	intronic	1	7	MSH6	child	8_139057705_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
dcd2b102-3278-11e6-9972-dabcecf1e924	3_115817601_ATA	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	3	115817601	AT	A	720	PASS	LSAMP	Del	intronic	1	9	NEIL1	child	3_115817601_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
dcd3f5d8-3284-11e6-99f7-076ea2c71c31	12_43227176_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	43227176	GT	G	420	PASS	-	Del	-	1	7	MSH6	child	12_43227176_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
dcd5453c-3270-11e6-b5b8-e0c24a47a305	X_93285851_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	93285851	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	X_93285851_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
dce765c8-3289-11e6-a32d-75090e01a414	14_57219088_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	57219088	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	14_57219088_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
dce8cffa-326e-11e6-acf0-009e38e8a824	13_30745286_CCTAAATTACTGCTGTTTCTGGGAC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	13	30745286	CCTAAATTACTGCTGTTTCTGGGA	C	480	PASS	-	Del	-	23	1	NEIL1	child	13_30745286_CCTAAATTACTGCTGTTTCTGGGAC_NEIL1	23	>=10	4	CTAA	0	-	Microhomology-mediated
dceae37a-326f-11e6-8a0d-fc4238e8a824	1_96105781_ACA	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	1	96105781	AC	A	660	PASS	RP11-286B14.1	Del	intronic	1	4	POLM	child	1_96105781_ACA_POLM	1	1	1	C	3	C	Repeat-mediated
dceb2fc0-3278-11e6-9d67-093b98ba1142	4_173040928_CCTC	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	4	173040928	CCT	C	540	PASS	GALNTL6	Del	intronic	2	2	POLM	child	4_173040928_CCTC_POLM	2	2	2	CT	1	CT	Repeat-mediated
dcedca08-3284-11e6-90da-f3a469062303	6_34349293_CAC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	6	34349293	CA	C	480	PASS	NUDT3	Del	intronic	1	9	FANCC	child	6_34349293_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
dceef24a-3255-11e6-8a2a-3af212ae24cf	16_53798642_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	16	53798642	A	AT	420	PASS	FTO	Ins	intronic	1	8	MSH6	child	16_53798642_AAT_MSH6	1	1	-	-	-	-	Ins
dceff27a-3283-11e6-9911-40af90e2c2e6	20_29990862_TAT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	20	29990862	TA	T	600	PASS	DEFB121	Del	downstream	1	9	NUDT1	child	20_29990862_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
dcf26088-3291-11e6-9413-6a7219a91649	5_92287044_CTC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	5	92287044	CT	C	480	PASS	-	Del	-	1	7	NEIL1	child	5_92287044_CTC_NEIL1	1	1	1	T	6	T	Repeat-mediated
dcf5d982-3284-11e6-a8af-066ea2c71c31	15_52126410_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	52126410	GT	G	600	PASS	TMOD3	Del	intronic	1	9	MSH6	child	15_52126410_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
dcfda6de-3285-11e6-86e9-d4770d016689	X_49747142_GGAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	X	49747142	GGA	G	480	PASS	CLCN5	Del	intronic	2	4	EXO1	child	X_49747142_GGAG_EXO1	2	2	2	GA	3	GA	Repeat-mediated
dcfdb908-328a-11e6-b805-77090e01a414	2_105856843_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	105856843	CT	C	420	PASS	GPR45	Del	upstream	1	9	MSH6	child	2_105856843_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
dd00c728-3272-11e6-b337-78fbd8b4fa2c	2_171202817_ATA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	2	171202817	AT	A	360	PASS	MYO3B	Del	intronic	1	9	POLB	child	2_171202817_ATA_POLB	1	1	1	T	8	T	Repeat-mediated
dd0ce4d4-3274-11e6-865b-486635761512	18_5125177_CAC	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	18	5125177	CA	C	660	PASS	-	Del	-	1	7	POLM	child	18_5125177_CAC_POLM	1	1	1	A	6	A	Repeat-mediated
dd170938-328c-11e6-8621-65d8191589db	4_62326331_CGAGACTGGGTAATATATAAAGAAAAAGGGGTTTAGTATACTCACAGTTCCACATGGCTGGGGAGGCCTCACAATCATGGTGGAAGGCAAAGGAGGAGAAAGGCATATCTTTCATGGCAGCAGGCAAGAGAGAAGCCAAGCAAAAGGGGAAACCCTTTATAAAACCATCAGATCGGCCAGGCGCAGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGCAGATCACCTGAGATCAGAAGTTCAAGACCAGCCTGGCCAACAATGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCCAGGCGCGGTGGCAGGCACCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAGCCTGGC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	4	62326331	CGAGACTGGGTAATATATAAAGAAAAAGGGGTTTAGTATACTCACAGTTCCACATGGCTGGGGAGGCCTCACAATCATGGTGGAAGGCAAAGGAGGAGAAAGGCATATCTTTCATGGCAGCAGGCAAGAGAGAAGCCAAGCAAAAGGGGAAACCCTTTATAAAACCATCAGATCGGCCAGGCGCAGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGCAGATCACCTGAGATCAGAAGTTCAAGACCAGCCTGGCCAACAATGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCCAGGCGCGGTGGCAGGCACCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAGCCTGG	C	300	PASS	LPHN3	Del	intronic	383	1	FANCC	child	4_62326331_CGAGACTGGGTAATATATAAAGAAAAAGGGGTTTAGTATACTCACAGTTCCACATGGCTGGGGAGGCCTCACAATCATGGTGGAAGGCAAAGGAGGAGAAAGGCATATCTTTCATGGCAGCAGGCAAGAGAGAAGCCAAGCAAAAGGGGAAACCCTTTATAAAACCATCAGATCGGCCAGGCGCAGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGCAGATCACCTGAGATCAGAAGTTCAAGACCAGCCTGGCCAACAATGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCCAGGCGCGGTGGCAGGCACCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAGCCTGGC_FANCC	383	>=10	3	GAG	0	-	Microhomology-mediated
dd1e6d66-3324-11e6-ba0a-ab9864f80bad	5_80308102_ATA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	5	80308102	AT	A	480	PASS	RASGRF2	Del	intronic	1	9	EXO1	child	5_80308102_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
dd20bdba-3274-11e6-bfb2-2749c225ee11	12_21805809_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	21805809	A	AT	540	PASS	LDHB	Ins	intronic	1	6	MSH6	child	12_21805809_AAT_MSH6	1	1	-	-	-	-	Ins
dd260b50-327c-11e6-a360-ea8590e2c2e6	11_58000873_CAC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	11	58000873	CA	C	540	PASS	OR10Q1	Del	upstream	1	7	NUDT1	child	11_58000873_CAC_NUDT1	1	1	1	A	6	A	Repeat-mediated
dd2aefc6-329a-11e6-b723-b29fcc638e3d	19_38864391_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	19	38864391	AT	A	480	PASS	CATSPERG	Del	downstream	1	8	MSH6	child	19_38864391_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
dd33f87c-3287-11e6-940d-53a538e8a824	2_67016489_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	2	67016489	CT	C	540	PASS	-	Del	-	1	9	NUDT1	parent	2_67016489_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
dd35045e-3293-11e6-83fc-8f4c0d016689	4_47662102_GAG	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	4	47662102	GA	G	480	PASS	CORIN	Del	intronic	1	3	NUDT1	child	4_47662102_GAG_NUDT1	1	1	1	A	2	A	Repeat-mediated
dd35bc56-329c-11e6-b129-195325c9da85	16_60358923_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	60358923	G	GA	600	PASS	-	Ins	-	1	6	MSH6	child	16_60358923_GGA_MSH6	1	1	-	-	-	-	Ins
dd38043c-3285-11e6-be43-0a6ea2c71c31	10_125220167_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	125220167	TA	T	480	PASS	RP11-282I1.1	Del	intronic	1	5	MSH6	child	10_125220167_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
dd41ff68-3321-11e6-94fd-ff28038949d4	15_86248686_GAG	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	15	86248686	GA	G	780	PASS	AKAP13	Del	intronic	1	8	CHK2	parent	15_86248686_GAG_CHK2	1	1	1	A	7	A	Repeat-mediated
dd4b9e0c-334d-11e6-9c63-4b9e38e8a824	8_131916534_CCT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	8	131916534	C	CT	360	PASS	ADCY8	Ins	intronic	1	0	FANCC	child	8_131916534_CCT_FANCC	1	1	-	-	-	-	Ins
dd4e84fa-328f-11e6-b10a-17a5e7d0bdd7	1_188068685_ATATATCA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	1	188068685	ATATATC	A	300	PASS	-	Del	-	6	1	FANCC	child	1_188068685_ATATATCA_FANCC	6	6	3	TAT	0	-	Microhomology-mediated
dd4eb144-3287-11e6-a284-4b89a2c71c31	4_123541669_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	123541669	AT	A	420	PASS	IL21	Del	intronic	1	6	MSH6	child	4_123541669_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
dd4fcc9e-328e-11e6-8f31-bfe16f39e758	9_83343541_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	83343541	TA	T	362	PASS	-	Del	-	1	6	MSH6	child	9_83343541_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
dd58e926-3277-11e6-a47c-77abeab8d062	5_116905060_CTC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	5	116905060	CT	C	420	PASS	-	Del	-	1	8	EXO1	child	5_116905060_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
dd5ae630-3273-11e6-90ac-b4c37872c165	8_68522568_TCCAGACTCT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	8	68522568	TCCAGACTC	T	780	PASS	CPA6	Del	intronic	8	1	NEIL1	child	8_68522568_TCCAGACTCT_NEIL1	8	8	1	C	0	-	Microhomology-mediated
dd715eea-3284-11e6-9daa-026ea2c71c31	14_68929956_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	68929956	CA	C	720	PASS	RAD51B	Del	intronic	1	7	MSH6	child	14_68929956_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
dd72c990-3272-11e6-ad8b-494f3cfdbd24	7_71681398_TTAT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	7	71681398	TTA	T	540	PASS	CALN1	Del	intronic	2	1	POLM	child	7_71681398_TTAT_POLM	2	2	0	-	0	-	None
dd76b8c6-3285-11e6-8dac-d9fc137bb207	5_155737793_AAGA	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	5	155737793	AAG	A	420	PASS	SGCD	Del	intronic	2	7	FANCC	child	5_155737793_AAGA_FANCC	2	2	2	AG	6	AG	Repeat-mediated
dd77779e-3275-11e6-8cf1-8b341daa6045	16_73818028_GAG	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	16	73818028	GA	G	600	PASS	-	Del	-	1	9	POLM	child	16_73818028_GAG_POLM	1	1	1	A	8	A	Repeat-mediated
dd7d7462-3286-11e6-8b67-086ea2c71c31	1_221269771_GTTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	221269771	GTT	G	480	PASS	-	Del	-	2	7	MSH6	child	1_221269771_GTTG_MSH6	2	2	2	TT	5	T	Repeat-mediated
dd8cd4cc-328e-11e6-9217-1ba5e7d0bdd7	10_107909449_CTAATTTATTTAAAAATCCTTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	10	107909449	CTAATTTATTTAAAAATCCTT	C	360	PASS	RP11-298H24.1	Del	intronic	20	1	FANCC	child	10_107909449_CTAATTTATTTAAAAATCCTTC_FANCC	20	>=10	1	T	0	-	Microhomology-mediated
dd9495ac-3272-11e6-a5d0-4fd14a47a305	2_41047728_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	41047728	TA	T	360	PASS	-	Del	-	1	8	MSH6	child	2_41047728_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
dd968112-328d-11e6-b6a6-1f1e0e01a414	4_85181361_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	85181361	AT	A	360	PASS	RP11-8L2.1	Del	intronic	1	8	MSH6	child	4_85181361_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
dd97cae2-3254-11e6-89d3-d29498816cf3	2_148167513_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	148167513	CT	C	360	PASS	RNU6-692P	Del	downstream	1	9	MSH6	child	2_148167513_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
dd97fec0-3292-11e6-9280-9ce5d0959d89	11_41455860_CTC	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	11	41455860	CT	C	420	PASS	LRRC4C	Del	intronic	1	7	POLB	child	11_41455860_CTC_POLB	1	1	1	T	6	T	Repeat-mediated
dd9833d8-3286-11e6-b32c-fd87a2c71c31	5_66737494_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	66737494	GA	G	480	PASS	RP11-434D9.1	Del	intronic	1	8	MSH6	child	5_66737494_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
ddaaff02-326f-11e6-be21-a41225c9da85	12_93854494_ATA	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	12	93854494	AT	A	360	PASS	-	Del	-	1	9	POLM	child	12_93854494_ATA_POLM	1	1	1	T	8	T	Repeat-mediated
ddad5e92-326e-11e6-9fba-41ebd8b4fa2c	11_83413199_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	83413199	CT	C	660	PASS	DLG2	Del	intronic	1	9	MSH6	child	11_83413199_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
ddafd9fa-3283-11e6-9955-19979cdf095d	8_17181527_CCTTC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	8	17181527	CCTT	C	600	PASS	MTMR7	Del	intronic	3	2	POLE	child	8_17181527_CCTTC_POLE	3	3	3	CTT	1	CTT	Repeat-mediated
ddc958fa-3286-11e6-b84c-a2a0fc1f1540	1_172394734_ATGTA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	1	172394734	ATGT	A	660	PASS	C1orf105	Del	intronic	3	1	FANCC	child	1_172394734_ATGTA_FANCC	3	3	2	TG	0	-	Microhomology-mediated
ddd0a462-3258-11e6-9d5a-0c8112ae24cf	9_94129185_TTA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	94129185	T	TA	480	PASS	AUH	Ins	upstream	1	9	MSH6	child	9_94129185_TTA_MSH6	1	1	-	-	-	-	Ins
ddd24b6a-3270-11e6-8418-1c5942c4520d	3_83736954_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	83736954	GT	G	300	PASS	-	Del	-	1	8	MSH6	child	3_83736954_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
ddd354fc-3283-11e6-9607-56b01ac527ab	4_127620635_GAG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	4	127620635	GA	G	300	PASS	-	Del	-	1	7	FANCC	child	4_127620635_GAG_FANCC	1	1	1	A	6	A	Repeat-mediated
ddd35d44-328d-11e6-8c87-38240e01a414	22_30486188_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	22	30486188	CA	C	360	PASS	HORMAD2	Del	intronic	1	6	MSH6	child	22_30486188_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
ddd46898-3291-11e6-8d18-13cc0d01a414	20_11046552_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	20	11046552	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	20_11046552_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
dddd7d8a-328b-11e6-a7cf-80090e01a414	15_99461285_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	99461285	AT	A	900	PASS	IGF1R	Del	intronic	1	9	MSH6	child	15_99461285_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
dde65626-3272-11e6-83ef-69fb06e9a829	18_34340163_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	34340163	TA	T	720	PASS	FHOD3	Del	intronic	1	7	MSH6	child	18_34340163_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
dde739f2-328a-11e6-b805-77090e01a414	2_106087928_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	106087928	CT	C	360	PASS	-	Del	-	1	6	MSH6	child	2_106087928_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
ddef7512-328b-11e6-8fd1-f2ac12ae24cf	X_10976813_TAT	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	X	10976813	TA	T	420	PASS	RP11-120D5.1	Del	intronic	1	9	CHK2	child	X_10976813_TAT_CHK2	1	1	1	A	8	A	Repeat-mediated
ddf66cc2-32a0-11e6-94ca-0aaecc638e3d	X_73680497_GGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	73680497	G	GT	540	PASS	SLC16A2	Ins	intronic	1	5	MSH6	child	X_73680497_GGT_MSH6	1	1	-	-	-	-	Ins
ddf7c5b0-3320-11e6-bda0-2f6519a91649	12_44423064_CCTTC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	12	44423064	CCTT	C	296	PASS	TMEM117	Del	intronic	3	1	CHK2	child	12_44423064_CCTTC_CHK2	3	3	2	CT	0	-	Microhomology-mediated
ddfc230e-3293-11e6-a82e-cff0eff7a29c	20_3055009_AGA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	20	3055009	AG	A	600	PASS	OXT	Del	downstream	1	6	NEIL1	child	20_3055009_AGA_NEIL1	1	1	1	G	5	G	Repeat-mediated
ddfec3ea-3278-11e6-b7b5-ce91a78019ab	5_170596989_TAT	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	5	170596989	TA	T	360	PASS	RANBP17	Del	intronic	1	6	NEIL1	child	5_170596989_TAT_NEIL1	1	1	1	A	5	A	Repeat-mediated
de04b0e8-3273-11e6-bea5-e783a20b69d5	13_104621314_ATA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	13	104621314	AT	A	300	PASS	-	Del	-	1	9	EXO1	child	13_104621314_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
de0d370c-3324-11e6-aad6-fc2b9a696edf	9_73881256_CAC	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	9	73881256	CA	C	540	PASS	TRPM3	Del	intronic	1	9	EXO1	child	9_73881256_CAC_EXO1	1	1	1	A	8	A	Repeat-mediated
de0e011c-3254-11e6-8ebc-3ef212ae24cf	15_71040575_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	15	71040575	CA	C	360	PASS	UACA	Del	intronic	1	9	MSH6	child	15_71040575_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
de106bec-328a-11e6-a7cf-80090e01a414	15_73676662_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	73676662	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	15_73676662_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
de1564b4-3346-11e6-b0ff-c495e84777f6	10_94363651_GTG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	10	94363651	GT	G	388	PASS	KIF11	Del	intronic	1	7	FANCC	child	10_94363651_GTG_FANCC	1	1	1	T	6	T	Repeat-mediated
de157368-3284-11e6-9daa-026ea2c71c31	14_69255946_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	69255946	GA	G	660	PASS	ZFP36L1	Del	3prime_UTR_variant	1	9	MSH6	child	14_69255946_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
de1d9a44-3274-11e6-a93d-2de179852e0e	22_21417768_ATCACTTTAGA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	22	21417768	ATCACTTTAG	A	300	PASS	AC002472.13	Del	3prime_UTR_variant	9	1	FANCC	child	22_21417768_ATCACTTTAGA_FANCC	9	9	2	TC	0	-	Microhomology-mediated
de236536-327f-11e6-a2c9-149290e2c2e6	3_12499129_TCCAGCCTGGGCAACAGAGTAAGATCTTGTCTCAAAAAAATAAATACATTGACTGGGCGTGGTGGCTCACACCCGTAATACCAGTACTTTGGGAGGCCAAGGCAGGCAGATCAAGGGAGGCCAACATGGTGAAACGCCATCTCTACTAAAAATACAAAAATTAACTGGGCGTGGTGGTGCATGCCCGTAATCCCAGCTACTTGGGAGGCTAAGGCAGGAGAATTGCTTGAACATGGAAGCGGAGGTTGCAGTGAGCTGAGATTGCGCCACTGCACCT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	3	12499129	TCCAGCCTGGGCAACAGAGTAAGATCTTGTCTCAAAAAAATAAATACATTGACTGGGCGTGGTGGCTCACACCCGTAATACCAGTACTTTGGGAGGCCAAGGCAGGCAGATCAAGGGAGGCCAACATGGTGAAACGCCATCTCTACTAAAAATACAAAAATTAACTGGGCGTGGTGGTGCATGCCCGTAATCCCAGCTACTTGGGAGGCTAAGGCAGGAGAATTGCTTGAACATGGAAGCGGAGGTTGCAGTGAGCTGAGATTGCGCCACTGCACC	T	300	PASS	-	Del	-	275	1	NUDT1	child	3_12499129_TCCAGCCTGGGCAACAGAGTAAGATCTTGTCTCAAAAAAATAAATACATTGACTGGGCGTGGTGGCTCACACCCGTAATACCAGTACTTTGGGAGGCCAAGGCAGGCAGATCAAGGGAGGCCAACATGGTGAAACGCCATCTCTACTAAAAATACAAAAATTAACTGGGCGTGGTGGTGCATGCCCGTAATCCCAGCTACTTGGGAGGCTAAGGCAGGAGAATTGCTTGAACATGGAAGCGGAGGTTGCAGTGAGCTGAGATTGCGCCACTGCACCT_NUDT1	275	>=10	18	CCAGCCTGGGCAACAGAG	0	-	Microhomology-mediated
de2747f2-3273-11e6-8418-1c5942c4520d	3_170779954_GGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	170779954	G	GT	420	PASS	TNIK	Ins	3prime_UTR_variant	1	7	MSH6	child	3_170779954_GGT_MSH6	1	1	-	-	-	-	Ins
de283188-3275-11e6-b562-fe54dcd214c4	5_127039273_TAT	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	5	127039273	TA	T	480	PASS	CTC-228N24.1	Del	intronic	1	9	NUDT1	child	5_127039273_TAT_NUDT1	1	1	1	A	8	A	Repeat-mediated
de2d5882-3326-11e6-91f6-970e147bb207	6_62904229_ATA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	6	62904229	AT	A	360	PASS	KHDRBS2	Del	intronic	1	7	EXO1	child	6_62904229_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
de44c49a-3272-11e6-9e18-3a69671699ea	10_32029927_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	32029927	CA	C	600	PASS	-	Del	-	1	3	MSH6	child	10_32029927_CAC_MSH6	1	1	1	A	2	A	Repeat-mediated
de4c62fa-329e-11e6-bc2c-2a5e25c9da85	4_128888943_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	128888943	AT	A	600	PASS	MFSD8	Del	upstream	1	9	MSH6	child	4_128888943_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
de5bc21e-328e-11e6-abfb-afb14430f757	9_34105666_CAC	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	9	34105666	CA	C	472	PASS	DCAF12	Del	intronic	1	8	POLE	child	9_34105666_CAC_POLE	1	1	1	A	7	A	Repeat-mediated
de63a5b4-3271-11e6-881e-8d938a20d9eb	15_68733191_CTC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	15	68733191	CT	C	720	PASS	-	Del	-	1	4	CHK2	child	15_68733191_CTC_CHK2	1	1	1	T	3	T	Repeat-mediated
de6c3d00-326c-11e6-9003-ae204b47a305	19_9414660_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	9414660	CT	C	300	PASS	ZNF699	Del	intronic	1	8	MSH6	child	19_9414660_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
de7bd670-326c-11e6-9003-ae204b47a305	19_9436125_AGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	9436125	AG	A	480	PASS	ZNF559	Del	intronic	1	1	MSH6	child	19_9436125_AGA_MSH6	1	1	0	-	0	G	None
de7c3eba-3291-11e6-b0cf-8b7219a91649	7_88770149_ATA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	7	88770149	AT	A	420	PASS	ZNF804B	Del	intronic	1	9	NEIL1	child	7_88770149_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
de84235e-328d-11e6-a927-37059c6d3b88	14_62510383_CCAAAGTGCTGGGATTACAGGCATGAGCCACCGCGCCCAGCCTTGATGTTGAAGTTTTTAAAATTGATTTTCCACATCTATTGAGATGATTATATGTTTTTCATCCCTAACCTGTCAATGAGATTAATTATATTTAAGAGACTTTCATAATACTTAAACTTCTTTGCATGACTGCTACAAACTGTTTTTGTAGAGACAGAATCTTGCTATGTTACTGAGGCTAGTTTAGAACTCCTGGCCTCAAGCAATCCTCCTACCTCGGCCTCTC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	14	62510383	CCAAAGTGCTGGGATTACAGGCATGAGCCACCGCGCCCAGCCTTGATGTTGAAGTTTTTAAAATTGATTTTCCACATCTATTGAGATGATTATATGTTTTTCATCCCTAACCTGTCAATGAGATTAATTATATTTAAGAGACTTTCATAATACTTAAACTTCTTTGCATGACTGCTACAAACTGTTTTTGTAGAGACAGAATCTTGCTATGTTACTGAGGCTAGTTTAGAACTCCTGGCCTCAAGCAATCCTCCTACCTCGGCCTCT	C	300	PASS	SYT16	Del	intronic	266	1	POLB	child	14_62510383_CCAAAGTGCTGGGATTACAGGCATGAGCCACCGCGCCCAGCCTTGATGTTGAAGTTTTTAAAATTGATTTTCCACATCTATTGAGATGATTATATGTTTTTCATCCCTAACCTGTCAATGAGATTAATTATATTTAAGAGACTTTCATAATACTTAAACTTCTTTGCATGACTGCTACAAACTGTTTTTGTAGAGACAGAATCTTGCTATGTTACTGAGGCTAGTTTAGAACTCCTGGCCTCAAGCAATCCTCCTACCTCGGCCTCTC_POLB	266	>=10	25	CAAAGTGCTGGGATTACAGGCATGA	0	-	Microhomology-mediated
de89e9da-3254-11e6-89d3-d29498816cf3	2_148563676_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	148563676	CA	C	660	PASS	-	Del	-	1	8	MSH6	child	2_148563676_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
de8a70bc-3286-11e6-b282-3612147bb207	6_93270794_ATTCTGGA	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	6	93270794	ATTCTGG	A	720	PASS	-	Del	-	6	1	FANCC	child	6_93270794_ATTCTGGA_FANCC	6	6	2	TT	0	-	Microhomology-mediated
de8e332a-3284-11e6-99f7-076ea2c71c31	12_43920679_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	43920679	CA	C	480	PASS	ADAMTS20	Del	intronic	1	9	MSH6	child	12_43920679_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
de960e1e-328f-11e6-9d24-ade56f39e758	7_83428581_AATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	83428581	AAT	A	360	PASS	-	Del	-	2	1	MSH6	child	7_83428581_AATA_MSH6	2	2	1	A	0	-	Microhomology-mediated
de962c82-328f-11e6-b97d-a8b305ad5bc4	20_36097082_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	36097082	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	20_36097082_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
dea29dba-3289-11e6-821d-8c090e01a414	13_52234341_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	52234341	GT	G	420	PASS	WDFY2	Del	intronic	1	9	MSH6	child	13_52234341_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
debcaadc-3272-11e6-a5d0-4fd14a47a305	2_41952099_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	41952099	GT	G	660	PASS	-	Del	-	1	6	MSH6	child	2_41952099_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
dec1d24e-3256-11e6-91d3-a68412ae24cf	7_25952188_ACA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	25952188	AC	A	300	PASS	-	Del	-	1	1	MSH6	child	7_25952188_ACA_MSH6	1	1	0	-	0	C	None
deca053c-327d-11e6-9c0f-26bd1da8ec0e	8_57870462_CAC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	8	57870462	CA	C	780	PASS	IMPAD1	Del	downstream	1	8	FANCC	parent	8_57870462_CAC_FANCC	1	1	1	A	7	A	Repeat-mediated
ded15180-329f-11e6-b696-dd6225c9da85	5_179645473_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	179645473	AT	A	600	PASS	-	Del	-	1	6	MSH6	child	5_179645473_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
ded2579c-3286-11e6-a284-4b89a2c71c31	4_29778759_CCAGC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	29778759	CCAG	C	720	PASS	-	Del	-	3	1	MSH6	child	4_29778759_CCAGC_MSH6	3	3	2	CA	0	-	Microhomology-mediated
dedbe2a2-328c-11e6-8256-94c36f39e758	17_67138432_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	67138432	AT	A	480	PASS	ABCA6	Del	upstream	1	8	MSH6	child	17_67138432_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
dee295b8-3285-11e6-8c64-b1af90e2c2e6	17_41338998_CCGTTTGCAT	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	17	41338998	C	CGTTTGCAT	620	PASS	NBR1	Ins	intronic	8	0	POLE	child	17_41338998_CCGTTTGCAT_POLE	8	8	-	-	-	-	Ins
dee2ac38-3299-11e6-bda6-065325c9da85	13_21869709_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	21869709	CA	C	360	PASS	RP11-101P17.11	Del	downstream	1	7	MSH6	child	13_21869709_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
deea5324-329f-11e6-91d0-016425c9da85	7_140576716_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	140576716	TA	T	660	PASS	BRAF	Del	intronic	1	9	MSH6	child	7_140576716_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
deed0760-3275-11e6-a862-bc9becf1e924	1_234595732_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	234595732	TA	T	840	PASS	TARBP1	Del	intronic	1	8	MSH6	child	1_234595732_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
deefd124-3271-11e6-8165-0dc17872c165	9_92307130_AAGA	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	9	92307130	AAG	A	420	PASS	-	Del	-	2	3	NEIL1	child	9_92307130_AAGA_NEIL1	2	2	2	AG	2	AG	Repeat-mediated
def0476c-3285-11e6-afcf-0311bce6aa09	9_3833902_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	3833902	GT	G	780	PASS	GLIS3	Del	intronic	1	8	MSH6	child	9_3833902_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
def73562-3286-11e6-baa3-81ed1da8ec0e	X_121907089_TTA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	X	121907089	T	TA	420	PASS	-	Ins	-	1	6	EXO1	child	X_121907089_TTA_EXO1	1	1	-	-	-	-	Ins
def766ae-3272-11e6-aa3b-ca60a178171f	13_49050462_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	49050462	CA	C	900	PASS	RB1	Del	intronic	1	7	MSH6	child	13_49050462_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
df16421c-328c-11e6-8e48-791e0e01a414	8_24721917_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	24721917	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	8_24721917_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
df1c9168-3286-11e6-a284-4b89a2c71c31	4_30007407_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	30007407	GT	G	360	PASS	-	Del	-	1	9	MSH6	child	4_30007407_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
df221f44-3271-11e6-abaf-4642cab49462	6_23521934_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	23521934	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	6_23521934_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
df39a5ba-329e-11e6-91d0-016425c9da85	7_81836219_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	81836219	CT	C	1200	PASS	CACNA2D1	Del	intronic	1	7	MSH6	child	7_81836219_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
df4195b8-3285-11e6-99f7-076ea2c71c31	12_123101931_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	123101931	CT	C	720	PASS	KNTC1	Del	intronic	1	8	MSH6	child	12_123101931_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
df441416-3274-11e6-90fa-056466a58581	4_81855314_CTC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	4	81855314	CT	C	300	PASS	C4orf22	Del	intronic	1	8	FANCC	child	4_81855314_CTC_FANCC	1	1	1	T	7	T	Repeat-mediated
df516c3c-329d-11e6-ae71-0c5325c9da85	1_234006373_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	234006373	GA	G	540	PASS	-	Del	-	1	8	MSH6	child	1_234006373_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
df51c91e-3272-11e6-9522-b51a987b3f23	12_89306418_GGTG	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	12	89306418	GGT	G	360	PASS	-	Del	-	2	3	NUDT1	child	12_89306418_GGTG_NUDT1	2	2	2	GT	2	GT	Repeat-mediated
df53e6c2-3286-11e6-a284-4b89a2c71c31	4_30177205_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	30177205	GA	G	300	PASS	-	Del	-	1	4	MSH6	child	4_30177205_GAG_MSH6	1	1	1	A	3	A	Repeat-mediated
df58efd2-3286-11e6-8404-8e1fbce6aa09	8_34243580_ACA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	34243580	AC	A	840	PASS	-	Del	-	1	3	MSH6	child	8_34243580_ACA_MSH6	1	1	1	C	2	C	Repeat-mediated
df5bd7e2-3272-11e6-83ef-69fb06e9a829	18_34640615_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	34640615	TA	T	480	PASS	KIAA1328	Del	intronic	1	9	MSH6	child	18_34640615_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
df64e232-328c-11e6-b805-77090e01a414	2_236406912_TCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	236406912	TC	T	660	PASS	AGAP1	Del	intronic	1	5	MSH6	child	2_236406912_TCT_MSH6	1	1	1	C	4	C	Repeat-mediated
df6e0acc-3270-11e6-b923-6726694da5d2	5_101182165_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	101182165	GA	G	300	PASS	-	Del	-	1	6	MSH6	child	5_101182165_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
df6fb3da-3299-11e6-b74d-b59fcc638e3d	18_2616032_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	2616032	CT	C	900	PASS	NDC80	Del	intronic	1	9	MSH6	child	18_2616032_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
df7312ee-328c-11e6-9777-62d8191589db	5_65813252_GCTGTTTATG	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	5	65813252	GCTGTTTAT	G	420	PASS	-	Del	-	8	1	FANCC	child	5_65813252_GCTGTTTATG_FANCC	8	8	3	CTG	0	-	Microhomology-mediated
df74453e-3272-11e6-abaf-4642cab49462	6_89008371_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	89008371	GA	G	300	PASS	RP11-459O1.2	Del	downstream	1	8	MSH6	child	6_89008371_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
df7b34ba-3273-11e6-975f-8246cab49462	16_86665421_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	86665421	AT	A	360	PASS	RP11-463O9.6	Del	downstream	1	8	MSH6	child	16_86665421_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
df85e5ba-3294-11e6-8b9f-eea73adbad45	3_164742171_CCA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	3	164742171	C	CA	300	PASS	SI	Ins	intronic	1	1	NEIL1	child	3_164742171_CCA_NEIL1	1	1	-	-	-	-	Ins
df87c2e6-328e-11e6-92db-6c56f0f7a29c	1_36601012_CGGAC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	1	36601012	CGGA	C	720	PASS	TRAPPC3	Del	downstream	3	2	NEIL1	child	1_36601012_CGGAC_NEIL1	3	3	3	GGA	1	GGA	Repeat-mediated
df8cce84-328a-11e6-a80b-87090e01a414	11_99913108_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	99913108	CT	C	540	PASS	CNTN5	Del	intronic	1	8	MSH6	child	11_99913108_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
df958f9c-3276-11e6-998e-ba48fa52e078	8_86439483_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	86439483	TA	T	300	PASS	RP11-317J10.4	Del	intronic	1	9	MSH6	child	8_86439483_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
df9fca20-3271-11e6-a812-e11198ba1142	9_116200604_CTC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	9	116200604	CT	C	535	PASS	-	Del	-	1	8	EXO1	parent	9_116200604_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
dfa80d8a-3270-11e6-9fba-41ebd8b4fa2c	11_24373787_AAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	24373787	A	AT	360	PASS	-	Ins	-	1	6	MSH6	child	11_24373787_AAT_MSH6	1	1	-	-	-	-	Ins
dfa916da-3270-11e6-b923-6726694da5d2	5_101267654_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	101267654	AT	A	360	PASS	-	Del	-	1	2	MSH6	child	5_101267654_ATA_MSH6	1	1	1	T	1	T	Repeat-mediated
dfac0f16-3289-11e6-a1ee-75e95d753391	16_85225978_GGAAGGTTGTTTCAAAGGTTAAGCAAGTTAGGAC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	16	85225978	G	GAAGGTTGTTTCAAAGGTTAAGCAAGTTAGGAC	300	PASS	-	Ins	-	32	0	POLE	child	16_85225978_GGAAGGTTGTTTCAAAGGTTAAGCAAGTTAGGAC_POLE	32	>=10	-	-	-	-	Ins
dfb36900-3324-11e6-b0c6-e1e369062303	5_17236168_ATTGA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	5	17236168	ATTG	A	720	PASS	BASP1	Del	intronic	3	1	EXO1	child	5_17236168_ATTGA_EXO1	3	3	2	TT	0	-	Microhomology-mediated
dfc0eaae-328d-11e6-8c87-38240e01a414	22_30923958_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	22	30923958	AT	A	300	PASS	SEC14L6	Del	intronic	1	9	MSH6	child	22_30923958_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
dfc329ec-3272-11e6-8f33-a6d9cde16804	11_45232437_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	45232437	TG	T	540	PASS	PRDM11	Del	intronic	1	7	MSH6	child	11_45232437_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
dfc93e7e-329d-11e6-ae71-0c5325c9da85	1_234113913_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	234113913	GA	G	360	PASS	SLC35F3	Del	intronic	1	9	MSH6	child	1_234113913_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
dfce9796-3272-11e6-9e18-3a69671699ea	10_32226271_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	32226271	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	10_32226271_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
dfd45aa4-329b-11e6-aca6-b39fcc638e3d	2_137871405_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	137871405	GA	G	300	PASS	THSD7B	Del	intronic	1	9	MSH6	child	2_137871405_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
dfe13b4c-327e-11e6-85d6-b940d5957ca3	10_101148370_GTG	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	10	101148370	GT	G	300	PASS	CNNM1	Del	intronic	1	8	NEIL1	child	10_101148370_GTG_NEIL1	1	1	1	T	7	T	Repeat-mediated
dfe422e6-3286-11e6-8404-8e1fbce6aa09	8_34863780_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	34863780	CT	C	420	PASS	-	Del	-	1	8	MSH6	child	8_34863780_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
dfe504a2-329c-11e6-ae71-0c5325c9da85	1_175580475_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	175580475	CT	C	420	PASS	TNR	Del	intronic	1	8	MSH6	child	1_175580475_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
dff695f4-328e-11e6-b8c1-a64daa5f95ce	9_128525488_GAG	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	9	128525488	GA	G	840	PASS	PBX3	Del	intronic	1	7	POLE	child	9_128525488_GAG_POLE	1	1	1	A	6	A	Repeat-mediated
dffcf4fc-3271-11e6-b1f2-34f6620e6611	1_82536491_GAGTCG	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	1	82536491	GAGTC	G	495	PASS	-	Del	-	4	2	CHK2	child	1_82536491_GAGTCG_CHK2	4	4	4	AGTC	1	AGTC	Repeat-mediated
e000e67e-3290-11e6-9401-04ed6f39e758	3_58746896_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	58746896	CT	C	426	PASS	C3orf67	Del	intronic	1	7	MSH6	child	3_58746896_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
e00dd93c-328c-11e6-8952-77c36f39e758	10_84661040_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	84661040	AT	A	420	PASS	NRG3	Del	intronic	1	8	MSH6	child	10_84661040_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
e0153776-3288-11e6-b9eb-c78fa2c71c31	6_101693851_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	101693851	CT	C	600	PASS	-	Del	-	1	8	MSH6	child	6_101693851_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
e01e6d8c-3292-11e6-92cf-bf2a0e01a414	6_79274549_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	79274549	T	TA	300	PASS	-	Ins	-	1	7	MSH6	child	6_79274549_TTA_MSH6	1	1	-	-	-	-	Ins
e0228bb2-3290-11e6-8e48-791e0e01a414	8_62816314_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	62816314	T	TA	300	PASS	RP11-705O24.1	Ins	intronic	1	7	MSH6	child	8_62816314_TTA_MSH6	1	1	-	-	-	-	Ins
e02bb0ec-3345-11e6-9ded-99034ec77248	19_22232663_AGTCACATCATTTTGGA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	19	22232663	AGTCACATCATTTTGG	A	360	PASS	ZNF257	Del	upstream	15	1	FANCC	child	19_22232663_AGTCACATCATTTTGGA_FANCC	15	>=10	0	-	0	-	None
e03d04b4-328c-11e6-8770-3e160e01a414	9_96669658_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	96669658	CA	C	360	PASS	-	Del	-	1	8	MSH6	child	9_96669658_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
e049e5d8-328e-11e6-b81f-4ee66f39e758	8_11053324_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	11053324	AT	A	720	PASS	XKR6	Del	intronic	1	9	MSH6	child	8_11053324_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e049ed12-3284-11e6-8b2d-79a669062303	3_4475170_CAC	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	3	4475170	CA	C	600	PASS	SUMF1	Del	intronic	1	7	POLE	parent	3_4475170_CAC_POLE	1	1	1	A	6	A	Repeat-mediated
e0506396-3283-11e6-b14f-ffbe2daed38e	X_77774272_GTG	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	X	77774272	GT	G	360	PASS	-	Del	-	1	8	POLB	child	X_77774272_GTG_POLB	1	1	1	T	7	T	Repeat-mediated
e053f5b4-328e-11e6-a278-48230e01a414	21_41640496_CCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	21	41640496	C	CT	420	PASS	DSCAM	Ins	intronic	1	1	MSH6	child	21_41640496_CCT_MSH6	1	1	-	-	-	-	Ins
e05ce514-326d-11e6-b306-b5204b47a305	2_112376084_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	112376084	CA	C	780	PASS	-	Del	-	1	8	MSH6	child	2_112376084_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
e05fdff4-329e-11e6-9c44-d26625c9da85	21_35855769_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	21	35855769	CA	C	660	PASS	KCNE1	Del	intronic	1	5	MSH6	child	21_35855769_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
e060e296-328f-11e6-b97d-a8b305ad5bc4	20_37175222_AGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	37175222	AG	A	360	PASS	RALGAPB	Del	intronic	1	6	MSH6	child	20_37175222_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
e067eb9a-3253-11e6-b4d0-327a7872c165	11_23593112_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	23593112	GT	G	660	PASS	-	Del	-	1	9	MSH6	child	11_23593112_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
e06b97e8-325a-11e6-8340-da9012ae24cf	6_163353463_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	163353463	AT	A	300	PASS	PACRG	Del	intronic	1	9	MSH6	child	6_163353463_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e06d9b30-3280-11e6-a5e9-0107694da5d2	7_39963248_ATA	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	7	39963248	AT	A	360	PASS	-	Del	-	1	8	NEIL1	child	7_39963248_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
e0704416-328f-11e6-bb1e-70e16f39e758	X_123791298_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	123791298	GA	G	480	PASS	TENM1	Del	intronic	1	9	MSH6	child	X_123791298_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
e072d38a-328e-11e6-9230-fb250e01a414	3_60827527_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	60827527	TA	T	600	PASS	FHIT	Del	intronic	1	9	MSH6	child	3_60827527_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
e073c018-3272-11e6-b539-d702ebb8d062	7_50194189_TTCCATTTTCTTTAT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	7	50194189	TTCCATTTTCTTTA	T	660	PASS	C7orf72	Del	intronic	13	1	NUDT1	child	7_50194189_TTCCATTTTCTTTAT_NUDT1	13	>=10	6	TCCATT	0	-	Microhomology-mediated
e079de12-328b-11e6-aa75-90c36f39e758	13_40179325_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	40179325	TA	T	480	PASS	LHFP	Del	upstream	1	6	MSH6	child	13_40179325_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
e083427e-328e-11e6-8770-3e160e01a414	9_92861676_CCCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	92861676	C	CCA	300	PASS	-	Ins	-	2	4	MSH6	child	9_92861676_CCCA_MSH6	2	2	-	-	-	-	Ins
e084ba68-3271-11e6-8418-1c5942c4520d	3_180688871_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	180688871	GA	G	360	PASS	FXR1	Del	intronic	1	8	MSH6	child	3_180688871_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
e084d11a-329e-11e6-bc2c-2a5e25c9da85	4_129183296_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	129183296	CA	C	420	PASS	-	Del	-	1	7	MSH6	child	4_129183296_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
e08c73e2-329a-11e6-aca6-b39fcc638e3d	2_71793663_CAGC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	71793663	CAG	C	420	PASS	DYSF	Del	intronic	2	6	MSH6	child	2_71793663_CAGC_MSH6	2	2	2	AG	5	AG	Repeat-mediated
e08cb53e-3284-11e6-9dd8-899e69062303	4_93003412_TAT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	4	93003412	TA	T	420	PASS	-	Del	-	1	8	POLE	parent	4_93003412_TAT_POLE	1	1	1	A	7	A	Repeat-mediated
e0933038-328b-11e6-9c89-8d090e01a414	1_154591585_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	154591585	CA	C	300	PASS	ADAR	Del	intronic	1	9	MSH6	child	1_154591585_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
e0a3e35a-329b-11e6-aca6-b39fcc638e3d	2_138052612_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	138052612	AT	A	600	PASS	THSD7B	Del	intronic	1	7	MSH6	child	2_138052612_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
e0a4483c-3281-11e6-afd6-7a186ee4ab00	7_150852025_CGAGC	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	7	150852025	CGAG	C	1140	PASS	GBX1	Del	intronic	3	4	POLB	parent	7_150852025_CGAGC_POLB	3	3	3	GAG	3	GAG	Repeat-mediated
e0a6f6f0-328a-11e6-a80b-87090e01a414	11_100352691_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	100352691	GA	G	264	PASS	-	Del	-	1	7	MSH6	child	11_100352691_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
e0a8a3e8-3284-11e6-a0a8-096ea2c71c31	11_46253954_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	46253954	CA	C	720	PASS	-	Del	-	1	8	MSH6	child	11_46253954_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
e0af5880-3286-11e6-8b67-086ea2c71c31	1_222497649_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	222497649	GA	G	360	PASS	RP11-400N13.1	Del	intronic	1	7	MSH6	child	1_222497649_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
e0c1affa-3270-11e6-8418-1c5942c4520d	3_84820033_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	84820033	GT	G	720	PASS	LINC00971	Del	intronic	1	5	MSH6	child	3_84820033_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
e0c43d42-3329-11e6-9f5d-eba78a20d9eb	8_19884034_GGCAGGT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	8	19884034	G	GCAGGT	420	PASS	-	Ins	-	5	0	EXO1	child	8_19884034_GGCAGGT_EXO1	5	5	-	-	-	-	Ins
e0c77e2a-329e-11e6-aea7-956725c9da85	3_26530305_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	26530305	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	3_26530305_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
e0c84710-3253-11e6-bf41-357a7872c165	10_21781922_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	21781922	AT	A	300	PASS	CASC10	Del	3prime_UTR_variant	1	7	MSH6	child	10_21781922_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
e0ce3212-328d-11e6-bd84-429305ad5bc4	1_9619555_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	9619555	G	GT	300	PASS	SLC25A33	Ins	intronic	1	8	MSH6	child	1_9619555_GGT_MSH6	1	1	-	-	-	-	Ins
e0dc1698-3292-11e6-b77d-2eef6f39e758	6_162281052_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	162281052	GT	G	600	PASS	PARK2	Del	intronic	1	7	MSH6	child	6_162281052_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
e0e51c1a-3270-11e6-9309-bdc34a47a305	8_72179793_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	72179793	GT	G	660	PASS	EYA1	Del	intronic	1	8	MSH6	child	8_72179793_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
e0e802cc-328e-11e6-bfa2-581f0e01a414	7_130735845_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	130735845	TA	T	420	PASS	RNU6-1010P	Del	downstream	1	6	MSH6	child	7_130735845_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
e0ea0618-3283-11e6-8362-ce9a69062303	9_119468261_CTC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	9	119468261	CT	C	420	PASS	ASTN2	Del	intronic	1	9	FANCC	child	9_119468261_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
e0f395c2-3272-11e6-94cc-1ec335cec73b	19_16028594_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	16028594	GA	G	480	PASS	CYP4F11	Del	intronic	1	8	MSH6	child	19_16028594_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
e1013f16-328a-11e6-9ee4-43b47098ee92	11_34434074_CCTGTTTCTGCGTTTCTGA	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	11	34434074	CCTGTTTCTG	CGTTTCTGA	540	PASS	-	Complex	-	9	0	NUDT1	child	11_34434074_CCTGTTTCTGCGTTTCTGA_NUDT1	1	1	-	-	-	-	Complex
e1023ba8-3282-11e6-a1d1-b18df4b7c17d	1_66662936_AAG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	1	66662936	A	AG	300	PASS	PDE4B	Ins	intronic	1	1	FANCC	child	1_66662936_AAG_FANCC	1	1	-	-	-	-	Ins
e103eb82-3274-11e6-bfb2-2749c225ee11	12_23118151_CCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	23118151	C	CT	300	PASS	RP11-114G22.1	Ins	intronic	1	7	MSH6	child	12_23118151_CCT_MSH6	1	1	-	-	-	-	Ins
e10442b2-326f-11e6-819e-9d1aa20b69d5	11_91624010_GAG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	11	91624010	GA	G	780	PASS	-	Del	-	1	7	EXO1	parent	11_91624010_GAG_EXO1	1	1	1	A	6	A	Repeat-mediated
e1087464-3273-11e6-975f-8246cab49462	16_87094855_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	87094855	AT	A	540	PASS	-	Del	-	1	6	MSH6	child	16_87094855_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
e1090a70-3280-11e6-88ca-c78169062303	16_29128985_CAC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	16	29128985	CA	C	360	PASS	RP11-426C22.5	Del	intronic	1	9	FANCC	child	16_29128985_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
e109fc4e-329b-11e6-a5cf-205325c9da85	11_126332568_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	126332568	TA	T	420	PASS	KIRREL3	Del	intronic	1	8	MSH6	child	11_126332568_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
e116dc82-3275-11e6-8c15-5448694da5d2	5_115373790_GAG	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	5	115373790	GA	G	480	PASS	-	Del	-	1	9	NEIL1	child	5_115373790_GAG_NEIL1	1	1	1	A	8	A	Repeat-mediated
e1174fc2-3258-11e6-9d5a-0c8112ae24cf	9_95008218_TTTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	95008218	T	TTG	300	PASS	IARS	Ins	intronic	2	7	MSH6	child	9_95008218_TTTG_MSH6	2	2	-	-	-	-	Ins
e11b37aa-327f-11e6-b263-76d64dc77248	8_51179557_CTC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	8	51179557	CT	C	360	PASS	SNTG1	Del	intronic	1	9	NUDT1	child	8_51179557_CTC_NUDT1	1	1	1	T	8	T	Repeat-mediated
e11c8e50-328b-11e6-bd84-429305ad5bc4	1_43137116_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	43137116	TA	T	660	PASS	PPIH	Del	intronic	1	7	MSH6	child	1_43137116_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
e125ff40-326c-11e6-9003-ae204b47a305	19_9954570_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	9954570	TA	T	600	PASS	PIN1	Del	intronic	1	9	MSH6	child	19_9954570_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
e1385b18-3271-11e6-b89d-b2d6b0dab373	4_160797161_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	160797161	GT	G	420	PASS	-	Del	-	1	5	MSH6	child	4_160797161_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
e13c5ec0-3299-11e6-b549-1e5325c9da85	10_3770576_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	3770576	TA	T	600	PASS	-	Del	-	1	7	MSH6	child	10_3770576_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
e13ccb54-328e-11e6-ba05-bfb14430f757	X_46504416_CAAAGC	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	X	46504416	CAAAG	C	600	PASS	SLC9A7	Del	intronic	4	1	POLE	child	X_46504416_CAAAGC_POLE	4	4	3	AAA	0	-	Microhomology-mediated
e1414eea-3270-11e6-8ed8-0863a78019ab	5_152993634_CCTTC	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	5	152993634	CCTT	C	600	PASS	GRIA1	Del	intronic	3	2	POLM	parent	5_152993634_CCTTC_POLM	3	3	3	CTT	1	CTT	Repeat-mediated
e14a31ba-3278-11e6-a391-f6d67d6a9fc7	6_95274082_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	95274082	TA	T	660	PASS	-	Del	-	1	5	MSH6	child	6_95274082_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
e14c8132-3272-11e6-826a-adb6fa52e078	17_28686824_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	17	28686824	TA	T	420	PASS	RNU6-990P	Del	upstream	1	8	MSH6	child	17_28686824_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
e14cfee0-32a0-11e6-aca6-b39fcc638e3d	2_207843102_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	207843102	C	CA	720	PASS	-	Ins	-	1	5	MSH6	child	2_207843102_CCA_MSH6	1	1	-	-	-	-	Ins
e1591290-3271-11e6-82ed-5bfb24864c47	2_9562819_GAACTG	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	2	9562819	GAACT	G	540	PASS	ITGB1BP1	Del	5prime_UTR_variant	4	1	NUDT1	child	2_9562819_GAACTG_NUDT1	4	4	0	-	0	-	None
e15fac3a-326d-11e6-b306-b5204b47a305	2_112596044_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	112596044	CT	C	328	PASS	ANAPC1	Del	frameshift	1	6	MSH6	child	2_112596044_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
e167073c-329a-11e6-aca6-b39fcc638e3d	2_72144519_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	72144519	TA	T	420	PASS	-	Del	-	1	7	MSH6	child	2_72144519_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
e16a69bc-3255-11e6-bb62-81f712ae24cf	X_62899831_CAC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	X	62899831	CA	C	480	PASS	ARHGEF9	Del	intronic	1	8	POLB	child	X_62899831_CAC_POLB	1	1	1	A	7	A	Repeat-mediated
e16aa1be-3289-11e6-a32d-75090e01a414	14_58553446_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	58553446	CA	C	540	PASS	C14orf37	Del	intronic	1	7	MSH6	child	14_58553446_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
e175514a-3275-11e6-9e25-e58e2aaffa45	4_39861700_GAG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	4	39861700	GA	G	600	PASS	PDS5A	Del	intronic	1	9	EXO1	child	4_39861700_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
e1813a54-3253-11e6-acd5-c91dee3c4f5d	4_12456845_CAC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	4	12456845	CA	C	540	PASS	-	Del	-	1	5	POLB	child	4_12456845_CAC_POLB	1	1	1	A	4	A	Repeat-mediated
e189c43e-3259-11e6-8cd9-139b7872c165	3_182288442_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	182288442	AT	A	480	PASS	-	Del	-	1	7	MSH6	child	3_182288442_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
e18d40b4-3272-11e6-b8ae-92c57872c165	14_52372225_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	52372225	GA	G	540	PASS	GNG2	Del	intronic	1	6	MSH6	child	14_52372225_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
e19b04bc-328e-11e6-919e-92c36f39e758	2_225454586_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	225454586	CT	C	300	PASS	CUL3	Del	upstream	1	7	MSH6	child	2_225454586_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
e1adeaca-328c-11e6-bfa2-581f0e01a414	7_12132783_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	12132783	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	7_12132783_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
e1b823fc-3280-11e6-ab79-75e41da8ec0e	18_26678123_ATA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	18	26678123	AT	A	480	PASS	-	Del	-	1	8	EXO1	child	18_26678123_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
e1bc2d26-3299-11e6-8de1-2d9afaf1a024	7_129203973_ATA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	7	129203973	AT	A	420	PASS	-	Del	-	1	7	CHK2	child	7_129203973_ATA_CHK2	1	1	1	T	6	T	Repeat-mediated
e1bcada0-3320-11e6-8b89-aa119a696edf	14_64598278_TTTTGT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	14	64598278	TTTTG	T	600	PASS	SYNE2	Del	intronic	4	3	CHK2	child	14_64598278_TTTTGT_CHK2	4	4	4	TTTG	2	TTTG	Repeat-mediated
e1c06658-328e-11e6-9432-c0e56f39e758	5_21359724_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	21359724	TA	T	362	PASS	-	Del	-	1	9	MSH6	child	5_21359724_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
e1c55882-329a-11e6-ae71-0c5325c9da85	1_48115390_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	48115390	CT	C	600	PASS	-	Del	-	1	4	MSH6	child	1_48115390_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
e1c7145a-3291-11e6-9413-6a7219a91649	5_94739328_GTG	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	5	94739328	GT	G	300	PASS	FAM81B	Del	intronic	1	8	NEIL1	child	5_94739328_GTG_NEIL1	1	1	1	T	7	T	Repeat-mediated
e1d54fd0-3286-11e6-a284-4b89a2c71c31	4_31246498_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	31246498	CA	C	540	PASS	-	Del	-	1	5	MSH6	child	4_31246498_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
e1d9ea84-328d-11e6-a927-37059c6d3b88	14_63937021_CTC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	14	63937021	CT	C	300	PASS	PPP2R5E	Del	intronic	1	1	POLB	child	14_63937021_CTC_POLB	1	1	0	-	0	T	None
e1db2bc0-3282-11e6-9607-56b01ac527ab	4_36245369_GTAATG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	4	36245369	GTAAT	G	300	PASS	ARAP2	Del	intronic	4	1	FANCC	child	4_36245369_GTAATG_FANCC	4	4	3	TAA	0	-	Microhomology-mediated
e1de94e0-329b-11e6-ae71-0c5325c9da85	1_110892510_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	110892510	AT	A	660	PASS	RBM15	Del	downstream	1	9	MSH6	child	1_110892510_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e1df8ae6-3271-11e6-9f65-bec924864c47	15_72353774_CCACCCTGGGCCAGAAGGGAACCCATTGCTCTGAAGAGAGACCCAAGCCTGGCAGGATTCACCACAAGCTGGCTCAACAGCCTTCAGGCCTTGAAAAAACATCAGTGGTAAGTAGGCAGTACTCACCACAGGCCTGGGGAGGTGGTAGCCACAGGGAGAGACTCCTTCTGCCTACGGAAAGAAGAGGAAAGAGTAAAAAGGACTCTGTCCTACAACTTAGGCACCAGCTCAGCCACAGAAAAATAAAGCACCAAGGAGATTCCTAAAGTTCCCAACTCCAGGCCCTAGCTCCCAGCCAGCATTTCCAGACTC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	15	72353774	CCACCCTGGGCCAGAAGGGAACCCATTGCTCTGAAGAGAGACCCAAGCCTGGCAGGATTCACCACAAGCTGGCTCAACAGCCTTCAGGCCTTGAAAAAACATCAGTGGTAAGTAGGCAGTACTCACCACAGGCCTGGGGAGGTGGTAGCCACAGGGAGAGACTCCTTCTGCCTACGGAAAGAAGAGGAAAGAGTAAAAAGGACTCTGTCCTACAACTTAGGCACCAGCTCAGCCACAGAAAAATAAAGCACCAAGGAGATTCCTAAAGTTCCCAACTCCAGGCCCTAGCTCCCAGCCAGCATTTCCAGACT	C	300	PASS	MYO9A	Del	intronic	310	1	POLB	child	15_72353774_CCACCCTGGGCCAGAAGGGAACCCATTGCTCTGAAGAGAGACCCAAGCCTGGCAGGATTCACCACAAGCTGGCTCAACAGCCTTCAGGCCTTGAAAAAACATCAGTGGTAAGTAGGCAGTACTCACCACAGGCCTGGGGAGGTGGTAGCCACAGGGAGAGACTCCTTCTGCCTACGGAAAGAAGAGGAAAGAGTAAAAAGGACTCTGTCCTACAACTTAGGCACCAGCTCAGCCACAGAAAAATAAAGCACCAAGGAGATTCCTAAAGTTCCCAACTCCAGGCCCTAGCTCCCAGCCAGCATTTCCAGACTC_POLB	310	>=10	22	CACCCTGGGCCAGAAGGGAACC	0	-	Microhomology-mediated
e1e3841a-3281-11e6-9f9b-29bd9b6d3b88	11_111030723_ATA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	11	111030723	AT	A	360	PASS	-	Del	-	1	9	EXO1	child	11_111030723_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
e1e837a6-3288-11e6-a8ac-a28ea2c71c31	3_123012371_TACT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	123012371	TAC	T	480	PASS	ADCY5	Del	intronic	2	4	MSH6	child	3_123012371_TACT_MSH6	2	2	2	AC	3	AC	Repeat-mediated
e1ec4828-327e-11e6-9a18-69cfaa716c52	4_49511308_CAC	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	4	49511308	CA	C	369	PASS	-	Del	-	1	4	POLB	parent	4_49511308_CAC_POLB	1	1	1	A	3	A	Repeat-mediated
e1ecf0d8-329d-11e6-a5cf-205325c9da85	11_118517944_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	118517944	C	CA	1200	PASS	PHLDB1	Ins	intronic	1	6	MSH6	child	11_118517944_CCA_MSH6	1	1	-	-	-	-	Ins
e1ee5fa2-3281-11e6-a2e8-f2338e4678dd	15_78735948_GTG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	15	78735948	GT	G	600	PASS	IREB2	Del	intronic	1	7	EXO1	child	15_78735948_GTG_EXO1	1	1	1	T	6	T	Repeat-mediated
e1f1ccfc-3270-11e6-aafd-c7dee9d19ece	2_16080309_ATA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	2	16080309	AT	A	300	PASS	MYCN	Del	upstream	1	9	CHK2	child	2_16080309_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
e1f4cd92-329a-11e6-ae71-0c5325c9da85	1_48208154_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	48208154	CA	C	540	PASS	-	Del	-	1	9	MSH6	child	1_48208154_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
e1fea2aa-3325-11e6-91f6-970e147bb207	6_6289809_ATA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	6	6289809	AT	A	300	PASS	F13A1	Del	intronic	1	7	EXO1	child	6_6289809_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
e20158d0-326f-11e6-8b35-58bb7872c165	13_93440501_TAT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	13	93440501	TA	T	480	PASS	GPC5	Del	intronic	1	9	EXO1	parent	13_93440501_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
e2091f48-326f-11e6-9f48-94df41c4520d	12_130276372_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	130276372	C	CA	540	PASS	TMEM132D	Ins	intronic	1	2	MSH6	child	12_130276372_CCA_MSH6	1	1	-	-	-	-	Ins
e20ea9ce-3286-11e6-8404-8e1fbce6aa09	8_36131427_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	36131427	GA	G	540	PASS	-	Del	-	1	8	MSH6	child	8_36131427_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
e2228f0e-328e-11e6-847e-1aa5e7d0bdd7	13_22983718_TTA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	13	22983718	T	TA	420	PASS	-	Ins	-	1	7	FANCC	child	13_22983718_TTA_FANCC	1	1	-	-	-	-	Ins
e22bcf3c-328f-11e6-9d24-ade56f39e758	7_84517739_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	84517739	TA	T	480	PASS	-	Del	-	1	9	MSH6	child	7_84517739_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
e22d7a42-334a-11e6-9c63-4b9e38e8a824	8_73221670_AATTCTCCA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	8	73221670	AATTCTCC	A	300	PASS	-	Del	-	7	1	FANCC	child	8_73221670_AATTCTCCA_FANCC	7	7	2	AT	0	-	Microhomology-mediated
e230e76a-328f-11e6-8612-7b73fc77b11e	5_60620461_GTG	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	5	60620461	GT	G	660	PASS	-	Del	-	1	4	POLE	child	5_60620461_GTG_POLE	1	1	1	T	3	T	Repeat-mediated
e232c846-3253-11e6-8a2a-3af212ae24cf	16_21261026_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	16	21261026	AT	A	540	PASS	ANKS4B	Del	intronic	1	8	MSH6	child	16_21261026_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
e237e05c-3257-11e6-b4fa-e69a7872c165	21_25185704_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	21	25185704	GA	G	360	PASS	-	Del	-	1	7	MSH6	child	21_25185704_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
e238a164-328d-11e6-b9c4-751d0e01a414	5_110534291_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	110534291	CT	C	600	PASS	-	Del	-	1	9	MSH6	child	5_110534291_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
e238dd2c-327a-11e6-ab1d-16d9ecf1e924	20_4462447_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	4462447	A	AT	822	PASS	RP5-1164C1.2	Ins	intronic	1	5	MSH6	child	20_4462447_AAT_MSH6	1	1	-	-	-	-	Ins
e239d9de-3270-11e6-9260-549ffa52e078	11_32315562_ATA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	11	32315562	AT	A	480	PASS	-	Del	-	1	7	POLB	child	11_32315562_ATA_POLB	1	1	1	T	6	T	Repeat-mediated
e2486826-3254-11e6-92eb-77832aaffa45	10_49410780_GCG	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	10	49410780	GC	G	660	PASS	FRMPD2	Del	intronic	1	1	POLM	child	10_49410780_GCG_POLM	1	1	0	-	0	C	None
e24bd954-3284-11e6-924c-3208694da5d2	5_142450478_GGA	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	5	142450478	G	GA	300	PASS	ARHGAP26	Ins	intronic	1	8	NEIL1	child	5_142450478_GGA_NEIL1	1	1	-	-	-	-	Ins
e250e328-3323-11e6-898e-b9f2bbe6aa09	3_118147215_ATA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	3	118147215	AT	A	360	PASS	RP11-384F7.1	Del	intronic	1	7	POLE	child	3_118147215_ATA_POLE	1	1	1	T	6	T	Repeat-mediated
e25274dc-3255-11e6-a304-347a7872c165	1_159618887_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	159618887	CA	C	660	PASS	-	Del	-	1	9	MSH6	child	1_159618887_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
e253e9ea-3299-11e6-ae71-0c5325c9da85	1_4271474_AAAAAAAAAAGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	4271474	AAAAAAAAAAG	A	300	PASS	-	Del	-	10	1	MSH6	child	1_4271474_AAAAAAAAAAGA_MSH6	10	>=10	3	AAA	0	-	Microhomology-mediated
e2584252-328e-11e6-9d97-efe56f39e758	4_18342701_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	18342701	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	4_18342701_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
e25cd4ca-3289-11e6-a7cf-80090e01a414	15_48874310_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	48874310	GA	G	480	PASS	FBN1	Del	intronic	1	6	MSH6	child	15_48874310_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
e25fd472-3293-11e6-9d97-efe56f39e758	4_189082747_CCA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	189082747	C	CA	420	PASS	RP11-366H4.1	Ins	downstream	1	1	MSH6	child	4_189082747_CCA_MSH6	1	1	-	-	-	-	Ins
e26264bc-327f-11e6-97a4-78cfaa716c52	5_167447960_GAG	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	5	167447960	GA	G	600	PASS	TENM2	Del	intronic	1	8	POLB	parent	5_167447960_GAG_POLB	1	1	1	A	7	A	Repeat-mediated
e26b3110-3283-11e6-b1ba-6def1da8ec0e	1_12791537_CTCTGATGATCGTTTCTTTTGCTGAGCAGAAGCTCTTC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	1	12791537	CTCTGATGATCGTTTCTTTTGCTGAGCAGAAGCTCTT	C	516	PASS	AADACL3	Del	downstream	36	1	EXO1	child	1_12791537_CTCTGATGATCGTTTCTTTTGCTGAGCAGAAGCTCTTC_EXO1	36	>=10	1	T	0	-	Microhomology-mediated
e270215c-3274-11e6-abaf-4642cab49462	6_38989994_GGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	38989994	G	GT	300	PASS	DNAH8	Ins	intronic	1	8	MSH6	child	6_38989994_GGT_MSH6	1	1	-	-	-	-	Ins
e2767e54-326e-11e6-bfba-13bf4a47a305	9_37626325_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	37626325	GA	G	540	PASS	-	Del	-	1	7	MSH6	child	9_37626325_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
e27ebb1c-3284-11e6-97d5-6cf1bbe6aa09	17_38627495_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	38627495	AT	A	480	PASS	TNS4	Del	downstream	1	3	MSH6	child	17_38627495_ATA_MSH6	1	1	1	T	2	T	Repeat-mediated
e2803094-3290-11e6-8eec-d1257a852e0e	10_92924845_CTC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	10	92924845	CT	C	480	PASS	-	Del	-	1	9	CHK2	child	10_92924845_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
e28069fa-3282-11e6-a72f-6a393dc9300a	2_150317894_ATA	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	2	150317894	AT	A	300	PASS	LYPD6	Del	intronic	1	8	FANCC	child	2_150317894_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
e2829e88-329a-11e6-ae71-0c5325c9da85	1_48415663_GGAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	48415663	GGA	G	600	PASS	TRABD2B	Del	intronic	2	4	MSH6	child	1_48415663_GGAG_MSH6	2	2	2	GA	3	GA	Repeat-mediated
e28b5ef6-328b-11e6-a7cf-80090e01a414	15_100620891_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	100620891	CT	C	420	PASS	ADAMTS17	Del	intronic	1	7	MSH6	child	15_100620891_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
e28bd190-328d-11e6-aa75-90c36f39e758	13_68397820_CCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	68397820	C	CT	420	PASS	-	Ins	-	1	6	MSH6	child	13_68397820_CCT_MSH6	1	1	-	-	-	-	Ins
e299b686-328b-11e6-bd84-429305ad5bc4	1_44048689_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	44048689	CT	C	360	PASS	PTPRF	Del	intronic	1	8	MSH6	child	1_44048689_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
e2aa0ab6-328d-11e6-84e9-d36dfd44d094	2_158025239_TTCTCATAT	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	2	158025239	TTCTCATA	T	480	PASS	-	Del	-	7	1	POLM	child	2_158025239_TTCTCATAT_POLM	7	7	6	TCTCAT	0	-	Microhomology-mediated
e2be62ec-328b-11e6-b8e6-91c36f39e758	11_22964953_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	22964953	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	11_22964953_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
e2bfe770-326d-11e6-92dd-fda8977b3f23	10_96348209_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	96348209	CT	C	420	PASS	HELLS	Del	intronic	1	9	MSH6	child	10_96348209_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
e2c509be-3293-11e6-92cf-bf2a0e01a414	6_162502954_GGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	162502954	G	GA	960	PASS	PARK2	Ins	intronic	1	1	MSH6	child	6_162502954_GGA_MSH6	1	1	-	-	-	-	Ins
e2d04e6c-3259-11e6-8340-da9012ae24cf	6_96446173_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	96446173	AT	A	420	PASS	-	Del	-	1	2	MSH6	child	6_96446173_ATA_MSH6	1	1	1	T	1	T	Repeat-mediated
e2d31602-3276-11e6-92d2-c259c225ee11	3_43192576_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	43192576	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	3_43192576_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
e2d4b806-326f-11e6-a0a7-943dc225ee11	1_60801938_CTC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	1	60801938	CT	C	420	PASS	-	Del	-	1	9	EXO1	parent	1_60801938_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
e2e0f828-328d-11e6-9337-20a5e7d0bdd7	14_41532032_TAT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	14	41532032	TA	T	300	PASS	-	Del	-	1	6	FANCC	child	14_41532032_TAT_FANCC	1	1	1	A	5	A	Repeat-mediated
e2e5c5da-3321-11e6-91ad-40968a20d9eb	17_8948955_AGA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	17	8948955	AG	A	540	PASS	NTN1	Del	intronic	1	1	EXO1	child	17_8948955_AGA_EXO1	1	1	0	-	0	G	None
e2ecec8e-329a-11e6-a5cf-205325c9da85	11_65442654_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	65442654	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	11_65442654_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
e2f19368-3274-11e6-9fdc-736366a58581	6_113760860_TAT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	6	113760860	TA	T	480	PASS	-	Del	-	1	8	EXO1	parent	6_113760860_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
e302ace6-328a-11e6-aff5-85090e01a414	16_87456989_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	87456989	TA	T	480	PASS	ZCCHC14	Del	intronic	1	7	MSH6	child	16_87456989_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
e304bdd0-3283-11e6-847a-5cef1da8ec0e	11_12758433_CTC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	11	12758433	CT	C	480	PASS	TEAD1	Del	intronic	1	7	EXO1	child	11_12758433_CTC_EXO1	1	1	1	T	6	T	Repeat-mediated
e30e3880-3272-11e6-8f50-b45335cec73b	19_34415422_AAT	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	19	34415422	A	AT	600	PASS	-	Ins	-	1	6	CHK2	child	19_34415422_AAT_CHK2	1	1	-	-	-	-	Ins
e316d63c-3283-11e6-b179-b9af90e2c2e6	15_34272224_GAG	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	15	34272224	GA	G	420	PASS	CHRM5	Del	intronic	1	8	POLE	child	15_34272224_GAG_POLE	1	1	1	A	7	A	Repeat-mediated
e31d6678-329c-11e6-b129-195325c9da85	16_62706967_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	62706967	C	CT	720	PASS	-	Ins	-	1	9	MSH6	child	16_62706967_CCT_MSH6	1	1	-	-	-	-	Ins
e31ec198-328e-11e6-8b82-18a5e7d0bdd7	15_76643032_TGCTATAGGAAAAAT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	15	76643032	TGCTATAGGAAAAA	T	360	PASS	SCAPER	Del	intronic	13	1	FANCC	child	15_76643032_TGCTATAGGAAAAAT_FANCC	13	>=10	0	-	0	-	None
e32aa986-329d-11e6-ae71-0c5325c9da85	1_234945188_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	234945188	GT	G	321	PASS	-	Del	-	1	7	MSH6	child	1_234945188_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
e337a2ce-3321-11e6-8ccd-5c056323ba5a	2_17441836_TAT	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	2	17441836	TA	T	720	PASS	-	Del	-	1	3	EXO1	child	2_17441836_TAT_EXO1	1	1	1	A	2	A	Repeat-mediated
e33f34c8-3289-11e6-a32d-75090e01a414	14_58799157_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	58799157	CT	C	540	PASS	ARID4A	Del	intronic	1	5	MSH6	child	14_58799157_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
e3482b14-3275-11e6-a3dd-600b4ec77248	2_219623481_GAG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	2	219623481	GA	G	720	PASS	TTLL4	Del	downstream	1	3	EXO1	child	2_219623481_GAG_EXO1	1	1	1	A	2	A	Repeat-mediated
e34b0d00-3272-11e6-9e18-3a69671699ea	10_32553763_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	32553763	CT	C	420	PASS	EPC1	Del	downstream	1	8	MSH6	child	10_32553763_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
e34fb5d0-3277-11e6-a391-f6d67d6a9fc7	6_26851363_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	26851363	TG	T	532	PASS	-	Del	-	1	5	MSH6	child	6_26851363_TGT_MSH6	1	1	1	G	4	G	Repeat-mediated
e34fcf2c-327a-11e6-92d2-c259c225ee11	3_129932274_GGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	129932274	G	GT	420	PASS	-	Ins	-	1	7	MSH6	child	3_129932274_GGT_MSH6	1	1	-	-	-	-	Ins
e35aa1ba-3287-11e6-a8ac-a28ea2c71c31	3_26131694_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	26131694	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	3_26131694_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
e3620cc8-3289-11e6-8eee-76090e01a414	10_37501765_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	37501765	CT	C	300	PASS	ANKRD30A	Del	intronic	1	9	MSH6	child	10_37501765_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
e3647af8-3284-11e6-9170-b6936f39e758	12_82471129_CTC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	12	82471129	CT	C	300	PASS	-	Del	-	1	6	EXO1	child	12_82471129_CTC_EXO1	1	1	1	T	5	T	Repeat-mediated
e365f968-3320-11e6-8b61-fad5c042253c	12_51101975_CATC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	12	51101975	CAT	C	300	PASS	DIP2B	Del	intronic	2	2	CHK2	child	12_51101975_CATC_CHK2	2	2	2	AT	1	AT	Repeat-mediated
e36dc96c-329f-11e6-aea7-956725c9da85	3_89235193_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	89235193	CT	C	600	PASS	EPHA3	Del	intronic	1	7	MSH6	child	3_89235193_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
e36e7b7a-3275-11e6-a71d-236235cec73b	X_47561543_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	47561543	TA	T	840	PASS	-	Del	-	1	8	MSH6	child	X_47561543_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
e372cdfc-329c-11e6-ae71-0c5325c9da85	1_176378515_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	176378515	CT	C	660	PASS	-	Del	-	1	8	MSH6	child	1_176378515_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
e3743726-3258-11e6-a39a-dc8512ae24cf	8_76597811_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	76597811	AT	A	720	PASS	-	Del	-	1	8	MSH6	child	8_76597811_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
e376ba24-32a2-11e6-b970-398625c9da85	20_35239695_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	35239695	AT	A	660	PASS	SLA2	Del	downstream	1	9	MSH6	child	20_35239695_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e37a52c0-329c-11e6-8d0f-075325c9da85	14_98234176_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	98234176	C	CA	780	PASS	-	Ins	-	1	1	MSH6	child	14_98234176_CCA_MSH6	1	1	-	-	-	-	Ins
e37cae3e-3257-11e6-8cd9-139b7872c165	3_26041921_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	26041921	GT	G	360	PASS	-	Del	-	1	8	MSH6	child	3_26041921_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
e38ab96c-326f-11e6-a814-019f38e8a824	18_69347390_TAT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	18	69347390	TA	T	480	PASS	-	Del	-	1	8	NUDT1	child	18_69347390_TAT_NUDT1	1	1	1	A	7	A	Repeat-mediated
e3a41fd8-329c-11e6-aca6-b39fcc638e3d	2_201855121_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	201855121	AT	A	420	PASS	FAM126B	Del	intronic	1	9	MSH6	child	2_201855121_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e3a6eaa0-3275-11e6-a6a8-746da178171f	4_124679064_GTTCG	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	4	124679064	GTTC	G	840	PASS	LINC01091	Del	intronic	3	2	NEIL1	child	4_124679064_GTTCG_NEIL1	3	3	3	TTC	1	TTC	Repeat-mediated
e3aa809a-328c-11e6-b805-77090e01a414	2_237708624_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	237708624	TA	T	660	PASS	-	Del	-	1	8	MSH6	child	2_237708624_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
e3ac05b2-3257-11e6-885f-d1947872c165	4_125067685_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	125067685	CT	C	600	PASS	CTD-2325B11.1	Del	downstream	1	8	MSH6	child	4_125067685_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
e3ad50b8-3282-11e6-8597-c8186ee4ab00	8_42196525_TTCAGAACTCGCAAACTTTGAGAAGAACGTGAGCCAAGCTATCCACAAGTACAATGCTTACAGGTGGGACAGTGCAGCATTCTCGGGTAGCATACGTTCTGGGATACCCTGTTTAGTGTGGCAATTAACAGGACTGAGGGCCCAGTGGATATTTGGTCCATCTGCAAGAGCGGGAAAAAGCAAGAATCGAGGCTGGTACCTTACTATTTCTTGAAGAATGTGGGCAGTGCGTTATAGGATCAGTTCAGATAAGTTCCCAATTCTGATTGCAGATAGCTGTAGCCTGATACGTATTTTGTCATCATCAAACATGAATTACTAGAAATGCGGTGTAATTTTAACCGTAATGAAAGACAGCGGATGAAGTCCATACTGTGAAATATATGTGGTTCAAGGAATCACATTTTTTCTTTTGGTTGGTCTAAAGTTGATCCTGTGGGATCCTGATCCTGATCCTTGTTCCTTGTTCATGGGATCCTGTCCTTGTTCATCTCACCAGGGGCCTTATCCTATTCATTCTTTCTCCGTTTGCTCATGGCGGCCTG	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	8	42196525	TTCAGAACTCGCAAACTTTGAGAAGAACGTGAGCCAAGCTATCCACAAGTACAATGCTTACAGGTGGGACAGTGCAGCATTCTCGGGTAGCATACGTTCTGGGATACCCTGTTTAGTGTGGCAATTAACAGGACTGAGGGCCCAGTGGATATTTGGTCCATCTGCAAGAGCGGGAAAAAGCAAGAATCGAGGCTGGTACCTTACTATTTCTTGAAGAATGTGGGCAGTGCGTTATAGGATCAGTTCAGATAAGTTCCCAATTCTGATTGCAGATAGCTGTAGCCTGATACGTATTTTGTCATCATCAAACATGAATTACTAGAAATGCGGTGTAATTTTAACCGTAATGAAAGACAGCGGATGAAGTCCATACTGTGAAATATATGTGGTTCAAGGAATCACATTTTTTCTTTTGGTTGGTCTAAAGTTGATCCTGTGGGATCCTGATCCTGATCCTTGTTCCTTGTTCATGGGATCCTGTCCTTGTTCATCTCACCAGGGGCCTTATCCTATTCATTCTTTC	TCCGTTTGCTCATGGCGGCCTG	660	PASS	POLB	Complex	SO:0000010:protein_coding,SO:0000316:CDS,SO:0000147:exon,SO:0001993:extended_cis_splice_site,SO:0000188:intron,SO:0001996:extended_intronic_splice_region,SO:1000032:indel,SO:0001577:complex_change_in_transcript,SO:0001576:transcript_variant	522	0	POLB	parent	8_42196525_TTCAGAACTCGCAAACTTTGAGAAGAACGTGAGCCAAGCTATCCACAAGTACAATGCTTACAGGTGGGACAGTGCAGCATTCTCGGGTAGCATACGTTCTGGGATACCCTGTTTAGTGTGGCAATTAACAGGACTGAGGGCCCAGTGGATATTTGGTCCATCTGCAAGAGCGGGAAAAAGCAAGAATCGAGGCTGGTACCTTACTATTTCTTGAAGAATGTGGGCAGTGCGTTATAGGATCAGTTCAGATAAGTTCCCAATTCTGATTGCAGATAGCTGTAGCCTGATACGTATTTTGTCATCATCAAACATGAATTACTAGAAATGCGGTGTAATTTTAACCGTAATGAAAGACAGCGGATGAAGTCCATACTGTGAAATATATGTGGTTCAAGGAATCACATTTTTTCTTTTGGTTGGTCTAAAGTTGATCCTGTGGGATCCTGATCCTGATCCTTGTTCCTTGTTCATGGGATCCTGTCCTTGTTCATCTCACCAGGGGCCTTATCCTATTCATTCTTTCTCCGTTTGCTCATGGCGGCCTG_POLB	501	>=10	-	-	-	-	Complex
e3add4ac-328c-11e6-8256-94c36f39e758	17_68301120_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	68301120	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	17_68301120_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
e3c0c27e-325a-11e6-8b28-55ad7872c165	20_18226193_TCT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	18226193	TC	T	360	PASS	-	Del	-	1	6	MSH6	child	20_18226193_TCT_MSH6	1	1	1	C	5	C	Repeat-mediated
e3c51100-3285-11e6-a673-cc9b38e8a824	7_151307651_TACTCTGGAGGCTGAT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	7	151307651	TACTCTGGAGGCTGA	T	540	PASS	PRKAG2	Del	intronic	14	1	POLE	parent	7_151307651_TACTCTGGAGGCTGAT_POLE	14	>=10	0	-	0	-	None
e3da2218-3274-11e6-a862-bc9becf1e924	1_166952609_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	166952609	CT	C	360	PASS	-	Del	-	1	7	MSH6	child	1_166952609_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
e3e32fea-3281-11e6-bd52-75299ecd0b3a	11_125794929_ATA	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	11	125794929	AT	A	900	PASS	DDX25	Del	downstream	1	9	POLB	child	11_125794929_ATA_POLB	1	1	1	T	8	T	Repeat-mediated
e3e7dde4-3284-11e6-97d5-6cf1bbe6aa09	17_39105104_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	39105104	CA	C	300	PASS	-	Del	-	1	5	MSH6	child	17_39105104_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
e3f2efb6-3272-11e6-961c-b84b3cfdbd24	18_61787230_CCA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	18	61787230	C	CA	660	PASS	RP11-146N18.1	Ins	intronic	1	7	MSH6	parent	18_61787230_CCA_MSH6	1	1	-	-	-	-	Ins
e3f4303c-3291-11e6-a454-be257a852e0e	17_43029376_TTGTATATATGTATATATACGTATATATGTATATATGTATATATAC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	17	43029376	T	TGTATATATGTATATATACGTATATATGTATATATGTATATATAC	360	PASS	KIF18B	Ins	upstream	44	0	CHK2	child	17_43029376_TTGTATATATGTATATATACGTATATATGTATATATGTATATATAC_CHK2	44	>=10	-	-	-	-	Ins
e3f88edc-3289-11e6-a8ac-a28ea2c71c31	3_23818406_GGA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	23818406	G	GA	420	PASS	-	Ins	-	1	7	MSH6	child	3_23818406_GGA_MSH6	1	1	-	-	-	-	Ins
e3f9736c-3282-11e6-8a7a-74ed1f4bbf9c	7_6286196_ATA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	7	6286196	AT	A	300	PASS	CYTH3	Del	intronic	1	9	EXO1	child	7_6286196_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
e3fb7cac-334a-11e6-a9cc-a0a270cce0de	2_67762980_GGT	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	2	67762980	G	GT	780	PASS	-	Ins	-	1	6	FANCC	child	2_67762980_GGT_FANCC	1	1	-	-	-	-	Ins
e3fdad74-3287-11e6-8bbd-f88da2c71c31	21_34782298_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	21	34782298	AT	A	420	PASS	IFNGR2	Del	intronic	1	9	MSH6	child	21_34782298_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e406df20-3273-11e6-983a-1d8bcf737e61	7_23788335_CTC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	7	23788335	CT	C	300	PASS	STK31	Del	intronic	1	8	POLB	child	7_23788335_CTC_POLB	1	1	1	T	7	T	Repeat-mediated
e407cef8-3273-11e6-8fc6-c022c7271a47	4_158477090_GTG	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	4	158477090	GT	G	1140	PASS	-	Del	-	1	5	POLB	child	4_158477090_GTG_POLB	1	1	1	T	4	T	Repeat-mediated
e4090f4e-3254-11e6-89d3-d29498816cf3	2_151006227_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	151006227	AT	A	720	PASS	-	Del	-	1	9	MSH6	child	2_151006227_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e4152260-328c-11e6-b43c-7ec36f39e758	16_81045939_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	81045939	GA	G	300	PASS	CENPN	Del	intronic	1	6	MSH6	child	16_81045939_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
e4172d56-3293-11e6-9230-fb250e01a414	3_196147045_AAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	196147045	A	AG	900	PASS	UBXN7	Ins	intronic	1	6	MSH6	child	3_196147045_AAG_MSH6	1	1	-	-	-	-	Ins
e41e9690-3289-11e6-9996-bebd38e8a824	X_16707832_AACA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	X	16707832	AAC	A	600	PASS	CTPS2	Del	intronic	2	6	NUDT1	parent	X_16707832_AACA_NUDT1	2	2	2	AC	5	AC	Repeat-mediated
e426cd74-3275-11e6-90fa-056466a58581	4_154182582_GAG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	4	154182582	GA	G	360	PASS	TRIM2	Del	intronic	1	9	FANCC	child	4_154182582_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
e43621b2-326f-11e6-bfba-13bf4a47a305	9_135382943_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	9	135382943	TA	T	300	PASS	C9orf171	Del	intronic	1	7	MSH6	child	9_135382943_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
e441748e-3280-11e6-8973-e1308e4678dd	11_40316402_TAT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	11	40316402	TA	T	300	PASS	LRRC4C	Del	upstream	1	9	FANCC	child	11_40316402_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
e4439384-3273-11e6-aa3b-ca60a178171f	13_20434613_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	20434613	T	TA	300	PASS	ZMYM5	Ins	intronic	1	1	MSH6	child	13_20434613_TTA_MSH6	1	1	-	-	-	-	Ins
e45e0a30-328b-11e6-bd84-429305ad5bc4	1_44760173_TCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	44760173	TC	T	480	PASS	ERI3	Del	intronic	1	4	MSH6	child	1_44760173_TCT_MSH6	1	1	1	C	3	C	Repeat-mediated
e46318de-328d-11e6-a6b1-9a5c694da5d2	10_104549075_CTC	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	10	104549075	CT	C	1200	PASS	WBP1L	Del	intronic	1	2	POLM	child	10_104549075_CTC_POLM	1	1	1	T	1	T	Repeat-mediated
e46498de-3270-11e6-9260-549ffa52e078	11_32727934_CAC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	11	32727934	CA	C	300	PASS	CCDC73	Del	intronic	1	8	POLB	child	11_32727934_CAC_POLB	1	1	1	A	7	A	Repeat-mediated
e4651c54-326c-11e6-adc2-b7204b47a305	18_23446803_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	23446803	GA	G	660	PASS	-	Del	-	1	7	MSH6	child	18_23446803_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
e4690704-328c-11e6-88c1-95c36f39e758	14_101004529_TCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	101004529	TC	T	300	PASS	BEGAIN	Del	frameshift	1	8	MSH6	child	14_101004529_TCT_MSH6	1	1	1	C	7	C	Repeat-mediated
e4778c0c-329b-11e6-a5cf-205325c9da85	11_127390637_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	127390637	GT	G	720	PASS	-	Del	-	1	2	MSH6	child	11_127390637_GTG_MSH6	1	1	1	T	1	T	Repeat-mediated
e478cdb0-3287-11e6-a5b3-3f1ebce6aa09	7_135076286_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	135076286	GA	G	660	PASS	CNOT4	Del	intronic	1	9	MSH6	child	7_135076286_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
e47e3364-328b-11e6-b8e6-91c36f39e758	11_23351637_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	23351637	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	11_23351637_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
e4896abc-328c-11e6-aa75-90c36f39e758	13_106877156_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	106877156	TA	T	720	PASS	-	Del	-	1	8	MSH6	child	13_106877156_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
e492a39c-326f-11e6-8a0d-fc4238e8a824	1_98273401_ATA	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	1	98273401	AT	A	480	PASS	DPYD	Del	intronic	1	9	POLM	child	1_98273401_ATA_POLM	1	1	1	T	8	T	Repeat-mediated
e49eaa2e-3284-11e6-a1ac-fd6da2c71c31	13_63549585_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	63549585	CA	C	420	PASS	-	Del	-	1	7	MSH6	child	13_63549585_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
e49f0408-3287-11e6-af7e-81c435cec73b	4_92751939_ATA	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	4	92751939	AT	A	420	PASS	-	Del	-	1	8	POLE	child	4_92751939_ATA_POLE	1	1	1	T	7	T	Repeat-mediated
e4bda4f4-3272-11e6-b332-88ba7d6a9fc7	15_43190588_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	43190588	CA	C	688	PASS	TTBK2	Del	intronic	1	6	MSH6	child	15_43190588_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
e4bdb600-3322-11e6-8db2-39e579852e0e	2_216359417_AGA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	2	216359417	AG	A	600	PASS	-	Del	-	1	1	POLE	child	2_216359417_AGA_POLE	1	1	0	-	0	G	None
e4cc62e0-329b-11e6-aca6-b39fcc638e3d	2_138998319_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	138998319	GA	G	780	PASS	-	Del	-	1	8	MSH6	child	2_138998319_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
e4d1c53c-32a0-11e6-a04f-c66a25c9da85	6_105146899_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	105146899	GT	G	900	PASS	-	Del	-	1	8	MSH6	child	6_105146899_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
e4d203c4-3275-11e6-8c34-46e27872c165	5_35534323_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	35534323	GT	G	480	PASS	-	Del	-	1	6	MSH6	child	5_35534323_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
e4d78576-325a-11e6-8b28-55ad7872c165	20_18475025_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	18475025	GA	G	300	PASS	RBBP9	Del	intronic	1	9	MSH6	child	20_18475025_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
e4d83978-3253-11e6-aedc-3df212ae24cf	19_12259788_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	19	12259788	TA	T	480	PASS	ZNF625	Del	intronic	1	9	MSH6	child	19_12259788_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
e4e0400c-3274-11e6-86e1-8d021ea8ec0e	X_64320312_GACG	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	X	64320312	GAC	G	360	PASS	-	Del	-	2	2	POLB	child	X_64320312_GACG_POLB	2	2	2	AC	1	AC	Repeat-mediated
e4e73a2a-3291-11e6-9401-04ed6f39e758	3_133917316_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	133917316	AT	A	360	PASS	RYK	Del	intronic	1	8	MSH6	child	3_133917316_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
e4e8a64a-329a-11e6-bda6-065325c9da85	13_86310535_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	86310535	CA	C	540	PASS	-	Del	-	1	9	MSH6	child	13_86310535_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
e4f729d0-3273-11e6-8cac-d8617098ee92	10_90890535_TTATGA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	10	90890535	T	TATGA	840	PASS	-	Ins	-	4	0	FANCC	child	10_90890535_TTATGA_FANCC	4	4	-	-	-	-	Ins
e4feff6c-3254-11e6-89d3-d29498816cf3	2_151423577_TGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	151423577	TG	T	480	PASS	AC104777.2	Del	intronic	1	1	MSH6	child	2_151423577_TGT_MSH6	1	1	0	-	0	G	None
e505d3bc-3274-11e6-9e4c-96041ea8ec0e	5_75854339_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	5	75854339	AT	A	360	PASS	IQGAP2	Del	intronic	1	8	FANCC	child	5_75854339_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
e50a7ff0-3294-11e6-9401-04ed6f39e758	3_149169525_AAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	149169525	A	AG	300	PASS	-	Ins	-	1	1	MSH6	child	3_149169525_AAG_MSH6	1	1	-	-	-	-	Ins
e50a9c82-3286-11e6-8b67-086ea2c71c31	1_224212605_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	224212605	CT	C	449	PASS	-	Del	-	1	4	MSH6	child	1_224212605_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
e50b60ae-328b-11e6-b805-77090e01a414	2_175447282_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	175447282	AT	A	360	PASS	WIPF1	Del	intronic	1	9	MSH6	child	2_175447282_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e50c5794-3253-11e6-a03d-40f212ae24cf	18_25240062_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	18	25240062	TA	T	480	PASS	-	Del	-	1	9	MSH6	child	18_25240062_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
e50f3152-329f-11e6-91d0-016425c9da85	7_141891402_CTAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	141891402	CTA	C	540	PASS	-	Del	-	2	7	MSH6	child	7_141891402_CTAC_MSH6	2	2	2	TA	6	TA	Repeat-mediated
e512354c-328f-11e6-b52f-4eeb6f39e758	22_29133018_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	22	29133018	CA	C	420	PASS	CHEK2	Del	intronic	1	8	MSH6	child	22_29133018_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
e51904cc-329d-11e6-bc66-17b4cc638e3d	8_26422289_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	26422289	TA	T	720	PASS	DPYSL2	Del	intronic	1	6	MSH6	child	8_26422289_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
e51ef1fe-3278-11e6-81cf-37408a20d9eb	8_140939133_GAG	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	8	140939133	GA	G	300	PASS	TRAPPC9	Del	intronic	1	9	EXO1	child	8_140939133_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
e51f7346-328b-11e6-b4fe-93c36f39e758	12_20627895_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	20627895	CT	C	480	PASS	PDE3A	Del	intronic	1	9	MSH6	child	12_20627895_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
e5305892-326c-11e6-9793-9a8fb0dab373	13_40101835_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	40101835	AT	A	540	PASS	LHFP	Del	intronic	1	7	MSH6	child	13_40101835_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
e5330e9e-3270-11e6-b89d-b2d6b0dab373	4_92870222_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	92870222	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	4_92870222_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
e53b585e-3290-11e6-9432-c0e56f39e758	5_163760216_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	163760216	AT	A	660	PASS	-	Del	-	1	8	MSH6	child	5_163760216_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
e547d334-328d-11e6-919e-92c36f39e758	2_163660896_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	163660896	TA	T	420	PASS	KCNH7	Del	intronic	1	7	MSH6	child	2_163660896_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
e547fb38-328e-11e6-9432-c0e56f39e758	5_22087460_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	22087460	GA	G	480	PASS	CDH12	Del	intronic	1	6	MSH6	child	5_22087460_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
e54dc814-3285-11e6-afcf-0311bce6aa09	9_6275222_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	6275222	TA	T	660	PASS	-	Del	-	1	8	MSH6	child	9_6275222_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
e566a072-329f-11e6-91d0-016425c9da85	7_141951251_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	141951251	CA	C	600	PASS	PRSS58	Del	downstream	1	7	MSH6	child	7_141951251_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
e568bb02-3275-11e6-a2a4-305390e2c2e6	3_14483512_AAGGT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	3	14483512	A	AGGT	780	PASS	SLC6A6	Ins	intronic	3	0	POLB	child	3_14483512_AAGGT_POLB	3	3	-	-	-	-	Ins
e5709ee2-3286-11e6-95fb-1402b5d65427	10_2619248_TAT	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	10	2619248	TA	T	600	PASS	-	Del	-	1	4	NUDT1	parent	10_2619248_TAT_NUDT1	1	1	1	A	3	A	Repeat-mediated
e58f83b0-3273-11e6-983a-1d8bcf737e61	7_24182859_CCAAGAAGGC	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	7	24182859	CCAAGAAGG	C	480	PASS	-	Del	-	8	1	POLB	child	7_24182859_CCAAGAAGGC_POLB	8	8	3	CAA	0	-	Microhomology-mediated
e596f274-327f-11e6-afd6-7a186ee4ab00	7_21130898_GAG	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	7	21130898	GA	G	289	PASS	-	Del	-	1	6	POLB	parent	7_21130898_GAG_POLB	1	1	1	A	5	A	Repeat-mediated
e59860f4-3276-11e6-a1d0-c9e56de4ab00	4_38534442_TGCTATTATAGT	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	4	38534442	TGCTATTATAG	T	540	PASS	-	Del	-	10	1	NEIL1	child	4_38534442_TGCTATTATAGT_NEIL1	10	>=10	0	-	0	-	None
e5a2a70e-3270-11e6-b09c-a7fe7146d362	10_21175116_ATA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	10	21175116	AT	A	480	PASS	NEBL	Del	intronic	1	8	CHK2	child	10_21175116_ATA_CHK2	1	1	1	T	7	T	Repeat-mediated
e5a35dce-329e-11e6-94ca-0aaecc638e3d	X_77251575_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	77251575	CA	C	1020	PASS	ATP7A	Del	intronic	1	7	MSH6	child	X_77251575_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
e5a814f0-3275-11e6-8c34-46e27872c165	5_35783031_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	35783031	GA	G	660	PASS	SPEF2	Del	intronic	1	6	MSH6	child	5_35783031_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
e5b71944-3295-11e6-9ac5-d165046f68b1	7_147364903_TAT	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	7	147364903	TA	T	540	PASS	CNTNAP2	Del	intronic	1	8	NEIL1	child	7_147364903_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
e5c5119a-3289-11e6-b0c4-e9b2cc638e3d	18_63487492_CAC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	18	63487492	CA	C	360	PASS	CDH7	Del	intronic	1	3	NUDT1	child	18_63487492_CAC_NUDT1	1	1	1	A	2	A	Repeat-mediated
e5cefd04-3275-11e6-8889-c85efc77b11e	4_137244006_TAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	4	137244006	TA	T	480	PASS	RP11-775H9.2	Del	intronic	1	7	MSH6	parent	4_137244006_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
e5d0ca4e-329d-11e6-ae71-0c5325c9da85	1_235520396_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	235520396	TA	T	720	PASS	-	Del	-	1	4	MSH6	child	1_235520396_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
e5d0f1ec-3278-11e6-92d2-c259c225ee11	3_188519810_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	188519810	CT	C	600	PASS	LPP	Del	intronic	1	8	MSH6	child	3_188519810_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
e5d9cbbc-3275-11e6-90fa-056466a58581	4_154504662_GATAAG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	4	154504662	GATAA	G	360	PASS	KIAA0922	Del	intronic	4	1	FANCC	child	4_154504662_GATAAG_FANCC	4	4	3	ATA	0	-	Microhomology-mediated
e5dd5316-3286-11e6-8404-8e1fbce6aa09	8_37587274_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	37587274	GA	G	780	PASS	-	Del	-	1	8	MSH6	child	8_37587274_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
e5dde2a2-3256-11e6-9d5a-0c8112ae24cf	9_88810612_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	88810612	CT	C	600	PASS	-	Del	-	1	9	MSH6	child	9_88810612_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
e5e76a36-328b-11e6-b8e6-91c36f39e758	11_23534285_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	23534285	GA	G	600	PASS	-	Del	-	1	6	MSH6	child	11_23534285_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
e5e7e878-3275-11e6-abaf-4642cab49462	6_118653760_GGCCCTGCATGTGGACTCTGATTTCTGATCATTTGTTTTAAATTTATCAGCTCTACAGATACGA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	118653760	G	GCCCTGCATGTGGACTCTGATTTCTGATCATTTGTTTTAAATTTATCAGCTCTACAGATACGA	300	PASS	-	Ins	-	62	0	MSH6	child	6_118653760_GGCCCTGCATGTGGACTCTGATTTCTGATCATTTGTTTTAAATTTATCAGCTCTACAGATACGA_MSH6	62	>=10	-	-	-	-	Ins
e5f5a3f4-326c-11e6-9003-ae204b47a305	19_10573068_TCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	10573068	TC	T	540	PASS	PDE4A	Del	intronic	1	8	MSH6	child	19_10573068_TCT_MSH6	1	1	1	C	7	C	Repeat-mediated
e5f75768-3270-11e6-b5b8-e0c24a47a305	X_96095604_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	96095604	AT	A	300	PASS	DIAPH2	Del	intronic	1	9	MSH6	child	X_96095604_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e5f92776-3286-11e6-8404-8e1fbce6aa09	8_37615707_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	37615707	GT	G	540	PASS	ERLIN2	Del	3prime_UTR_variant	1	8	MSH6	child	8_37615707_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
e5fc05d6-328b-11e6-a7cf-80090e01a414	15_101570086_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	101570086	CA	C	420	PASS	LRRK1	Del	intronic	1	7	MSH6	child	15_101570086_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
e5fcdc70-3283-11e6-901a-b6959cdf095d	X_55238125_CTC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	X	55238125	CT	C	420	PASS	-	Del	-	1	7	POLE	child	X_55238125_CTC_POLE	1	1	1	T	6	T	Repeat-mediated
e602ac3e-3276-11e6-998e-ba48fa52e078	8_88361612_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	88361612	AT	A	300	PASS	CNBD1	Del	intronic	1	9	MSH6	child	8_88361612_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e603638a-3272-11e6-b09c-a7fe7146d362	10_16985003_AATAGT	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	10	16985003	A	ATAGT	480	PASS	CUBN	Ins	intronic	4	0	CHK2	child	10_16985003_AATAGT_CHK2	4	4	-	-	-	-	Ins
e6125014-328d-11e6-9230-fb250e01a414	3_1773059_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	1773059	GA	G	300	PASS	-	Del	-	1	8	MSH6	child	3_1773059_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
e62617cc-329a-11e6-b74d-b59fcc638e3d	18_68218545_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	68218545	TA	T	642	PASS	-	Del	-	1	9	MSH6	child	18_68218545_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
e63da9b2-328d-11e6-bfa2-581f0e01a414	7_73145263_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	73145263	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	7_73145263_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
e63efa5c-328c-11e6-bba4-c0bdcc638e3d	9_2757131_AAT	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	9	2757131	A	AT	540	PASS	-	Ins	-	1	2	NUDT1	child	9_2757131_AAT_NUDT1	1	1	-	-	-	-	Ins
e64ec8f4-3284-11e6-99f7-076ea2c71c31	12_47321284_ACA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	47321284	AC	A	600	PASS	-	Del	-	1	2	MSH6	child	12_47321284_ACA_MSH6	1	1	1	C	1	C	Repeat-mediated
e658eac0-326e-11e6-acc7-e55219a91649	1_205583283_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	205583283	CA	C	420	PASS	ELK4	Del	3prime_UTR_variant	1	5	MSH6	child	1_205583283_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
e663e1a6-3286-11e6-a284-4b89a2c71c31	4_34004419_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	34004419	CT	C	412	PASS	RP11-79E3.3	Del	intronic	1	8	MSH6	child	4_34004419_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
e6642cc6-3275-11e6-98dc-d270cde16804	22_48373571_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	22	48373571	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	22_48373571_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e664dadc-3256-11e6-b4d0-327a7872c165	11_101213362_TTA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	101213362	T	TA	540	PASS	-	Ins	-	1	9	MSH6	child	11_101213362_TTA_MSH6	1	1	-	-	-	-	Ins
e6671a94-3289-11e6-bbaf-7c090e01a414	19_21727346_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	21727346	GT	G	660	PASS	-	Del	-	1	9	MSH6	child	19_21727346_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
e66b929e-3294-11e6-ba9e-5c48a178171f	13_86128766_CCA	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	13	86128766	C	CA	360	PASS	-	Ins	-	1	6	NEIL1	child	13_86128766_CCA_NEIL1	1	1	-	-	-	-	Ins
e66fd06c-328e-11e6-b960-ae6919a91649	15_52037419_CAC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	15	52037419	CA	C	300	PASS	LYSMD2	Del	intronic	1	7	NEIL1	child	15_52037419_CAC_NEIL1	1	1	1	A	6	A	Repeat-mediated
e671f394-325a-11e6-8340-da9012ae24cf	6_165191248_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	165191248	CA	C	480	PASS	-	Del	-	1	8	MSH6	child	6_165191248_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
e67331da-329d-11e6-bc2c-2a5e25c9da85	4_63413143_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	63413143	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	4_63413143_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
e6748508-328e-11e6-b6a6-1f1e0e01a414	4_152633793_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	152633793	CA	C	300	PASS	PET112	Del	intronic	1	9	MSH6	child	4_152633793_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
e681cf60-3284-11e6-aa7b-37792aaffa45	5_175390144_CAGC	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	5	175390144	CAG	C	303	PASS	THOC3	Del	intronic	2	1	POLE	child	5_175390144_CAGC_POLE	2	2	1	A	0	-	Microhomology-mediated
e68ccb08-3299-11e6-b549-1e5325c9da85	10_5307136_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	5307136	GT	G	600	PASS	RP11-445P17.8	Del	downstream	1	5	MSH6	child	10_5307136_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
e68ed3b2-3258-11e6-8340-da9012ae24cf	6_26889298_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	26889298	AT	A	391	PASS	-	Del	-	1	6	MSH6	child	6_26889298_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
e69110cc-3272-11e6-a5d0-4fd14a47a305	2_43983655_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	43983655	TA	T	660	PASS	PLEKHH2	Del	intronic	1	5	MSH6	child	2_43983655_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
e6a0690c-334c-11e6-b3a1-d0f2137bb207	5_163341107_TTA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	5	163341107	T	TA	420	PASS	-	Ins	-	1	7	FANCC	child	5_163341107_TTA_FANCC	1	1	-	-	-	-	Ins
e6b999d6-32a2-11e6-bc66-17b4cc638e3d	8_102500285_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	102500285	C	CA	600	PASS	GRHL2	Ins	upstream	1	1	MSH6	child	8_102500285_CCA_MSH6	1	1	-	-	-	-	Ins
e6bc83c6-3284-11e6-9f6f-202d36fc2f7d	5_175434513_GAG	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	5	175434513	GA	G	506	PASS	-	Del	-	1	9	NUDT1	child	5_175434513_GAG_NUDT1	1	1	1	A	8	A	Repeat-mediated
e6cc6c26-328b-11e6-88c1-95c36f39e758	14_41673658_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	41673658	CT	C	600	PASS	-	Del	-	1	9	MSH6	child	14_41673658_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
e6d482f2-328c-11e6-8952-77c36f39e758	10_86781889_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	86781889	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	10_86781889_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
e6d5fe20-3273-11e6-8e2a-7f03630e6611	X_57020480_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	X	57020480	AT	A	300	PASS	SPIN3	Del	downstream	1	7	FANCC	child	X_57020480_ATA_FANCC	1	1	1	T	6	T	Repeat-mediated
e6eb6b5c-328c-11e6-a2cb-f3ac12ae24cf	5_96408552_AGACCTCATCCCTTA	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	5	96408552	AGACCTCATCCCTT	A	720	PASS	-	Del	-	13	1	CHK2	child	5_96408552_AGACCTCATCCCTTA_CHK2	13	>=10	2	GA	0	-	Microhomology-mediated
e6ff619a-326c-11e6-b9f4-5d1d694da5d2	14_40710959_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	40710959	CT	C	540	PASS	-	Del	-	1	9	MSH6	child	14_40710959_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
e7149fa6-328f-11e6-bb1e-70e16f39e758	X_126748667_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	126748667	GT	G	600	PASS	-	Del	-	1	9	MSH6	child	X_126748667_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
e71609c8-3257-11e6-91d3-a68412ae24cf	7_104884187_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	104884187	CA	C	360	PASS	SRPK2	Del	intronic	1	9	MSH6	child	7_104884187_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
e718be76-3274-11e6-bea5-e783a20b69d5	13_89852838_GGTTA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	13	89852838	G	GTTA	300	PASS	-	Ins	-	3	5	EXO1	child	13_89852838_GGTTA_EXO1	3	3	-	-	-	-	Ins
e71e5d92-326d-11e6-9f48-94df41c4520d	12_101510032_TGT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	101510032	TG	T	540	PASS	ANO4	Del	intronic	1	6	MSH6	child	12_101510032_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
e7216304-328e-11e6-bec1-ca1d0e01a414	X_133454646_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	133454646	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	X_133454646_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
e72b7f72-326d-11e6-9793-9a8fb0dab373	13_111695735_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	111695735	GA	G	360	PASS	-	Del	-	1	7	MSH6	child	13_111695735_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
e73e28ec-32a0-11e6-94ca-0aaecc638e3d	X_77213235_GGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	77213235	G	GT	420	PASS	ATP7A	Ins	intronic	1	8	MSH6	child	X_77213235_GGT_MSH6	1	1	-	-	-	-	Ins
e74182f0-3253-11e6-bf41-357a7872c165	10_23608313_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	23608313	AT	A	420	PASS	C10orf67	Del	intronic	1	9	MSH6	child	10_23608313_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e742da16-327a-11e6-a6f2-281f630e6611	8_72980131_CCTCAT	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	8	72980131	C	CTCAT	300	PASS	TRPA1	Ins	intronic	4	3	CHK2	child	8_72980131_CCTCAT_CHK2	4	4	-	-	-	-	Ins
e743510c-3280-11e6-a1d1-b18df4b7c17d	1_70109554_TAT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	1	70109554	TA	T	300	PASS	LRRC7	Del	intronic	1	9	FANCC	child	1_70109554_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
e74675d4-3254-11e6-bc65-c9667872c165	13_22788066_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	22788066	A	AT	300	PASS	-	Ins	-	1	4	MSH6	child	13_22788066_AAT_MSH6	1	1	-	-	-	-	Ins
e74cf45e-328b-11e6-bd84-429305ad5bc4	1_46017128_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	46017128	CT	C	600	PASS	AKR1A1	Del	intronic	1	5	MSH6	child	1_46017128_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
e7505950-3277-11e6-92d2-c259c225ee11	3_116648432_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	116648432	CA	C	600	PASS	LSAMP	Del	intronic	1	7	MSH6	child	3_116648432_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
e752a43a-3272-11e6-975f-8246cab49462	16_29440753_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	29440753	CA	C	340	PASS	SNX29P2	Del	intronic	1	9	MSH6	child	16_29440753_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
e763ce3a-328c-11e6-b9c4-751d0e01a414	5_43438889_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	43438889	TA	T	360	PASS	-	Del	-	1	4	MSH6	child	5_43438889_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
e772d10e-3288-11e6-b093-c9c7b0dab373	2_128582320_CCA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	128582320	C	CA	480	PASS	-	Ins	-	1	8	MSH6	child	2_128582320_CCA_MSH6	1	1	-	-	-	-	Ins
e77338ec-326f-11e6-a814-019f38e8a824	18_70307973_CAC	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	18	70307973	CA	C	420	PASS	-	Del	-	1	7	NUDT1	child	18_70307973_CAC_NUDT1	1	1	1	A	6	A	Repeat-mediated
e7748680-3273-11e6-83ef-69fb06e9a829	18_24916528_GGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	24916528	G	GT	480	PASS	RP11-739N10.1	Ins	nc_variant	1	6	MSH6	child	18_24916528_GGT_MSH6	1	1	-	-	-	-	Ins
e775787a-326d-11e6-92dd-fda8977b3f23	10_97513752_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	97513752	CA	C	300	PASS	ENTPD1	Del	upstream	1	8	MSH6	child	10_97513752_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
e7848178-328e-11e6-9c89-8d090e01a414	1_65159236_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	65159236	G	GT	420	PASS	CACHD1	Ins	downstream	1	6	MSH6	child	1_65159236_GGT_MSH6	1	1	-	-	-	-	Ins
e7997eca-329d-11e6-91d0-016425c9da85	7_26490912_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	26490912	AT	A	480	PASS	AC004540.5	Del	intronic	1	8	MSH6	child	7_26490912_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
e79a2a16-3287-11e6-a284-4b89a2c71c31	4_126569916_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	126569916	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	4_126569916_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
e79ce8de-3280-11e6-9349-e55f87a84063	20_50250333_AAAAGA	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	20	50250333	AAAAG	A	300	PASS	ATP9A	Del	intronic	4	4	POLM	child	20_50250333_AAAAGA_POLM	4	4	4	AAAG	3	AAAG	Repeat-mediated
e7a0bafc-3273-11e6-9c0f-f6f412ae24cf	16_60988637_CTC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	16	60988637	CT	C	420	PASS	-	Del	-	1	7	EXO1	child	16_60988637_CTC_EXO1	1	1	1	T	6	T	Repeat-mediated
e7a7ef6c-328b-11e6-9c12-b6c430158702	2_167809233_GTG	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	2	167809233	GT	G	300	PASS	XIRP2	Del	intronic	1	9	POLM	child	2_167809233_GTG_POLM	1	1	1	T	8	T	Repeat-mediated
e7aad80e-329e-11e6-aea7-956725c9da85	3_27982221_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	27982221	AT	A	804	PASS	-	Del	-	1	9	MSH6	child	3_27982221_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e7ab73ba-328d-11e6-bb1e-70e16f39e758	X_3094500_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	3094500	GA	G	660	PASS	-	Del	-	1	9	MSH6	child	X_3094500_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
e7ad0808-3286-11e6-a5b3-3f1ebce6aa09	7_43744088_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	43744088	AT	A	420	PASS	COA1	Del	intronic	1	6	MSH6	child	7_43744088_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
e7ad8914-3276-11e6-a71d-236235cec73b	X_67486696_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	67486696	CA	C	600	PASS	OPHN1	Del	intronic	1	8	MSH6	child	X_67486696_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
e7b098d8-329f-11e6-aea7-956725c9da85	3_94143439_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	94143439	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	3_94143439_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e7b1f9f0-3270-11e6-9f1d-8260f7be831b	14_38459104_TAT	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	14	38459104	TA	T	540	PASS	-	Del	-	1	5	CHK2	child	14_38459104_TAT_CHK2	1	1	1	A	4	A	Repeat-mediated
e7b2c7e4-3276-11e6-b1f2-34f6620e6611	1_172891529_GGA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	1	172891529	G	GA	597	PASS	RP1-15D23.2	Ins	intronic	1	6	CHK2	child	1_172891529_GGA_CHK2	1	1	-	-	-	-	Ins
e7b3fe5e-326f-11e6-b9a6-d04066a58581	15_64042598_GAG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	15	64042598	GA	G	300	PASS	HERC1	Del	intronic	1	9	EXO1	parent	15_64042598_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
e7cc748e-3288-11e6-a5b3-3f1ebce6aa09	7_73028572_AAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	73028572	A	AC	540	PASS	MLXIPL	Ins	intronic	1	7	MSH6	child	7_73028572_AAC_MSH6	1	1	-	-	-	-	Ins
e7d18fd6-3284-11e6-8ebc-68f1bbe6aa09	18_58979059_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	58979059	GT	G	491	PASS	-	Del	-	1	4	MSH6	child	18_58979059_GTG_MSH6	1	1	1	T	3	T	Repeat-mediated
e7d4371a-328c-11e6-9c89-8d090e01a414	1_215046472_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	215046472	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	1_215046472_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e7d7c8f8-3278-11e6-a391-f6d67d6a9fc7	6_97585415_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	97585415	CT	C	300	PASS	MMS22L	Del	downstream	1	9	MSH6	child	6_97585415_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
e7da7048-328d-11e6-9f30-37ab4430f757	11_110433436_AAGA	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	11	110433436	AAG	A	720	PASS	-	Del	-	2	2	POLE	child	11_110433436_AAGA_POLE	2	2	2	AG	1	AG	Repeat-mediated
e7e17ec2-328f-11e6-9230-fb250e01a414	3_130623190_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	130623190	CT	C	360	PASS	ATP2C1	Del	intronic	1	8	MSH6	child	3_130623190_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
e7e71c92-3285-11e6-b093-c9c7b0dab373	2_120758142_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	120758142	GT	G	420	PASS	-	Del	-	1	8	MSH6	child	2_120758142_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
e7f0edec-3273-11e6-9e18-3a69671699ea	10_102283055_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	102283055	AT	A	420	PASS	SEC31B	Del	upstream	1	9	MSH6	child	10_102283055_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e7f47b3a-3258-11e6-a39a-dc8512ae24cf	8_78024036_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	78024036	AT	A	540	PASS	-	Del	-	1	7	MSH6	child	8_78024036_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
e803da56-328c-11e6-aa75-90c36f39e758	13_107814380_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	107814380	AT	A	480	PASS	-	Del	-	1	5	MSH6	child	13_107814380_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
e808d18e-3320-11e6-8c1c-2deb137bb207	15_29335662_CTC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	15	29335662	CT	C	300	PASS	APBA2	Del	intronic	1	6	EXO1	child	15_29335662_CTC_EXO1	1	1	1	T	5	T	Repeat-mediated
e81961be-32a0-11e6-aea7-956725c9da85	3_164739513_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	164739513	AT	A	420	PASS	SI	Del	intronic	1	6	MSH6	child	3_164739513_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
e81e22d8-327a-11e6-81cf-37408a20d9eb	8_113221944_AAC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	8	113221944	A	AC	300	PASS	-	Ins	-	1	1	EXO1	child	8_113221944_AAC_EXO1	1	1	-	-	-	-	Ins
e81e7e98-328b-11e6-8459-82090e01a414	12_10438200_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	10438200	G	GT	300	PASS	KLRD1	Ins	intronic	1	7	MSH6	child	12_10438200_GGT_MSH6	1	1	-	-	-	-	Ins
e8302d46-3286-11e6-b32c-fd87a2c71c31	5_71807095_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	71807095	AT	A	660	PASS	ZNF366	Del	upstream	1	9	MSH6	child	5_71807095_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e831f07c-3272-11e6-9522-b51a987b3f23	12_92316130_TAACT	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	12	92316130	TAAC	T	420	PASS	-	Del	-	3	2	NUDT1	child	12_92316130_TAACT_NUDT1	3	3	3	AAC	1	AAC	Repeat-mediated
e831f396-327d-11e6-9390-53fe684da5d2	16_6275530_TCT	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	16	6275530	TC	T	360	PASS	RBFOX1	Del	intronic	1	5	NEIL1	child	16_6275530_TCT_NEIL1	1	1	1	C	4	C	Repeat-mediated
e84f4714-328e-11e6-9d24-ade56f39e758	7_21857313_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	21857313	AT	A	600	PASS	DNAH11	Del	intronic	1	9	MSH6	child	7_21857313_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e8562456-329a-11e6-ae71-0c5325c9da85	1_50827419_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	50827419	GA	G	1080	PASS	-	Del	-	1	6	MSH6	child	1_50827419_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
e856976a-329a-11e6-b74d-b59fcc638e3d	18_68886318_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	68886318	AT	A	600	PASS	RP11-47G4.2	Del	intronic	1	5	MSH6	child	18_68886318_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
e858660c-328c-11e6-bd84-429305ad5bc4	1_185442455_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	185442455	CT	C	660	PASS	-	Del	-	1	9	MSH6	child	1_185442455_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
e85ae9f8-3274-11e6-a862-bc9becf1e924	1_167994330_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	167994330	AT	A	300	PASS	DCAF6	Del	intronic	1	8	MSH6	child	1_167994330_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
e85fcd12-328b-11e6-a7cf-80090e01a414	15_102131431_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	102131431	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	15_102131431_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
e868aa86-328b-11e6-8e38-06cf69062303	4_41141857_TTAT	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	4	41141857	TTA	T	300	PASS	APBB2	Del	intronic	2	3	CHK2	child	4_41141857_TTAT_CHK2	2	2	2	TA	2	TA	Repeat-mediated
e874bc46-329e-11e6-b696-dd6225c9da85	5_118839062_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	118839062	AT	A	720	PASS	HSD17B4	Del	intronic	1	9	MSH6	child	5_118839062_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e8783b2a-3279-11e6-9dfe-7ec135761512	1_108765447_AAATTA	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	1	108765447	AAATT	A	471	PASS	NBPF4	Del	downstream	4	1	FANCC	parent	1_108765447_AAATTA_FANCC	4	4	1	A	0	-	Microhomology-mediated
e879b9bc-3280-11e6-a1d1-b18df4b7c17d	1_70909639_TCTTAT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	1	70909639	TCTTA	T	300	PASS	CTH	Del	downstream	4	1	FANCC	child	1_70909639_TCTTAT_FANCC	4	4	3	CTT	0	-	Microhomology-mediated
e87fbc24-3292-11e6-9d24-ade56f39e758	7_124471587_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	124471587	T	TA	480	PASS	POT1	Ins	intronic	1	8	MSH6	child	7_124471587_TTA_MSH6	1	1	-	-	-	-	Ins
e87fe9a6-3283-11e6-96d6-e945ee3c4f5d	3_11477637_AAACA	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	3	11477637	AAAC	A	540	PASS	ATG7	Del	intronic	3	2	POLB	child	3_11477637_AAACA_POLB	3	3	3	AAC	1	AAC	Repeat-mediated
e8834f88-3274-11e6-a42e-2f51e7d0bdd7	1_168834051_ACA	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	1	168834051	AC	A	300	PASS	-	Del	-	1	1	POLB	child	1_168834051_ACA_POLB	1	1	0	-	0	C	None
e88930a6-328d-11e6-b9c4-751d0e01a414	5_111944387_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	111944387	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	5_111944387_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
e8b11ac0-3275-11e6-a0a7-943dc225ee11	1_242015655_CCA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	1	242015655	C	CA	720	PASS	EXO1	Ins	frameshift	1	1	EXO1	parent	1_242015655_CCA_EXO1	1	1	-	-	-	-	Ins
e8b73768-329b-11e6-a5cf-205325c9da85	11_128892802_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	128892802	TA	T	480	PASS	ARHGAP32	Del	intronic	1	7	MSH6	child	11_128892802_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
e8bfb398-3287-11e6-8d3f-2a9c20e7b7a8	18_45723059_CTC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	18	45723059	CT	C	480	PASS	ZBTB7C	Del	intronic	1	8	POLE	child	18_45723059_CTC_POLE	1	1	1	T	7	T	Repeat-mediated
e8ccd6d8-3294-11e6-b574-0154e7d0bdd7	20_42416092_CCT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	20	42416092	C	CT	420	PASS	-	Ins	-	1	8	FANCC	child	20_42416092_CCT_FANCC	1	1	-	-	-	-	Ins
e8cda45c-3323-11e6-aa06-7ca120e7b7a8	7_25260324_GAG	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	7	25260324	GA	G	660	PASS	NPVF	Del	downstream	1	8	CHK2	child	7_25260324_GAG_CHK2	1	1	1	A	7	A	Repeat-mediated
e8d20b98-326d-11e6-9f48-94df41c4520d	12_102016511_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	102016511	TA	T	300	PASS	MYBPC1	Del	intronic	1	9	MSH6	child	12_102016511_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
e8e387f2-329e-11e6-aea7-956725c9da85	3_28392742_AATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	28392742	AAT	A	300	PASS	AZI2	Del	upstream	2	6	MSH6	child	3_28392742_AATA_MSH6	2	2	2	AT	5	AT	Repeat-mediated
e8f05a38-3274-11e6-9210-65fa620e6611	5_36612531_TTA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	5	36612531	T	TA	600	PASS	SLC1A3	Ins	intronic	1	5	EXO1	parent	5_36612531_TTA_EXO1	1	1	-	-	-	-	Ins
e8f1d42e-328a-11e6-8353-a446fd44d094	1_199973786_AGCA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	1	199973786	AGC	A	420	PASS	RNU6-716P	Del	downstream	2	1	FANCC	child	1_199973786_AGCA_FANCC	2	2	1	G	0	-	Microhomology-mediated
e8f2d5f8-3286-11e6-99f7-076ea2c71c31	12_71998587_CCA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	71998587	C	CA	360	PASS	ZFC3H1	Ins	downstream	1	8	MSH6	child	12_71998587_CCA_MSH6	1	1	-	-	-	-	Ins
e8f4e76a-3292-11e6-b14c-5e337a852e0e	X_56027234_CTC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	X	56027234	CT	C	360	PASS	RP13-188A5.1	Del	intronic	1	9	CHK2	child	X_56027234_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
e8f6ebc0-329f-11e6-ae71-0c5325c9da85	1_89797927_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	89797927	A	AT	960	PASS	-	Ins	-	1	4	MSH6	child	1_89797927_AAT_MSH6	1	1	-	-	-	-	Ins
e8f7d700-3287-11e6-a21c-b819bce6aa09	X_144680828_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	144680828	AT	A	420	PASS	-	Del	-	1	6	MSH6	child	X_144680828_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
e8faa738-3272-11e6-940c-da0fead19ece	11_97546008_TAT	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	11	97546008	TA	T	780	PASS	-	Del	-	1	9	NEIL1	child	11_97546008_TAT_NEIL1	1	1	1	A	8	A	Repeat-mediated
e8fc6dea-32a2-11e6-aea7-956725c9da85	3_87636052_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	87636052	C	CA	360	PASS	-	Ins	-	1	2	MSH6	child	3_87636052_CCA_MSH6	1	1	-	-	-	-	Ins
e8fc75e4-326e-11e6-a20c-f31d4b47a305	2_22097251_GGT	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	2	22097251	G	GT	900	PASS	AC067959.1	Ins	intronic	1	7	POLM	parent	2_22097251_GGT_POLM	1	1	-	-	-	-	Ins
e90eb15a-328c-11e6-bd84-429305ad5bc4	1_186131258_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	186131258	CT	C	537	PASS	HMCN1	Del	intronic	1	6	MSH6	child	1_186131258_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
e9162134-328b-11e6-a32d-75090e01a414	14_87070842_GGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	87070842	G	GA	540	PASS	-	Ins	-	1	3	MSH6	child	14_87070842_GGA_MSH6	1	1	-	-	-	-	Ins
e9231fa0-328c-11e6-8256-94c36f39e758	17_69883939_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	17	69883939	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	17_69883939_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
e923d2c0-3281-11e6-b0da-c38569062303	12_64090869_TAT	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	12	64090869	TA	T	286	PASS	-	Del	-	1	6	POLE	parent	12_64090869_TAT_POLE	1	1	1	A	5	A	Repeat-mediated
e92afd7c-3284-11e6-8ebc-68f1bbe6aa09	18_59714010_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	59714010	TA	T	300	PASS	PIGN	Del	intronic	1	7	MSH6	child	18_59714010_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
e93d3fb4-3275-11e6-a5d0-4fd14a47a305	2_43530089_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	43530089	T	TA	300	PASS	THADA	Ins	intronic	1	7	MSH6	child	2_43530089_TTA_MSH6	1	1	-	-	-	-	Ins
e94a693e-328c-11e6-b4fe-93c36f39e758	12_83167922_ATGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	83167922	ATG	A	300	PASS	TMTC2	Del	intronic	2	4	MSH6	child	12_83167922_ATGA_MSH6	2	2	2	TG	3	TG	Repeat-mediated
e94b85d2-326c-11e6-adc2-b7204b47a305	18_25176262_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	25176262	GT	G	300	PASS	RP11-739N10.1	Del	upstream	1	9	MSH6	child	18_25176262_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
e9536398-329d-11e6-91d0-016425c9da85	7_26879690_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	26879690	TA	T	420	PASS	SKAP2	Del	intronic	1	9	MSH6	child	7_26879690_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
e95dace0-3284-11e6-9b68-79e41da8ec0e	2_84289318_GGT	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	2	84289318	G	GT	480	PASS	-	Ins	-	1	2	EXO1	child	2_84289318_GGT_EXO1	1	1	-	-	-	-	Ins
e960b174-3284-11e6-83f8-60792aaffa45	7_152223368_TAT	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	7	152223368	TA	T	480	PASS	-	Del	-	1	9	POLE	child	7_152223368_TAT_POLE	1	1	1	A	8	A	Repeat-mediated
e9655868-328f-11e6-9432-c0e56f39e758	5_90699059_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	90699059	GA	G	720	PASS	-	Del	-	1	9	MSH6	child	5_90699059_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
e96ab99c-3281-11e6-a1d1-b18df4b7c17d	1_218797833_CTC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	1	218797833	CT	C	600	PASS	-	Del	-	1	7	FANCC	child	1_218797833_CTC_FANCC	1	1	1	T	6	T	Repeat-mediated
e96daf68-3271-11e6-81c8-19f506e9a829	2_74348676_GAGGAGAG	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	2	74348676	GAGGAGA	G	420	PASS	-	Del	-	6	1	FANCC	child	2_74348676_GAGGAGAG_FANCC	6	6	3	AGG	0	-	Microhomology-mediated
e9713946-326f-11e6-9c6e-9f402a2d4995	2_77210957_GCG	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	2	77210957	GC	G	360	PASS	LRRTM4	Del	intronic	1	2	POLB	child	2_77210957_GCG_POLB	1	1	1	C	1	C	Repeat-mediated
e97d760c-3274-11e6-975f-8246cab49462	16_60358923_GGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	60358923	G	GA	480	PASS	-	Ins	-	1	6	MSH6	child	16_60358923_GGA_MSH6	1	1	-	-	-	-	Ins
e98fdaca-3280-11e6-ab87-22bd9b6d3b88	10_28313497_CTC	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	10	28313497	CT	C	540	PASS	RP11-218D6.4	Del	intronic	1	9	EXO1	child	10_28313497_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
e99502de-3299-11e6-b74d-b59fcc638e3d	18_4110014_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	4110014	CA	C	1080	PASS	DLGAP1	Del	intronic	1	9	MSH6	child	18_4110014_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
e9961d98-3273-11e6-a76d-26961565c797	1_82959807_TAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	1	82959807	TA	T	360	PASS	-	Del	-	1	4	EXO1	child	1_82959807_TAT_EXO1	1	1	1	A	3	A	Repeat-mediated
e9977b94-328b-11e6-919e-92c36f39e758	2_28269159_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	28269159	TA	T	540	PASS	BRE	Del	intronic	1	8	MSH6	child	2_28269159_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
e9978a16-328c-11e6-b43c-7ec36f39e758	16_81886956_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	81886956	CA	C	480	PASS	PLCG2	Del	intronic	1	9	MSH6	child	16_81886956_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
e99d6d08-3298-11e6-800c-01f9d8b4fa2c	5_137856635_AAT	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	5	137856635	A	AT	780	PASS	ETF1	Ins	intronic	1	8	NUDT1	child	5_137856635_AAT_NUDT1	1	1	-	-	-	-	Ins
e99da7c6-3321-11e6-ada4-b8297e6a9fc7	13_36419229_ACA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	13	36419229	AC	A	480	PASS	DCLK1	Del	intronic	1	1	EXO1	child	13_36419229_ACA_EXO1	1	1	0	-	0	C	None
e99f3f36-3255-11e6-9d5a-0c8112ae24cf	9_5839211_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	5839211	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	9_5839211_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
e9a3e97a-328a-11e6-a941-7397a178171f	6_42797060_ATA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	6	42797060	AT	A	300	PASS	GLTSCR1L	Del	frameshift	1	3	FANCC	child	6_42797060_ATA_FANCC	1	1	1	T	2	T	Repeat-mediated
e9aad9c8-3272-11e6-b4ee-9405147bb207	10_13052247_CCA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	10	13052247	C	CA	300	PASS	CCDC3	Ins	intronic	1	6	MSH6	parent	10_13052247_CCA_MSH6	1	1	-	-	-	-	Ins
e9ac403e-328f-11e6-bc00-90df977b3f23	X_77109128_CTAC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	X	77109128	CTA	C	540	PASS	MAGT1	Del	intronic	2	1	NEIL1	child	X_77109128_CTAC_NEIL1	2	2	1	T	0	-	Microhomology-mediated
e9bd18de-328d-11e6-9230-fb250e01a414	3_2631249_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	2631249	CT	C	300	PASS	CNTN4	Del	intronic	1	8	MSH6	child	3_2631249_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
e9be7b2e-3289-11e6-a19d-3c763adbad45	4_114391445_ACA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	4	114391445	AC	A	660	PASS	CAMK2D	Del	intronic	1	8	NUDT1	parent	4_114391445_ACA_NUDT1	1	1	1	C	7	C	Repeat-mediated
e9c508c8-3323-11e6-9c20-925172d7bc54	3_22425011_GAG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	3	22425011	GA	G	360	PASS	-	Del	-	1	8	EXO1	child	3_22425011_GAG_EXO1	1	1	1	A	7	A	Repeat-mediated
e9c6b8a4-3255-11e6-bc65-c9667872c165	13_100389231_CCA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	100389231	C	CA	720	PASS	CLYBL	Ins	intronic	1	7	MSH6	child	13_100389231_CCA_MSH6	1	1	-	-	-	-	Ins
e9ccbc6a-3280-11e6-8973-e1308e4678dd	11_42300832_CTC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	11	42300832	CT	C	300	PASS	-	Del	-	1	9	FANCC	child	11_42300832_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
e9cffdb6-328b-11e6-b8e6-91c36f39e758	11_24550771_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	24550771	CA	C	600	PASS	LUZP2	Del	intronic	1	8	MSH6	child	11_24550771_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
e9de4518-3288-11e6-b9eb-c78fa2c71c31	6_105989611_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	105989611	TA	T	480	PASS	-	Del	-	1	9	MSH6	child	6_105989611_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
e9de5f62-3274-11e6-a862-bc9becf1e924	1_168484179_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	168484179	CT	C	660	PASS	-	Del	-	1	8	MSH6	child	1_168484179_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
e9df1832-3254-11e6-89d3-d29498816cf3	2_153179790_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	153179790	AT	A	420	PASS	-	Del	-	1	8	MSH6	child	2_153179790_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
e9e1d43e-3289-11e6-8e41-628fa178171f	22_35692341_CCTTTC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	22	35692341	CCTTT	C	960	PASS	HMGXB4	Del	downstream	4	1	FANCC	child	22_35692341_CCTTTC_FANCC	4	4	1	C	0	-	Microhomology-mediated
e9e2a32e-3346-11e6-840b-09aab0dab373	1_95810770_GTG	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	1	95810770	GT	G	300	PASS	-	Del	-	1	8	FANCC	child	1_95810770_GTG_FANCC	1	1	1	T	7	T	Repeat-mediated
e9eaa5c6-3277-11e6-9065-cc4890e2c2e6	1_216558020_GGT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	1	216558020	G	GT	420	PASS	USH2A	Ins	intronic	1	7	MSH6	parent	1_216558020_GGT_MSH6	1	1	-	-	-	-	Ins
e9fd8bf8-32a1-11e6-a04f-c66a25c9da85	6_167666059_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	167666059	CA	C	720	PASS	-	Del	-	1	8	MSH6	child	6_167666059_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
ea136d66-3278-11e6-8629-39703cfdbd24	4_176001864_ACTA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	4	176001864	ACT	A	360	PASS	-	Del	-	2	3	CHK2	child	4_176001864_ACTA_CHK2	2	2	2	CT	2	CT	Repeat-mediated
ea190d82-329d-11e6-a5cf-e5abcc638e3d	9_125152239_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	125152239	TA	T	540	PASS	PTGS1	Del	intronic	1	9	MSH6	child	9_125152239_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
ea19c90c-328e-11e6-919e-92c36f39e758	2_227985651_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	227985651	TA	T	780	PASS	COL4A4	Del	intronic	1	8	MSH6	child	2_227985651_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
ea2263a2-3278-11e6-a391-f6d67d6a9fc7	6_98250580_AATTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	98250580	AATT	A	540	PASS	-	Del	-	3	4	MSH6	child	6_98250580_AATTA_MSH6	3	3	3	ATT	3	ATT	Repeat-mediated
ea2b569e-3276-11e6-8703-f161e7d0bdd7	X_137283620_TAT	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	X	137283620	TA	T	360	PASS	-	Del	-	1	8	POLB	child	X_137283620_TAT_POLB	1	1	1	A	7	A	Repeat-mediated
ea2f7072-3270-11e6-9fba-41ebd8b4fa2c	11_25740115_CCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	25740115	C	CT	728	PASS	-	Ins	-	1	2	MSH6	child	11_25740115_CCT_MSH6	1	1	-	-	-	-	Ins
ea32406e-3288-11e6-b9eb-c78fa2c71c31	6_106068621_TGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	6	106068621	TG	T	480	PASS	RP3-359N14.2	Del	intronic	1	6	MSH6	child	6_106068621_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
ea3ec486-328f-11e6-9432-c0e56f39e758	5_90897238_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	90897238	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	5_90897238_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
ea49b0c6-3348-11e6-a997-309d38e8a824	4_46774876_AGTAGACAGTAGA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	4	46774876	AGTAGACAGTAG	A	420	PASS	COX7B2	Del	intronic	11	1	FANCC	child	4_46774876_AGTAGACAGTAGA_FANCC	11	>=10	1	G	0	-	Microhomology-mediated
ea4d1a56-3283-11e6-b14f-ffbe2daed38e	X_83063065_TAT	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	X	83063065	TA	T	360	PASS	-	Del	-	1	4	POLB	child	X_83063065_TAT_POLB	1	1	1	A	3	A	Repeat-mediated
ea62c9a2-328b-11e6-8459-82090e01a414	12_10865357_TTA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	10865357	T	TA	600	PASS	YBX3	Ins	intronic	1	7	MSH6	child	12_10865357_TTA_MSH6	1	1	-	-	-	-	Ins
ea6d6d88-326f-11e6-b89d-b2d6b0dab373	4_28304337_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	28304337	GA	G	420	PASS	-	Del	-	1	5	MSH6	child	4_28304337_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
ea719e5a-329f-11e6-bc66-17b4cc638e3d	8_70467364_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	70467364	GA	G	480	PASS	SULF1	Del	intronic	1	9	MSH6	child	8_70467364_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
ea766f86-328e-11e6-8f31-bfe16f39e758	9_87025612_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	87025612	TA	T	300	PASS	-	Del	-	1	9	MSH6	child	9_87025612_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
ea7f18be-3277-11e6-a5d0-4fd14a47a305	2_221184387_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	221184387	A	AT	360	PASS	AC114765.1	Ins	intronic	1	0	MSH6	child	2_221184387_AAT_MSH6	1	1	-	-	-	-	Ins
ea89558c-328a-11e6-938d-bbbd38e8a824	5_92005367_CTC	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	5	92005367	CT	C	1020	PASS	CTC-529L17.1	Del	intronic	1	7	NUDT1	parent	5_92005367_CTC_NUDT1	1	1	1	T	6	T	Repeat-mediated
ea9b1100-3285-11e6-90da-f3a469062303	6_135110697_CTGCTGGC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	6	135110697	CTGCTGG	C	420	PASS	-	Del	-	6	1	FANCC	child	6_135110697_CTGCTGGC_FANCC	6	6	3	TGC	0	-	Microhomology-mediated
ea9c6680-3272-11e6-9065-cc4890e2c2e6	1_143393500_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	1	143393500	AT	A	203	PASS	RP11-435B5.5	Del	intronic	1	8	MSH6	parent	1_143393500_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ea9f6b86-328c-11e6-bec1-ca1d0e01a414	X_43189704_TTCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	43189704	TTC	T	480	PASS	-	Del	-	2	8	MSH6	child	X_43189704_TTCT_MSH6	2	2	2	TC	7	TC	Repeat-mediated
eaa4c9fc-3253-11e6-a4a7-35f212ae24cf	14_44264674_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	44264674	CA	C	720	PASS	-	Del	-	1	9	MSH6	child	14_44264674_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
eaaca97a-327f-11e6-b1df-d11c0e01a414	7_102475855_TTA	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	7	102475855	T	TA	400	PASS	FBXL13	Ins	intronic	1	4	FANCC	parent	7_102475855_TTA_FANCC	1	1	-	-	-	-	Ins
eab97926-3274-11e6-9162-5cdb6de4ab00	11_122551986_ATA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	11	122551986	AT	A	480	PASS	UBASH3B	Del	intronic	1	3	CHK2	child	11_122551986_ATA_CHK2	1	1	1	T	2	T	Repeat-mediated
eabbe2c0-328c-11e6-bd84-429305ad5bc4	1_187239741_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	187239741	CT	C	480	PASS	LINC01036	Del	intronic	1	9	MSH6	child	1_187239741_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
eac4129e-326c-11e6-acc7-e55219a91649	1_43128550_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	1	43128550	CT	C	420	PASS	PPIH	Del	intronic	1	7	MSH6	child	1_43128550_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
eac920ca-3273-11e6-bfb2-2749c225ee11	12_105276151_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	105276151	GT	G	586	PASS	SLC41A2	Del	intronic	1	8	MSH6	child	12_105276151_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
eaccebec-3291-11e6-a043-93e7977b3f23	3_172229838_ATGA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	3	172229838	ATG	A	720	PASS	TNFSF10	Del	intronic	2	6	NEIL1	child	3_172229838_ATGA_NEIL1	2	2	2	TG	5	TG	Repeat-mediated
ead68758-328a-11e6-a8ac-a28ea2c71c31	3_139593555_CCA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	139593555	C	CA	360	PASS	-	Ins	-	1	9	MSH6	child	3_139593555_CCA_MSH6	1	1	-	-	-	-	Ins
eadb8424-3276-11e6-8703-f161e7d0bdd7	X_137972642_CAC	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	X	137972642	CA	C	300	PASS	FGF13	Del	intronic	1	9	POLB	child	X_137972642_CAC_POLB	1	1	1	A	8	A	Repeat-mediated
eadba1a4-327e-11e6-9a18-69cfaa716c52	4_56253713_GAG	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	4	56253713	GA	G	720	PASS	RP11-177J6.1	Del	upstream	1	1	POLB	parent	4_56253713_GAG_POLB	1	1	0	-	0	A	None
eaeb4b0c-328a-11e6-b805-77090e01a414	2_109359254_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	109359254	AT	A	581	PASS	RANBP2	Del	intronic	1	8	MSH6	child	2_109359254_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
eaeebebe-329d-11e6-bc66-17b4cc638e3d	8_27758181_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	27758181	TA	T	540	PASS	SCARA5	Del	intronic	1	8	MSH6	child	8_27758181_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
eaefc47c-3274-11e6-af01-f818cd638e3d	15_89075125_GTCTAGAAACAGGTCTAAGGGAAGGAG	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	15	89075125	GTCTAGAAACAGGTCTAAGGGAAGGA	G	300	PASS	DET1	Del	intronic	25	1	EXO1	child	15_89075125_GTCTAGAAACAGGTCTAAGGGAAGGAG_EXO1	25	>=10	5	TCTAG	0	-	Microhomology-mediated
eaf24d78-328d-11e6-9c89-8d090e01a414	1_12022337_TTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	12022337	T	TC	300	PASS	PLOD1	Ins	intronic	1	1	MSH6	child	1_12022337_TTC_MSH6	1	1	-	-	-	-	Ins
eaf745fe-3278-11e6-9dfe-7ec135761512	1_20297761_CTC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	1	20297761	CT	C	660	PASS	PLA2G2A	Del	downstream	1	9	FANCC	parent	1_20297761_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
eaf789e0-3289-11e6-a32d-75090e01a414	14_60572255_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	60572255	CT	C	300	PASS	PCNXL4	Del	intronic	1	8	MSH6	child	14_60572255_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
eaf81656-3326-11e6-ada1-2957fc77b11e	5_85209330_CCA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	5	85209330	C	CA	600	PASS	-	Ins	-	1	5	POLE	child	5_85209330_CCA_POLE	1	1	-	-	-	-	Ins
eafa2874-328b-11e6-ae53-96c36f39e758	15_37452800_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	37452800	AT	A	600	PASS	-	Del	-	1	9	MSH6	child	15_37452800_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
eafe7222-328a-11e6-8eee-76090e01a414	10_105520441_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	105520441	CT	C	480	PASS	SH3PXD2A	Del	intronic	1	9	MSH6	child	10_105520441_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
eb042a4c-32a2-11e6-b970-398625c9da85	20_36918167_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	36918167	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	20_36918167_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
eb144fd8-3272-11e6-a539-0e5542c4520d	7_141250660_GGC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	141250660	G	GC	660	PASS	AGK	Ins	upstream	1	3	MSH6	child	7_141250660_GGC_MSH6	1	1	-	-	-	-	Ins
eb196d06-328b-11e6-8952-77c36f39e758	10_22097126_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	22097126	CA	C	420	PASS	DNAJC1	Del	intronic	1	7	MSH6	child	10_22097126_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
eb22e844-328c-11e6-b4fe-93c36f39e758	12_83655223_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	83655223	TA	T	540	PASS	-	Del	-	1	7	MSH6	child	12_83655223_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
eb24edc0-328b-11e6-aff5-85090e01a414	16_54249117_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	16	54249117	C	CA	300	PASS	-	Ins	-	1	2	MSH6	child	16_54249117_CCA_MSH6	1	1	-	-	-	-	Ins
eb295736-3257-11e6-8acd-03a12aaffa45	7_93104384_TAAT	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	7	93104384	TAA	T	420	PASS	CALCR	Del	intronic	2	7	POLM	child	7_93104384_TAAT_POLM	2	2	2	AA	5	A	Repeat-mediated
eb2d661a-326f-11e6-b89d-b2d6b0dab373	4_28442540_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	28442540	GA	G	360	PASS	RP11-123O22.1	Del	intronic	1	7	MSH6	child	4_28442540_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
eb330766-326d-11e6-9d68-ac9acab49462	15_71341734_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	71341734	CT	C	300	PASS	LRRC49	Del	intronic	1	8	MSH6	child	15_71341734_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
eb330d1a-3286-11e6-8064-0e1e987b3f23	6_48752273_GAG	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	6	48752273	GA	G	540	PASS	-	Del	-	1	9	NEIL1	parent	6_48752273_GAG_NEIL1	1	1	1	A	8	A	Repeat-mediated
eb365982-328d-11e6-bd84-429305ad5bc4	1_14594031_GGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	14594031	G	GT	360	PASS	-	Ins	-	1	5	MSH6	child	1_14594031_GGT_MSH6	1	1	-	-	-	-	Ins
eb3972b4-3253-11e6-aedc-3df212ae24cf	19_13279024_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	19	13279024	GT	G	300	PASS	-	Del	-	1	8	MSH6	child	19_13279024_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
eb3c9a76-3324-11e6-ae91-9acb70cce0de	4_110684410_ATA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	4	110684410	AT	A	540	PASS	CFI	Del	intronic	1	7	POLE	child	4_110684410_ATA_POLE	1	1	1	T	6	T	Repeat-mediated
eb3e8c28-329d-11e6-b696-dd6225c9da85	5_49612623_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	49612623	CT	C	600	PASS	-	Del	-	1	7	MSH6	child	5_49612623_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
eb40ff1a-3290-11e6-b17d-bd257a852e0e	15_76221663_ATA	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	15	76221663	AT	A	300	PASS	FBXO22	Del	intronic	1	8	CHK2	child	15_76221663_ATA_CHK2	1	1	1	T	7	T	Repeat-mediated
eb4ab8c8-3283-11e6-96d6-e945ee3c4f5d	3_12140590_GAG	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	3	12140590	GA	G	660	PASS	-	Del	-	1	5	POLB	child	3_12140590_GAG_POLB	1	1	1	A	4	A	Repeat-mediated
eb4be598-326c-11e6-9d68-ac9acab49462	15_35338185_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	35338185	TA	T	360	PASS	-	Del	-	1	9	MSH6	child	15_35338185_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
eb4f07d2-326c-11e6-9fba-41ebd8b4fa2c	11_14806306_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	14806306	AT	A	540	PASS	PDE3B	Del	intronic	1	9	MSH6	child	11_14806306_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
eb502a32-3270-11e6-b5b8-e0c24a47a305	X_97252736_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	97252736	CT	C	600	PASS	-	Del	-	1	9	MSH6	child	X_97252736_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
eb580588-3322-11e6-9802-cf66694da5d2	12_92588607_GAG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	12	92588607	GA	G	360	PASS	-	Del	-	1	9	EXO1	child	12_92588607_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
eb5b7ab8-3289-11e6-9c89-8d090e01a414	1_31926862_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	31926862	TA	T	300	PASS	-	Del	-	1	5	MSH6	child	1_31926862_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
eb624c26-3293-11e6-9230-fb250e01a414	3_197562835_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	197562835	G	GT	480	PASS	LRCH3	Ins	intronic	1	4	MSH6	child	3_197562835_GGT_MSH6	1	1	-	-	-	-	Ins
eb6a805c-326c-11e6-9d68-ac9acab49462	15_35357891_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	35357891	TA	T	420	PASS	-	Del	-	1	7	MSH6	child	15_35357891_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
eb7920e2-3273-11e6-89f6-200f6323ba5a	7_146949056_TAT	.	HAP1_POLB_35-2	HAP1_parental_75_WT_DNA	7	146949056	TA	T	420	PASS	CNTNAP2	Del	intronic	1	9	POLB	child	7_146949056_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
eb7bac20-3284-11e6-821e-69f1bbe6aa09	16_47833551_GCTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	47833551	GCT	G	360	PASS	RP11-523L20.2	Del	intronic	2	6	MSH6	child	16_47833551_GCTG_MSH6	2	2	2	CT	5	CT	Repeat-mediated
eb80416c-3276-11e6-8717-f13d8a20d9eb	6_117710369_CTC	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	6	117710369	CT	C	780	PASS	ROS1	Del	intronic	1	9	CHK2	child	6_117710369_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
eb8fa412-3286-11e6-8404-8e1fbce6aa09	8_39275940_TCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	39275940	TC	T	420	PASS	-	Del	-	1	1	MSH6	child	8_39275940_TCT_MSH6	1	1	0	-	0	C	None
eb90d4d4-329c-11e6-aca6-b39fcc638e3d	2_203087217_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	203087217	AT	A	300	PASS	SUMO1	Del	intronic	1	9	MSH6	child	2_203087217_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
eb9e7de8-329f-11e6-a5cf-e5abcc638e3d	9_127462299_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	127462299	C	CT	540	PASS	NR6A1	Ins	intronic	1	8	MSH6	child	9_127462299_CCT_MSH6	1	1	-	-	-	-	Ins
eba557b4-3257-11e6-acc5-308412ae24cf	5_111514109_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	111514109	TA	T	660	PASS	EPB41L4A	Del	intronic	1	9	MSH6	child	5_111514109_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
ebabbb66-3254-11e6-a304-347a7872c165	1_86985545_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	86985545	TA	T	600	PASS	-	Del	-	1	9	MSH6	child	1_86985545_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
ebafa488-3254-11e6-bb62-81f712ae24cf	X_53923371_CAC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	X	53923371	CA	C	420	PASS	-	Del	-	1	8	POLB	child	X_53923371_CAC_POLB	1	1	1	A	7	A	Repeat-mediated
ebb3064a-328c-11e6-8459-82090e01a414	12_75892808_CCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	75892808	C	CT	360	PASS	KRR1	Ins	3prime_UTR_variant	1	8	MSH6	child	12_75892808_CCT_MSH6	1	1	-	-	-	-	Ins
ebb312ec-326f-11e6-b923-6726694da5d2	5_32130729_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	32130729	GA	G	420	PASS	GOLPH3	Del	intronic	1	8	MSH6	child	5_32130729_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
ebb4d784-328e-11e6-85fc-1cce7098ee92	4_77576440_CCT	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	4	77576440	C	CT	420	PASS	SHROOM3	Ins	intronic	1	2	NUDT1	child	4_77576440_CCT_NUDT1	1	1	-	-	-	-	Ins
ebbd0edc-3274-11e6-983a-1d8bcf737e61	7_95716285_ATA	.	HAP1_POLB_35-4	HAP1_parental_75_WT_DNA	7	95716285	AT	A	480	PASS	DYNC1I1	Del	intronic	1	7	POLB	child	7_95716285_ATA_POLB	1	1	1	T	6	T	Repeat-mediated
ebc2be0c-3285-11e6-a8af-066ea2c71c31	15_85686770_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	85686770	TA	T	720	PASS	PDE8A	Del	downstream	1	6	MSH6	child	15_85686770_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
ebcdff8c-3290-11e6-850b-ec0b9c6d3b88	4_141307250_ATA	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	4	141307250	AT	A	420	PASS	SCOC	Del	downstream	1	6	POLB	child	4_141307250_ATA_POLB	1	1	1	T	5	T	Repeat-mediated
ebd001aa-328c-11e6-bfa2-581f0e01a414	7_14519016_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	14519016	AT	A	420	PASS	DGKB	Del	intronic	1	8	MSH6	child	7_14519016_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ebd1bd30-329e-11e6-94ca-0aaecc638e3d	X_79577258_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	79577258	CA	C	540	PASS	-	Del	-	1	9	MSH6	child	X_79577258_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
ebd1c0fa-328a-11e6-8eee-76090e01a414	10_105679471_AGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	105679471	AG	A	300	PASS	OBFC1	Del	upstream	1	1	MSH6	child	10_105679471_AGA_MSH6	1	1	0	-	0	G	None
ebd3f476-328d-11e6-ace9-29a5e7d0bdd7	16_24476371_ATA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	16	24476371	AT	A	360	PASS	-	Del	-	1	7	FANCC	child	16_24476371_ATA_FANCC	1	1	1	T	6	T	Repeat-mediated
ebda9d46-328b-11e6-ae83-60cc977b3f23	19_22157842_TGT	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	19	22157842	TG	T	900	PASS	ZNF208	Del	intronic	1	1	NEIL1	child	19_22157842_TGT_NEIL1	1	1	0	-	0	G	None
ebdbaa4e-3284-11e6-821e-69f1bbe6aa09	16_48104906_TGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	48104906	TG	T	540	PASS	-	Del	-	1	4	MSH6	child	16_48104906_TGT_MSH6	1	1	1	G	3	G	Repeat-mediated
ebdbc8ec-3277-11e6-bc24-bc6e3cfdbd24	6_120856884_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	6	120856884	AT	A	780	PASS	-	Del	-	1	9	MSH6	parent	6_120856884_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
ebdec00c-3271-11e6-b89d-b2d6b0dab373	4_163435695_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	163435695	AT	A	480	PASS	-	Del	-	1	7	MSH6	child	4_163435695_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
ebe4ba22-3292-11e6-be55-fcd76ca5563b	14_67074254_CCCTC	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	14	67074254	CCCT	C	600	PASS	GPHN	Del	intronic	3	3	POLB	child	14_67074254_CCCTC_POLB	3	3	3	CCT	2	CCT	Repeat-mediated
ebe57936-326e-11e6-b306-b5204b47a305	2_204679187_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	204679187	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	2_204679187_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
ebe7e084-3270-11e6-aff7-9ad52aaffa45	1_173027603_CAC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	1	173027603	CA	C	480	PASS	RP1-15D23.2	Del	intronic	1	8	NEIL1	child	1_173027603_CAC_NEIL1	1	1	1	A	7	A	Repeat-mediated
ebe8efc2-328b-11e6-8fd1-f2ac12ae24cf	X_16353652_CAC	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	X	16353652	CA	C	480	PASS	-	Del	-	1	9	CHK2	child	X_16353652_CAC_CHK2	1	1	1	A	8	A	Repeat-mediated
ec027c98-3273-11e6-a461-6958e7d0bdd7	15_50895239_CAC	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	15	50895239	CA	C	600	PASS	TRPM7	Del	intronic	1	6	EXO1	child	15_50895239_CAC_EXO1	1	1	1	A	5	A	Repeat-mediated
ec0628d2-3275-11e6-8295-ecba9b6d3b88	5_65544527_CTC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	5	65544527	CT	C	1080	PASS	-	Del	-	1	8	EXO1	child	5_65544527_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
ec0a2dd2-3280-11e6-86bf-c88169062303	18_49762942_ATATATATA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	18	49762942	ATATATAT	A	300	PASS	-	Del	-	7	1	FANCC	child	18_49762942_ATATATATA_FANCC	7	7	3	TAT	0	-	Microhomology-mediated
ec152128-3277-11e6-9484-e5b5cc638e3d	6_13327673_CTC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	6	13327673	CT	C	480	PASS	TBC1D7	Del	upstream	1	8	EXO1	child	6_13327673_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
ec15309a-3296-11e6-9718-edf997ba1142	15_56498407_CAC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	15	56498407	CA	C	900	PASS	RFX7	Del	intronic	1	9	CHK2	child	15_56498407_CAC_CHK2	1	1	1	A	8	A	Repeat-mediated
ec24bbce-326d-11e6-a20c-f31d4b47a305	2_181900418_ATA	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	2	181900418	AT	A	600	PASS	UBE2E3	Del	intronic	1	8	POLM	parent	2_181900418_ATA_POLM	1	1	1	T	7	T	Repeat-mediated
ec314df6-3274-11e6-9a4f-14b6dcd214c4	4_152125295_GGA	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	4	152125295	G	GA	420	PASS	SH3D19	Ins	intronic	1	7	POLM	child	4_152125295_GGA_POLM	1	1	-	-	-	-	Ins
ec41ae12-3288-11e6-a8ac-a28ea2c71c31	3_126410254_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	126410254	CA	C	720	PASS	-	Del	-	1	8	MSH6	child	3_126410254_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
ec424f1c-3291-11e6-881f-a0bf4430f757	6_76783783_CTC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	6	76783783	CT	C	420	PASS	IMPG1	Del	upstream	1	7	POLE	child	6_76783783_CTC_POLE	1	1	1	T	6	T	Repeat-mediated
ec457e64-3276-11e6-a71d-236235cec73b	X_68956149_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	68956149	CA	C	720	PASS	EDA	Del	intronic	1	9	MSH6	child	X_68956149_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
ec515770-3280-11e6-9f44-a22236fc2f7d	18_13337460_CTC	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	18	13337460	CT	C	600	PASS	LDLRAD4	Del	intronic	1	5	NUDT1	child	18_13337460_CTC_NUDT1	1	1	1	T	4	T	Repeat-mediated
ec5ec36a-3253-11e6-a4a7-35f212ae24cf	14_44695738_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	44695738	AT	A	360	PASS	RP11-305B6.3	Del	intronic	1	9	MSH6	child	14_44695738_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
ec69e5ce-3320-11e6-aa01-c73272d7bc54	12_24318657_TGT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	12	24318657	TG	T	300	PASS	-	Del	-	1	2	EXO1	child	12_24318657_TGT_EXO1	1	1	1	G	1	G	Repeat-mediated
ec741e2e-327e-11e6-bf31-92cf1f4bbf9c	2_137029673_AAT	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	2	137029673	A	AT	360	PASS	-	Ins	-	1	7	POLM	child	2_137029673_AAT_POLM	1	1	-	-	-	-	Ins
ec75ef68-3271-11e6-a812-e11198ba1142	9_120746341_CTC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	9	120746341	CT	C	840	PASS	-	Del	-	1	8	EXO1	parent	9_120746341_CTC_EXO1	1	1	1	T	7	T	Repeat-mediated
ec82c192-3286-11e6-8404-8e1fbce6aa09	8_39762156_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	39762156	CT	C	540	PASS	IDO1	Del	intronic	1	8	MSH6	child	8_39762156_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
ec84cce4-329a-11e6-bda6-065325c9da85	13_89465967_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	89465967	TA	T	600	PASS	-	Del	-	1	7	MSH6	child	13_89465967_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
ec8d2722-3286-11e6-a32f-5b79a178171f	11_82736199_CATATCTGC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	11	82736199	CATATCTG	C	480	PASS	RAB30	Del	intronic	7	1	FANCC	child	11_82736199_CATATCTGC_FANCC	7	7	2	AT	0	-	Microhomology-mediated
ec8f0706-3284-11e6-be43-0a6ea2c71c31	10_47374913_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	47374913	GT	G	362	PASS	-	Del	-	1	8	MSH6	child	10_47374913_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
ecafc12a-3276-11e6-a71d-236235cec73b	X_69129121_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	69129121	GT	G	480	PASS	EDA	Del	intronic	1	7	MSH6	child	X_69129121_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
ecbaf020-326e-11e6-b306-b5204b47a305	2_205058527_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	205058527	GA	G	600	PASS	-	Del	-	1	8	MSH6	child	2_205058527_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
ecbdf0ac-328e-11e6-8f31-bfe16f39e758	9_87830447_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	87830447	TA	T	360	PASS	-	Del	-	1	4	MSH6	child	9_87830447_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
ecca8808-328e-11e6-9230-fb250e01a414	3_63802284_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	63802284	CA	C	300	PASS	C3orf49	Del	upstream	1	7	MSH6	child	3_63802284_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
ecccea46-3296-11e6-a8ac-ea4f3dc9300a	6_57884074_TAT	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	6	57884074	TA	T	420	PASS	-	Del	-	1	7	POLB	child	6_57884074_TAT_POLB	1	1	1	A	6	A	Repeat-mediated
eccd2b72-328d-11e6-9217-1ba5e7d0bdd7	10_26346310_GAG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	10	26346310	GA	G	300	PASS	MYO3A	Del	intronic	1	8	FANCC	child	10_26346310_GAG_FANCC	1	1	1	A	7	A	Repeat-mediated
eccd2da8-3273-11e6-a5d0-4fd14a47a305	2_134891496_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	134891496	TA	T	600	PASS	MGAT5	Del	intronic	1	8	MSH6	child	2_134891496_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
ecd95d3a-3287-11e6-8404-8e1fbce6aa09	8_69362371_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	69362371	CT	C	300	PASS	C8orf34	Del	intronic	1	7	MSH6	child	8_69362371_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
ecddce5e-3284-11e6-a0a8-096ea2c71c31	11_49573284_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	49573284	TA	T	540	PASS	-	Del	-	1	8	MSH6	child	11_49573284_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
ece207d8-3290-11e6-a043-93e7977b3f23	3_102750249_ATA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	3	102750249	AT	A	360	PASS	-	Del	-	1	9	NEIL1	child	3_102750249_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
ece278a4-3276-11e6-83cd-a472a178171f	4_135413220_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	135413220	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	4_135413220_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
ecf46310-328b-11e6-b4fe-93c36f39e758	12_22437865_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	22437865	TA	T	480	PASS	ST8SIA1	Del	intronic	1	8	MSH6	child	12_22437865_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
ecf5b310-3258-11e6-8340-da9012ae24cf	6_28670621_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	28670621	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	6_28670621_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ecf96316-328f-11e6-b97d-a8b305ad5bc4	20_45852684_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	45852684	CA	C	960	PASS	ZMYND8	Del	intronic	1	8	MSH6	child	20_45852684_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
ecfb842c-3274-11e6-9162-5cdb6de4ab00	11_122993093_AACAGA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	11	122993093	AACAG	A	600	PASS	CLMP	Del	intronic	4	2	CHK2	child	11_122993093_AACAGA_CHK2	4	4	4	ACAG	1	ACAG	Repeat-mediated
ed0381c6-3324-11e6-ba0a-ab9864f80bad	5_84530253_AGGCACATTGA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	5	84530253	AGGCACATTG	A	300	PASS	-	Del	-	9	1	EXO1	child	5_84530253_AGGCACATTGA_EXO1	9	9	2	GG	0	-	Microhomology-mediated
ed03e9b6-329f-11e6-aea7-956725c9da85	3_95544998_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	95544998	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	3_95544998_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ed1dbd0c-3289-11e6-94b1-74090e01a414	17_34846441_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	34846441	AT	A	300	PASS	ZNHIT3	Del	intronic	1	9	MSH6	child	17_34846441_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
ed225b3e-328c-11e6-b8e6-91c36f39e758	11_92602826_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	92602826	GA	G	900	PASS	FAT3	Del	intronic	1	6	MSH6	child	11_92602826_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
ed2a8d3e-3270-11e6-8418-1c5942c4520d	3_89254798_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	89254798	GA	G	480	PASS	EPHA3	Del	intronic	1	5	MSH6	child	3_89254798_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
ed3733c8-3292-11e6-92cf-bf2a0e01a414	6_84515313_CCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	84515313	C	CT	660	PASS	-	Ins	-	1	7	MSH6	child	6_84515313_CCT_MSH6	1	1	-	-	-	-	Ins
ed3f8090-3270-11e6-b5b8-e0c24a47a305	X_98054430_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	98054430	TA	T	360	PASS	-	Del	-	1	7	MSH6	child	X_98054430_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
ed3faada-3297-11e6-9c5d-eaf997ba1142	12_123942556_ATA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	12	123942556	AT	A	720	PASS	SNRNP35	Del	5prime_UTR_variant	1	9	CHK2	child	12_123942556_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
ed46147c-326c-11e6-9d68-ac9acab49462	15_35935570_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	35935570	TA	T	300	PASS	DPH6-AS1	Del	intronic	1	9	MSH6	child	15_35935570_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
ed4b75b2-329d-11e6-b549-1e5325c9da85	10_113475400_TTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	113475400	T	TA	480	PASS	-	Ins	-	1	8	MSH6	child	10_113475400_TTA_MSH6	1	1	-	-	-	-	Ins
ed4deaba-3322-11e6-af46-df1198ba1142	7_24066883_TAT	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	7	24066883	TA	T	600	PASS	-	Del	-	1	9	POLE	child	7_24066883_TAT_POLE	1	1	1	A	8	A	Repeat-mediated
ed50e3e0-3274-11e6-8f33-a6d9cde16804	11_88696281_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	88696281	C	CA	480	PASS	GRM5	Ins	intronic	1	7	MSH6	child	11_88696281_CCA_MSH6	1	1	-	-	-	-	Ins
ed5a49ec-3299-11e6-baf7-d4588cd8cd69	22_42118039_TTA	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	22	42118039	T	TA	300	PASS	MEI1	Ins	intronic	1	2	CHK2	child	22_42118039_TTA_CHK2	1	1	-	-	-	-	Ins
ed5f1fdc-3288-11e6-b32c-fd87a2c71c31	5_117523757_GGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	117523757	G	GT	360	PASS	CTD-3179P9.1	Ins	intronic	1	8	MSH6	child	5_117523757_GGT_MSH6	1	1	-	-	-	-	Ins
ed67b43a-3288-11e6-a8ac-a28ea2c71c31	3_127134342_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	127134342	GA	G	480	PASS	-	Del	-	1	7	MSH6	child	3_127134342_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
ed6e533c-3272-11e6-bfb2-2749c225ee11	12_41872840_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	41872840	GA	G	540	PASS	PDZRN4	Del	intronic	1	7	MSH6	child	12_41872840_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
ed8426f8-3272-11e6-83ef-69fb06e9a829	18_38781955_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	38781955	AT	A	420	PASS	-	Del	-	1	7	MSH6	child	18_38781955_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
ed93ae9a-327f-11e6-b263-76d64dc77248	8_55511686_ATA	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	8	55511686	AT	A	300	PASS	-	Del	-	1	9	NUDT1	child	8_55511686_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
eda365e6-328f-11e6-8f31-bfe16f39e758	9_5439304_CCT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	5439304	C	CT	300	PASS	PLGRKT	Ins	upstream	1	7	MSH6	child	9_5439304_CCT_MSH6	1	1	-	-	-	-	Ins
eda37982-3320-11e6-94fd-ff28038949d4	15_68389240_ATA	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	15	68389240	AT	A	420	PASS	PIAS1	Del	intronic	1	7	CHK2	parent	15_68389240_ATA_CHK2	1	1	1	T	6	T	Repeat-mediated
eda9d49c-329b-11e6-aca6-b39fcc638e3d	2_141018489_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	141018489	AT	A	780	PASS	LRP1B	Del	intronic	1	9	MSH6	child	2_141018489_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
edb8eaf0-328b-11e6-bd84-429305ad5bc4	1_49834157_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	49834157	AT	A	474	PASS	AGBL4	Del	intronic	1	8	MSH6	child	1_49834157_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
edb9e508-329b-11e6-aca6-b39fcc638e3d	2_141028929_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	141028929	CA	C	540	PASS	LRP1B	Del	intronic	1	7	MSH6	child	2_141028929_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
edc652da-329a-11e6-b74d-b59fcc638e3d	18_70192172_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	70192172	TA	T	600	PASS	-	Del	-	1	9	MSH6	child	18_70192172_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
edcc30ba-326d-11e6-9f48-94df41c4520d	12_103934689_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	103934689	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	12_103934689_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
eddba712-3276-11e6-998e-ba48fa52e078	8_91394382_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	91394382	CA	C	780	PASS	LINC00534	Del	intronic	1	5	MSH6	child	8_91394382_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
ede5483a-3320-11e6-9310-d9d7c042253c	16_13014171_GTAG	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	16	13014171	GTA	G	300	PASS	SHISA9	Del	intronic	2	7	POLE	child	16_13014171_GTAG_POLE	2	2	2	TA	6	TA	Repeat-mediated
ede728de-3254-11e6-b895-bae612ae24cf	2_242422978_TCT	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	2	242422978	TC	T	720	PASS	FARP2	Del	intronic	1	6	POLB	child	2_242422978_TCT_POLB	1	1	1	C	5	C	Repeat-mediated
eded61e2-3289-11e6-bbaf-7c090e01a414	19_23290717_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	23290717	AT	A	300	PASS	-	Del	-	1	7	MSH6	child	19_23290717_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
edf14538-3274-11e6-8eca-83e079852e0e	11_32146609_GAG	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	11	32146609	GA	G	420	PASS	-	Del	-	1	8	POLM	child	11_32146609_GAG_POLM	1	1	1	A	7	A	Repeat-mediated
edf1905c-328c-11e6-8770-3e160e01a414	9_99764195_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	99764195	GA	G	288	PASS	HIATL2	Del	intronic	1	9	MSH6	child	9_99764195_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
edf6078e-3284-11e6-a1ac-fd6da2c71c31	13_67651986_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	67651986	TA	T	660	PASS	PCDH9	Del	intronic	1	9	MSH6	child	13_67651986_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
ee06e746-3286-11e6-b84c-a2a0fc1f1540	1_182776430_TAT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	1	182776430	TA	T	300	PASS	NPL	Del	intronic	1	9	FANCC	child	1_182776430_TAT_FANCC	1	1	1	A	8	A	Repeat-mediated
ee15d71c-3347-11e6-b5ef-938f38e8a824	13_95850152_TTC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	13	95850152	T	TC	420	PASS	ABCC4	Ins	intronic	1	0	FANCC	child	13_95850152_TTC_FANCC	1	1	-	-	-	-	Ins
ee1e725e-328f-11e6-9d24-ade56f39e758	7_88898327_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	88898327	AT	A	449	PASS	ZNF804B	Del	intronic	1	6	MSH6	child	7_88898327_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
ee21eb40-329a-11e6-bda6-065325c9da85	13_89914317_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	89914317	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	13_89914317_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
ee318690-3349-11e6-a997-309d38e8a824	4_122985979_CGACAGATAAGC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	4	122985979	CGACAGATAAG	C	420	PASS	-	Del	-	10	1	FANCC	child	4_122985979_CGACAGATAAGC_FANCC	10	>=10	2	GA	0	-	Microhomology-mediated
ee349838-3292-11e6-9230-fb250e01a414	3_128262632_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	128262632	A	AT	300	PASS	-	Ins	-	1	9	MSH6	child	3_128262632_AAT_MSH6	1	1	-	-	-	-	Ins
ee43d662-3270-11e6-b5b8-e0c24a47a305	X_98740125_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	98740125	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	X_98740125_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
ee482f16-3287-11e6-9bc8-5079a178171f	15_97673914_CAC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	15	97673914	CA	C	300	PASS	-	Del	-	1	5	FANCC	child	15_97673914_CAC_FANCC	1	1	1	A	4	A	Repeat-mediated
ee4b2f80-328d-11e6-b8e6-91c36f39e758	11_16169987_TTA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	16169987	T	TA	540	PASS	SOX6	Ins	intronic	1	3	MSH6	child	11_16169987_TTA_MSH6	1	1	-	-	-	-	Ins
ee52b744-3299-11e6-aca6-b39fcc638e3d	2_10369532_CTTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	10369532	CTT	C	780	PASS	-	Del	-	2	5	MSH6	child	2_10369532_CTTC_MSH6	2	2	2	TT	3	T	Repeat-mediated
ee6575e4-3273-11e6-a5d0-4fd14a47a305	2_135414139_TCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	135414139	TC	T	740	PASS	TMEM163	Del	intronic	1	6	MSH6	child	2_135414139_TCT_MSH6	1	1	1	C	5	C	Repeat-mediated
ee6c7170-3280-11e6-ab82-b5262eaed38e	14_75355897_AATTGA	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	14	75355897	AATTG	A	540	PASS	DLST	Del	intronic	4	2	POLB	child	14_75355897_AATTGA_POLB	4	4	4	ATTG	1	ATTG	Repeat-mediated
ee728f66-3275-11e6-a3f9-4821ead19ece	3_22828725_CAC	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	3	22828725	CA	C	480	PASS	-	Del	-	1	9	NEIL1	child	3_22828725_CAC_NEIL1	1	1	1	A	8	A	Repeat-mediated
ee7bcd9c-3270-11e6-b89d-b2d6b0dab373	4_95979139_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	95979139	TA	T	720	PASS	BMPR1B	Del	intronic	1	7	MSH6	child	4_95979139_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
ee7e4256-328a-11e6-8353-a446fd44d094	1_201229763_ATA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	1	201229763	AT	A	300	PASS	-	Del	-	1	6	FANCC	child	1_201229763_ATA_FANCC	1	1	1	T	5	T	Repeat-mediated
ee83c1ae-3258-11e6-8cd9-139b7872c165	3_112212361_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	112212361	GT	G	600	PASS	BTLA	Del	intronic	1	9	MSH6	child	3_112212361_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
ee8b2076-3293-11e6-98e0-70dad8b4fa2c	2_194907658_TAGT	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	2	194907658	TAG	T	480	PASS	-	Del	-	2	2	NUDT1	child	2_194907658_TAGT_NUDT1	2	2	2	AG	1	AG	Repeat-mediated
ee8d6304-3347-11e6-b1a0-0d1e4ec77248	X_29802054_ATA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	X	29802054	AT	A	480	PASS	IL1RAPL1	Del	intronic	1	9	FANCC	child	X_29802054_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
ee8e2548-329b-11e6-b549-1e5325c9da85	10_124765928_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	124765928	AC	A	600	PASS	ACADSB	Del	upstream	1	8	MSH6	child	10_124765928_ACA_MSH6	1	1	1	C	7	C	Repeat-mediated
ee912c66-328c-11e6-bd84-429305ad5bc4	1_189356487_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	189356487	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	1_189356487_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
ee936b06-326f-11e6-9fba-41ebd8b4fa2c	11_125134690_GCG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	125134690	GC	G	360	PASS	PKNOX2	Del	intronic	1	5	MSH6	child	11_125134690_GCG_MSH6	1	1	1	C	4	C	Repeat-mediated
eeb8dfa0-329a-11e6-bda6-065325c9da85	13_90033113_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	90033113	AT	A	780	PASS	-	Del	-	1	7	MSH6	child	13_90033113_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
eeb9ad3c-3271-11e6-a812-e11198ba1142	9_121762572_ATA	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	9	121762572	AT	A	360	PASS	-	Del	-	1	7	EXO1	parent	9_121762572_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
eec058d0-3271-11e6-aca7-e2b6dcd214c4	5_66679758_TAT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	5	66679758	TA	T	600	PASS	RP11-434D9.1	Del	intronic	1	4	POLM	child	5_66679758_TAT_POLM	1	1	1	A	3	A	Repeat-mediated
eec3c588-3276-11e6-8c34-46e27872c165	5_110299665_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	110299665	GA	G	420	PASS	-	Del	-	1	8	MSH6	child	5_110299665_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
eec7f9da-3273-11e6-9210-65fa620e6611	5_151657576_GAG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	5	151657576	GA	G	600	PASS	-	Del	-	1	8	EXO1	parent	5_151657576_GAG_EXO1	1	1	1	A	7	A	Repeat-mediated
eecdd5a6-3284-11e6-8ebc-68f1bbe6aa09	18_61833259_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	61833259	GT	G	540	PASS	RP11-146N18.1	Del	intronic	1	8	MSH6	child	18_61833259_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
eecee822-3295-11e6-957b-aef8d8b4fa2c	8_49769693_CTTTCTTTCTTTCTTTCTTTCTTTCCTTTCTTTCTTTC	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	8	49769693	CTTTCTTTCTTTCTTTCTTTCTTTCCTTTCTTTCTTT	C	300	PASS	-	Del	-	36	1	NUDT1	child	8_49769693_CTTTCTTTCTTTCTTTCTTTCTTTCCTTTCTTTCTTTC_NUDT1	36	>=10	0	-	0	-	None
eed1c6d0-3274-11e6-bf90-64cd7872c165	6_84016508_TCCCTTGATAATACAGTAT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	6	84016508	TCCCTTGATAATACAGTA	T	540	PASS	ME1	Del	intronic	17	1	POLM	child	6_84016508_TCCCTTGATAATACAGTAT_POLM	17	>=10	1	C	0	-	Microhomology-mediated
eed83d2c-3322-11e6-bfbd-b63cfc77b11e	14_107143765_TTA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	14	107143765	T	TA	600	PASS	-	Ins	-	1	8	POLE	child	14_107143765_TTA_POLE	1	1	-	-	-	-	Ins
eee374c6-329b-11e6-8d0f-075325c9da85	14_42566266_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	42566266	C	CA	300	PASS	-	Ins	-	1	9	MSH6	child	14_42566266_CCA_MSH6	1	1	-	-	-	-	Ins
eee4787a-327e-11e6-9cfc-ec8590e2c2e6	1_195246458_CTC	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	1	195246458	CT	C	480	PASS	-	Del	-	1	7	NUDT1	child	1_195246458_CTC_NUDT1	1	1	1	T	6	T	Repeat-mediated
eee68a86-3272-11e6-aa3b-ca60a178171f	13_52552340_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	52552340	TG	T	480	PASS	ATP7B	Del	intronic	1	5	MSH6	child	13_52552340_TGT_MSH6	1	1	1	G	4	G	Repeat-mediated
eef5231a-328c-11e6-bd84-429305ad5bc4	1_189641716_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	189641716	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	1_189641716_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
ef072076-3280-11e6-9ec5-888f1ac527ab	13_72655077_ATA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	13	72655077	AT	A	480	PASS	-	Del	-	1	7	FANCC	child	13_72655077_ATA_FANCC	1	1	1	T	6	T	Repeat-mediated
ef091cee-328c-11e6-b805-77090e01a414	2_241023212_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	241023212	GT	G	300	PASS	-	Del	-	1	7	MSH6	child	2_241023212_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
ef12d080-3292-11e6-94e1-63e1191589db	3_180469074_AAT	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	3	180469074	A	AT	360	PASS	-	Ins	-	1	6	FANCC	child	3_180469074_AAT_FANCC	1	1	-	-	-	-	Ins
ef17fbd2-326f-11e6-93e2-b755671699ea	12_64638236_TCT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	12	64638236	TC	T	360	PASS	-	Del	-	1	1	EXO1	parent	12_64638236_TCT_EXO1	1	1	0	-	0	C	None
ef181c4c-329d-11e6-bc2c-2a5e25c9da85	4_65630345_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	65630345	GT	G	300	PASS	-	Del	-	1	9	MSH6	child	4_65630345_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
ef1c41ee-329f-11e6-91d0-016425c9da85	7_145453546_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	145453546	GT	G	480	PASS	-	Del	-	1	9	MSH6	child	7_145453546_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
ef255c78-3279-11e6-ab1d-16d9ecf1e924	20_5083953_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	20	5083953	CA	C	720	PASS	TMEM230	Del	intronic	1	7	MSH6	child	20_5083953_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
ef2644f4-32a0-11e6-bc66-17b4cc638e3d	8_143476446_AGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	143476446	AG	A	300	PASS	TSNARE1	Del	intronic	1	6	MSH6	child	8_143476446_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
ef318596-326c-11e6-b306-b5204b47a305	2_30687980_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	30687980	TA	T	360	PASS	LCLAT1	Del	intronic	1	8	MSH6	child	2_30687980_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
ef321d68-3289-11e6-94b1-74090e01a414	17_35221085_CGC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	35221085	CG	C	420	PASS	-	Del	-	1	6	MSH6	child	17_35221085_CGC_MSH6	1	1	1	G	5	G	Repeat-mediated
ef3f3b1a-3275-11e6-a8d8-3e6075253f64	3_48910189_AGGAGGCTGAGGCAGAAGAACTGTTTGAGCCCAGGATGCTGAGGCTGCAGAGAGCCATGATTTTACCACTGCACTTCAGCCTGGGCAATAGAGTAACACCTTGTCTCAAAAACAAAAACAAATTGACTCAAATGAGGTCACAGGCTTGAATGTAAAACATAAAATGATAAATAAAACCTATAGAAGGCCCGGGTACGGTGGCTCATGTCTATAATCCCAGCACTTTGGGAGGCCGAGATGGGCAAATCACCTGAGGTCAGGAGTTGGAGACCAGCCTGGCCAACATGGTAAAACCCTGTCTCTACTAAAAATACAAAAACTAGCTGGGTGTGGTGGTGTGTGCCTATAATCCCAGCTACTGGA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	3	48910189	AGGAGGCTGAGGCAGAAGAACTGTTTGAGCCCAGGATGCTGAGGCTGCAGAGAGCCATGATTTTACCACTGCACTTCAGCCTGGGCAATAGAGTAACACCTTGTCTCAAAAACAAAAACAAATTGACTCAAATGAGGTCACAGGCTTGAATGTAAAACATAAAATGATAAATAAAACCTATAGAAGGCCCGGGTACGGTGGCTCATGTCTATAATCCCAGCACTTTGGGAGGCCGAGATGGGCAAATCACCTGAGGTCAGGAGTTGGAGACCAGCCTGGCCAACATGGTAAAACCCTGTCTCTACTAAAAATACAAAAACTAGCTGGGTGTGGTGGTGTGTGCCTATAATCCCAGCTACTGG	A	359	PASS	SLC25A20	Del	intronic	361	1	FANCC	child	3_48910189_AGGAGGCTGAGGCAGAAGAACTGTTTGAGCCCAGGATGCTGAGGCTGCAGAGAGCCATGATTTTACCACTGCACTTCAGCCTGGGCAATAGAGTAACACCTTGTCTCAAAAACAAAAACAAATTGACTCAAATGAGGTCACAGGCTTGAATGTAAAACATAAAATGATAAATAAAACCTATAGAAGGCCCGGGTACGGTGGCTCATGTCTATAATCCCAGCACTTTGGGAGGCCGAGATGGGCAAATCACCTGAGGTCAGGAGTTGGAGACCAGCCTGGCCAACATGGTAAAACCCTGTCTCTACTAAAAATACAAAAACTAGCTGGGTGTGGTGGTGTGTGCCTATAATCCCAGCTACTGGA_FANCC	361	>=10	14	GGAGGCTGAGGCAG	0	-	Microhomology-mediated
ef5644b2-3253-11e6-a4a7-35f212ae24cf	14_45823553_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	45823553	CT	C	600	PASS	-	Del	-	1	9	MSH6	child	14_45823553_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
ef5e4aa6-326f-11e6-b923-6726694da5d2	5_32754725_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	32754725	AT	A	660	PASS	NPR3	Del	intronic	1	8	MSH6	child	5_32754725_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ef6364cc-3289-11e6-8eee-76090e01a414	10_44004123_CAAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	44004123	CAA	C	300	PASS	-	Del	-	2	5	MSH6	child	10_44004123_CAAC_MSH6	2	2	2	AA	3	A	Repeat-mediated
ef6a0fb4-3290-11e6-919e-92c36f39e758	2_114632388_GGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	114632388	G	GA	420	PASS	-	Ins	-	1	9	MSH6	child	2_114632388_GGA_MSH6	1	1	-	-	-	-	Ins
ef6fe9f4-329d-11e6-b696-dd6225c9da85	5_50992106_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	50992106	CT	C	540	PASS	-	Del	-	1	4	MSH6	child	5_50992106_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
ef7fc188-3286-11e6-b32c-fd87a2c71c31	5_74784161_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	74784161	AT	A	420	PASS	COL4A3BP	Del	intronic	1	8	MSH6	child	5_74784161_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ef84397a-329a-11e6-b74d-b59fcc638e3d	18_70685951_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	70685951	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	18_70685951_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
ef928374-3257-11e6-91d3-a68412ae24cf	7_107101729_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	107101729	TA	T	480	PASS	COG5	Del	intronic	1	7	MSH6	child	7_107101729_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
ef93bd76-3279-11e6-83cd-a472a178171f	4_152363487_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	152363487	T	TA	540	PASS	FAM160A1	Ins	intronic	1	8	MSH6	child	4_152363487_TTA_MSH6	1	1	-	-	-	-	Ins
efa29302-3254-11e6-b4d0-327a7872c165	11_94914959_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	94914959	CA	C	480	PASS	SESN3	Del	intronic	1	8	MSH6	child	11_94914959_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
efa78d1a-3297-11e6-bfe3-c11ec7271a47	2_146608725_GAG	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	2	146608725	GA	G	540	PASS	-	Del	-	1	8	CHK2	child	2_146608725_GAG_CHK2	1	1	1	A	7	A	Repeat-mediated
efa7b7ca-3276-11e6-8c34-46e27872c165	5_110534291_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	110534291	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	5_110534291_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
efad4520-328d-11e6-919e-92c36f39e758	2_166771640_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	166771640	TA	T	420	PASS	TTC21B	Del	intronic	1	9	MSH6	child	2_166771640_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
efb1a6d2-3284-11e6-b093-c9c7b0dab373	2_43056614_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	43056614	CA	C	780	PASS	-	Del	-	1	8	MSH6	child	2_43056614_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
efb68a18-327e-11e6-8cd8-82e7b41afd22	7_45716022_CTC	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	7	45716022	CT	C	540	PASS	ADCY1	Del	intronic	1	9	POLM	child	7_45716022_CTC_POLM	1	1	1	T	8	T	Repeat-mediated
efbde9a2-329c-11e6-bc2c-2a5e25c9da85	4_2855334_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	2855334	GT	G	1080	PASS	ADD1	Del	intronic	1	9	MSH6	child	4_2855334_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
efbf46f0-328b-11e6-bd84-429305ad5bc4	1_51328423_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	51328423	GA	G	660	PASS	FAF1	Del	intronic	1	7	MSH6	child	1_51328423_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
efc02278-329a-11e6-8069-175325c9da85	12_63805328_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	63805328	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	12_63805328_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
efc0ea3e-3289-11e6-a7cf-80090e01a414	15_51960625_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	51960625	CT	C	420	PASS	-	Del	-	1	7	MSH6	child	15_51960625_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
efc73cf8-3276-11e6-a71d-236235cec73b	X_70042868_TGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	70042868	TG	T	660	PASS	TEX11	Del	intronic	1	6	MSH6	child	X_70042868_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
efcad838-3274-11e6-a862-bc9becf1e924	1_170647431_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	170647431	AT	A	720	PASS	PRRX1	Del	intronic	1	7	MSH6	child	1_170647431_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
efd8e762-3273-11e6-a279-106e671699ea	3_67196519_GATG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	3	67196519	GAT	G	780	PASS	-	Del	-	2	6	EXO1	parent	3_67196519_GATG_EXO1	2	2	2	AT	5	AT	Repeat-mediated
efde7656-328b-11e6-bf15-aeb06f39e758	6_115526414_CCT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	6	115526414	C	CT	720	PASS	-	Ins	-	1	0	EXO1	child	6_115526414_CCT_EXO1	1	1	-	-	-	-	Ins
efdf0fe4-3277-11e6-998e-ba48fa52e078	8_17996260_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	17996260	T	TA	780	PASS	-	Ins	-	1	7	MSH6	child	8_17996260_TTA_MSH6	1	1	-	-	-	-	Ins
efe6dba2-329a-11e6-b74d-b59fcc638e3d	18_70732012_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	70732012	GT	G	300	PASS	-	Del	-	1	8	MSH6	child	18_70732012_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
eff16ebe-328b-11e6-bd84-429305ad5bc4	1_51444376_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	51444376	TA	T	300	PASS	CDKN2C	Del	downstream	1	9	MSH6	child	1_51444376_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
eff5b90a-3278-11e6-9fa1-e11442c4520d	6_47972004_CAC	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	6	47972004	CA	C	540	PASS	PTCHD4	Del	intronic	1	6	POLM	child	6_47972004_CAC_POLM	1	1	1	A	5	A	Repeat-mediated
eff6bc72-328e-11e6-94e1-63e1191589db	3_119021223_ATA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	3	119021223	AT	A	300	PASS	ARHGAP31	Del	intronic	1	9	FANCC	child	3_119021223_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
effa15c2-3322-11e6-8d31-31bce7d0bdd7	1_184137656_TCT	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	1	184137656	TC	T	360	PASS	-	Del	-	1	2	EXO1	child	1_184137656_TCT_EXO1	1	1	1	C	1	C	Repeat-mediated
effa17aa-3270-11e6-b9a6-d04066a58581	15_86564446_GTG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	15	86564446	GT	G	420	PASS	-	Del	-	1	9	EXO1	parent	15_86564446_GTG_EXO1	1	1	1	T	8	T	Repeat-mediated
effd33e4-327b-11e6-8026-e974e7d0bdd7	2_40940254_GGC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	2	40940254	G	GC	780	PASS	-	Ins	-	1	1	FANCC	parent	2_40940254_GGC_FANCC	1	1	-	-	-	-	Ins
f00748ce-3272-11e6-b084-b6b99d7ad846	16_82129460_TAT	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	16	82129460	TA	T	480	PASS	HSD17B2	Del	intronic	1	8	NEIL1	child	16_82129460_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
f007840a-3287-11e6-a941-5a85a178171f	9_16960174_GAGAG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	9	16960174	GAGA	G	540	PASS	-	Del	-	3	1	FANCC	child	9_16960174_GAGAG_FANCC	3	3	2	AG	0	-	Microhomology-mediated
f00c8e96-3287-11e6-8b67-086ea2c71c31	1_49896944_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	49896944	T	TA	420	PASS	AGBL4	Ins	intronic	1	6	MSH6	child	1_49896944_TTA_MSH6	1	1	-	-	-	-	Ins
f0253474-3286-11e6-b0bc-c7a46f39e758	5_68389712_CAC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	5	68389712	CA	C	480	PASS	SLC30A5	Del	5prime_UTR_variant	1	2	EXO1	child	5_68389712_CAC_EXO1	1	1	1	A	1	A	Repeat-mediated
f02c87de-3320-11e6-be72-aff7191589db	14_97131879_TAT	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	14	97131879	TA	T	540	PASS	-	Del	-	1	7	CHK2	parent	14_97131879_TAT_CHK2	1	1	1	A	6	A	Repeat-mediated
f03c3942-3256-11e6-a304-347a7872c165	1_235719128_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	235719128	CT	C	420	PASS	GNG4	Del	intronic	1	7	MSH6	child	1_235719128_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
f0429b3c-3253-11e6-a03d-40f212ae24cf	18_28314106_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	18	28314106	CA	C	840	PASS	-	Del	-	1	7	MSH6	child	18_28314106_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
f0438baa-3299-11e6-ae71-0c5325c9da85	1_7676804_GCG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	7676804	GC	G	540	PASS	CAMTA1	Del	intronic	1	7	MSH6	child	1_7676804_GCG_MSH6	1	1	1	C	6	C	Repeat-mediated
f048967c-326c-11e6-bc62-6d4742c4520d	16_25399026_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	25399026	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	16_25399026_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
f049b8bc-3272-11e6-972e-caab7d6a9fc7	15_74301989_ACACCCAGGCTGGAGTGCAGTGGCACAGTCATGGCTTGCGGCAGCCTCAACCTCCCAGGTTCAAGTGATCCTCCTACCTTAGCCTTCCTAGTTTGTAGAGACGAGTTTTCACCATGTTGCCCAGGTTGGTCTCGAACTCCTGGGCTCCACCCACCTCGGCTTCTCAAAGTGCTGTGATTACAGGCTTGAGCCACCACGCCCAGCCAGAAGCAGGGAATTTAAAGCAGCGCAAGCCAAGATCAGGATTAGGGCTGGTGCTCCGGTCTCACTTCTCCTGAAGGCCAATCGCCTCTACTTTCTGCAGCTATGGGAGTGGGCTTTGCTATTCAGGGATGGAGGCCTGGGACATTTTAGAACAATTTGGGTTTTTTAGTTTTGTTTTTTTGAGACAGGGACTTGCTCTGTA	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	15	74301989	ACACCCAGGCTGGAGTGCAGTGGCACAGTCATGGCTTGCGGCAGCCTCAACCTCCCAGGTTCAAGTGATCCTCCTACCTTAGCCTTCCTAGTTTGTAGAGACGAGTTTTCACCATGTTGCCCAGGTTGGTCTCGAACTCCTGGGCTCCACCCACCTCGGCTTCTCAAAGTGCTGTGATTACAGGCTTGAGCCACCACGCCCAGCCAGAAGCAGGGAATTTAAAGCAGCGCAAGCCAAGATCAGGATTAGGGCTGGTGCTCCGGTCTCACTTCTCCTGAAGGCCAATCGCCTCTACTTTCTGCAGCTATGGGAGTGGGCTTTGCTATTCAGGGATGGAGGCCTGGGACATTTTAGAACAATTTGGGTTTTTTAGTTTTGTTTTTTTGAGACAGGGACTTGCTCTGT	A	268	PASS	PML	Del	intronic	404	1	NEIL1	child	15_74301989_ACACCCAGGCTGGAGTGCAGTGGCACAGTCATGGCTTGCGGCAGCCTCAACCTCCCAGGTTCAAGTGATCCTCCTACCTTAGCCTTCCTAGTTTGTAGAGACGAGTTTTCACCATGTTGCCCAGGTTGGTCTCGAACTCCTGGGCTCCACCCACCTCGGCTTCTCAAAGTGCTGTGATTACAGGCTTGAGCCACCACGCCCAGCCAGAAGCAGGGAATTTAAAGCAGCGCAAGCCAAGATCAGGATTAGGGCTGGTGCTCCGGTCTCACTTCTCCTGAAGGCCAATCGCCTCTACTTTCTGCAGCTATGGGAGTGGGCTTTGCTATTCAGGGATGGAGGCCTGGGACATTTTAGAACAATTTGGGTTTTTTAGTTTTGTTTTTTTGAGACAGGGACTTGCTCTGTA_NEIL1	404	>=10	21	CACCCAGGCTGGAGTGCAGTG	0	-	Microhomology-mediated
f04bcc02-3299-11e6-bda6-065325c9da85	13_25229893_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	25229893	CT	C	480	PASS	-	Del	-	1	5	MSH6	child	13_25229893_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
f04e479e-3257-11e6-aed0-182fee3c4f5d	20_63593_GAG	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	20	63593	GA	G	540	PASS	DEFB125	Del	upstream	1	5	POLB	child	20_63593_GAG_POLB	1	1	1	A	4	A	Repeat-mediated
f04fc3cc-326f-11e6-b9a6-d04066a58581	15_64570988_TATAT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	15	64570988	TATA	T	540	PASS	CSNK1G1	Del	intronic	3	1	EXO1	parent	15_64570988_TATAT_EXO1	3	3	2	AT	0	-	Microhomology-mediated
f05633ba-3279-11e6-a391-f6d67d6a9fc7	6_167614845_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	167614845	AT	A	840	PASS	-	Del	-	1	7	MSH6	child	6_167614845_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
f063b766-328c-11e6-bd84-429305ad5bc4	1_190670915_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	190670915	TA	T	360	PASS	RP11-463J7.2	Del	intronic	1	5	MSH6	child	1_190670915_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
f063fd76-3290-11e6-b77d-2eef6f39e758	6_30508367_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	30508367	CA	C	780	PASS	GNL1	Del	downstream	1	7	MSH6	child	6_30508367_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
f067b2f6-329d-11e6-bc2c-2a5e25c9da85	4_65988468_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	65988468	CT	C	600	PASS	-	Del	-	1	9	MSH6	child	4_65988468_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f0736844-3284-11e6-a8af-066ea2c71c31	15_57384782_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	57384782	GT	G	540	PASS	TCF12	Del	intronic	1	7	MSH6	child	15_57384782_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
f0749e86-329c-11e6-ae71-0c5325c9da85	1_179592947_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	179592947	AT	A	300	PASS	TDRD5	Del	intronic	1	9	MSH6	child	1_179592947_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
f079bc7c-3251-11e6-b6e3-b7e612ae24cf	19_11217524_GAGACGGAGTCTCGCTCTGACACCCG	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	19	11217524	GAGACGGAGTCTCGCTCTGACACCC	G	660	PASS	LDLR	Del	intronic	24	1	POLB	child	19_11217524_GAGACGGAGTCTCGCTCTGACACCCG_POLB	24	>=10	2	AG	0	-	Microhomology-mediated
f07a0f32-3270-11e6-8418-1c5942c4520d	3_94245727_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	94245727	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	3_94245727_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
f07e6cca-3280-11e6-9e64-e3262eaed38e	16_47899831_AACAGA	.	HAP1_POLB_35-7	HAP1_parental_75_WT_DNA	16	47899831	AACAG	A	540	PASS	RP11-523L20.2	Del	intronic	4	1	POLB	child	16_47899831_AACAGA_POLB	4	4	3	ACA	0	-	Microhomology-mediated
f0838852-3291-11e6-a008-61a39b6d3b88	11_83590231_CCTTC	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	11	83590231	CCTT	C	780	PASS	DLG2	Del	intronic	3	1	NUDT1	child	11_83590231_CCTTC_NUDT1	3	3	2	CT	0	-	Microhomology-mediated
f0922d9c-3284-11e6-8b67-086ea2c71c31	1_40927466_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	40927466	CA	C	540	PASS	ZFP69B	Del	intronic	1	9	MSH6	child	1_40927466_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
f0928794-3287-11e6-a21c-b819bce6aa09	X_148611134_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	148611134	TA	T	540	PASS	IDS	Del	splice_region	1	7	MSH6	child	X_148611134_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
f0930860-327b-11e6-8026-e974e7d0bdd7	2_41176546_AAT	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	2	41176546	A	AT	540	PASS	-	Ins	-	1	6	FANCC	parent	2_41176546_AAT_FANCC	1	1	-	-	-	-	Ins
f096f102-32a1-11e6-bc66-17b4cc638e3d	8_36535013_TTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	36535013	T	TA	480	PASS	RP11-962G15.1	Ins	intronic	1	7	MSH6	child	8_36535013_TTA_MSH6	1	1	-	-	-	-	Ins
f099cbd6-3286-11e6-8b67-086ea2c71c31	1_227268207_GTTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	227268207	GTT	G	420	PASS	CDC42BPA	Del	intronic	2	8	MSH6	child	1_227268207_GTTG_MSH6	2	2	2	TT	6	T	Repeat-mediated
f09bb93a-328d-11e6-8f31-bfe16f39e758	9_2225646_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	2225646	CT	C	360	PASS	-	Del	-	1	8	MSH6	child	9_2225646_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
f0a0edb4-3289-11e6-9c89-8d090e01a414	1_33040784_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	33040784	CT	C	300	PASS	ZBTB8A	Del	intronic	1	8	MSH6	child	1_33040784_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
f0a3dd40-328d-11e6-8566-7f5c694da5d2	11_113174277_CAC	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	11	113174277	CA	C	480	PASS	-	Del	-	1	9	POLM	child	11_113174277_CAC_POLM	1	1	1	A	8	A	Repeat-mediated
f0a5dada-3280-11e6-9066-1ba854de4fc4	14_74140340_CCGGTAATCTGGC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	14	74140340	CCGGTAATCTGG	C	420	PASS	DNAL1	Del	intronic	11	1	FANCC	child	14_74140340_CCGGTAATCTGGC_FANCC	11	>=10	1	C	0	-	Microhomology-mediated
f0aea5dc-3282-11e6-845d-6b29bce6aa09	X_140228464_CAC	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	X	140228464	CA	C	300	PASS	-	Del	-	1	6	POLM	child	X_140228464_CAC_POLM	1	1	1	A	5	A	Repeat-mediated
f0b04e6e-329b-11e6-aca6-b39fcc638e3d	2_141663523_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	141663523	TA	T	780	PASS	LRP1B	Del	intronic	1	9	MSH6	child	2_141663523_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
f0b19fb0-3289-11e6-a80b-87090e01a414	11_40756507_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	40756507	CA	C	280	PASS	LRRC4C	Del	intronic	1	8	MSH6	child	11_40756507_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
f0bc1216-3256-11e6-aa0b-72f912ae24cf	8_85647195_AATA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	8	85647195	AAT	A	360	PASS	RALYL	Del	intronic	2	6	POLB	child	8_85647195_AATA_POLB	2	2	2	AT	5	AT	Repeat-mediated
f0c0f41a-3284-11e6-99f7-076ea2c71c31	12_50594297_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	50594297	TA	T	1017	PASS	LIMA1	Del	intronic	1	6	MSH6	child	12_50594297_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
f0c0f698-3272-11e6-8f33-a6d9cde16804	11_49542013_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	49542013	CA	C	480	PASS	-	Del	-	1	5	MSH6	child	11_49542013_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
f0cdb016-3279-11e6-92d2-c259c225ee11	3_56170567_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	56170567	A	AT	720	PASS	ERC2	Ins	intronic	1	4	MSH6	child	3_56170567_AAT_MSH6	1	1	-	-	-	-	Ins
f0d326e6-326e-11e6-a20d-eeb97872c165	17_11433584_CCAC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	17	11433584	CCA	C	540	PASS	SHISA6	Del	intronic	2	8	NEIL1	child	17_11433584_CCAC_NEIL1	2	2	2	CA	7	CA	Repeat-mediated
f0dd0ad4-3274-11e6-bf90-64cd7872c165	6_84607345_TTGCATTTCTCT	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	6	84607345	TTGCATTTCTC	T	720	PASS	CYB5R4	Del	intronic	10	1	POLM	child	6_84607345_TTGCATTTCTCT_POLM	10	>=10	2	TG	0	-	Microhomology-mediated
f0e4f4c8-328e-11e6-9d97-efe56f39e758	4_23222443_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	23222443	TA	T	660	PASS	-	Del	-	1	7	MSH6	child	4_23222443_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
f0e52eda-3292-11e6-b3a9-d5afe7d0bdd7	4_70011380_GGA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	4	70011380	G	GA	360	PASS	-	Ins	-	1	9	FANCC	child	4_70011380_GGA_FANCC	1	1	-	-	-	-	Ins
f0e5bbb6-328d-11e6-9297-a3a9cdacbbbf	10_62630931_ATA	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	10	62630931	AT	A	360	PASS	RHOBTB1	Del	3prime_UTR_variant	1	8	POLB	child	10_62630931_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
f0e8df84-3284-11e6-99f7-076ea2c71c31	12_50632289_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	50632289	CA	C	420	PASS	LIMA1	Del	intronic	1	8	MSH6	child	12_50632289_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
f0ea670a-328e-11e6-b6a6-1f1e0e01a414	4_155396618_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	155396618	CT	C	300	PASS	DCHS2	Del	intronic	1	9	MSH6	child	4_155396618_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f0ede69e-3290-11e6-b77d-2eef6f39e758	6_30621210_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	30621210	AT	A	420	PASS	DHX16	Del	intronic	1	9	MSH6	child	6_30621210_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
f107e85a-328b-11e6-8106-81c36f39e758	19_17583638_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	17583638	CT	C	360	PASS	SLC27A1	Del	intronic	1	8	MSH6	child	19_17583638_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
f10d31c4-3273-11e6-bfb2-2749c225ee11	12_107044192_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	107044192	TA	T	480	PASS	RFX4	Del	intronic	1	5	MSH6	child	12_107044192_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
f10f5378-3278-11e6-bd08-5b1c630e6611	9_136719923_GGA	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	9	136719923	G	GA	540	PASS	VAV2	Ins	intronic	1	7	CHK2	child	9_136719923_GGA_CHK2	1	1	-	-	-	-	Ins
f10fd840-3299-11e6-ae71-0c5325c9da85	1_7851533_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	7851533	AT	A	420	PASS	PER3	Del	intronic	1	6	MSH6	child	1_7851533_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
f112fa90-3283-11e6-9d58-b7936f39e758	17_10871954_GAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	17	10871954	GA	G	300	PASS	-	Del	-	1	3	EXO1	child	17_10871954_GAG_EXO1	1	1	1	A	2	A	Repeat-mediated
f116f732-329f-11e6-91d0-016425c9da85	7_146458757_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	146458757	CT	C	480	PASS	CNTNAP2	Del	intronic	1	9	MSH6	child	7_146458757_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f1184816-3296-11e6-8ff8-970ab51afd22	X_30228460_TTA	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	X	30228460	T	TA	420	PASS	-	Ins	-	1	7	NEIL1	child	X_30228460_TTA_NEIL1	1	1	-	-	-	-	Ins
f11b3f38-3257-11e6-8cd9-139b7872c165	3_30472142_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	30472142	TA	T	414	PASS	-	Del	-	1	8	MSH6	child	3_30472142_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
f11bb83c-3275-11e6-a3f9-4821ead19ece	3_23699060_GAG	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	3	23699060	GA	G	300	PASS	-	Del	-	1	8	NEIL1	child	3_23699060_GAG_NEIL1	1	1	1	A	7	A	Repeat-mediated
f11d7490-3272-11e6-abaf-4642cab49462	6_94201560_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	94201560	GT	G	300	PASS	-	Del	-	1	8	MSH6	child	6_94201560_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
f1205a20-329a-11e6-b549-1e5325c9da85	10_69206879_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	69206879	TA	T	360	PASS	CTNNA3	Del	intronic	1	8	MSH6	child	10_69206879_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
f1282b6a-328b-11e6-a80b-87090e01a414	11_25740115_CCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	25740115	C	CT	324	PASS	-	Ins	-	1	2	MSH6	child	11_25740115_CCT_MSH6	1	1	-	-	-	-	Ins
f12a7faa-329a-11e6-b549-1e5325c9da85	10_69226895_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	69226895	CA	C	360	PASS	CTNNA3	Del	intronic	1	9	MSH6	child	10_69226895_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
f12b31c8-3323-11e6-913e-809e7098ee92	5_9111406_CAC	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	5	9111406	CA	C	480	PASS	SEMA5A	Del	intronic	1	7	POLE	child	5_9111406_CAC_POLE	1	1	1	A	6	A	Repeat-mediated
f12d219c-3254-11e6-b4d0-327a7872c165	11_95386677_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	95386677	TA	T	540	PASS	-	Del	-	1	9	MSH6	child	11_95386677_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
f12d53c0-328f-11e6-94e1-63e1191589db	3_182611025_CTC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	3	182611025	CT	C	540	PASS	ATP11B	Del	intronic	1	9	FANCC	child	3_182611025_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
f12d9624-3270-11e6-8418-1c5942c4520d	3_94434190_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	94434190	GT	G	420	PASS	-	Del	-	1	7	MSH6	child	3_94434190_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
f12dcd2c-3272-11e6-940c-da0fead19ece	11_99721348_ATA	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	11	99721348	AT	A	360	PASS	CNTN5	Del	intronic	1	9	NEIL1	child	11_99721348_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
f12e04ba-3275-11e6-8889-c85efc77b11e	4_140121395_GAG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	4	140121395	GA	G	960	PASS	-	Del	-	1	8	MSH6	parent	4_140121395_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
f132724a-326e-11e6-9d68-ac9acab49462	15_99461285_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	99461285	AT	A	360	PASS	IGF1R	Del	intronic	1	9	MSH6	child	15_99461285_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
f137eaaa-3290-11e6-92cf-bf2a0e01a414	6_138614687_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	138614687	GT	G	720	PASS	KIAA1244	Del	intronic	1	5	MSH6	child	6_138614687_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
f1382f26-328e-11e6-8f31-bfe16f39e758	9_88937822_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	88937822	TA	T	480	PASS	ZCCHC6	Del	frameshift	1	8	MSH6	child	9_88937822_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
f13a99f8-3272-11e6-a539-0e5542c4520d	7_144233089_CCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	144233089	C	CT	280	PASS	TPK1	Ins	intronic	1	2	MSH6	child	7_144233089_CCT_MSH6	1	1	-	-	-	-	Ins
f140a9ac-3299-11e6-b129-195325c9da85	16_5707104_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	5707104	GA	G	780	PASS	-	Del	-	1	8	MSH6	child	16_5707104_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
f140adc8-3274-11e6-a862-bc9becf1e924	1_171237748_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	171237748	CT	C	360	PASS	FMO1	Del	intronic	1	9	MSH6	child	1_171237748_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f154470c-328d-11e6-ae83-5ae3191589db	6_8884021_AAAAAAAAAAAAAAAAGA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	6	8884021	AAAAAAAAAAAAAAAAG	A	300	PASS	-	Del	-	16	1	FANCC	child	6_8884021_AAAAAAAAAAAAAAAAGA_FANCC	16	>=10	0	-	0	-	None
f157e3e8-3289-11e6-8459-82090e01a414	12_41596941_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	41596941	GA	G	300	PASS	PDZRN4	Del	intronic	1	9	MSH6	child	12_41596941_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
f16492ae-3294-11e6-b04a-0c16b968caf4	4_62263438_TAT	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	4	62263438	TA	T	600	PASS	LPHN3	Del	intronic	1	8	POLB	child	4_62263438_TAT_POLB	1	1	1	A	7	A	Repeat-mediated
f16acd26-3277-11e6-8c34-46e27872c165	5_179577891_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	179577891	CA	C	420	PASS	RASGEF1C	Del	intronic	1	5	MSH6	child	5_179577891_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
f16e5a88-328e-11e6-8f31-bfe16f39e758	9_89047216_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	89047216	CT	C	720	PASS	-	Del	-	1	7	MSH6	child	9_89047216_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
f1706680-3256-11e6-a304-347a7872c165	1_235993389_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	235993389	CT	C	540	PASS	LYST	Del	intronic	1	9	MSH6	child	1_235993389_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f17e912c-3299-11e6-b74d-b59fcc638e3d	18_6181324_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	6181324	CT	C	300	PASS	L3MBTL4	Del	intronic	1	9	MSH6	child	18_6181324_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f183cb2e-326c-11e6-9d68-ac9acab49462	15_37047108_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	37047108	CA	C	420	PASS	C15orf41	Del	intronic	1	8	MSH6	child	15_37047108_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
f1847576-326f-11e6-89e3-9dd52aaffa45	10_106280239_TAT	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	10	106280239	TA	T	660	PASS	-	Del	-	1	8	NEIL1	child	10_106280239_TAT_NEIL1	1	1	1	A	7	A	Repeat-mediated
f1860f6a-3271-11e6-b630-aeceb41afd22	17_62534933_TAGAGGAAGCTTCT	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	17	62534933	TAGAGGAAGCTTC	T	420	PASS	CEP95	Del	downstream	12	1	FANCC	child	17_62534933_TAGAGGAAGCTTCT_FANCC	12	>=10	4	AGAG	0	-	Microhomology-mediated
f1889ad8-3270-11e6-8cac-d8617098ee92	10_17410548_CAC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	10	17410548	CA	C	420	PASS	ST8SIA6	Del	intronic	1	9	FANCC	child	10_17410548_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
f18c0a10-3270-11e6-b306-b5204b47a305	2_127940999_CCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	127940999	C	CT	480	PASS	CYP27C1	Ins	downstream	1	7	MSH6	child	2_127940999_CCT_MSH6	1	1	-	-	-	-	Ins
f18e2f5e-328c-11e6-bec1-ca1d0e01a414	X_44748708_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	44748708	TA	T	300	PASS	KDM6A	Del	intronic	1	8	MSH6	child	X_44748708_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
f190376e-328b-11e6-88c1-95c36f39e758	14_44830880_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	44830880	GA	G	540	PASS	RP11-305B6.3	Del	intronic	1	8	MSH6	child	14_44830880_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
f1974618-3285-11e6-99f7-076ea2c71c31	12_127607011_ATCA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	127607011	ATC	A	480	PASS	-	Del	-	2	6	MSH6	child	12_127607011_ATCA_MSH6	2	2	2	TC	5	TC	Repeat-mediated
f19a30fc-329a-11e6-8d0f-075325c9da85	14_79934719_AGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	79934719	AG	A	780	PASS	NRXN3	Del	intronic	1	1	MSH6	child	14_79934719_AGA_MSH6	1	1	0	-	0	G	None
f1a2ad1e-3285-11e6-be43-0a6ea2c71c31	10_133124299_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	133124299	AT	A	660	PASS	-	Del	-	1	8	MSH6	child	10_133124299_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
f1a51950-3276-11e6-92d2-c259c225ee11	3_47207188_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	47207188	CA	C	577	PASS	SETD2	Del	upstream	1	9	MSH6	child	3_47207188_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
f1b8a31c-3299-11e6-b129-195325c9da85	16_5783109_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	16	5783109	CA	C	600	PASS	-	Del	-	1	7	MSH6	child	16_5783109_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
f1be47a6-328d-11e6-8c87-38240e01a414	22_34145110_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	22	34145110	CT	C	360	PASS	LARGE	Del	intronic	1	8	MSH6	child	22_34145110_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
f1c9a81c-328d-11e6-8f31-bfe16f39e758	9_2601714_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	2601714	CA	C	780	PASS	-	Del	-	1	9	MSH6	child	9_2601714_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
f1d0f6c4-328f-11e6-bb1e-70e16f39e758	X_131672671_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	131672671	AT	A	660	PASS	-	Del	-	1	6	MSH6	child	X_131672671_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
f1d5266e-328e-11e6-b6a6-1f1e0e01a414	4_155625455_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	155625455	CT	C	480	PASS	LRAT	Del	intronic	1	5	MSH6	child	4_155625455_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
f1d5c8ca-329e-11e6-b696-dd6225c9da85	5_121861658_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	121861658	CT	C	660	PASS	-	Del	-	1	7	MSH6	child	5_121861658_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
f1e9adf2-3291-11e6-8b9f-eea73adbad45	3_58610128_TCTGTGTTTTGACTCCTGGCCCAGTGGTCTATCTGTCACACCCTCGACCCTTTCAGTGTTCTTCCATTCTCTCTGCCCACCCCACAGCTGGAGAGAACGCTGTCTCTCCTCCTGGGGGGCCATTACAATGAAATGTCCAGCACTCTCCCTTCCATTGAGTAACAGCCATGCCATTGGGAGACAGATCTGTGGCTCCAAGGGTGGGCTCTGGTTGGCCTTAACCAACCACGTGATCCCTTCCATCCCCTGCCAGTGTGGGTTTAGGATTCTAGGCAAAGCCTATGCCCCTGACATTCCCCAGGGGACAAAGGTGAGTTCACCTAAAAGCAAAGTCCAGACCTTGCCTAAGAGGAATAGAAGCAACAACGT	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	3	58610128	TCTGTGTTTTGACTCCTGGCCCAGTGGTCTATCTGTCACACCCTCGACCCTTTCAGTGTTCTTCCATTCTCTCTGCCCACCCCACAGCTGGAGAGAACGCTGTCTCTCCTCCTGGGGGGCCATTACAATGAAATGTCCAGCACTCTCCCTTCCATTGAGTAACAGCCATGCCATTGGGAGACAGATCTGTGGCTCCAAGGGTGGGCTCTGGTTGGCCTTAACCAACCACGTGATCCCTTCCATCCCCTGCCAGTGTGGGTTTAGGATTCTAGGCAAAGCCTATGCCCCTGACATTCCCCAGGGGACAAAGGTGAGTTCACCTAAAAGCAAAGTCCAGACCTTGCCTAAGAGGAATAGAAGCAACAACG	T	300	PASS	FAM107A	Del	intronic	367	1	NEIL1	child	3_58610128_TCTGTGTTTTGACTCCTGGCCCAGTGGTCTATCTGTCACACCCTCGACCCTTTCAGTGTTCTTCCATTCTCTCTGCCCACCCCACAGCTGGAGAGAACGCTGTCTCTCCTCCTGGGGGGCCATTACAATGAAATGTCCAGCACTCTCCCTTCCATTGAGTAACAGCCATGCCATTGGGAGACAGATCTGTGGCTCCAAGGGTGGGCTCTGGTTGGCCTTAACCAACCACGTGATCCCTTCCATCCCCTGCCAGTGTGGGTTTAGGATTCTAGGCAAAGCCTATGCCCCTGACATTCCCCAGGGGACAAAGGTGAGTTCACCTAAAAGCAAAGTCCAGACCTTGCCTAAGAGGAATAGAAGCAACAACGT_NEIL1	367	>=10	23	CTGTGTTTTGACTCCTGGCCCAG	0	-	Microhomology-mediated
f1eed9d4-326f-11e6-b306-b5204b47a305	2_34203559_AAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	34203559	A	AC	360	PASS	AC009499.1	Ins	intronic	1	2	MSH6	child	2_34203559_AAC_MSH6	1	1	-	-	-	-	Ins
f1f24d60-328a-11e6-8459-82090e01a414	12_98910556_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	98910556	AT	A	300	PASS	TMPO	Del	intronic	1	5	MSH6	child	12_98910556_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
f1f4a810-3278-11e6-bb6d-38aec042253c	3_137241535_CGC	.	HAP1_CHK2_56-7	HAP1_parental_75_WT_DNA	3	137241535	CG	C	540	PASS	RNA5SP142	Del	upstream	1	1	CHK2	child	3_137241535_CGC_CHK2	1	1	0	-	0	G	None
f1f67502-3271-11e6-abaf-4642cab49462	6_27672223_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	27672223	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	6_27672223_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
f2015802-326f-11e6-b923-6726694da5d2	5_33709631_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	33709631	TA	T	480	PASS	ADAMTS12	Del	intronic	1	5	MSH6	child	5_33709631_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
f2046868-3273-11e6-a862-bc9becf1e924	1_100281125_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	100281125	GA	G	780	PASS	-	Del	-	1	8	MSH6	child	1_100281125_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
f210c3f4-3284-11e6-8ebc-68f1bbe6aa09	18_63056724_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	18	63056724	GT	G	600	PASS	-	Del	-	1	7	MSH6	child	18_63056724_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
f21a2dc0-3254-11e6-b4d0-327a7872c165	11_95628552_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	95628552	GA	G	600	PASS	MTMR2	Del	intronic	1	7	MSH6	child	11_95628552_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
f2211de6-326e-11e6-aa5d-c85dcde16804	12_21274574_GTG	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	12	21274574	GT	G	360	PASS	-	Del	-	1	7	NEIL1	child	12_21274574_GTG_NEIL1	1	1	1	T	6	T	Repeat-mediated
f222d35c-325a-11e6-8340-da9012ae24cf	6_168189067_CGC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	168189067	CG	C	720	PASS	-	Del	-	1	6	MSH6	child	6_168189067_CGC_MSH6	1	1	1	G	5	G	Repeat-mediated
f22a2212-3285-11e6-b093-c9c7b0dab373	2_124227189_TGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	124227189	TG	T	360	PASS	-	Del	-	1	1	MSH6	child	2_124227189_TGT_MSH6	1	1	0	-	0	G	None
f22dc6da-3256-11e6-9d5a-0c8112ae24cf	9_93293004_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	9	93293004	GT	G	480	PASS	RP11-555F9.2	Del	intronic	1	9	MSH6	child	9_93293004_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
f234bb16-328d-11e6-b9c4-751d0e01a414	5_114580685_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	5	114580685	CT	C	720	PASS	PGGT1B	Del	intronic	1	9	MSH6	child	5_114580685_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f23621b0-3286-11e6-a284-4b89a2c71c31	4_38269052_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	38269052	TA	T	480	PASS	-	Del	-	1	9	MSH6	child	4_38269052_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
f245c290-325a-11e6-8340-da9012ae24cf	6_168209644_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	168209644	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	6_168209644_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
f2471fc4-328b-11e6-bd84-429305ad5bc4	1_52162475_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	52162475	GT	G	420	PASS	OSBPL9	Del	intronic	1	9	MSH6	child	1_52162475_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
f25341a6-3253-11e6-a03d-40f212ae24cf	18_29108237_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	18	29108237	TA	T	360	PASS	DSG2	Del	intronic	1	8	MSH6	child	18_29108237_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
f256d718-3284-11e6-8fa3-1d15038949d4	4_187565052_TAGTAT	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	4	187565052	TAGTA	T	660	PASS	FAT1	Del	intronic	4	2	POLM	child	4_187565052_TAGTAT_POLM	4	4	4	AGTA	1	AGTA	Repeat-mediated
f25af4d8-3284-11e6-baa3-81ed1da8ec0e	X_80421420_GTG	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	X	80421420	GT	G	540	PASS	HMGN5	Del	intronic	1	1	EXO1	child	X_80421420_GTG_EXO1	1	1	0	-	0	T	None
f260722e-3279-11e6-a391-f6d67d6a9fc7	6_168213728_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	168213728	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	6_168213728_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
f2677012-3272-11e6-bfb2-2749c225ee11	12_43013155_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	43013155	TA	T	1020	PASS	RP11-609L23.1	Del	intronic	1	9	MSH6	child	12_43013155_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
f2746430-3253-11e6-a304-347a7872c165	1_24176982_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	24176982	AT	A	300	PASS	FUCA1	Del	intronic	1	5	MSH6	child	1_24176982_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
f276eef2-3272-11e6-bfb2-2749c225ee11	12_43017817_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	43017817	GA	G	660	PASS	RP11-609L23.1	Del	intronic	1	9	MSH6	child	12_43017817_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
f2839308-32a1-11e6-a04f-c66a25c9da85	6_169992473_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	169992473	GA	G	360	PASS	WDR27	Del	intronic	1	7	MSH6	child	6_169992473_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
f294e012-327f-11e6-b263-76d64dc77248	8_57685794_TAT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	8	57685794	TA	T	408	PASS	-	Del	-	1	1	NUDT1	child	8_57685794_TAT_NUDT1	1	1	0	-	0	A	None
f2969e16-3324-11e6-9271-15989d7ad846	5_113244347_ATA	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	5	113244347	AT	A	300	PASS	-	Del	-	1	9	CHK2	child	5_113244347_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
f296a354-329b-11e6-a0ea-135325c9da85	15_83876627_TCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	83876627	TC	T	360	PASS	HDGFRP3	Del	5prime_UTR_variant	1	9	MSH6	child	15_83876627_TCT_MSH6	1	1	1	C	8	C	Repeat-mediated
f2a66e04-328e-11e6-b55e-be65694da5d2	X_23010461_ATA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	X	23010461	AT	A	900	PASS	RP11-40F8.2	Del	intronic	1	6	POLM	child	X_23010461_ATA_POLM	1	1	1	T	5	T	Repeat-mediated
f2a67398-3281-11e6-b2ac-df03987b3f23	12_22418628_CCTC	.	HAP1_NEIL1_3	HAP1_parental_75_WT_DNA	12	22418628	CCT	C	480	PASS	ST8SIA1	Del	intronic	2	4	NEIL1	parent	12_22418628_CCTC_NEIL1	2	2	2	CT	3	CT	Repeat-mediated
f2ac9f68-3270-11e6-9d19-c216987b3f23	21_47639363_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	21	47639363	CA	C	420	PASS	LSS	Del	intronic	1	2	MSH6	child	21_47639363_CAC_MSH6	1	1	1	A	1	A	Repeat-mediated
f2aeca64-3292-11e6-a366-d0257a852e0e	2_241547254_CCTTC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	2	241547254	CCTT	C	360	PASS	GPR35	Del	intronic	3	1	CHK2	child	2_241547254_CCTTC_CHK2	3	3	2	CT	0	-	Microhomology-mediated
f2b4fd90-326e-11e6-b306-b5204b47a305	2_207464619_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	207464619	AT	A	300	PASS	ADAM23	Del	intronic	1	5	MSH6	child	2_207464619_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
f2b6fd44-3272-11e6-a76d-26961565c797	1_14666933_CTTC	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	1	14666933	CTT	C	480	PASS	-	Del	-	2	2	EXO1	child	1_14666933_CTTC_EXO1	2	2	0	-	0	-	None
f2ba55fe-3289-11e6-a80b-87090e01a414	11_41150320_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	41150320	AT	A	300	PASS	LRRC4C	Del	intronic	1	7	MSH6	child	11_41150320_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
f2bb468e-3285-11e6-9a94-1d822aaffa45	6_92804310_ATA	.	HAP1_POLE_34-7	HAP1_parental_75_WT_DNA	6	92804310	AT	A	600	PASS	-	Del	-	1	5	POLE	child	6_92804310_ATA_POLE	1	1	1	T	4	T	Repeat-mediated
f2bb98ec-3270-11e6-b89d-b2d6b0dab373	4_97527172_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	97527172	AT	A	540	PASS	RP11-145G20.1	Del	intronic	1	7	MSH6	child	4_97527172_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
f2be61de-3253-11e6-a4a7-35f212ae24cf	14_46917451_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	46917451	GA	G	360	PASS	LINC00871	Del	intronic	1	9	MSH6	child	14_46917451_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
f2c63d92-3289-11e6-bbaf-7c090e01a414	19_23984685_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	23984685	CT	C	300	PASS	-	Del	-	1	8	MSH6	child	19_23984685_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
f2c786be-3286-11e6-a5b3-3f1ebce6aa09	7_48722422_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	48722422	TA	T	660	PASS	-	Del	-	1	8	MSH6	child	7_48722422_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
f2c7ba88-328d-11e6-9d96-745238e8a824	19_11563398_TCTTTTTTGTTCT	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	19	11563398	TCTTTTTTGTTC	T	360	PASS	ELAVL3	Del	3prime_UTR_variant	11	1	FANCC	child	19_11563398_TCTTTTTTGTTCT_FANCC	11	>=10	3	CTT	0	-	Microhomology-mediated
f2cc5cee-3276-11e6-998e-ba48fa52e078	8_93148671_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	93148671	GT	G	540	PASS	-	Del	-	1	6	MSH6	child	8_93148671_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
f2cf42f0-3321-11e6-814a-c8fe4430f757	1_108299527_GAG	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	1	108299527	GA	G	300	PASS	VAV3	Del	intronic	1	7	CHK2	child	1_108299527_GAG_CHK2	1	1	1	A	6	A	Repeat-mediated
f2d97b96-329d-11e6-a5cf-e5abcc638e3d	9_127331431_TCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	127331431	TC	T	1080	PASS	NR6A1	Del	intronic	1	7	MSH6	child	9_127331431_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
f2dd3df8-328e-11e6-a278-48230e01a414	21_46103713_CCA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	21	46103713	C	CA	420	PASS	TSPEAR	Ins	intronic	1	5	MSH6	child	21_46103713_CCA_MSH6	1	1	-	-	-	-	Ins
f2e3956c-3320-11e6-9ab5-b30c2eaed38e	10_25803250_ACA	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	10	25803250	AC	A	540	PASS	GPR158	Del	intronic	1	1	EXO1	child	10_25803250_ACA_EXO1	1	1	0	-	0	C	None
f2e57b22-328d-11e6-a278-48230e01a414	21_35814270_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	21	35814270	AT	A	420	PASS	KCNE1	Del	downstream	1	5	MSH6	child	21_35814270_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
f2ed63cc-3275-11e6-9e25-e58e2aaffa45	4_45464263_TAT	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	4	45464263	TA	T	522	PASS	-	Del	-	1	6	EXO1	child	4_45464263_TAT_EXO1	1	1	1	A	5	A	Repeat-mediated
f305e600-3251-11e6-b240-4005ee3c4f5d	14_54252815_CAC	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	14	54252815	CA	C	300	PASS	AL162759.1	Del	intronic	1	9	POLB	child	14_54252815_CAC_POLB	1	1	1	A	8	A	Repeat-mediated
f307429e-3273-11e6-a390-fc104530f757	1_216199186_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	1	216199186	AT	A	480	PASS	USH2A	Del	intronic	1	5	FANCC	child	1_216199186_ATA_FANCC	1	1	1	T	4	T	Repeat-mediated
f3162c00-328c-11e6-bd84-429305ad5bc4	1_192154126_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	192154126	CT	C	480	PASS	RGS18	Del	3prime_UTR_variant	1	8	MSH6	child	1_192154126_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
f31e0874-328e-11e6-b2c7-1b63694da5d2	9_83117589_ATA	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	9	83117589	AT	A	780	PASS	-	Del	-	1	5	POLM	child	9_83117589_ATA_POLM	1	1	1	T	4	T	Repeat-mediated
f32830ca-326f-11e6-aee1-fd97191589db	3_15283603_ATA	.	HAP1_POLM_21	HAP1_parental_75_WT_DNA	3	15283603	AT	A	360	PASS	CAPN7	Del	intronic	1	7	POLM	parent	3_15283603_ATA_POLM	1	1	1	T	6	T	Repeat-mediated
f328c2bc-3290-11e6-b77d-2eef6f39e758	6_31023466_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	6	31023466	CT	C	480	PASS	HCG22	Del	intronic	1	9	MSH6	child	6_31023466_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f32bbd2a-328e-11e6-bfa2-581f0e01a414	7_134669275_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	134669275	CT	C	660	PASS	AGBL3	Del	upstream	1	8	MSH6	child	7_134669275_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
f32d144c-328c-11e6-8e48-791e0e01a414	8_28663764_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	28663764	CA	C	660	PASS	INTS9	Del	intronic	1	8	MSH6	child	8_28663764_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
f32d5294-334b-11e6-911d-cdceb0dab373	9_84978465_ACA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	9	84978465	AC	A	300	PASS	RP11-15B24.5	Del	intronic	1	4	FANCC	child	9_84978465_ACA_FANCC	1	1	1	C	3	C	Repeat-mediated
f333e834-3283-11e6-b293-6ca635cec73b	11_25525617_ATA	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	11	25525617	AT	A	480	PASS	-	Del	-	1	8	POLE	child	11_25525617_ATA_POLE	1	1	1	T	7	T	Repeat-mediated
f34150c2-329d-11e6-bc2c-2a5e25c9da85	4_66704566_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	66704566	GT	G	480	PASS	-	Del	-	1	6	MSH6	child	4_66704566_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
f341c45c-3299-11e6-8d0f-075325c9da85	14_23439416_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	23439416	CT	C	360	PASS	AJUBA	Del	downstream	1	9	MSH6	child	14_23439416_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f3425690-3273-11e6-90fa-056466a58581	4_19087705_CATC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	4	19087705	CAT	C	300	PASS	-	Del	-	2	1	FANCC	child	4_19087705_CATC_FANCC	2	2	1	A	0	-	Microhomology-mediated
f347e6bc-327f-11e6-b4af-d90d7e6a9fc7	9_12703579_CCATAT	.	HAP1_POLB_35	HAP1_parental_75_WT_DNA	9	12703579	C	CATAT	540	PASS	TYRP1	Ins	intronic	4	3	POLB	parent	9_12703579_CCATAT_POLB	4	4	-	-	-	-	Ins
f348d998-3322-11e6-ae98-b2b5fa52e078	2_205573867_GAG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	2	205573867	GA	G	300	PASS	PARD3B	Del	intronic	1	9	EXO1	child	2_205573867_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
f35394c6-3252-11e6-b676-5605ee3c4f5d	12_111917520_ATA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	12	111917520	AT	A	600	PASS	ATXN2	Del	intronic	1	9	POLB	child	12_111917520_ATA_POLB	1	1	1	T	8	T	Repeat-mediated
f3550cca-3275-11e6-98dc-d270cde16804	22_41558882_TTGGGCTAAATCTACATAACATACATCTAATGGATAGTAAAACCATGGAAAACACTGAAGTACTAAGGAACATTATTTCTTAATGTTAATTTTAATGTTCTTAATGTTGAATGTGAAACATTAAAGATCTAAACTTCTAGTTTGCAGTGAGGCCTTTTAGATCATGGAGGACTGACATGTATGTCTTCTAGATGTTCCTAAAATGGATGGGATGGTATTTGGATTTATTTGGAATTTTCAGCACCAGGAATCTGTCTTAAAAATTAGCCAGGTTTTGGCCGGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCCGGCTAAAACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTAGTGGCGGGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAACCTGGGAGGCGGAGCTTGCAGTGAGCCGAGATCCCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTTTGGCCGGGCACAGTGGCCCACATCTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGATCACCCAAGGTCAAGAGTTCGAGACCAGCCTGGCCAACATGGCAAAATCCCGTCTCTACTACAAATATATAAATTAGCTGTGCGTGGTGGTGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTGGAACCCGGGAGGCAGGGGTTGAAGTGAGCTGATATGACGCCACTGCACTCCAGCCTGGGCGACACAGAGAGACTCCATCTCAGAAAACAAAACAAAAAACAGCCAGGCATGATAGTATGTGCCTATCCTAGCCAGGTAGCTGAGAGGCCAAGGCAGGAAAATGGCTTGAGCCCAGGAGTTTAAGGTTGTAGTGAGCTGTGATCATGCCACCCACTCCAGCCTGTACAACAGAGACCCTATCTCTAAAAAAATAGAAACTTTATTAAAACTATTTTCAGTTCTTTGGTCATGACCTTGGCTGTCTTTGTCAGAAGTCATGGGAAATATTGCAAGTTTTCATTTGGTTAAGGTTTGGGGTTAATTTTGGAATTGGCTCTGCTCTTCCAGGTTTGTTGAATGTACAGAGTGCGGAAGAAAGATGCATCAGATCTGTGTCCTTCACCATGAGATCATCTGGCCTGCTGGGTAAGTCTTAACGTTGTTACTTTCTCTGGAATTTTTCTTTATCGTGAATATTAACAAGTTTTTTATTCTATGCAATTGACTGTATTATATCTTCAAAGTTACTATCTTTAAATTGTTTTCTTTGGGTTTGGCCACGATAATTATAGTTCGCTTTTTAAAAATTAAGTAACCTAGTATCCAAAAATAGATTTTTATCTTATTTTTATGCATTCTTCTTAGCCATATAAATATATTTTATTCTGCTGGATTGTTTATTAAAATTATATTGTAGTTATTACACATCAAAAGTAAATATTTATGGCCAGGCGAGGTGGCTCACGCCTGTAATCCCAGCACTTTGGTTAAAAATAGATAATTAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	22	41558882	TTGGGCTAAATCTACATAACATACATCTAATGGATAGTAAAACCATGGAAAACACTGAAGTACTAAGGAACATTATTTCTTAATGTTAATTTTAATGTTCTTAATGTTGAATGTGAAACATTAAAGATCTAAACTTCTAGTTTGCAGTGAGGCCTTTTAGATCATGGAGGACTGACATGTATGTCTTCTAGATGTTCCTAAAATGGATGGGATGGTATTTGGATTTATTTGGAATTTTCAGCACCAGGAATCTGTCTTAAAAATTAGCCAGGTTTTGGCCGGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCCGGCTAAAACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTAGTGGCGGGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAACCTGGGAGGCGGAGCTTGCAGTGAGCCGAGATCCCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTTTGGCCGGGCACAGTGGCCCACATCTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGATCACCCAAGGTCAAGAGTTCGAGACCAGCCTGGCCAACATGGCAAAATCCCGTCTCTACTACAAATATATAAATTAGCTGTGCGTGGTGGTGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTGGAACCCGGGAGGCAGGGGTTGAAGTGAGCTGATATGACGCCACTGCACTCCAGCCTGGGCGACACAGAGAGACTCCATCTCAGAAAACAAAACAAAAAACAGCCAGGCATGATAGTATGTGCCTATCCTAGCCAGGTAGCTGAGAGGCCAAGGCAGGAAAATGGCTTGAGCCCAGGAGTTTAAGGTTGTAGTGAGCTGTGATCATGCCACCCACTCCAGCCTGTACAACAGAGACCCTATCTCTAAAAAAATAGAAACTTTATTAAAACTATTTTCAGTTCTTTGGTCATGACCTTGGCTGTCTTTGTCAGAAGTCATGGGAAATATTGCAAGTTTTCATTTGGTTAAGGTTTGGGGTTAATTTTGGAATTGGCTCTGCTCTTCCAGGTTTGTTGAATGTACAGAGTGCGGAAGAAAGATGCATCAGATCTGTGTCCTTCACCATGAGATCATCTGGCCTGCTGGGTAAGTCTTAACGTTGTTACTTTCTCTGGAATTTTTCTTTATCGTGAATATTAACAAGTTTTTTATTCTATGCAATTGACTGTATTATATCTTCAAAGTTACTATCTTTAAATTGTTTTCTTTGGGTTTGGCCACGATAATTATAGTTCGCTTTTTAAAAATTAAGTAACCTAGTATCCAAAAATAGATTTTTATCTTATTTTTATGCATTCTTCTTAGCCATATAAATATATTTTATTCTGCTGGATTGTTTATTAAAATTATATTGTAGTTATTACACATCAAAAGTAAATATTTATGGCCAGGCGAGGTGGCTCACGCCTGTAATCCCAGCACTTTGG	TTAAAAATAGATAATTAT	360	PASS	EP300	Complex	ess_splice	1593	0	MSH6	child	22_41558882_TTGGGCTAAATCTACATAACATACATCTAATGGATAGTAAAACCATGGAAAACACTGAAGTACTAAGGAACATTATTTCTTAATGTTAATTTTAATGTTCTTAATGTTGAATGTGAAACATTAAAGATCTAAACTTCTAGTTTGCAGTGAGGCCTTTTAGATCATGGAGGACTGACATGTATGTCTTCTAGATGTTCCTAAAATGGATGGGATGGTATTTGGATTTATTTGGAATTTTCAGCACCAGGAATCTGTCTTAAAAATTAGCCAGGTTTTGGCCGGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAGATCACGAGGTCAGGAGATCGAGACCATCCCGGCTAAAACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTAGTGGCGGGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAACCTGGGAGGCGGAGCTTGCAGTGAGCCGAGATCCCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAATTAGCCAGGTTTGGCCGGGCACAGTGGCCCACATCTGTAATCCCAGCACTTTGGGAGGCCAAGGCAGGATCACCCAAGGTCAAGAGTTCGAGACCAGCCTGGCCAACATGGCAAAATCCCGTCTCTACTACAAATATATAAATTAGCTGTGCGTGGTGGTGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTGGAACCCGGGAGGCAGGGGTTGAAGTGAGCTGATATGACGCCACTGCACTCCAGCCTGGGCGACACAGAGAGACTCCATCTCAGAAAACAAAACAAAAAACAGCCAGGCATGATAGTATGTGCCTATCCTAGCCAGGTAGCTGAGAGGCCAAGGCAGGAAAATGGCTTGAGCCCAGGAGTTTAAGGTTGTAGTGAGCTGTGATCATGCCACCCACTCCAGCCTGTACAACAGAGACCCTATCTCTAAAAAAATAGAAACTTTATTAAAACTATTTTCAGTTCTTTGGTCATGACCTTGGCTGTCTTTGTCAGAAGTCATGGGAAATATTGCAAGTTTTCATTTGGTTAAGGTTTGGGGTTAATTTTGGAATTGGCTCTGCTCTTCCAGGTTTGTTGAATGTACAGAGTGCGGAAGAAAGATGCATCAGATCTGTGTCCTTCACCATGAGATCATCTGGCCTGCTGGGTAAGTCTTAACGTTGTTACTTTCTCTGGAATTTTTCTTTATCGTGAATATTAACAAGTTTTTTATTCTATGCAATTGACTGTATTATATCTTCAAAGTTACTATCTTTAAATTGTTTTCTTTGGGTTTGGCCACGATAATTATAGTTCGCTTTTTAAAAATTAAGTAACCTAGTATCCAAAAATAGATTTTTATCTTATTTTTATGCATTCTTCTTAGCCATATAAATATATTTTATTCTGCTGGATTGTTTATTAAAATTATATTGTAGTTATTACACATCAAAAGTAAATATTTATGGCCAGGCGAGGTGGCTCACGCCTGTAATCCCAGCACTTTGGTTAAAAATAGATAATTAT_MSH6	1576	>=10	-	-	-	-	Complex
f35b7a0e-326d-11e6-b2ac-b6204b47a305	17_81001822_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	81001822	TA	T	420	PASS	B3GNTL1	Del	intronic	1	8	MSH6	child	17_81001822_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
f35cee70-329f-11e6-bc66-17b4cc638e3d	8_72486768_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	72486768	CT	C	660	PASS	-	Del	-	1	4	MSH6	child	8_72486768_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
f35db00e-328a-11e6-a80b-87090e01a414	11_104679599_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	104679599	CA	C	420	PASS	-	Del	-	1	7	MSH6	child	11_104679599_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
f35fabdc-3255-11e6-a0fc-e737fa52e078	2_150497354_ATA	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	2	150497354	AT	A	480	PASS	-	Del	-	1	8	POLM	child	2_150497354_ATA_POLM	1	1	1	T	7	T	Repeat-mediated
f362565c-3273-11e6-8607-751ad9b4fa2c	22_25536337_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	22	25536337	CT	C	360	PASS	KIAA1671	Del	intronic	1	9	MSH6	child	22_25536337_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f36476ba-328e-11e6-b6a6-1f1e0e01a414	4_156399886_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	156399886	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	4_156399886_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f365cfea-3286-11e6-86e9-d4770d016689	X_112437987_TAGAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	X	112437987	TAGA	T	720	PASS	-	Del	-	3	2	EXO1	child	X_112437987_TAGAT_EXO1	3	3	3	AGA	1	AGA	Repeat-mediated
f3683718-3294-11e6-9985-7c540d016689	6_21738080_CAC	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	6	21738080	CA	C	300	PASS	CASC15	Del	intronic	1	9	NUDT1	child	6_21738080_CAC_NUDT1	1	1	1	A	8	A	Repeat-mediated
f36c3f46-3273-11e6-bfb2-2749c225ee11	12_107731836_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	107731836	AT	A	600	PASS	BTBD11	Del	intronic	1	8	MSH6	child	12_107731836_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
f36e079a-328c-11e6-8952-77c36f39e758	10_90729059_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	90729059	CA	C	300	PASS	ACTA2	Del	intronic	1	9	MSH6	child	10_90729059_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
f374b1c4-328e-11e6-919e-92c36f39e758	2_229657067_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	229657067	GA	G	540	PASS	-	Del	-	1	9	MSH6	child	2_229657067_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
f37aa990-3323-11e6-9b94-35fee9d19ece	9_98642708_GTAG	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	9	98642708	GTA	G	420	PASS	ERCC6L2	Del	intronic	2	5	POLE	child	9_98642708_GTAG_POLE	2	2	2	TA	4	TA	Repeat-mediated
f384b6a6-327e-11e6-ac5a-c6aa3adbad45	X_78867883_TTAT	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	X	78867883	TTA	T	420	PASS	-	Del	-	2	7	NUDT1	child	X_78867883_TTAT_NUDT1	2	2	2	TA	6	TA	Repeat-mediated
f3a7bbc2-3285-11e6-83b0-2c6e0d016689	2_236832525_GAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	2	236832525	GA	G	300	PASS	AGAP1	Del	intronic	1	9	EXO1	child	2_236832525_GAG_EXO1	1	1	1	A	8	A	Repeat-mediated
f3abb150-328a-11e6-b805-77090e01a414	2_112376084_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	112376084	CA	C	780	PASS	-	Del	-	1	8	MSH6	child	2_112376084_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
f3b690c2-3274-11e6-a6a8-746da178171f	4_57371028_ATA	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	4	57371028	AT	A	540	PASS	SRP72	Del	downstream	1	8	NEIL1	child	4_57371028_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
f3c85520-329a-11e6-b74d-b59fcc638e3d	18_71965845_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	71965845	AC	A	480	PASS	-	Del	-	1	6	MSH6	child	18_71965845_ACA_MSH6	1	1	1	C	5	C	Repeat-mediated
f3cce7a2-328b-11e6-94b1-74090e01a414	17_56782275_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	56782275	A	AT	360	PASS	RAD51C	Ins	intronic	1	9	MSH6	child	17_56782275_AAT_MSH6	1	1	-	-	-	-	Ins
f3cf04ac-328a-11e6-a8ac-a28ea2c71c31	3_143892266_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	143892266	T	TA	960	PASS	-	Ins	-	1	5	MSH6	child	3_143892266_TTA_MSH6	1	1	-	-	-	-	Ins
f3d6682a-3256-11e6-8d59-25a02aaffa45	4_26227473_GAG	.	HAP1_POLM_21-9	HAP1_parental_75_WT_DNA	4	26227473	GA	G	540	PASS	RBPJ	Del	intronic	1	8	POLM	child	4_26227473_GAG_POLM	1	1	1	A	7	A	Repeat-mediated
f3dfc546-3274-11e6-8f33-a6d9cde16804	11_92495213_CCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	11	92495213	C	CT	600	PASS	FAT3	Ins	frameshift	1	1	MSH6	child	11_92495213_CCT_MSH6	1	1	-	-	-	-	Ins
f3e41d06-328a-11e6-a80b-87090e01a414	11_104753789_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	104753789	AT	A	600	PASS	CASP12	Del	downstream	1	9	MSH6	child	11_104753789_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
f3ed00b8-328c-11e6-bec1-ca1d0e01a414	X_45817033_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	45817033	GT	G	300	PASS	-	Del	-	1	9	MSH6	child	X_45817033_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
f3f84fbc-328d-11e6-a724-38ab4430f757	1_108800083_ATA	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	1	108800083	AT	A	491	PASS	RP11-483I13.2	Del	downstream	1	5	POLE	child	1_108800083_ATA_POLE	1	1	1	T	4	T	Repeat-mediated
f3ffe812-3274-11e6-ab69-1c1607e9a829	9_21207298_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	21207298	AT	A	600	PASS	IFNA10	Del	upstream	1	8	MSH6	child	9_21207298_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
f4009a20-328b-11e6-bd84-429305ad5bc4	1_52842630_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	52842630	GA	G	320	PASS	ORC1	Del	intronic	1	5	MSH6	child	1_52842630_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
f400b34e-3285-11e6-afcf-0311bce6aa09	9_12677036_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	12677036	GA	G	540	PASS	-	Del	-	1	9	MSH6	child	9_12677036_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
f401d8b6-32a1-11e6-a04f-c66a25c9da85	6_170569782_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	170569782	CA	C	360	PASS	-	Del	-	1	9	MSH6	child	6_170569782_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
f4038e3e-328a-11e6-a75f-859bcdacbbbf	9_71805631_ACA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	9	71805631	AC	A	540	PASS	TJP2	Del	intronic	1	3	FANCC	child	9_71805631_ACA_FANCC	1	1	1	C	2	C	Repeat-mediated
f421c54c-329a-11e6-ae71-0c5325c9da85	1_53109941_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	53109941	CA	C	420	PASS	FAM159A	Del	intronic	1	9	MSH6	child	1_53109941_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
f430dd9c-328c-11e6-b4fe-93c36f39e758	12_86280234_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	86280234	GA	G	600	PASS	NTS	Del	downstream	1	7	MSH6	child	12_86280234_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
f43dc9b8-3286-11e6-a5b3-3f1ebce6aa09	7_49293229_ACA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	49293229	AC	A	360	PASS	AC010971.1	Del	intronic	1	1	MSH6	child	7_49293229_ACA_MSH6	1	1	0	-	0	C	None
f43e4da6-328c-11e6-aa75-90c36f39e758	13_111298078_AGA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	13	111298078	AG	A	480	PASS	CARS2	Del	intronic	1	4	MSH6	child	13_111298078_AGA_MSH6	1	1	1	G	3	G	Repeat-mediated
f440b736-3254-11e6-b4d0-327a7872c165	11_96077049_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	96077049	CT	C	600	PASS	MAML2	Del	upstream	1	9	MSH6	child	11_96077049_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f447a9ee-3275-11e6-a71d-236235cec73b	X_53581188_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	53581188	GT	G	600	PASS	HUWE1	Del	intronic	1	9	MSH6	child	X_53581188_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
f44b367a-3321-11e6-b981-016519a91649	2_151675240_CTC	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	2	151675240	CT	C	480	PASS	-	Del	-	1	5	CHK2	child	2_151675240_CTC_CHK2	1	1	1	T	4	T	Repeat-mediated
f453004e-328b-11e6-bba4-c0bdcc638e3d	9_80151842_ATA	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	9	80151842	AT	A	660	PASS	GNA14	Del	intronic	1	9	NUDT1	child	9_80151842_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
f455e066-3290-11e6-8b21-746a694da5d2	22_34716575_AAT	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	22	34716575	A	AT	720	PASS	-	Ins	-	1	4	POLM	child	22_34716575_AAT_POLM	1	1	-	-	-	-	Ins
f45e298c-329b-11e6-ae71-0c5325c9da85	1_114747163_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	114747163	TA	T	480	PASS	RP4-543J13.1	Del	downstream	1	9	MSH6	child	1_114747163_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
f462af5a-329d-11e6-b696-dd6225c9da85	5_52686435_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	52686435	GA	G	780	PASS	-	Del	-	1	8	MSH6	child	5_52686435_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
f464515c-3257-11e6-91d3-a68412ae24cf	7_108563703_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	7	108563703	CT	C	420	PASS	AC004014.3	Del	intronic	1	8	MSH6	child	7_108563703_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
f4697d0e-328d-11e6-a927-37059c6d3b88	14_70193914_TTAGCT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	14	70193914	TTAGC	T	600	PASS	SRSF5	Del	splice_region	4	1	POLB	child	14_70193914_TTAGCT_POLB	4	4	1	T	0	-	Microhomology-mediated
f46b3080-328e-11e6-9432-c0e56f39e758	5_26145660_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	26145660	GA	G	360	PASS	-	Del	-	1	9	MSH6	child	5_26145660_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
f4778328-327d-11e6-a700-ff0e9ecd0b3a	4_18181251_GTG	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	4	18181251	GT	G	480	PASS	-	Del	-	1	5	POLM	child	4_18181251_GTG_POLM	1	1	1	T	4	T	Repeat-mediated
f493cdf6-328e-11e6-92cf-bf2a0e01a414	6_16619291_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	16619291	TA	T	420	PASS	ATXN1	Del	intronic	1	7	MSH6	child	6_16619291_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
f49911e4-3289-11e6-8eee-76090e01a414	10_46025565_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	46025565	GT	G	360	PASS	MARCH8	Del	intronic	1	7	MSH6	child	10_46025565_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
f49a07f2-328e-11e6-8f31-bfe16f39e758	9_90137984_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	90137984	AT	A	480	PASS	DAPK1	Del	intronic	1	9	MSH6	child	9_90137984_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
f4a5d728-327d-11e6-a700-ff0e9ecd0b3a	4_18241560_GAGAGAGTAAGATTCAGAGAGCG	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	4	18241560	GAGAGAGTAAGATTCAGAGAGC	G	600	PASS	-	Del	-	21	1	POLM	child	4_18241560_GAGAGAGTAAGATTCAGAGAGCG_POLM	21	>=10	1	A	0	-	Microhomology-mediated
f4a93f44-3287-11e6-a21c-b819bce6aa09	X_150462099_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	150462099	GT	G	300	PASS	-	Del	-	1	8	MSH6	child	X_150462099_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
f4aa720a-332d-11e6-a5c2-ba124530f757	8_141389827_CCA	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	8	141389827	C	CA	600	PASS	TRAPPC9	Ins	intronic	1	5	CHK2	child	8_141389827_CCA_CHK2	1	1	-	-	-	-	Ins
f4acecd0-3272-11e6-9309-bdc34a47a305	8_90786412_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	8	90786412	T	TA	300	PASS	RIPK2	Ins	intronic	1	5	MSH6	child	8_90786412_TTA_MSH6	1	1	-	-	-	-	Ins
f4b5fe62-32a2-11e6-bc66-17b4cc638e3d	8_107372865_GGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	8	107372865	G	GA	480	PASS	OXR1	Ins	intronic	1	8	MSH6	child	8_107372865_GGA_MSH6	1	1	-	-	-	-	Ins
f4be0608-328d-11e6-8f31-bfe16f39e758	9_3608663_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	3608663	GT	G	780	PASS	RP11-509J21.1	Del	intronic	1	5	MSH6	child	9_3608663_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
f4c95e4e-3270-11e6-b923-6726694da5d2	5_107815583_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	107815583	CT	C	420	PASS	-	Del	-	1	7	MSH6	child	5_107815583_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
f4cd7b28-3289-11e6-821d-8c090e01a414	13_58457311_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	58457311	GA	G	420	PASS	-	Del	-	1	9	MSH6	child	13_58457311_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
f4cf691a-3284-11e6-8b67-086ea2c71c31	1_42260274_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	42260274	CA	C	480	PASS	HIVEP3	Del	intronic	1	7	MSH6	child	1_42260274_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
f4de05e4-3273-11e6-af00-e951e7d0bdd7	19_48534345_GTATGTTGCAGTTTCTTCATTTCTGTG	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	19	48534345	GTATGTTGCAGTTTCTTCATTTCTGT	G	300	PASS	CABP5	Del	intronic	25	1	POLB	child	19_48534345_GTATGTTGCAGTTTCTTCATTTCTGTG_POLB	25	>=10	4	TATG	0	-	Microhomology-mediated
f4e0e3d4-3289-11e6-9453-299c20e7b7a8	2_223601543_GTG	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	2	223601543	GT	G	600	PASS	-	Del	-	1	8	POLE	child	2_223601543_GTG_POLE	1	1	1	T	7	T	Repeat-mediated
f4e15fcc-328d-11e6-88c8-e0035e753391	19_32488205_TAT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	19	32488205	TA	T	480	PASS	CTC-360P9.4	Del	intronic	1	9	POLB	child	19_32488205_TAT_POLB	1	1	1	A	8	A	Repeat-mediated
f4e6ae94-328a-11e6-b805-77090e01a414	2_112596044_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	112596044	CT	C	408	PASS	ANAPC1	Del	frameshift	1	6	MSH6	child	2_112596044_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
f4e825b6-328b-11e6-b910-5ccc977b3f23	17_31425914_GTAG	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	17	31425914	GTA	G	300	PASS	ASIC2	Del	intronic	2	6	NEIL1	child	17_31425914_GTAG_NEIL1	2	2	2	TA	5	TA	Repeat-mediated
f4ebc42a-3289-11e6-8459-82090e01a414	12_42524349_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	42524349	TA	T	480	PASS	GXYLT1	Del	intronic	1	9	MSH6	child	12_42524349_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
f4ee6e0a-3284-11e6-a0a8-096ea2c71c31	11_57159086_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	11	57159086	AT	A	540	PASS	PRG2	Del	upstream	1	7	MSH6	child	11_57159086_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
f4f25ad6-3272-11e6-9e18-3a69671699ea	10_36833040_GTCG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	36833040	GTC	G	480	PASS	-	Del	-	2	2	MSH6	child	10_36833040_GTCG_MSH6	2	2	2	TC	1	TC	Repeat-mediated
f4f34b82-3289-11e6-b74f-549ba2c71c31	20_11034817_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	20	11034817	TA	T	480	PASS	-	Del	-	1	9	MSH6	child	20_11034817_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
f506c73a-3292-11e6-92cf-bf2a0e01a414	6_87285754_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	87285754	G	GT	342	PASS	-	Ins	-	1	6	MSH6	child	6_87285754_GGT_MSH6	1	1	-	-	-	-	Ins
f5140a56-3271-11e6-b89d-b2d6b0dab373	4_165407347_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	165407347	GA	G	300	PASS	-	Del	-	1	5	MSH6	child	4_165407347_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
f519263a-328f-11e6-850b-ec0b9c6d3b88	4_43126062_CATC	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	4	43126062	CAT	C	360	PASS	-	Del	-	2	2	POLB	child	4_43126062_CATC_POLB	2	2	2	AT	1	AT	Repeat-mediated
f524294a-3276-11e6-83cd-a472a178171f	4_137919592_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	137919592	CT	C	480	PASS	RP11-138I17.1	Del	intronic	1	8	MSH6	child	4_137919592_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
f52a61f2-328f-11e6-b184-c4257a852e0e	12_32281884_CTC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	12	32281884	CT	C	300	PASS	BICD1	Del	intronic	1	9	CHK2	child	12_32281884_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
f53e1a06-328c-11e6-9f18-f1d1996ede67	3_111371895_CAGGC	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	3	111371895	CAGG	C	300	PASS	CD96	Del	downstream	3	1	CHK2	child	3_111371895_CAGGC_CHK2	3	3	2	AG	0	-	Microhomology-mediated
f5425672-326c-11e6-b9f4-5d1d694da5d2	14_45524091_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	14	45524091	GA	G	300	PASS	FAM179B	Del	intronic	1	9	MSH6	child	14_45524091_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
f544f4ec-329c-11e6-a5cf-205325c9da85	11_61733588_TTA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	61733588	T	TA	420	PASS	BEST1	Ins	downstream	1	8	MSH6	child	11_61733588_TTA_MSH6	1	1	-	-	-	-	Ins
f54825b2-3270-11e6-b923-6726694da5d2	5_108018019_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	108018019	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	5_108018019_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
f548f2ca-328a-11e6-8909-3ebb38e8a824	9_40648933_TTA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	9	40648933	T	TA	322	PASS	-	Ins	-	1	4	NUDT1	parent	9_40648933_TTA_NUDT1	1	1	-	-	-	-	Ins
f54af0f6-328b-11e6-b43c-7ec36f39e758	16_24300644_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	16	24300644	GA	G	300	PASS	CACNG3	Del	intronic	1	8	MSH6	child	16_24300644_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
f54b0e22-3288-11e6-baf1-58044530f757	3_140368613_TAT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	3	140368613	TA	T	300	PASS	-	Del	-	1	9	EXO1	child	3_140368613_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
f5507320-3289-11e6-9c89-8d090e01a414	1_33750340_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	33750340	GA	G	300	PASS	ZNF362	Del	intronic	1	9	MSH6	child	1_33750340_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
f552ccd6-3272-11e6-975f-8246cab49462	16_31517671_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	31517671	CA	C	600	PASS	C16orf58	Del	intronic	1	8	MSH6	child	16_31517671_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
f557fe3a-3278-11e6-92d2-c259c225ee11	3_193067490_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	193067490	GT	G	600	PASS	ATP13A5	Del	intronic	1	7	MSH6	child	3_193067490_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
f55feee2-328c-11e6-b8e6-91c36f39e758	11_94940107_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	94940107	AT	A	780	PASS	SESN3	Del	intronic	1	9	MSH6	child	11_94940107_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
f55fffe2-329e-11e6-b696-dd6225c9da85	5_122656070_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	122656070	GA	G	300	PASS	-	Del	-	1	9	MSH6	child	5_122656070_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
f566ba70-3290-11e6-b0cf-8b7219a91649	7_8515296_CTC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	7	8515296	CT	C	480	PASS	NXPH1	Del	intronic	1	8	NEIL1	child	7_8515296_CTC_NEIL1	1	1	1	T	7	T	Repeat-mediated
f5687d24-329f-11e6-aea7-956725c9da85	3_98050058_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	98050058	CA	C	600	PASS	RP11-325B23.2	Del	intronic	1	9	MSH6	child	3_98050058_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
f57d753c-32a2-11e6-b970-398625c9da85	20_40433743_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	20	40433743	CT	C	516	PASS	-	Del	-	1	7	MSH6	child	20_40433743_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
f58175d6-329a-11e6-8848-de28c7271a47	8_119491350_CTC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	8	119491350	CT	C	300	PASS	SAMD12	Del	intronic	1	3	CHK2	child	8_119491350_CTC_CHK2	1	1	1	T	2	T	Repeat-mediated
f5828d22-3277-11e6-9241-55e60d01a414	8_53673421_GGA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	8	53673421	G	GA	720	PASS	-	Ins	-	1	6	MSH6	parent	8_53673421_GGA_MSH6	1	1	-	-	-	-	Ins
f5837a18-3289-11e6-8e41-628fa178171f	22_38512235_CAGGC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	22	38512235	CAGG	C	360	PASS	PLA2G6	Del	intronic	3	2	FANCC	child	22_38512235_CAGGC_FANCC	3	3	3	AGG	1	AGG	Repeat-mediated
f584206e-326e-11e6-9d68-ac9acab49462	15_100620891_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	100620891	CT	C	360	PASS	ADAMTS17	Del	intronic	1	7	MSH6	child	15_100620891_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
f58f832c-3274-11e6-b8ae-92c57872c165	14_84141453_CCA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	14	84141453	C	CA	600	PASS	-	Ins	-	1	7	MSH6	child	14_84141453_CCA_MSH6	1	1	-	-	-	-	Ins
f59102c6-329a-11e6-8d0f-075325c9da85	14_81316333_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	81316333	GA	G	660	PASS	CEP128	Del	intronic	1	7	MSH6	child	14_81316333_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
f593135a-3253-11e6-b4d0-327a7872c165	11_28684172_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	28684172	AT	A	540	PASS	-	Del	-	1	8	MSH6	child	11_28684172_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
f5962f66-325a-11e6-8cd9-139b7872c165	3_50488564_GGT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	50488564	G	GT	360	PASS	CACNA2D2	Ins	intronic	1	8	MSH6	child	3_50488564_GGT_MSH6	1	1	-	-	-	-	Ins
f5a28bc2-3286-11e6-b84c-a2a0fc1f1540	1_188134844_CCTATGTATTATCTCTTAC	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	1	188134844	CCTATGTATTATCTCTTA	C	300	PASS	-	Del	-	17	1	FANCC	child	1_188134844_CCTATGTATTATCTCTTAC_FANCC	17	>=10	2	CT	0	-	Microhomology-mediated
f5a349de-328d-11e6-876d-59e398816cf3	17_47448489_AAGA	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	17	47448489	AAG	A	720	PASS	RP11-1079K10.3	Del	downstream	2	2	POLB	child	17_47448489_AAGA_POLB	2	2	2	AG	1	AG	Repeat-mediated
f5aea3b6-3273-11e6-94cc-1ec335cec73b	19_55419254_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	19	55419254	AT	A	265	PASS	NCR1	Del	intronic	1	6	MSH6	child	19_55419254_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
f5b08734-3283-11e6-9d58-b7936f39e758	17_12241559_TGCGTCCTTGGCACCACAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	17	12241559	TGCGTCCTTGGCACCACA	T	480	PASS	-	Del	-	17	1	EXO1	child	17_12241559_TGCGTCCTTGGCACCACAT_EXO1	17	>=10	2	GC	0	-	Microhomology-mediated
f5b3000c-3285-11e6-be43-0a6ea2c71c31	10_134973258_CGC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	134973258	CG	C	540	PASS	KNDC1	Del	upstream	1	6	MSH6	child	10_134973258_CGC_MSH6	1	1	1	G	5	G	Repeat-mediated
f5bcba62-3298-11e6-8de1-2d9afaf1a024	7_45125835_GAAG	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	7	45125835	GAA	G	720	PASS	NACAD	Del	intronic	2	4	CHK2	child	7_45125835_GAAG_CHK2	2	2	2	AA	2	A	Repeat-mediated
f5c46abe-3289-11e6-a729-f0a020e7b7a8	9_86444734_CAC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	9	86444734	CA	C	287	PASS	-	Del	-	1	8	POLE	child	9_86444734_CAC_POLE	1	1	1	A	7	A	Repeat-mediated
f5c8e39e-3290-11e6-b81f-4ee66f39e758	8_84660345_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	84660345	TA	T	600	PASS	-	Del	-	1	8	MSH6	child	8_84660345_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
f5d682b6-3271-11e6-8418-1c5942c4520d	3_187028614_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	187028614	CT	C	360	PASS	-	Del	-	1	7	MSH6	child	3_187028614_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
f5e8288a-328b-11e6-919e-92c36f39e758	2_31383748_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	31383748	GA	G	600	PASS	-	Del	-	1	8	MSH6	child	2_31383748_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
f5eb9a32-3278-11e6-9e0f-7959cab49462	7_71040673_AAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	71040673	A	AT	360	PASS	WBSCR17	Ins	intronic	1	9	MSH6	child	7_71040673_AAT_MSH6	1	1	-	-	-	-	Ins
f5fa4606-328f-11e6-b97d-a8b305ad5bc4	20_49954332_GCG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	49954332	GC	G	360	PASS	-	Del	-	1	5	MSH6	child	20_49954332_GCG_MSH6	1	1	1	C	4	C	Repeat-mediated
f5ff739c-329e-11e6-91d0-016425c9da85	7_88102383_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	88102383	GA	G	900	PASS	-	Del	-	1	8	MSH6	child	7_88102383_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
f5ffa00e-3273-11e6-9c0f-f6f412ae24cf	16_66804604_TAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	16	66804604	TA	T	540	PASS	CCDC79	Del	intronic	1	8	EXO1	child	16_66804604_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
f6015680-328f-11e6-b97d-a8b305ad5bc4	20_49970820_CGC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	20	49970820	CG	C	660	PASS	-	Del	-	1	5	MSH6	child	20_49970820_CGC_MSH6	1	1	1	G	4	G	Repeat-mediated
f6028640-3280-11e6-8049-10fc028949d4	1_96105781_ACA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	1	96105781	AC	A	660	PASS	RP11-286B14.1	Del	intronic	1	4	POLM	child	1_96105781_ACA_POLM	1	1	1	C	3	C	Repeat-mediated
f60ccc80-3281-11e6-a980-68393dc9300a	18_48996352_ATA	.	HAP1_FANCC_27-8	HAP1_parental_75_WT_DNA	18	48996352	AT	A	360	PASS	RP11-267C16.1	Del	downstream	1	9	FANCC	child	18_48996352_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
f61286ba-3278-11e6-a391-f6d67d6a9fc7	6_101437991_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	101437991	CT	C	1080	PASS	-	Del	-	1	9	MSH6	child	6_101437991_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f617de8a-3273-11e6-83bd-65e871d7bc54	15_36703263_GAGAG	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	15	36703263	GAGA	G	300	PASS	-	Del	-	3	1	NEIL1	child	15_36703263_GAGAG_NEIL1	3	3	2	AG	0	-	Microhomology-mediated
f637aa14-3285-11e6-99f7-076ea2c71c31	12_129187679_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	129187679	CT	C	540	PASS	TMEM132C	Del	intronic	1	8	MSH6	child	12_129187679_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
f63a3d64-3272-11e6-b5b8-e0c24a47a305	X_140532397_TTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	140532397	T	TC	480	PASS	-	Ins	-	1	1	MSH6	child	X_140532397_TTC_MSH6	1	1	-	-	-	-	Ins
f63ba5cc-3278-11e6-92d2-c259c225ee11	3_193220827_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	3	193220827	AG	A	480	PASS	ATP13A4	Del	intronic	1	8	MSH6	child	3_193220827_AGA_MSH6	1	1	1	G	7	G	Repeat-mediated
f63bc90a-328f-11e6-99d8-a1aee7d0bdd7	8_18582333_ATAACA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	8	18582333	ATAAC	A	540	PASS	PSD3	Del	intronic	4	3	FANCC	child	8_18582333_ATAACA_FANCC	4	4	4	TAAC	2	TAAC	Repeat-mediated
f6462aec-328c-11e6-8a9d-4cab4430f757	19_33801428_CAC	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	19	33801428	CA	C	480	PASS	CTD-2540B15.9	Del	downstream	1	8	POLE	child	19_33801428_CAC_POLE	1	1	1	A	7	A	Repeat-mediated
f6476362-329b-11e6-a5cf-205325c9da85	11_133341517_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	133341517	TA	T	600	PASS	OPCML	Del	intronic	1	8	MSH6	child	11_133341517_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
f652379c-3287-11e6-8404-8e1fbce6aa09	8_73132169_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	73132169	CA	C	540	PASS	-	Del	-	1	9	MSH6	child	8_73132169_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
f6524e38-328e-11e6-bec1-ca1d0e01a414	X_137677977_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	137677977	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	X_137677977_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
f660cf08-328e-11e6-bec1-ca1d0e01a414	X_137704957_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	137704957	AT	A	780	PASS	-	Del	-	1	9	MSH6	child	X_137704957_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
f662e5c0-3272-11e6-a924-afbd7d6a9fc7	2_8484613_TGTGAAATCAAAT	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	2	8484613	TGTGAAATCAAA	T	480	PASS	LINC00299	Del	intronic	11	1	EXO1	child	2_8484613_TGTGAAATCAAAT_EXO1	11	>=10	3	GTG	0	-	Microhomology-mediated
f6635eda-3284-11e6-a1ac-fd6da2c71c31	13_71214907_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	13	71214907	CA	C	480	PASS	-	Del	-	1	6	MSH6	child	13_71214907_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
f6734d26-3271-11e6-abaf-4642cab49462	6_28813247_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	28813247	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	6_28813247_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
f67652e6-3276-11e6-a3f9-4821ead19ece	3_102750249_ATA	.	HAP1_NEIL1_3-5	HAP1_parental_75_WT_DNA	3	102750249	AT	A	420	PASS	-	Del	-	1	9	NEIL1	child	3_102750249_ATA_NEIL1	1	1	1	T	8	T	Repeat-mediated
f67bed64-328a-11e6-8eee-76090e01a414	10_109115315_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	10	109115315	CA	C	360	PASS	-	Del	-	1	9	MSH6	child	10_109115315_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
f680e7b4-3272-11e6-83ef-69fb06e9a829	18_41630474_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	41630474	CA	C	420	PASS	-	Del	-	1	8	MSH6	child	18_41630474_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
f68f14bc-329d-11e6-b696-dd6225c9da85	5_53214182_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	53214182	AT	A	540	PASS	ARL15	Del	intronic	1	9	MSH6	child	5_53214182_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
f693d7f6-3273-11e6-a42e-2f51e7d0bdd7	1_84496383_TCTGT	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	1	84496383	TCTG	T	420	PASS	-	Del	-	3	1	POLB	child	1_84496383_TCTGT_POLB	3	3	2	CT	0	-	Microhomology-mediated
f69d08cc-329a-11e6-ae71-0c5325c9da85	1_53327975_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	53327975	AT	A	540	PASS	ZYG11A	Del	intronic	1	9	MSH6	child	1_53327975_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
f6a88032-328e-11e6-b81f-4ee66f39e758	8_15463118_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	15463118	CA	C	540	PASS	TUSC3	Del	intronic	1	8	MSH6	child	8_15463118_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
f6a912fc-327c-11e6-8cce-e78590e2c2e6	12_57782636_GAG	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	12	57782636	GA	G	540	PASS	R3HDM2	Del	intronic	1	8	NUDT1	child	12_57782636_GAG_NUDT1	1	1	1	A	7	A	Repeat-mediated
f6ac97a8-3252-11e6-b895-bae612ae24cf	2_99616378_ATA	.	HAP1_POLB_35-9	HAP1_parental_75_WT_DNA	2	99616378	AT	A	660	PASS	TSGA10	Del	intronic	1	8	POLB	child	2_99616378_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
f6bb5770-3289-11e6-b805-77090e01a414	2_46691260_GCG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	46691260	GC	G	720	PASS	-	Del	-	1	8	MSH6	child	2_46691260_GCG_MSH6	1	1	1	C	7	C	Repeat-mediated
f6bf9648-328c-11e6-919e-92c36f39e758	2_97124332_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	97124332	GA	G	360	PASS	-	Del	-	1	7	MSH6	child	2_97124332_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
f6c1d654-3284-11e6-9daa-026ea2c71c31	14_76752807_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	14	76752807	TA	T	840	PASS	RP11-516J2.1	Del	intronic	1	8	MSH6	child	14_76752807_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
f6c38874-3323-11e6-a5dc-75b8cde16804	1_203611387_ATA	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	1	203611387	AT	A	360	PASS	ATP2B4	Del	intronic	1	8	EXO1	child	1_203611387_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
f6d20730-328f-11e6-b17d-bd257a852e0e	15_50473053_TAT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	15	50473053	TA	T	420	PASS	SLC27A2	Del	upstream	1	6	CHK2	child	15_50473053_TAT_CHK2	1	1	1	A	5	A	Repeat-mediated
f6d69da4-328f-11e6-b52f-4eeb6f39e758	22_32177207_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	22	32177207	AC	A	420	PASS	DEPDC5	Del	intronic	1	1	MSH6	child	22_32177207_ACA_MSH6	1	1	0	-	0	C	None
f6e4b8f6-3291-11e6-961b-e659e84777f6	1_184968960_CTC	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	1	184968960	CT	C	300	PASS	GS1-120K12.4	Del	upstream	1	9	CHK2	child	1_184968960_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
f6eda914-3270-11e6-8418-1c5942c4520d	3_97176733_ACA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	97176733	AC	A	300	PASS	EPHA6	Del	intronic	1	6	MSH6	child	3_97176733_ACA_MSH6	1	1	1	C	5	C	Repeat-mediated
f6eff3c0-3254-11e6-9f9d-2c7a7872c165	12_95961108_ACA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	95961108	AC	A	350	PASS	-	Del	-	1	1	MSH6	child	12_95961108_ACA_MSH6	1	1	0	-	0	C	None
f6f338c6-326f-11e6-b89d-b2d6b0dab373	4_31906648_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	31906648	GA	G	480	PASS	-	Del	-	1	8	MSH6	child	4_31906648_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
f6f70b58-3284-11e6-b093-c9c7b0dab373	2_45030970_GAG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	45030970	GA	G	540	PASS	-	Del	-	1	6	MSH6	child	2_45030970_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
f6f74cfe-328d-11e6-919e-92c36f39e758	2_168828562_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	168828562	CA	C	720	PASS	STK39	Del	intronic	1	8	MSH6	child	2_168828562_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
f6ffcee6-328e-11e6-b8c3-19a5e7d0bdd7	12_116303953_ATA	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	12	116303953	AT	A	300	PASS	RP11-110L15.2	Del	intronic	1	8	FANCC	child	12_116303953_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
f702ec24-328f-11e6-bbb7-3068694da5d2	7_38858652_TCT	.	HAP1_POLM_21-8	HAP1_parental_75_WT_DNA	7	38858652	TC	T	480	PASS	VPS41	Del	intronic	1	5	POLM	child	7_38858652_TCT_POLM	1	1	1	C	4	C	Repeat-mediated
f709c0c0-3290-11e6-9d97-efe56f39e758	4_158956856_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	158956856	TA	T	420	PASS	-	Del	-	1	6	MSH6	child	4_158956856_TAT_MSH6	1	1	1	A	5	A	Repeat-mediated
f709d61c-3274-11e6-a862-bc9becf1e924	1_172958935_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	172958935	TA	T	261	PASS	RP1-15D23.2	Del	intronic	1	9	MSH6	child	1_172958935_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
f71495b6-3292-11e6-9230-fb250e01a414	3_129932274_GGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	129932274	G	GT	660	PASS	-	Ins	-	1	7	MSH6	child	3_129932274_GGT_MSH6	1	1	-	-	-	-	Ins
f71cbd6c-3324-11e6-9271-15989d7ad846	5_114266638_GTG	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	5	114266638	GT	G	420	PASS	-	Del	-	1	5	CHK2	child	5_114266638_GTG_CHK2	1	1	1	T	4	T	Repeat-mediated
f71df134-326e-11e6-9793-9a8fb0dab373	13_82054679_CCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	82054679	C	CT	420	PASS	-	Ins	-	1	9	MSH6	child	13_82054679_CCT_MSH6	1	1	-	-	-	-	Ins
f71f25f4-326e-11e6-9003-ae204b47a305	19_57384508_CCA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	19	57384508	C	CA	360	PASS	-	Ins	-	1	6	MSH6	child	19_57384508_CCA_MSH6	1	1	-	-	-	-	Ins
f72983cc-329c-11e6-ae71-0c5325c9da85	1_180682163_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	180682163	TA	T	540	PASS	XPR1	Del	intronic	1	8	MSH6	child	1_180682163_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
f73018e6-3291-11e6-8d00-b1b0e7d0bdd7	5_161799932_GAG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	5	161799932	GA	G	300	PASS	-	Del	-	1	9	FANCC	child	5_161799932_GAG_FANCC	1	1	1	A	8	A	Repeat-mediated
f73550ee-3323-11e6-be8a-2070ecf1e924	21_33915998_TAT	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	21	33915998	TA	T	680	PASS	-	Del	-	1	5	CHK2	child	21_33915998_TAT_CHK2	1	1	1	A	4	A	Repeat-mediated
f739a166-327f-11e6-8fd7-46dab41afd22	15_99291663_CCAAAGTGCTGGGATTACAGGCGTGAGCCACCACATGCAGTCCGTGTACACTTT	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	15	99291663	C	CAAAGTGCTGGGATTACAGGCGTGAGCCACCACATGCAGTCCGTGTACACTTT	600	PASS	IGF1R	Ins	intronic	52	0	POLM	child	15_99291663_CCAAAGTGCTGGGATTACAGGCGTGAGCCACCACATGCAGTCCGTGTACACTTT_POLM	52	>=10	-	-	-	-	Ins
f73a8e76-3286-11e6-afcf-0311bce6aa09	9_131496059_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	131496059	CT	C	300	PASS	ZER1	Del	intronic	1	8	MSH6	child	9_131496059_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
f7423d5a-328c-11e6-a80b-87090e01a414	11_96610908_GGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	96610908	G	GA	360	PASS	-	Ins	-	1	8	MSH6	child	11_96610908_GGA_MSH6	1	1	-	-	-	-	Ins
f742a90c-328c-11e6-b8e6-91c36f39e758	11_95519358_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	95519358	CT	C	720	PASS	FAM76B	Del	frameshift	1	7	MSH6	child	11_95519358_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
f749df3e-328b-11e6-bd84-429305ad5bc4	1_54543803_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	54543803	AT	A	600	PASS	TCEANC2	Del	intronic	1	7	MSH6	child	1_54543803_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
f750be5c-329b-11e6-bda6-065325c9da85	13_50758266_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	13	50758266	C	CT	341	PASS	-	Ins	-	1	7	MSH6	child	13_50758266_CCT_MSH6	1	1	-	-	-	-	Ins
f753edd0-3290-11e6-92db-6c56f0f7a29c	1_244243402_GAG	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	1	244243402	GA	G	360	PASS	RP11-278H7.4	Del	intronic	1	8	NEIL1	child	1_244243402_GAG_NEIL1	1	1	1	A	7	A	Repeat-mediated
f75ce6fa-3273-11e6-b332-88ba7d6a9fc7	15_75443070_AGA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	75443070	AG	A	540	PASS	-	Del	-	1	7	MSH6	child	15_75443070_AGA_MSH6	1	1	1	G	6	G	Repeat-mediated
f765a3a2-3283-11e6-9cd7-7b3e51c54cdd	18_2023886_TTTGCTGGGGTCACAGTCACCTGGTAAGTGAAACTAAATGGATCAACACCATTCATGTATATTGGGTGAGGAACTAGAAAGGAAGGAATAAGCCCTTCATATTCAGAGACCATTCAAATCAGGAAAAATCTATGCTGATAAAAATACAGTTCCTTTACTTGGATGTGGTAAATCAAATGAATAATTTGAAATCAAAGACAAGAGATGCCATGTGTCTAACTGCTTACAAAACTACCATTCCCAGTAACTGAAGAAGTTTTTCATTTGCACCTTCTCCTTTTGTTCTTTGACAATACCTCTGTCATTTACATATATGGAAACCAAATAGCCCAGCTTATGCAAAGCTCCATTCACTTACCCAAAATCAGGAGGCCACTTGAGGCTGTTGTCCACATGGAGCTTTTGGTCTAATGATATGGTTCATCACAAACTACCACAAATTTAGCCACTTAAAACAACACCCATTTATTAGCTCTCAATTCTGCAGGCAGAAGTTTGGGTGGGCTTGGTTGGGTTCTATACTCAAGATATCACAGCACCAAAATCAAGGTGTTAGATGAGTTCTTTCTTGAAGACTTTAGAATTTAGTTCTTTGCAGTTGTAAGACTAAGGTCTCTGTCTACTTGCAGGCTGTTGGTTGGGAGTTATTCACAGCTCCTAGGCCCTCTAAGTCTTTGTATGTGGACCCATCTTTCTTCAAGCCAACAACAGTGAGTGAAATCCTTGTCATGCTTCGAATCCTTCTGATTTCCCTTCTGCCTTCCTCCT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	18	2023886	TTTGCTGGGGTCACAGTCACCTGGTAAGTGAAACTAAATGGATCAACACCATTCATGTATATTGGGTGAGGAACTAGAAAGGAAGGAATAAGCCCTTCATATTCAGAGACCATTCAAATCAGGAAAAATCTATGCTGATAAAAATACAGTTCCTTTACTTGGATGTGGTAAATCAAATGAATAATTTGAAATCAAAGACAAGAGATGCCATGTGTCTAACTGCTTACAAAACTACCATTCCCAGTAACTGAAGAAGTTTTTCATTTGCACCTTCTCCTTTTGTTCTTTGACAATACCTCTGTCATTTACATATATGGAAACCAAATAGCCCAGCTTATGCAAAGCTCCATTCACTTACCCAAAATCAGGAGGCCACTTGAGGCTGTTGTCCACATGGAGCTTTTGGTCTAATGATATGGTTCATCACAAACTACCACAAATTTAGCCACTTAAAACAACACCCATTTATTAGCTCTCAATTCTGCAGGCAGAAGTTTGGGTGGGCTTGGTTGGGTTCTATACTCAAGATATCACAGCACCAAAATCAAGGTGTTAGATGAGTTCTTTCTTGAAGACTTTAGAATTTAGTTCTTTGCAGTTGTAAGACTAAGGTCTCTGTCTACTTGCAGGCTGTTGGTTGGGAGTTATTCACAGCTCCTAGGCCCTCTAAGTCTTTGTATGTGGACCCATCTTTCTTCAAGCCAACAACAGTGAGTGAAATCCTTGTCATGCTTCGAATCCTTCTGATTTCCCTTCTGCCTTCCTCC	T	1200	PASS	RP11-161I6.2	Del	intronic	766	1	EXO1	child	18_2023886_TTTGCTGGGGTCACAGTCACCTGGTAAGTGAAACTAAATGGATCAACACCATTCATGTATATTGGGTGAGGAACTAGAAAGGAAGGAATAAGCCCTTCATATTCAGAGACCATTCAAATCAGGAAAAATCTATGCTGATAAAAATACAGTTCCTTTACTTGGATGTGGTAAATCAAATGAATAATTTGAAATCAAAGACAAGAGATGCCATGTGTCTAACTGCTTACAAAACTACCATTCCCAGTAACTGAAGAAGTTTTTCATTTGCACCTTCTCCTTTTGTTCTTTGACAATACCTCTGTCATTTACATATATGGAAACCAAATAGCCCAGCTTATGCAAAGCTCCATTCACTTACCCAAAATCAGGAGGCCACTTGAGGCTGTTGTCCACATGGAGCTTTTGGTCTAATGATATGGTTCATCACAAACTACCACAAATTTAGCCACTTAAAACAACACCCATTTATTAGCTCTCAATTCTGCAGGCAGAAGTTTGGGTGGGCTTGGTTGGGTTCTATACTCAAGATATCACAGCACCAAAATCAAGGTGTTAGATGAGTTCTTTCTTGAAGACTTTAGAATTTAGTTCTTTGCAGTTGTAAGACTAAGGTCTCTGTCTACTTGCAGGCTGTTGGTTGGGAGTTATTCACAGCTCCTAGGCCCTCTAAGTCTTTGTATGTGGACCCATCTTTCTTCAAGCCAACAACAGTGAGTGAAATCCTTGTCATGCTTCGAATCCTTCTGATTTCCCTTCTGCCTTCCTCCT_EXO1	766	>=10	4	TTGC	0	-	Microhomology-mediated
f768930a-328d-11e6-881b-66a4e7d0bdd7	22_48955494_GCG	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	22	48955494	GC	G	300	PASS	FAM19A5	Del	intronic	1	2	POLM	child	22_48955494_GCG_POLM	1	1	1	C	1	C	Repeat-mediated
f76c0882-326f-11e6-b08b-a578ecf1e924	11_72898082_CCTAC	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	11	72898082	CCTA	C	720	PASS	-	Del	-	3	1	NUDT1	child	11_72898082_CCTAC_NUDT1	3	3	2	CT	0	-	Microhomology-mediated
f76fa486-3276-11e6-83cd-a472a178171f	4_138381838_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	138381838	GT	G	420	PASS	-	Del	-	1	8	MSH6	child	4_138381838_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
f77ab066-3289-11e6-821d-8c090e01a414	13_59213537_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	13	59213537	CA	C	360	PASS	-	Del	-	1	7	MSH6	child	13_59213537_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
f78451a6-326c-11e6-92dd-fda8977b3f23	10_34919917_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	34919917	AT	A	360	PASS	PARD3	Del	intronic	1	7	MSH6	child	10_34919917_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
f7849afc-3290-11e6-9401-04ed6f39e758	3_65259274_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	65259274	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	3_65259274_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
f78e1402-3253-11e6-b4d0-327a7872c165	11_29298425_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	29298425	GA	G	480	PASS	-	Del	-	1	9	MSH6	child	11_29298425_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
f7926e9a-3270-11e6-8a0d-fc4238e8a824	1_176691020_CTC	.	HAP1_POLM_21-11	HAP1_parental_75_WT_DNA	1	176691020	CT	C	480	PASS	PAPPA2	Del	intronic	1	7	POLM	child	1_176691020_CTC_POLM	1	1	1	T	6	T	Repeat-mediated
f79409c0-328f-11e6-9230-fb250e01a414	3_135149415_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	3	135149415	TA	T	360	PASS	RP11-657O9.1	Del	intronic	1	9	MSH6	child	3_135149415_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
f79b6564-329c-11e6-9048-b49fcc638e3d	17_61337234_AAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	17	61337234	A	AT	720	PASS	TANC2	Ins	intronic	1	4	MSH6	child	17_61337234_AAT_MSH6	1	1	-	-	-	-	Ins
f79cf32e-3275-11e6-a3dd-600b4ec77248	2_225233874_GAG	.	HAP1_EXO1_40-12	HAP1_parental_75_WT_DNA	2	225233874	GA	G	600	PASS	-	Del	-	1	6	EXO1	child	2_225233874_GAG_EXO1	1	1	1	A	5	A	Repeat-mediated
f79cff98-328b-11e6-8fd1-f2ac12ae24cf	X_20408578_GTG	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	X	20408578	GT	G	720	PASS	-	Del	-	1	9	CHK2	child	X_20408578_GTG_CHK2	1	1	1	T	8	T	Repeat-mediated
f7a7d96e-3276-11e6-998e-ba48fa52e078	8_95022714_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	8	95022714	CT	C	480	PASS	-	Del	-	1	8	MSH6	child	8_95022714_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
f7a86422-3273-11e6-a862-bc9becf1e924	1_101665304_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	101665304	CT	C	540	PASS	-	Del	-	1	4	MSH6	child	1_101665304_CTC_MSH6	1	1	1	T	3	T	Repeat-mediated
f7aa60d8-3291-11e6-9918-e08630158702	10_38196443_GTG	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	10	38196443	GT	G	360	PASS	-	Del	-	1	7	NUDT1	child	10_38196443_GTG_NUDT1	1	1	1	T	6	T	Repeat-mediated
f7aaa346-328b-11e6-9c89-8d090e01a414	1_159240663_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	1	159240663	GA	G	720	PASS	-	Del	-	1	9	MSH6	child	1_159240663_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
f7b0e1f8-328f-11e6-99d8-a1aee7d0bdd7	8_18941867_CTCCTCAGCACAGTCCTTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	8	18941867	CTCCTCAGCACAGTCCTT	C	360	PASS	RP11-1080G15.1	Del	downstream	17	1	FANCC	child	8_18941867_CTCCTCAGCACAGTCCTTC_FANCC	17	>=10	3	TCC	0	-	Microhomology-mediated
f7b3ff22-329a-11e6-8d0f-075325c9da85	14_82062397_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	82062397	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	14_82062397_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f7bbd77a-3285-11e6-be43-0a6ea2c71c31	10_135408234_CAATAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	135408234	CAATA	C	480	PASS	-	Del	-	4	1	MSH6	child	10_135408234_CAATAC_MSH6	4	4	0	-	0	-	None
f7be6d12-3287-11e6-a8ac-a28ea2c71c31	3_33357322_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	33357322	CT	C	480	PASS	FBXL2	Del	intronic	1	9	MSH6	child	3_33357322_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f7c5eb80-3289-11e6-a32d-75090e01a414	14_63859688_AGA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	14	63859688	AG	A	300	PASS	PPP2R5E	Del	intronic	1	3	MSH6	child	14_63859688_AGA_MSH6	1	1	1	G	2	G	Repeat-mediated
f7d4b2e8-3255-11e6-a304-347a7872c165	1_164874708_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	164874708	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	1_164874708_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
f7d5e9a6-329b-11e6-a0ea-135325c9da85	15_84302404_TGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	15	84302404	TG	T	540	PASS	-	Del	-	1	3	MSH6	child	15_84302404_TGT_MSH6	1	1	1	G	2	G	Repeat-mediated
f7dc5ee0-3290-11e6-a081-1bb7a178171f	X_145055077_CTAATAAAAATC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	X	145055077	CTAATAAAAAT	C	420	PASS	-	Del	-	10	1	POLE	child	X_145055077_CTAATAAAAATC_POLE	10	>=10	0	-	0	-	None
f7e3cc22-3289-11e6-a7cf-80090e01a414	15_53104683_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	53104683	AT	A	300	PASS	-	Del	-	1	1	MSH6	child	15_53104683_ATA_MSH6	1	1	0	-	0	T	None
f7ee8c46-3295-11e6-b38a-97f8d8b4fa2c	4_114551837_CCAC	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	4	114551837	CCA	C	420	PASS	CAMK2D	Del	intronic	2	2	NUDT1	child	4_114551837_CCAC_NUDT1	2	2	2	CA	1	CA	Repeat-mediated
f7fa7cd4-3274-11e6-a924-afbd7d6a9fc7	2_145980484_ATGGGGTCTA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	2	145980484	ATGGGGTCT	A	600	PASS	-	Del	-	8	1	EXO1	child	2_145980484_ATGGGGTCTA_EXO1	8	8	0	-	0	-	None
f80ba9a2-3272-11e6-a862-bc9becf1e924	1_35523447_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	1	35523447	CA	C	420	PASS	-	Del	-	1	6	MSH6	child	1_35523447_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
f81907c8-3272-11e6-bfb2-2749c225ee11	12_45041684_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	12	45041684	CA	C	480	PASS	NELL2	Del	intronic	1	7	MSH6	child	12_45041684_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
f81b23b0-327b-11e6-a9e7-37e798816cf3	14_85843123_ATATA	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	14	85843123	ATAT	A	660	PASS	CTD-2128A3.2	Del	intronic	3	1	POLM	child	14_85843123_ATATA_POLM	3	3	1	T	0	-	Microhomology-mediated
f81d71ce-328f-11e6-bd11-15ea6f39e758	21_37976191_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	21	37976191	AT	A	660	PASS	-	Del	-	1	8	MSH6	child	21_37976191_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
f820def8-3272-11e6-a390-fc104530f757	1_151097281_ATA	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	1	151097281	AT	A	426	PASS	GABPB2	Del	3prime_UTR_variant	1	8	FANCC	child	1_151097281_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
f82a266c-329e-11e6-91d0-016425c9da85	7_88912703_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	88912703	TA	T	720	PASS	ZNF804B	Del	intronic	1	7	MSH6	child	7_88912703_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
f83a6afa-3257-11e6-a304-347a7872c165	1_41003830_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	41003830	A	AT	360	PASS	ZNF684	Ins	intronic	1	8	MSH6	child	1_41003830_AAT_MSH6	1	1	-	-	-	-	Ins
f83f92ae-3276-11e6-8c34-46e27872c165	5_112848321_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	112848321	CA	C	720	PASS	YTHDC2	Del	upstream	1	9	MSH6	child	5_112848321_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
f8429de8-3256-11e6-acc5-308412ae24cf	5_41319214_TATAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	41319214	TATA	T	480	PASS	PLCXD3	Del	intronic	3	2	MSH6	child	5_41319214_TATAT_MSH6	3	3	3	ATA	1	ATA	Repeat-mediated
f84dd2a8-3274-11e6-9970-2347694da5d2	9_84169561_TCTCT	.	HAP1_NUDT1_41-10	HAP1_parental_75_WT_DNA	9	84169561	TCTC	T	300	PASS	-	Del	-	3	1	NUDT1	child	9_84169561_TCTCT_NUDT1	3	3	0	-	0	-	None
f84f5afa-3275-11e6-83cd-a472a178171f	4_64304566_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	64304566	TA	T	660	PASS	-	Del	-	1	7	MSH6	child	4_64304566_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
f85b3b28-326f-11e6-a073-e3d0d7fd0a58	13_98260217_TAT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	13	98260217	TA	T	480	PASS	-	Del	-	1	6	NUDT1	child	13_98260217_TAT_NUDT1	1	1	1	A	5	A	Repeat-mediated
f8611052-3288-11e6-a928-04c835cec73b	3_112857237_GTG	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	3	112857237	GT	G	720	PASS	RP11-572M11.3	Del	downstream	1	7	POLE	child	3_112857237_GTG_POLE	1	1	1	T	6	T	Repeat-mediated
f8622166-3276-11e6-ab97-84f471d7bc54	6_5397104_TACT	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	6	5397104	TAC	T	480	PASS	FARS2	Del	intronic	2	3	NEIL1	child	6_5397104_TACT_NEIL1	2	2	2	AC	2	AC	Repeat-mediated
f86e4fca-329b-11e6-ae71-0c5325c9da85	1_115991100_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	115991100	CA	C	600	PASS	-	Del	-	1	6	MSH6	child	1_115991100_CAC_MSH6	1	1	1	A	5	A	Repeat-mediated
f875181c-3275-11e6-83cd-a472a178171f	4_64320477_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	64320477	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	4_64320477_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
f87777aa-3299-11e6-a5cf-205325c9da85	11_8818495_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	8818495	TA	T	840	PASS	ST5	Del	intronic	1	8	MSH6	child	11_8818495_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
f8794b10-3286-11e6-8b67-086ea2c71c31	1_229893978_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	1	229893978	CA	C	600	PASS	-	Del	-	1	8	MSH6	child	1_229893978_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
f8796c92-328d-11e6-b3cd-1ca5e7d0bdd7	17_27317106_CAC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	17	27317106	CA	C	360	PASS	SEZ6	Del	intronic	1	8	FANCC	child	17_27317106_CAC_FANCC	1	1	1	A	7	A	Repeat-mediated
f8802470-3291-11e6-8d18-13cc0d01a414	20_17968558_TGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	20	17968558	TG	T	300	PASS	MGME1	Del	intronic	1	7	MSH6	child	20_17968558_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
f88396f0-3287-11e6-baf1-58044530f757	3_51514859_GTG	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	3	51514859	GT	G	600	PASS	VPRBP	Del	intronic	1	8	EXO1	child	3_51514859_GTG_EXO1	1	1	1	T	7	T	Repeat-mediated
f8850be6-327f-11e6-87e4-1c233dc9300a	2_181355699_CTC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	2	181355699	CT	C	540	PASS	-	Del	-	1	5	NEIL1	child	2_181355699_CTC_NEIL1	1	1	1	T	4	T	Repeat-mediated
f8867b4a-3273-11e6-abaf-4642cab49462	6_162822255_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	162822255	AT	A	300	PASS	PARK2	Del	intronic	1	1	MSH6	child	6_162822255_ATA_MSH6	1	1	0	-	0	T	None
f88840a8-326c-11e6-9d68-ac9acab49462	15_38728597_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	15	38728597	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	15_38728597_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
f88e3fa2-328b-11e6-a653-2591e7d0bdd7	1_161535933_ACCTCGTGATCCGCCCGCCTCGGA	.	HAP1_POLM-21-10	HAP1_parental_75_WT_DNA	1	161535933	ACCTCGTGATCCGCCCGCCTCGG	A	447	PASS	FCGR3A	Del	intronic	22	1	POLM	child	1_161535933_ACCTCGTGATCCGCCCGCCTCGGA_POLM	22	>=10	4	CCTC	0	-	Microhomology-mediated
f8a3b356-328f-11e6-81a8-bb257a852e0e	16_30843051_GCAG	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	16	30843051	GCA	G	480	PASS	BCL7C	Del	downstream	2	2	CHK2	child	16_30843051_GCAG_CHK2	2	2	2	CA	1	CA	Repeat-mediated
f8a63792-329a-11e6-b74d-b59fcc638e3d	18_73592799_TGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	73592799	TG	T	900	PASS	-	Del	-	1	3	MSH6	child	18_73592799_TGT_MSH6	1	1	1	G	2	G	Repeat-mediated
f8a8b70a-32a0-11e6-aea7-956725c9da85	3_168978811_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	168978811	CT	C	300	PASS	MECOM	Del	intronic	1	8	MSH6	child	3_168978811_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
f8ac6fd4-3328-11e6-9673-d7281daa6045	X_45141898_GTTGTG	.	HAP1_EXO1_40-3	HAP1_parental_75_WT_DNA	X	45141898	GTTGT	G	540	PASS	-	Del	-	4	4	EXO1	child	X_45141898_GTTGTG_EXO1	4	4	4	TTGT	3	TTGT	Repeat-mediated
f8acc76a-3286-11e6-a284-4b89a2c71c31	4_39820902_CTTCTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	4	39820902	CTTCT	C	300	PASS	PDS5A	Del	downstream	4	1	MSH6	child	4_39820902_CTTCTC_MSH6	4	4	2	TT	0	-	Microhomology-mediated
f8acca80-3272-11e6-803d-c550e7d0bdd7	11_13749287_ATA	.	HAP1_EXO1_40-10	HAP1_parental_75_WT_DNA	11	13749287	AT	A	360	PASS	FAR1	Del	intronic	1	7	EXO1	child	11_13749287_ATA_EXO1	1	1	1	T	6	T	Repeat-mediated
f8affeb2-329f-11e6-b696-dd6225c9da85	5_155208559_CCTCCCTCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	155208559	CCTCC	CTCT	720	PASS	-	Complex	-	4	0	MSH6	child	5_155208559_CCTCCCTCT_MSH6	1	1	-	-	-	-	Complex
f8b2c5ac-326d-11e6-b306-b5204b47a305	2_120325532_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	120325532	CT	C	540	PASS	PCDP1	Del	intronic	1	7	MSH6	child	2_120325532_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
f8b54f28-329c-11e6-aca6-b39fcc638e3d	2_205954540_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	205954540	GT	G	360	PASS	PARD3B	Del	intronic	1	7	MSH6	child	2_205954540_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
f8c406f2-3289-11e6-bbaf-7c090e01a414	19_28575560_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	19	28575560	GA	G	582	PASS	CTD-2043I16.1	Del	intronic	1	8	MSH6	child	19_28575560_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
f8ca8b30-328e-11e6-919e-92c36f39e758	2_231355312_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	231355312	AT	A	420	PASS	SP100	Del	intronic	1	6	MSH6	child	2_231355312_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
f8cfe898-32a0-11e6-aea7-956725c9da85	3_169008056_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	169008056	GA	G	780	PASS	MECOM	Del	intronic	1	7	MSH6	child	3_169008056_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
f8d7b964-3283-11e6-888b-2d6e0d016689	18_27555064_GGAAG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	18	27555064	GGAA	G	480	PASS	-	Del	-	3	2	EXO1	child	18_27555064_GGAAG_EXO1	3	3	3	GAA	1	GAA	Repeat-mediated
f8da83c0-328c-11e6-b6a6-1f1e0e01a414	4_32575568_TCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	32575568	TC	T	480	PASS	-	Del	-	1	2	MSH6	child	4_32575568_TCT_MSH6	1	1	1	C	1	C	Repeat-mediated
f8dd3596-3275-11e6-a71d-236235cec73b	X_54443712_TAT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	X	54443712	TA	T	360	PASS	-	Del	-	1	7	MSH6	child	X_54443712_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
f8e026c2-328c-11e6-92c7-35ab4430f757	15_50946093_CATC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	15	50946093	CAT	C	420	PASS	TRPM7	Del	intronic	2	1	POLE	child	15_50946093_CATC_POLE	2	2	1	A	0	-	Microhomology-mediated
f8ff6900-328d-11e6-a278-48230e01a414	21_37578510_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	21	37578510	AT	A	420	PASS	DOPEY2	Del	intronic	1	8	MSH6	child	21_37578510_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
f9063ef0-3289-11e6-8459-82090e01a414	12_43158606_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	43158606	AT	A	660	PASS	-	Del	-	1	8	MSH6	child	12_43158606_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
f906f706-326f-11e6-9fba-41ebd8b4fa2c	11_128005670_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	128005670	CA	C	540	PASS	-	Del	-	1	8	MSH6	child	11_128005670_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
f92187ac-32a0-11e6-aea7-956725c9da85	3_169096960_ACA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	169096960	AC	A	300	PASS	MECOM	Del	intronic	1	3	MSH6	child	3_169096960_ACA_MSH6	1	1	1	C	2	C	Repeat-mediated
f9280696-329a-11e6-a5cf-205325c9da85	11_69450302_AGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	69450302	AG	A	480	PASS	-	Del	-	1	3	MSH6	child	11_69450302_AGA_MSH6	1	1	1	G	2	G	Repeat-mediated
f92e2c8e-329e-11e6-91d0-016425c9da85	7_89341962_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	89341962	AT	A	900	PASS	-	Del	-	1	7	MSH6	child	7_89341962_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
f9314e22-328b-11e6-ac7a-a3c36f39e758	18_30854197_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	18	30854197	CA	C	540	PASS	CCDC178	Del	intronic	1	9	MSH6	child	18_30854197_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
f934e4e0-3274-11e6-b89d-b2d6b0dab373	4_179233291_TTA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	179233291	T	TA	300	PASS	-	Ins	-	1	7	MSH6	child	4_179233291_TTA_MSH6	1	1	-	-	-	-	Ins
f938670c-328b-11e6-88c1-95c36f39e758	14_47221618_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	47221618	CT	C	300	PASS	-	Del	-	1	5	MSH6	child	14_47221618_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
f93f9790-3284-11e6-821e-69f1bbe6aa09	16_53202508_CAC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	53202508	CA	C	720	PASS	CHD9	Del	intronic	1	7	MSH6	child	16_53202508_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
f945e15c-328b-11e6-ae4c-6bbfcc638e3d	7_30401388_CTGTC	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	7	30401388	CTGT	C	480	PASS	ZNRF2	Del	intronic	3	1	NUDT1	child	7_30401388_CTGTC_NUDT1	3	3	2	TG	0	-	Microhomology-mediated
f94f108e-3271-11e6-b89d-b2d6b0dab373	4_166177471_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	166177471	CT	C	300	PASS	KLHL2	Del	intronic	1	8	MSH6	child	4_166177471_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
f951315c-326c-11e6-b306-b5204b47a305	2_33329681_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	33329681	CT	C	300	PASS	LTBP1	Del	intronic	1	5	MSH6	child	2_33329681_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
f95b1dc4-329a-11e6-a5cf-205325c9da85	11_69491153_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	69491153	GA	G	600	PASS	ORAOV1	Del	upstream	1	7	MSH6	child	11_69491153_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
f9614d56-3296-11e6-8fa8-1766a178171f	4_119332687_ATA	.	HAP1_NEIL1_3-8	HAP1_parental_75_WT_DNA	4	119332687	AT	A	420	PASS	-	Del	-	1	8	NEIL1	child	4_119332687_ATA_NEIL1	1	1	1	T	7	T	Repeat-mediated
f962e96a-3253-11e6-bc65-c9667872c165	13_49257628_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	13	49257628	CT	C	600	PASS	-	Del	-	1	8	MSH6	child	13_49257628_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
f973fe6a-3322-11e6-8a20-9a0d75253f64	9_31246642_ATA	.	HAP1_CHK2_56-10	HAP1_parental_75_WT_DNA	9	31246642	AT	A	300	PASS	-	Del	-	1	9	CHK2	child	9_31246642_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
f9742160-3278-11e6-9e0f-7959cab49462	7_71769483_TTA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	71769483	T	TA	480	PASS	CALN1	Ins	intronic	1	7	MSH6	child	7_71769483_TTA_MSH6	1	1	-	-	-	-	Ins
f97c09d0-3281-11e6-86cf-8f288e4678dd	10_126806369_AAACA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	10	126806369	AAAC	A	300	PASS	CTBP2	Del	intronic	3	3	FANCC	child	10_126806369_AAACA_FANCC	3	3	3	AAC	2	AAC	Repeat-mediated
f98168b8-326c-11e6-9f48-94df41c4520d	12_29818083_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	29818083	CA	C	1020	PASS	TMTC1	Del	intronic	1	9	MSH6	child	12_29818083_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
f9947854-3299-11e6-aca6-b39fcc638e3d	2_13176924_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	13176924	GA	G	360	PASS	-	Del	-	1	8	MSH6	child	2_13176924_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
f9983814-329d-11e6-bc2c-2a5e25c9da85	4_68415567_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	68415567	TA	T	540	PASS	CENPC	Del	upstream	1	9	MSH6	child	4_68415567_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
f99b6de6-328d-11e6-bb1e-70e16f39e758	X_11028125_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	11028125	AC	A	300	PASS	RP11-120D5.1	Del	intronic	1	7	MSH6	child	X_11028125_ACA_MSH6	1	1	1	C	6	C	Repeat-mediated
f9b241e2-3256-11e6-885f-d1947872c165	4_57435962_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	57435962	CA	C	480	PASS	THEGL	Del	intronic	1	9	MSH6	child	4_57435962_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
f9bc9688-328d-11e6-bb1e-70e16f39e758	X_11241283_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	11241283	TA	T	947	PASS	ARHGAP6	Del	intronic	1	5	MSH6	child	X_11241283_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
f9c90e3c-32a0-11e6-aea7-956725c9da85	3_169285631_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	169285631	GA	G	480	PASS	MECOM	Del	intronic	1	7	MSH6	child	3_169285631_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
f9c9b56c-3273-11e6-a5d0-4fd14a47a305	2_139063375_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	139063375	CT	C	720	PASS	-	Del	-	1	9	MSH6	child	2_139063375_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
f9cfd874-325b-11e6-8cd9-139b7872c165	3_128356093_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	128356093	A	AT	300	PASS	RPN1	Ins	intronic	1	6	MSH6	child	3_128356093_AAT_MSH6	1	1	-	-	-	-	Ins
f9d1e60c-328b-11e6-8106-81c36f39e758	19_19434780_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	19434780	GT	G	780	PASS	MAU2	Del	intronic	1	8	MSH6	child	19_19434780_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
f9d31e4e-3283-11e6-9d58-b7936f39e758	17_13134559_CGGGATC	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	17	13134559	CGGGAT	C	660	PASS	-	Del	-	5	1	EXO1	child	17_13134559_CGGGATC_EXO1	5	5	2	GG	0	-	Microhomology-mediated
f9d875e0-3285-11e6-821e-69f1bbe6aa09	16_50602704_GGC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	16	50602704	G	GC	480	PASS	NKD1	Ins	intronic	1	6	MSH6	child	16_50602704_GGC_MSH6	1	1	-	-	-	-	Ins
f9d979c2-32a3-11e6-a04f-c66a25c9da85	6_120708658_CCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	120708658	C	CT	720	PASS	-	Ins	-	1	7	MSH6	child	6_120708658_CCT_MSH6	1	1	-	-	-	-	Ins
f9e673ec-3272-11e6-9e18-3a69671699ea	10_38151264_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	38151264	AT	A	720	PASS	ZNF248	Del	upstream	1	8	MSH6	child	10_38151264_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
f9e81f04-328f-11e6-b77c-51e2977b3f23	4_93351378_CAGAGGTTGAGGTCTTAGATTTAATCCTTCAATCCATTTTGGTTTTATTTTTGTATGTGGTGAGAGATAGGGGTAGTTTCATTTTTCTGCATATGAATATCTAGTTTTCCCAGCACCATTTATTGAC	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	4	93351378	CAGAGGTTGAGGTCTTAGATTTAATCCTTCAATCCATTTTGGTTTTATTTTTGTATGTGGTGAGAGATAGGGGTAGTTTCATTTTTCTGCATATGAATATCTAGTTTTCCCAGCACCATTTATTGA	C	1020	PASS	GRID2	Del	intronic	125	1	NEIL1	child	4_93351378_CAGAGGTTGAGGTCTTAGATTTAATCCTTCAATCCATTTTGGTTTTATTTTTGTATGTGGTGAGAGATAGGGGTAGTTTCATTTTTCTGCATATGAATATCTAGTTTTCCCAGCACCATTTATTGAC_NEIL1	125	>=10	4	AGAG	0	-	Microhomology-mediated
f9f01454-328d-11e6-bf99-1e6bfc77b11e	11_116397333_ACA	.	HAP1_POLE_34-8	HAP1_parental_75_WT_DNA	11	116397333	AC	A	420	PASS	-	Del	-	1	6	POLE	child	11_116397333_ACA_POLE	1	1	1	C	5	C	Repeat-mediated
f9f04108-328e-11e6-bfa2-581f0e01a414	7_136138667_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	136138667	CT	C	480	PASS	-	Del	-	1	7	MSH6	child	7_136138667_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
f9fc5968-328c-11e6-8952-77c36f39e758	10_93215886_TGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	93215886	TG	T	974	PASS	HECTD2	Del	intronic	1	7	MSH6	child	10_93215886_TGT_MSH6	1	1	1	G	6	G	Repeat-mediated
f9feb782-3299-11e6-aca6-b39fcc638e3d	2_13509925_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	2	13509925	CT	C	660	PASS	-	Del	-	1	9	MSH6	child	2_13509925_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
fa06c7e2-3276-11e6-83cd-a472a178171f	4_139140008_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	4	139140008	GA	G	360	PASS	SLC7A11	Del	intronic	1	9	MSH6	child	4_139140008_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
fa0711e2-329a-11e6-ae71-0c5325c9da85	1_54220990_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	54220990	GA	G	900	PASS	-	Del	-	1	8	MSH6	child	1_54220990_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
fa0acbe4-3276-11e6-a2b7-2d8b671699ea	21_37525566_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	21	37525566	CT	C	360	PASS	DOPEY2	Del	upstream	1	8	MSH6	child	21_37525566_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
fa1a9d40-328e-11e6-8f31-bfe16f39e758	9_91778660_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	9	91778660	TA	T	491	PASS	SHC3	Del	intronic	1	7	MSH6	child	9_91778660_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
fa1b75fc-326c-11e6-adc2-b7204b47a305	18_31748410_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	31748410	GA	G	300	PASS	NOL4	Del	intronic	1	6	MSH6	child	18_31748410_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
fa1c9eb4-3299-11e6-bbf7-b00798ba1142	3_15250525_CTC	.	HAP1_CHK2_56-11	HAP1_parental_75_WT_DNA	3	15250525	CT	C	300	PASS	CAPN7	Del	intronic	1	9	CHK2	child	3_15250525_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
fa203bf8-3345-11e6-b5ef-938f38e8a824	13_59668067_ACCTGTATGCTTTAAATCTATCTGTGGTATA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	13	59668067	ACCTGTATGCTTTAAATCTATCTGTGGTAT	A	480	PASS	-	Del	-	29	1	FANCC	child	13_59668067_ACCTGTATGCTTTAAATCTATCTGTGGTATA_FANCC	29	>=10	1	C	0	-	Microhomology-mediated
fa21fcfe-3287-11e6-a8ac-a28ea2c71c31	3_34430022_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	34430022	GT	G	900	PASS	AC018359.1	Del	intronic	1	9	MSH6	child	3_34430022_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
fa2dc568-3320-11e6-842f-4d64694da5d2	19_11199076_CTC	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	19	11199076	CT	C	420	PASS	LDLR	Del	upstream	1	9	EXO1	child	19_11199076_CTC_EXO1	1	1	1	T	8	T	Repeat-mediated
fa36c988-328f-11e6-9d24-ade56f39e758	7_92469169_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	7	92469169	GA	G	420	PASS	CDK6	Del	upstream	1	6	MSH6	child	7_92469169_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
fa388538-326d-11e6-bc62-6d4742c4520d	16_7747164_TTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	7747164	T	TG	360	PASS	RBFOX1	Ins	intronic	1	6	MSH6	child	16_7747164_TTG_MSH6	1	1	-	-	-	-	Ins
fa3ea214-3273-11e6-98e1-30573cfdbd24	9_80915160_ATA	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	9	80915160	AT	A	780	PASS	PSAT1	Del	intronic	1	7	MSH6	parent	9_80915160_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
fa529438-3299-11e6-b74d-b59fcc638e3d	18_8872576_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	18	8872576	AT	A	360	PASS	-	Del	-	1	7	MSH6	child	18_8872576_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
fa58d04a-3290-11e6-b81f-4ee66f39e758	8_86154759_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	8	86154759	GA	G	300	PASS	CA13	Del	upstream	1	7	MSH6	child	8_86154759_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
fa5a9dfc-3273-11e6-9e18-3a69671699ea	10_106034257_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	106034257	GA	G	480	PASS	GSTO2	Del	upstream	1	9	MSH6	child	10_106034257_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
fa683c68-3274-11e6-ab69-1c1607e9a829	9_23622542_CAC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	23622542	CA	C	300	PASS	-	Del	-	1	7	MSH6	child	9_23622542_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
fa7022f6-329d-11e6-91d0-016425c9da85	7_30772106_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	30772106	AT	A	900	PASS	-	Del	-	1	9	MSH6	child	7_30772106_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
fa76efc4-329c-11e6-94ca-0aaecc638e3d	X_5831283_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	5831283	AT	A	360	PASS	NLGN4X	Del	intronic	1	5	MSH6	child	X_5831283_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
fa7ea78c-3292-11e6-9458-5f42ead19ece	2_102156422_GTG	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	2	102156422	GT	G	300	PASS	-	Del	-	1	8	NUDT1	child	2_102156422_GTG_NUDT1	1	1	1	T	7	T	Repeat-mediated
fa7ec3b6-3256-11e6-a39a-dc8512ae24cf	8_18034238_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	8	18034238	AT	A	420	PASS	NAT1	Del	intronic	1	8	MSH6	child	8_18034238_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
fa88a474-3320-11e6-bfbd-b63cfc77b11e	14_86825606_GTG	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	14	86825606	GT	G	540	PASS	RP11-26L16.1	Del	intronic	1	1	POLE	child	14_86825606_GTG_POLE	1	1	0	-	0	T	None
fa96da44-328a-11e6-a80b-87090e01a414	11_106775638_GAG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	106775638	GA	G	480	PASS	GUCY1A2	Del	intronic	1	8	MSH6	child	11_106775638_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
fa99187c-3285-11e6-99f2-6da635cec73b	1_159545901_CTC	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	1	159545901	CT	C	780	PASS	-	Del	-	1	9	POLE	child	1_159545901_CTC_POLE	1	1	1	T	8	T	Repeat-mediated
fa997b76-3273-11e6-8607-751ad9b4fa2c	22_26062760_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	22	26062760	TA	T	300	PASS	ADRBK2	Del	intronic	1	8	MSH6	child	22_26062760_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
faaae7bc-328c-11e6-85fc-1cce7098ee92	4_119153199_ATA	.	HAP1_NUDT1_41-1	HAP1_parental_75_WT_DNA	4	119153199	AT	A	300	PASS	NDST3	Del	intronic	1	9	NUDT1	child	4_119153199_ATA_NUDT1	1	1	1	T	8	T	Repeat-mediated
faab98dc-328d-11e6-b3cd-1ca5e7d0bdd7	17_28011550_GTG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	17	28011550	GT	G	360	PASS	SSH2	Del	intronic	1	4	FANCC	child	17_28011550_GTG_FANCC	1	1	1	T	3	T	Repeat-mediated
faacb044-3276-11e6-9e0f-7959cab49462	7_100991282_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	7	100991282	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	7_100991282_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
faae1570-3270-11e6-b5d9-38f41da8ec0e	15_27099029_CATGC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	15	27099029	CATG	C	360	PASS	-	Del	-	3	1	FANCC	child	15_27099029_CATGC_FANCC	3	3	2	AT	0	-	Microhomology-mediated
faae3b16-328b-11e6-b576-9f9ccdacbbbf	X_127362846_ATA	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	X	127362846	AT	A	300	PASS	-	Del	-	1	8	FANCC	child	X_127362846_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
faae6f8e-3289-11e6-a729-f0a020e7b7a8	9_88484150_TAT	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	9	88484150	TA	T	360	PASS	-	Del	-	1	9	POLE	child	9_88484150_TAT_POLE	1	1	1	A	8	A	Repeat-mediated
fab1c24e-3273-11e6-aafd-c7dee9d19ece	2_226638857_ATA	.	HAP1_CHK2_56-8	HAP1_parental_75_WT_DNA	2	226638857	AT	A	300	PASS	-	Del	-	1	9	CHK2	child	2_226638857_ATA_CHK2	1	1	1	T	8	T	Repeat-mediated
fabafef8-3256-11e6-89d3-d29498816cf3	2_123670350_AAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	123670350	A	AT	480	PASS	-	Ins	-	1	7	MSH6	child	2_123670350_AAT_MSH6	1	1	-	-	-	-	Ins
fabbe038-3293-11e6-9420-3d48a178171f	19_8508997_CAGTCTATCTCCTCTGTGA	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	19	8508997	CAGTCTATCT	CCTCTGTGA	271	PASS	HNRNPM	Complex	upstream	9	0	POLB	child	19_8508997_CAGTCTATCTCCTCTGTGA_POLB	1	1	-	-	-	-	Complex
fac84f32-3255-11e6-a4a7-35f212ae24cf	14_81166867_AAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	14	81166867	A	AC	300	PASS	CEP128	Ins	intronic	1	7	MSH6	child	14_81166867_AAC_MSH6	1	1	-	-	-	-	Ins
fada5c06-3320-11e6-b559-2d8b9d7ad846	14_62561484_CTGC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	14	62561484	CTG	C	420	PASS	SYT16	Del	intronic	2	1	CHK2	child	14_62561484_CTGC_CHK2	2	2	1	T	0	-	Microhomology-mediated
fadc589c-3273-11e6-946d-9c2bc7271a47	2_80824753_GAG	.	HAP1_POLB_35-3	HAP1_parental_75_WT_DNA	2	80824753	GA	G	300	PASS	CTNNA2	Del	intronic	1	8	POLB	child	2_80824753_GAG_POLB	1	1	1	A	7	A	Repeat-mediated
fadff250-3286-11e6-bec9-6bfa4430f757	10_88212373_CCA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	10	88212373	C	CA	720	PASS	WAPAL	Ins	intronic	1	7	EXO1	child	10_88212373_CCA_EXO1	1	1	-	-	-	-	Ins
fae17454-3272-11e6-b332-88ba7d6a9fc7	15_49131223_GAAAACAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	15	49131223	GAAAACA	G	480	PASS	SHC4	Del	intronic	6	1	MSH6	child	15_49131223_GAAAACAG_MSH6	6	6	4	AAAA	0	-	Microhomology-mediated
fae8f270-326c-11e6-bc62-6d4742c4520d	16_28516077_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	16	28516077	AT	A	420	PASS	IL27	Del	intronic	1	7	MSH6	child	16_28516077_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
faea4680-3284-11e6-95c7-6dfa4430f757	11_85547870_TACT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	11	85547870	TAC	T	480	PASS	-	Del	-	2	7	EXO1	child	11_85547870_TACT_EXO1	2	2	2	AC	6	AC	Repeat-mediated
faf49c1a-329e-11e6-b696-dd6225c9da85	5_123919540_AGA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	5	123919540	AG	A	660	PASS	-	Del	-	1	6	MSH6	child	5_123919540_AGA_MSH6	1	1	1	G	5	G	Repeat-mediated
fb005c04-3275-11e6-abaf-4642cab49462	6_125002436_CCT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	125002436	C	CT	480	PASS	NKAIN2	Ins	intronic	1	6	MSH6	child	6_125002436_CCT_MSH6	1	1	-	-	-	-	Ins
fb1192f6-3272-11e6-9e18-3a69671699ea	10_38514172_GTG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	38514172	GT	G	480	PASS	-	Del	-	1	5	MSH6	child	10_38514172_GTG_MSH6	1	1	1	T	4	T	Repeat-mediated
fb127df2-3320-11e6-b559-2d8b9d7ad846	14_62688781_CTC	.	HAP1_CHK2_56-9	HAP1_parental_75_WT_DNA	14	62688781	CT	C	360	PASS	-	Del	-	1	9	CHK2	child	14_62688781_CTC_CHK2	1	1	1	T	8	T	Repeat-mediated
fb140e7e-3285-11e6-99f2-6da635cec73b	1_159724404_TAT	.	HAP1_POLE_34-2	HAP1_parental_75_WT_DNA	1	159724404	TA	T	954	PASS	-	Del	-	1	6	POLE	child	1_159724404_TAT_POLE	1	1	1	A	5	A	Repeat-mediated
fb1c4270-3270-11e6-b4bf-85eb97ba1142	2_181655572_GAG	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	2	181655572	GA	G	420	PASS	-	Del	-	1	5	EXO1	parent	2_181655572_GAG_EXO1	1	1	1	A	4	A	Repeat-mediated
fb1cb4d6-32a1-11e6-91d0-016425c9da85	7_107683203_CCA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	107683203	C	CA	840	PASS	LAMB4	Ins	intronic	1	5	MSH6	child	7_107683203_CCA_MSH6	1	1	-	-	-	-	Ins
fb1d794a-329a-11e6-8d0f-075325c9da85	14_83268373_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	83268373	GA	G	360	PASS	-	Del	-	1	8	MSH6	child	14_83268373_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
fb200652-329e-11e6-94ca-0aaecc638e3d	X_84804391_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	X	84804391	CA	C	600	PASS	-	Del	-	1	5	MSH6	child	X_84804391_CAC_MSH6	1	1	1	A	4	A	Repeat-mediated
fb217b5e-329e-11e6-bc2c-2a5e25c9da85	4_133684934_TTCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	133684934	TTC	T	720	PASS	-	Del	-	2	6	MSH6	child	4_133684934_TTCT_MSH6	2	2	2	TC	5	TC	Repeat-mediated
fb22902e-326d-11e6-9f48-94df41c4520d	12_107891547_GCG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	12	107891547	GC	G	420	PASS	BTBD11	Del	intronic	1	3	MSH6	child	12_107891547_GCG_MSH6	1	1	1	C	2	C	Repeat-mediated
fb23a8de-328f-11e6-b52f-4eeb6f39e758	22_33326497_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	22	33326497	CT	C	600	PASS	SYN3	Del	intronic	1	9	MSH6	child	22_33326497_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
fb30343a-328c-11e6-bd84-429305ad5bc4	1_196832522_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	196832522	CT	C	720	PASS	CFHR4	Del	intronic	1	6	MSH6	child	1_196832522_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
fb31f278-3270-11e6-a539-0e5542c4520d	7_147414208_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	7	147414208	GA	G	360	PASS	CNTNAP2	Del	intronic	1	9	MSH6	child	7_147414208_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
fb32b7de-3271-11e6-b5d9-38f41da8ec0e	15_68141924_CTCATGCATATGAGCACCAAGTTACAGGTAAAAGAATGTTCAAGGTAGCATTGTCTGC	.	HAP1_FANCC_27-5	HAP1_parental_75_WT_DNA	15	68141924	CTCATGCATATGAGCACCAAGTTACAGGTAAAAGAATGTTCAAGGTAGCATTGTCTG	C	480	PASS	RP11-34F13.3	Del	intronic	56	1	FANCC	child	15_68141924_CTCATGCATATGAGCACCAAGTTACAGGTAAAAGAATGTTCAAGGTAGCATTGTCTGC_FANCC	56	>=10	1	T	0	-	Microhomology-mediated
fb331f70-3272-11e6-975f-8246cab49462	16_32394022_ATA	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	16	32394022	AT	A	456	PASS	-	Del	-	1	5	MSH6	child	16_32394022_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
fb345b1c-328e-11e6-bec1-ca1d0e01a414	X_139171084_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	139171084	AT	A	300	PASS	-	Del	-	1	8	MSH6	child	X_139171084_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
fb374892-328c-11e6-8952-77c36f39e758	10_93616437_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	10	93616437	GT	G	840	PASS	TNKS2	Del	intronic	1	8	MSH6	child	10_93616437_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
fb3c0c4e-3258-11e6-8cd9-139b7872c165	3_116522858_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	116522858	CA	C	540	PASS	LSAMP	Del	intronic	1	8	MSH6	child	3_116522858_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
fb3fa15e-3287-11e6-a32f-5b79a178171f	11_17242018_CCCTGA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	11	17242018	C	CCTGA	300	PASS	NUCB2	Ins	intronic	4	0	FANCC	child	11_17242018_CCCTGA_FANCC	4	4	-	-	-	-	Ins
fb473810-3273-11e6-a5d0-4fd14a47a305	2_139546799_TCT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	2	139546799	TC	T	780	PASS	-	Del	-	1	2	MSH6	child	2_139546799_TCT_MSH6	1	1	1	C	1	C	Repeat-mediated
fb480ade-3326-11e6-931e-f67da78019ab	3_138897106_TAT	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	3	138897106	TA	T	1020	PASS	MRPS22	Del	intronic	1	3	POLE	child	3_138897106_TAT_POLE	1	1	1	A	2	A	Repeat-mediated
fb4b34d2-3283-11e6-bf19-ebeb1da8ec0e	9_122294756_ATA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	9	122294756	AT	A	660	PASS	-	Del	-	1	8	EXO1	child	9_122294756_ATA_EXO1	1	1	1	T	7	T	Repeat-mediated
fb4bfd3c-326e-11e6-b306-b5204b47a305	2_209568990_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	209568990	TA	T	300	PASS	-	Del	-	1	8	MSH6	child	2_209568990_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
fb53948c-3284-11e6-99f7-076ea2c71c31	12_53213307_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	53213307	AT	A	600	PASS	KRT4	Del	upstream	1	5	MSH6	child	12_53213307_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
fb5f7cc2-325a-11e6-8b28-55ad7872c165	20_26196559_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	20	26196559	GA	G	360	PASS	MIR663A	Del	intronic	1	7	MSH6	child	20_26196559_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
fb73b0b6-3282-11e6-8362-ce9a69062303	9_36638196_GTG	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	9	36638196	GT	G	480	PASS	MELK	Del	intronic	1	9	FANCC	child	9_36638196_GTG_FANCC	1	1	1	T	8	T	Repeat-mediated
fb78e67a-328d-11e6-b8c3-19a5e7d0bdd7	12_29811144_GTCG	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	12	29811144	GTC	G	300	PASS	TMTC1	Del	intronic	2	2	FANCC	child	12_29811144_GTCG_FANCC	2	2	2	TC	1	TC	Repeat-mediated
fb7e51ee-328f-11e6-9401-04ed6f39e758	3_543193_TTGT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	543193	TTG	T	360	PASS	-	Del	-	2	9	MSH6	child	3_543193_TTGT_MSH6	2	2	2	TG	8	TG	Repeat-mediated
fb842a66-3275-11e6-ab69-1c1607e9a829	9_111135091_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	9	111135091	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	9_111135091_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
fb8bebb8-328c-11e6-bec1-ca1d0e01a414	X_47361951_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	47361951	AT	A	300	PASS	-	Del	-	1	9	MSH6	child	X_47361951_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
fb911e18-328b-11e6-88c1-95c36f39e758	14_48151928_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	48151928	TA	T	420	PASS	-	Del	-	1	9	MSH6	child	14_48151928_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
fb9198a6-3287-11e6-bb1d-5179a178171f	13_72192760_GGT	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	13	72192760	G	GT	300	PASS	DACH1	Ins	intronic	1	8	FANCC	child	13_72192760_GGT_FANCC	1	1	-	-	-	-	Ins
fb944a6c-326c-11e6-b2ac-b6204b47a305	17_21442985_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	17	21442985	CT	C	420	PASS	C17orf51	Del	intronic	1	8	MSH6	child	17_21442985_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
fba3d0ce-328d-11e6-b6a6-1f1e0e01a414	4_93357658_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	93357658	CT	C	480	PASS	GRID2	Del	intronic	1	8	MSH6	child	4_93357658_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
fbaa9bb4-326c-11e6-9793-9a8fb0dab373	13_44971550_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	13	44971550	GA	G	360	PASS	SERP2	Del	3prime_UTR_variant	1	7	MSH6	child	13_44971550_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
fbaefe2c-3288-11e6-b32c-fd87a2c71c31	5_124169829_TTA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	5	124169829	T	TA	720	PASS	RP11-284A20.3	Ins	downstream	1	6	MSH6	child	5_124169829_TTA_MSH6	1	1	-	-	-	-	Ins
fbb2196c-3284-11e6-9170-b6936f39e758	12_90134765_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	12	90134765	TA	T	600	PASS	-	Del	-	1	8	EXO1	child	12_90134765_TAT_EXO1	1	1	1	A	7	A	Repeat-mediated
fbb67f40-3291-11e6-881f-a0bf4430f757	6_84151324_CTC	.	HAP1_POLE_34-10	HAP1_parental_75_WT_DNA	6	84151324	CT	C	569	PASS	-	Del	-	1	7	POLE	child	6_84151324_CTC_POLE	1	1	1	T	6	T	Repeat-mediated
fbbf28f4-3271-11e6-8f10-bfc27872c165	4_45110072_CAC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	4	45110072	CA	C	420	PASS	-	Del	-	1	7	EXO1	parent	4_45110072_CAC_EXO1	1	1	1	A	6	A	Repeat-mediated
fbc39a50-328b-11e6-b8e6-91c36f39e758	11_28394063_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	28394063	GA	G	280	PASS	RP11-22P4.1	Del	intronic	1	8	MSH6	child	11_28394063_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
fbc83c7e-3270-11e6-b923-6726694da5d2	5_110534291_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	110534291	CT	C	480	PASS	-	Del	-	1	9	MSH6	child	5_110534291_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
fbd8de14-328c-11e6-919e-92c36f39e758	2_98240925_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	98240925	GA	G	738	PASS	-	Del	-	1	9	MSH6	child	2_98240925_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
fbdc06f0-3284-11e6-be43-0a6ea2c71c31	10_55151725_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	55151725	TA	T	360	PASS	-	Del	-	1	5	MSH6	child	10_55151725_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
fbe225ba-3254-11e6-89d3-d29498816cf3	2_160556056_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	160556056	CA	C	420	PASS	AC009961.3	Del	intronic	1	9	MSH6	child	2_160556056_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
fbff9a22-3273-11e6-abaf-4642cab49462	6_163473465_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	6	163473465	GT	G	420	PASS	PACRG	Del	intronic	1	7	MSH6	child	6_163473465_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
fc073c1c-3289-11e6-a80b-87090e01a414	11_43689684_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	43689684	TA	T	300	PASS	-	Del	-	1	4	MSH6	child	11_43689684_TAT_MSH6	1	1	1	A	3	A	Repeat-mediated
fc0bd694-3290-11e6-9432-c0e56f39e758	5_170002275_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	170002275	GT	G	540	PASS	KCNIP1	Del	intronic	1	4	MSH6	child	5_170002275_GTG_MSH6	1	1	1	T	3	T	Repeat-mediated
fc0bef08-3281-11e6-86cf-8f288e4678dd	10_127663267_ATA	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	10	127663267	AT	A	360	PASS	FANK1	Del	intronic	1	5	FANCC	child	10_127663267_ATA_FANCC	1	1	1	T	4	T	Repeat-mediated
fc0cbce8-328c-11e6-bd84-429305ad5bc4	1_197384124_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	197384124	CT	C	480	PASS	CRB1	Del	intronic	1	7	MSH6	child	1_197384124_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
fc12a99a-3288-11e6-a4b4-e6cd191589db	17_2520366_CAC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	17	2520366	CA	C	600	PASS	PAFAH1B1	Del	intronic	1	9	FANCC	child	17_2520366_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
fc1510da-3275-11e6-8c34-46e27872c165	5_42740951_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	5	42740951	GA	G	344	PASS	-	Del	-	1	8	MSH6	child	5_42740951_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
fc151bd8-3280-11e6-9ec5-888f1ac527ab	13_76677800_TAT	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	13	76677800	TA	T	300	PASS	-	Del	-	1	5	FANCC	child	13_76677800_TAT_FANCC	1	1	1	A	4	A	Repeat-mediated
fc227fe2-3278-11e6-a391-f6d67d6a9fc7	6_103578018_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	6	103578018	CT	C	600	PASS	-	Del	-	1	8	MSH6	child	6_103578018_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
fc23d52c-328c-11e6-bec1-ca1d0e01a414	X_47488889_TCT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	X	47488889	TC	T	720	PASS	CFP	Del	intronic	1	7	MSH6	child	X_47488889_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
fc2f1db8-328e-11e6-bd84-429305ad5bc4	1_160416267_AAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	160416267	A	AT	480	PASS	-	Ins	-	1	8	MSH6	child	1_160416267_AAT_MSH6	1	1	-	-	-	-	Ins
fc37a3cc-3287-11e6-a941-5a85a178171f	9_19854265_ATA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	9	19854265	AT	A	540	PASS	-	Del	-	1	8	FANCC	child	9_19854265_ATA_FANCC	1	1	1	T	7	T	Repeat-mediated
fc38cc64-3284-11e6-b093-c9c7b0dab373	2_46854595_TCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	46854595	TC	T	300	PASS	CRIPT	Del	downstream	1	4	MSH6	child	2_46854595_TCT_MSH6	1	1	1	C	3	C	Repeat-mediated
fc42669a-3282-11e6-bc59-aceb1f4bbf9c	8_15269398_ATA	.	HAP1_EXO1_40-6	HAP1_parental_75_WT_DNA	8	15269398	AT	A	780	PASS	-	Del	-	1	9	EXO1	child	8_15269398_ATA_EXO1	1	1	1	T	8	T	Repeat-mediated
fc4aae80-3292-11e6-b4ea-e05798ba1142	18_62137303_GAG	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	18	62137303	GA	G	420	PASS	-	Del	-	1	8	POLB	child	18_62137303_GAG_POLB	1	1	1	A	7	A	Repeat-mediated
fc500de2-328f-11e6-baa7-a96919a91649	2_166504621_ATA	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	2	166504621	AT	A	900	PASS	CSRNP3	Del	intronic	1	7	NEIL1	child	2_166504621_ATA_NEIL1	1	1	1	T	6	T	Repeat-mediated
fc5c1624-3270-11e6-8418-1c5942c4520d	3_99592464_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	99592464	GT	G	600	PASS	FILIP1L	Del	intronic	1	8	MSH6	child	3_99592464_GTG_MSH6	1	1	1	T	7	T	Repeat-mediated
fc5e1c58-3289-11e6-9996-bebd38e8a824	X_24179918_ATTCA	.	HAP1_NUDT1_41	HAP1_parental_75_WT_DNA	X	24179918	ATTC	A	540	PASS	ZFX	Del	5prime_UTR_variant	3	3	NUDT1	parent	X_24179918_ATTCA_NUDT1	3	3	3	TTC	2	TTC	Repeat-mediated
fc700ca0-3299-11e6-b549-1e5325c9da85	10_9260422_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	9260422	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	10_9260422_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
fc709e18-328a-11e6-a7cf-80090e01a414	15_75601928_CTC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	75601928	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	15_75601928_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
fc785fa6-3288-11e6-a8ac-a28ea2c71c31	3_133224500_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	3	133224500	TA	T	480	PASS	-	Del	-	1	9	MSH6	child	3_133224500_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
fc7c3bfe-3287-11e6-afcf-0311bce6aa09	9_113362394_GGT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	9	113362394	G	GT	720	PASS	RP11-410K21.2	Ins	intronic	1	7	MSH6	child	9_113362394_GGT_MSH6	1	1	-	-	-	-	Ins
fc808d26-3287-11e6-8bbd-f88da2c71c31	21_40998530_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	21	40998530	GT	G	420	PASS	B3GALT5	Del	intronic	1	9	MSH6	child	21_40998530_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
fc94cd24-3320-11e6-925a-9564694da5d2	2_24629027_ATA	.	HAP1_POLE_34-4	HAP1_parental_75_WT_DNA	2	24629027	AT	A	660	PASS	-	Del	-	1	9	POLE	child	2_24629027_ATA_POLE	1	1	1	T	8	T	Repeat-mediated
fc9e7eca-3283-11e6-94be-6cfa4430f757	12_4115796_GTG	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	12	4115796	GT	G	600	PASS	-	Del	-	1	3	EXO1	child	12_4115796_GTG_EXO1	1	1	1	T	2	T	Repeat-mediated
fca575dc-334a-11e6-be18-768ca20b69d5	3_142115088_ATA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	3	142115088	AT	A	660	PASS	XRN1	Del	intronic	1	9	FANCC	child	3_142115088_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
fca5f31c-3274-11e6-865b-486635761512	18_19871438_GTG	.	HAP1_POLM_21-4	HAP1_parental_75_WT_DNA	18	19871438	GT	G	360	PASS	-	Del	-	1	9	POLM	child	18_19871438_GTG_POLM	1	1	1	T	8	T	Repeat-mediated
fcb118ec-329b-11e6-b549-1e5325c9da85	10_128045898_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	128045898	GA	G	480	PASS	ADAM12	Del	intronic	1	9	MSH6	child	10_128045898_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
fcb2ef0e-3256-11e6-885f-d1947872c165	4_57806602_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	4	57806602	TA	T	420	PASS	REST	Del	downstream	1	9	MSH6	child	4_57806602_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
fcb4587e-3280-11e6-b0da-c38569062303	12_578266_CTC	.	HAP1_POLE_34	HAP1_parental_75_WT_DNA	12	578266	CT	C	660	PASS	B4GALNT3	Del	intronic	1	5	POLE	parent	12_578266_CTC_POLE	1	1	1	T	4	T	Repeat-mediated
fcba99c0-3279-11e6-a05d-037890e2c2e6	12_83678270_CAAC	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	12	83678270	CAA	C	540	PASS	-	Del	-	2	3	FANCC	parent	12_83678270_CAAC_FANCC	2	2	1	A	0	-	Microhomology-mediated
fcbbbd82-328d-11e6-8621-65d8191589db	4_142173892_CAC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	4	142173892	CA	C	600	PASS	RP11-586L23.1	Del	intronic	1	9	FANCC	child	4_142173892_CAC_FANCC	1	1	1	A	8	A	Repeat-mediated
fcbddf12-3270-11e6-b5b8-e0c24a47a305	X_103976091_CTC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	103976091	CT	C	540	PASS	IL1RAPL2	Del	intronic	1	9	MSH6	child	X_103976091_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
fcbdee42-3281-11e6-b1f4-d855f7d33ce3	10_128127623_ACA	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	10	128127623	AC	A	300	PASS	C10orf90	Del	intronic	1	3	NUDT1	child	10_128127623_ACA_NUDT1	1	1	1	C	2	C	Repeat-mediated
fcc2e598-3270-11e6-b5b8-e0c24a47a305	X_103995558_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	103995558	TA	T	660	PASS	IL1RAPL2	Del	intronic	1	9	MSH6	child	X_103995558_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
fcd5312c-3274-11e6-aa3b-ca60a178171f	13_105233740_GGT	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	13	105233740	G	GT	360	PASS	-	Ins	-	1	6	MSH6	child	13_105233740_GGT_MSH6	1	1	-	-	-	-	Ins
fce06948-3323-11e6-8527-5503694da5d2	X_47008731_GTG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	X	47008731	GT	G	420	PASS	RBM10	Del	intronic	1	9	EXO1	child	X_47008731_GTG_EXO1	1	1	1	T	8	T	Repeat-mediated
fce1b7a4-3296-11e6-a8ac-ea4f3dc9300a	6_67514558_ATA	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	6	67514558	AT	A	360	PASS	-	Del	-	1	8	POLB	child	6_67514558_ATA_POLB	1	1	1	T	7	T	Repeat-mediated
fce2ca70-3270-11e6-b923-6726694da5d2	5_110798984_GAG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	5	110798984	GA	G	360	PASS	CAMK4	Del	intronic	1	8	MSH6	child	5_110798984_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
fce75cc8-3254-11e6-b4d0-327a7872c165	11_98336973_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	98336973	GT	G	660	PASS	-	Del	-	1	7	MSH6	child	11_98336973_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
fcec458a-3272-11e6-9dfc-541498ba1142	8_68567193_CTTC	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	8	68567193	CTT	C	947	PASS	CPA6	Del	intronic	2	3	EXO1	parent	8_68567193_CTTC_EXO1	2	2	1	T	0	-	Microhomology-mediated
fcf0ede4-3270-11e6-b5b8-e0c24a47a305	X_104090879_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	X	104090879	GT	G	411	PASS	IL1RAPL2	Del	intronic	1	9	MSH6	child	X_104090879_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
fcf66b4a-328c-11e6-919e-92c36f39e758	2_98496202_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	98496202	AT	A	480	PASS	TMEM131	Del	intronic	1	9	MSH6	child	2_98496202_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
fcfd7dac-328e-11e6-bfa2-581f0e01a414	7_137261602_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	7	137261602	AT	A	780	PASS	DGKI	Del	intronic	1	9	MSH6	child	7_137261602_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
fd22d13c-326c-11e6-92dd-fda8977b3f23	10_36089398_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	10	36089398	AT	A	300	PASS	-	Del	-	1	6	MSH6	child	10_36089398_ATA_MSH6	1	1	1	T	5	T	Repeat-mediated
fd244aca-328b-11e6-8770-3e160e01a414	9_23734820_CAAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	9	23734820	CAA	C	360	PASS	ELAVL2	Del	intronic	2	9	MSH6	child	9_23734820_CAAC_MSH6	2	2	2	AA	7	A	Repeat-mediated
fd269718-329e-11e6-aea7-956725c9da85	3_33188645_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	33188645	GA	G	420	PASS	CRTAP	Del	3prime_UTR_variant	1	7	MSH6	child	3_33188645_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
fd28bc0a-329e-11e6-bc2c-2a5e25c9da85	4_134159704_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	4	134159704	GT	G	420	PASS	-	Del	-	1	7	MSH6	child	4_134159704_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
fd2a266c-3271-11e6-b89d-b2d6b0dab373	4_167259588_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	167259588	AT	A	480	PASS	-	Del	-	1	8	MSH6	child	4_167259588_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
fd2ee1b0-3254-11e6-aedc-3df212ae24cf	19_57121821_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	19	57121821	CT	C	300	PASS	ZNF71	Del	intronic	1	9	MSH6	child	19_57121821_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
fd39342a-3291-11e6-9401-04ed6f39e758	3_140650489_ACA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	140650489	AC	A	360	PASS	-	Del	-	1	1	MSH6	child	3_140650489_ACA_MSH6	1	1	0	-	0	C	None
fd48fc28-3275-11e6-8889-c85efc77b11e	4_143640114_TAT	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	4	143640114	TA	T	420	PASS	INPP4B	Del	intronic	1	7	MSH6	parent	4_143640114_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
fd4c0ac2-3323-11e6-898e-b9f2bbe6aa09	3_127401478_AGA	.	HAP1_POLE_34-9	HAP1_parental_75_WT_DNA	3	127401478	AG	A	480	PASS	ABTB1	Del	downstream	1	3	POLE	child	3_127401478_AGA_POLE	1	1	1	G	2	G	Repeat-mediated
fd552ab2-328d-11e6-bb1e-70e16f39e758	X_12597771_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	12597771	AT	A	600	PASS	FRMPD4	Del	intronic	1	8	MSH6	child	X_12597771_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
fd563a78-327f-11e6-aba2-2800bce6aa09	18_61288789_ATA	.	HAP1_POLM_21-2	HAP1_parental_75_WT_DNA	18	61288789	AT	A	600	PASS	-	Del	-	1	8	POLM	child	18_61288789_ATA_POLM	1	1	1	T	7	T	Repeat-mediated
fd68286e-331f-11e6-84e3-a2cceab8d062	2_31002841_TAT	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	2	31002841	TA	T	840	PASS	CAPN13	Del	intronic	1	5	CHK2	parent	2_31002841_TAT_CHK2	1	1	1	A	4	A	Repeat-mediated
fd6c99c0-328a-11e6-8459-82090e01a414	12_101510032_TGT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	12	101510032	TG	T	600	PASS	ANO4	Del	intronic	1	6	MSH6	child	12_101510032_TGT_MSH6	1	1	1	G	5	G	Repeat-mediated
fd6d225e-329a-11e6-b549-1e5325c9da85	10_70569476_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	10	70569476	CT	C	840	PASS	-	Del	-	1	8	MSH6	child	10_70569476_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
fd764128-3320-11e6-aa01-c73272d7bc54	12_29786760_GACAAGGACAGCG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	12	29786760	GACAAGGACAGC	G	300	PASS	TMTC1	Del	intronic	11	1	EXO1	child	12_29786760_GACAAGGACAGCG_EXO1	11	>=10	0	-	0	-	None
fd7a7ad0-3254-11e6-aedc-3df212ae24cf	19_57199074_CTC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	19	57199074	CT	C	660	PASS	AC007228.5	Del	downstream	1	9	MSH6	child	19_57199074_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
fd890958-3284-11e6-873a-cd2d36fc2f7d	8_91359724_ATA	.	HAP1_NUDT1_41-6	HAP1_parental_75_WT_DNA	8	91359724	AT	A	300	PASS	LINC00534	Del	intronic	1	8	NUDT1	child	8_91359724_ATA_NUDT1	1	1	1	T	7	T	Repeat-mediated
fd8ce242-3290-11e6-9401-04ed6f39e758	3_66975760_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	3	66975760	GA	G	780	PASS	-	Del	-	1	7	MSH6	child	3_66975760_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
fd913298-328b-11e6-8106-81c36f39e758	19_20427330_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	20427330	CA	C	600	PASS	-	Del	-	1	9	MSH6	child	19_20427330_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
fd9fc520-328a-11e6-9f78-a18aa178171f	7_150494692_ATA	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	7	150494692	AT	A	540	PASS	TMEM176A	Del	upstream	1	7	FANCC	child	7_150494692_ATA_FANCC	1	1	1	T	6	T	Repeat-mediated
fd9fceaa-329c-11e6-a5cf-e5abcc638e3d	9_67309783_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	9	67309783	TA	T	327	PASS	-	Del	-	1	8	MSH6	child	9_67309783_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
fda39e56-329a-11e6-8d0f-075325c9da85	14_83949764_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	14	83949764	GA	G	660	PASS	-	Del	-	1	9	MSH6	child	14_83949764_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
fdae92f6-3278-11e6-a05d-037890e2c2e6	12_18961188_ATA	.	HAP1_FANCC_27	HAP1_parental_75_WT_DNA	12	18961188	AT	A	780	PASS	-	Del	-	1	6	FANCC	parent	12_18961188_ATA_FANCC	1	1	1	T	5	T	Repeat-mediated
fdbae89a-3290-11e6-9432-c0e56f39e758	5_170781036_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	5	170781036	CT	C	360	PASS	-	Del	-	1	9	MSH6	child	5_170781036_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
fdbde21a-329b-11e6-8069-175325c9da85	12_122904583_ATA	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	122904583	AT	A	480	PASS	CLIP1	Del	intronic	1	8	MSH6	child	12_122904583_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
fdbfbeb0-329a-11e6-a5cf-205325c9da85	11_70506853_TTCT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	11	70506853	TTC	T	360	PASS	SHANK2	Del	intronic	2	4	MSH6	child	11_70506853_TTCT_MSH6	2	2	2	TC	3	TC	Repeat-mediated
fdc090c4-3254-11e6-89d3-d29498816cf3	2_161064649_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	161064649	TA	T	480	PASS	-	Del	-	1	5	MSH6	child	2_161064649_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
fdc339fa-3254-11e6-9f9d-2c7a7872c165	12_97165460_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	97165460	CA	C	480	PASS	-	Del	-	1	9	MSH6	child	12_97165460_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
fdc66550-3284-11e6-b19c-6afa4430f757	1_81478989_TCT	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	1	81478989	TC	T	780	PASS	-	Del	-	1	2	EXO1	child	1_81478989_TCT_EXO1	1	1	1	C	1	C	Repeat-mediated
fdcbcd10-3270-11e6-8418-1c5942c4520d	3_100107652_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	100107652	TA	T	360	PASS	TOMM70A	Del	intronic	1	5	MSH6	child	3_100107652_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
fdcd9dca-3289-11e6-a80b-87090e01a414	11_44049717_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	11	44049717	TA	T	360	PASS	-	Del	-	1	8	MSH6	child	11_44049717_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
fdedfe82-328c-11e6-b4fe-93c36f39e758	12_89018685_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	89018685	TA	T	480	PASS	-	Del	-	1	8	MSH6	child	12_89018685_TAT_MSH6	1	1	1	A	7	A	Repeat-mediated
fe039f80-326e-11e6-b306-b5204b47a305	2_210762298_TAT	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	2	210762298	TA	T	480	PASS	UNC80	Del	intronic	1	9	MSH6	child	2_210762298_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
fe04cb82-328f-11e6-92cf-bf2a0e01a414	6_75630993_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	6	75630993	AT	A	420	PASS	-	Del	-	1	9	MSH6	child	6_75630993_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
fe052c2c-3257-11e6-acc5-308412ae24cf	5_116321250_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	116321250	GA	G	600	PASS	-	Del	-	1	7	MSH6	child	5_116321250_GAG_MSH6	1	1	1	A	6	A	Repeat-mediated
fe05a196-3290-11e6-9d97-efe56f39e758	4_160431999_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	4	160431999	AT	A	480	PASS	-	Del	-	1	9	MSH6	child	4_160431999_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
fe22f476-328b-11e6-88c1-95c36f39e758	14_48869996_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	14	48869996	TA	T	600	PASS	RP11-2G1.1	Del	intronic	1	9	MSH6	child	14_48869996_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
fe25fc2a-3272-11e6-83ef-69fb06e9a829	18_44050483_CTC	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	18	44050483	CT	C	300	PASS	-	Del	-	1	9	MSH6	child	18_44050483_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
fe26acca-3253-11e6-89d3-d29498816cf3	2_50641650_GTG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	2	50641650	GT	G	300	PASS	NRXN1	Del	intronic	1	7	MSH6	child	2_50641650_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
fe27c812-3285-11e6-b093-c9c7b0dab373	2_128752175_TAT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	2	128752175	TA	T	540	PASS	SAP130	Del	intronic	1	7	MSH6	child	2_128752175_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
fe2e1c2e-3296-11e6-a24b-ac3c7a852e0e	6_25179299_GGT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	6	25179299	G	GT	300	PASS	-	Ins	-	1	8	CHK2	child	6_25179299_GGT_CHK2	1	1	-	-	-	-	Ins
fe2fd272-3259-11e6-8340-da9012ae24cf	6_104357337_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	104357337	AT	A	600	PASS	-	Del	-	1	9	MSH6	child	6_104357337_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
fe4eeba8-3259-11e6-8340-da9012ae24cf	6_104419123_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	6	104419123	CA	C	300	PASS	-	Del	-	1	9	MSH6	child	6_104419123_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
fe4f4a94-3295-11e6-b0f9-fcf7d8b4fa2c	X_78151266_CTC	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	X	78151266	CT	C	420	PASS	-	Del	-	1	8	NUDT1	child	X_78151266_CTC_NUDT1	1	1	1	T	7	T	Repeat-mediated
fe4f57ae-328c-11e6-bd84-429305ad5bc4	1_198673581_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	1	198673581	AT	A	540	PASS	PTPRC	Del	intronic	1	8	MSH6	child	1_198673581_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
fe4f870c-328b-11e6-94b1-74090e01a414	17_58927293_AAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	17	58927293	A	AT	300	PASS	BCAS3	Ins	intronic	1	5	MSH6	child	17_58927293_AAT_MSH6	1	1	-	-	-	-	Ins
fe526a90-3299-11e6-ae71-0c5325c9da85	1_9725813_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	9725813	CT	C	960	PASS	PIK3CD	Del	intronic	1	9	MSH6	child	1_9725813_CTC_MSH6	1	1	1	T	8	T	Repeat-mediated
fe54ab84-3280-11e6-88ca-c78169062303	16_33056134_CTC	.	HAP1_FANCC_27-11	HAP1_parental_75_WT_DNA	16	33056134	CT	C	292	PASS	RP11-19N8.4	Del	intronic	1	6	FANCC	child	16_33056134_CTC_FANCC	1	1	1	T	5	T	Repeat-mediated
fe5d2568-326f-11e6-9fba-41ebd8b4fa2c	11_129084315_GTG	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	11	129084315	GT	G	300	PASS	-	Del	-	1	6	MSH6	child	11_129084315_GTG_MSH6	1	1	1	T	5	T	Repeat-mediated
fe5dd99a-3288-11e6-a5b3-3f1ebce6aa09	7_80748714_CCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	7	80748714	C	CT	720	PASS	-	Ins	-	1	2	MSH6	child	7_80748714_CCT_MSH6	1	1	-	-	-	-	Ins
fe5e6796-3285-11e6-99f7-076ea2c71c31	12_131981065_TCT	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	12	131981065	TC	T	420	PASS	RP11-897M7.1	Del	upstream	1	7	MSH6	child	12_131981065_TCT_MSH6	1	1	1	C	6	C	Repeat-mediated
fe639384-3270-11e6-b89d-b2d6b0dab373	4_100805722_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	4	100805722	CA	C	480	PASS	LAMTOR3	Del	intronic	1	9	MSH6	child	4_100805722_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
fe65284c-3285-11e6-a8af-066ea2c71c31	15_88410038_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	15	88410038	CT	C	540	PASS	-	Del	-	1	8	MSH6	child	15_88410038_CTC_MSH6	1	1	1	T	7	T	Repeat-mediated
fe68542e-3256-11e6-acc5-308412ae24cf	5_43359889_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	5	43359889	AT	A	660	PASS	-	Del	-	1	7	MSH6	child	5_43359889_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
fe6d639a-326c-11e6-adc2-b7204b47a305	18_33399261_CAC	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	18	33399261	CA	C	300	PASS	-	Del	-	1	8	MSH6	child	18_33399261_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
fe8028a8-3254-11e6-81f9-42f212ae24cf	17_74205325_GAG	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	17	74205325	GA	G	660	PASS	RNF157	Del	intronic	1	5	MSH6	child	17_74205325_GAG_MSH6	1	1	1	A	4	A	Repeat-mediated
fe8ae878-3287-11e6-8404-8e1fbce6aa09	8_76597811_ATA	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	8	76597811	AT	A	360	PASS	-	Del	-	1	8	MSH6	child	8_76597811_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
fe907fea-3287-11e6-a21c-b819bce6aa09	X_154380730_CTC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	X	154380730	CT	C	420	PASS	MTCP1	Del	upstream	1	7	MSH6	child	X_154380730_CTC_MSH6	1	1	1	T	6	T	Repeat-mediated
fe90d6f6-328d-11e6-95e7-278b54de4fc4	20_5217169_CTC	.	HAP1_CHK2_56-12	HAP1_parental_75_WT_DNA	20	5217169	CT	C	420	PASS	-	Del	-	1	8	CHK2	child	20_5217169_CTC_CHK2	1	1	1	T	7	T	Repeat-mediated
fe96d4e8-3288-11e6-bf15-aeb06f39e758	6_34297423_TAT	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	6	34297423	TA	T	410	PASS	NUDT3	Del	intronic	1	9	EXO1	child	6_34297423_TAT_EXO1	1	1	1	A	8	A	Repeat-mediated
fe9b8d86-3273-11e6-8d20-7365cde16804	5_38638510_GAAGAG	.	HAP1_MSH6_30	HAP1_parental_75_WT_DNA	5	38638510	GAAGA	G	480	PASS	-	Del	-	4	2	MSH6	parent	5_38638510_GAAGAG_MSH6	4	4	4	AAGA	1	AAGA	Repeat-mediated
fea2f6a2-3327-11e6-9eb4-dd99cf737e61	8_18034102_TTTTTTTTTTG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	8	18034102	T	TTTTTTTTTG	420	PASS	NAT1	Ins	intronic	9	0	EXO1	child	8_18034102_TTTTTTTTTTG_EXO1	9	9	-	-	-	-	Ins
feab631e-328c-11e6-b4fe-93c36f39e758	12_89415996_GAG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	12	89415996	GA	G	420	PASS	RP11-13A1.1	Del	upstream	1	8	MSH6	child	12_89415996_GAG_MSH6	1	1	1	A	7	A	Repeat-mediated
febb12e0-3346-11e6-b5ef-938f38e8a824	13_30646180_GGC	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	13	30646180	G	GC	360	PASS	-	Ins	-	1	3	FANCC	child	13_30646180_GGC_FANCC	1	1	-	-	-	-	Ins
fec54e62-3257-11e6-9d15-298312ae24cf	X_88970514_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	X	88970514	CA	C	396	PASS	-	Del	-	1	8	MSH6	child	X_88970514_CAC_MSH6	1	1	1	A	7	A	Repeat-mediated
fececbfa-329c-11e6-ae71-0c5325c9da85	1_182646205_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	182646205	CA	C	420	PASS	RGS8	Del	upstream	1	9	MSH6	child	1_182646205_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
feced0be-328d-11e6-b6a6-1f1e0e01a414	4_94668197_CAC	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	4	94668197	CA	C	360	PASS	GRID2	Del	intronic	1	9	MSH6	child	4_94668197_CAC_MSH6	1	1	1	A	8	A	Repeat-mediated
fed02f66-329e-11e6-aea7-956725c9da85	3_33647812_TAT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	3	33647812	TA	T	540	PASS	CLASP2	Del	intronic	1	9	MSH6	child	3_33647812_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
fed10a8c-328d-11e6-919e-92c36f39e758	2_170457744_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	170457744	AT	A	780	PASS	PPIG	Del	intronic	1	7	MSH6	child	2_170457744_ATA_MSH6	1	1	1	T	6	T	Repeat-mediated
fed4b568-3285-11e6-bec9-6bfa4430f757	10_6082119_TTTGA	.	HAP1_EXO1_40-1	HAP1_parental_75_WT_DNA	10	6082119	T	TTGA	600	PASS	IL2RA	Ins	intronic	3	0	EXO1	child	10_6082119_TTTGA_EXO1	3	3	-	-	-	-	Ins
fed69e3c-329e-11e6-91d0-016425c9da85	7_90587831_CTC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	7	90587831	CT	C	720	PASS	CDK14	Del	intronic	1	6	MSH6	child	7_90587831_CTC_MSH6	1	1	1	T	5	T	Repeat-mediated
fed7b5ee-3323-11e6-84ae-c56036fc2f7d	4_138821647_ATA	.	HAP1_CHK2_56	HAP1_parental_75_WT_DNA	4	138821647	AT	A	1080	PASS	-	Del	-	1	8	CHK2	parent	4_138821647_ATA_CHK2	1	1	1	T	7	T	Repeat-mediated
fee0615c-3284-11e6-be43-0a6ea2c71c31	10_55904282_GTG	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	10	55904282	GT	G	480	PASS	PCDH15	Del	intronic	1	7	MSH6	child	10_55904282_GTG_MSH6	1	1	1	T	6	T	Repeat-mediated
fee2b062-3291-11e6-9a6c-80dad8b4fa2c	18_62491910_CAGC	.	HAP1_NUDT1_41-12	HAP1_parental_75_WT_DNA	18	62491910	CAG	C	300	PASS	-	Del	-	2	2	NUDT1	child	18_62491910_CAGC_NUDT1	2	2	2	AG	1	AG	Repeat-mediated
fee7e2b6-328d-11e6-bb1e-70e16f39e758	X_13160562_TAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	13160562	TA	T	480	PASS	-	Del	-	1	5	MSH6	child	X_13160562_TAT_MSH6	1	1	1	A	4	A	Repeat-mediated
ff0f7cb8-3256-11e6-a304-347a7872c165	1_239237473_CAC	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	1	239237473	CA	C	300	PASS	-	Del	-	1	4	MSH6	child	1_239237473_CAC_MSH6	1	1	1	A	3	A	Repeat-mediated
ff10aae0-3321-11e6-98d8-e3f9cf737e61	17_73319949_GGCTCAGTCTCGGCTCACTGCAACCTCTG	.	HAP1_EXO1_40-2	HAP1_parental_75_WT_DNA	17	73319949	GGCTCAGTCTCGGCTCACTGCAACCTCT	G	269	PASS	GRB2	Del	intronic	27	1	EXO1	child	17_73319949_GGCTCAGTCTCGGCTCACTGCAACCTCTG_EXO1	27	>=10	2	GC	0	-	Microhomology-mediated
ff12987a-3284-11e6-97d5-6cf1bbe6aa09	17_45704920_CGC	.	HAP1_MSH6_30-5	HAP1_parental_75_WT_DNA	17	45704920	CG	C	330	PASS	NPEPPS	Del	downstream	1	7	MSH6	child	17_45704920_CGC_MSH6	1	1	1	G	6	G	Repeat-mediated
ff153844-3281-11e6-8c30-2208694da5d2	4_87983063_CTC	.	HAP1_NEIL1_3-4	HAP1_parental_75_WT_DNA	4	87983063	CT	C	300	PASS	AFF1	Del	intronic	1	7	NEIL1	child	4_87983063_CTC_NEIL1	1	1	1	T	6	T	Repeat-mediated
ff285966-328a-11e6-9539-3490a178171f	3_115005257_GTG	.	HAP1_FANCC_27-6	HAP1_parental_75_WT_DNA	3	115005257	GT	G	360	PASS	RP11-190P13.2	Del	downstream	1	9	FANCC	child	3_115005257_GTG_FANCC	1	1	1	T	8	T	Repeat-mediated
ff2ccbe8-3291-11e6-9918-e08630158702	10_44075282_TAT	.	HAP1_NUDT1_41-2	HAP1_parental_75_WT_DNA	10	44075282	TA	T	420	PASS	-	Del	-	1	7	NUDT1	child	10_44075282_TAT_NUDT1	1	1	1	A	6	A	Repeat-mediated
ff2e47d0-3290-11e6-a043-93e7977b3f23	3_108439549_ACA	.	HAP1_NEIL1_3-7	HAP1_parental_75_WT_DNA	3	108439549	AC	A	360	PASS	-	Del	-	1	1	NEIL1	child	3_108439549_ACA_NEIL1	1	1	0	-	0	C	None
ff2ef9e6-3259-11e6-8cd9-139b7872c165	3_188606737_AGA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	3	188606737	AG	A	480	PASS	LPP	Del	3prime_UTR_variant	1	3	MSH6	child	3_188606737_AGA_MSH6	1	1	1	G	2	G	Repeat-mediated
ff33b754-3292-11e6-89b3-f12a3dc9300a	15_59218995_TAGT	.	HAP1_POLB_35-1	HAP1_parental_75_WT_DNA	15	59218995	TAG	T	540	PASS	SLTM	Del	intronic	2	3	POLB	child	15_59218995_TAGT_POLB	2	2	2	AG	2	AG	Repeat-mediated
ff4984ca-327f-11e6-8c98-e78c90e2c2e6	4_146456813_GAG	.	HAP1_NUDT1_41-8	HAP1_parental_75_WT_DNA	4	146456813	GA	G	540	PASS	SMAD1	Del	intronic	1	7	NUDT1	child	4_146456813_GAG_NUDT1	1	1	1	A	6	A	Repeat-mediated
ff4e9d18-328c-11e6-919e-92c36f39e758	2_99302992_GTG	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	99302992	GT	G	420	PASS	MGAT4A	Del	intronic	1	9	MSH6	child	2_99302992_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
ff4ed9b4-3277-11e6-8440-785ac225ee11	20_35201277_CCATGA	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	20	35201277	C	CATGA	600	PASS	TGIF2	Ins	upstream	4	0	NUDT1	child	20_35201277_CCATGA_NUDT1	4	4	-	-	-	-	Ins
ff504f7c-326f-11e6-8325-b737c225ee11	1_71034042_GTG	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	1	71034042	GT	G	720	PASS	-	Del	-	1	2	NUDT1	child	1_71034042_GTG_NUDT1	1	1	1	T	1	T	Repeat-mediated
ff757d16-328c-11e6-8e48-791e0e01a414	8_30851245_TAT	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	8	30851245	TA	T	480	PASS	PURG	Del	downstream	1	9	MSH6	child	8_30851245_TAT_MSH6	1	1	1	A	8	A	Repeat-mediated
ff765c7a-3289-11e6-b8e0-dcb35d753391	7_3200683_CGTC	.	HAP1_POLE_34-11	HAP1_parental_75_WT_DNA	7	3200683	CGT	C	360	PASS	-	Del	-	2	5	POLE	child	7_3200683_CGTC_POLE	2	2	2	GT	4	GT	Repeat-mediated
ff76cfd6-3273-11e6-9e18-3a69671699ea	10_107610885_GAG	.	HAP1_MSH6_30-16	HAP1_parental_75_WT_DNA	10	107610885	GA	G	408	PASS	-	Del	-	1	6	MSH6	child	10_107610885_GAG_MSH6	1	1	1	A	5	A	Repeat-mediated
ff7a651a-328c-11e6-ae53-96c36f39e758	15_74596251_CTC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	15	74596251	CT	C	480	PASS	CCDC33	Del	intronic	1	5	MSH6	child	15_74596251_CTC_MSH6	1	1	1	T	4	T	Repeat-mediated
ff7a6a88-3273-11e6-bb11-3076a78019ab	14_37402464_GCG	.	HAP1_NEIL1_3-6	HAP1_parental_75_WT_DNA	14	37402464	GC	G	660	PASS	SLC25A21	Del	intronic	1	4	NEIL1	child	14_37402464_GCG_NEIL1	1	1	1	C	3	C	Repeat-mediated
ff7cbae2-3253-11e6-bf41-357a7872c165	10_29124306_TAT	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	10	29124306	TA	T	540	PASS	-	Del	-	1	7	MSH6	child	10_29124306_TAT_MSH6	1	1	1	A	6	A	Repeat-mediated
ff8b24b4-328b-11e6-8106-81c36f39e758	19_20948613_CAC	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	19	20948613	CA	C	400	PASS	-	Del	-	1	7	MSH6	child	19_20948613_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
ff8e87c6-328b-11e6-b805-77090e01a414	2_182888535_ATA	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	2	182888535	AT	A	600	PASS	PPP1R1C	Del	intronic	1	9	MSH6	child	2_182888535_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
ff9075b4-328f-11e6-850b-ec0b9c6d3b88	4_47912372_TAT	.	HAP1_POLB_35-5	HAP1_parental_75_WT_DNA	4	47912372	TA	T	360	PASS	NFXL1	Del	intronic	1	3	POLB	child	4_47912372_TAT_POLB	1	1	1	A	2	A	Repeat-mediated
ff921ff8-3286-11e6-86e9-d4770d016689	X_117897889_ACA	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	X	117897889	AC	A	300	PASS	IL13RA1	Del	intronic	1	1	EXO1	child	X_117897889_ACA_EXO1	1	1	0	-	0	C	None
ff92cb44-3289-11e6-a7cf-80090e01a414	15_55010990_GTG	.	HAP1_MSH6_30-9	HAP1_parental_75_WT_DNA	15	55010990	GT	G	300	PASS	-	Del	-	1	9	MSH6	child	15_55010990_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
ff93dde4-328f-11e6-bb1e-70e16f39e758	X_135956397_TGGAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	X	135956397	TGGA	T	708	PASS	RBMX	Del	inframe	3	2	MSH6	child	X_135956397_TGGAT_MSH6	3	3	3	GGA	1	GGA	Repeat-mediated
ff9cec36-3253-11e6-b4d0-327a7872c165	11_31922767_ATA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	11	31922767	AT	A	540	PASS	-	Del	-	1	9	MSH6	child	11_31922767_ATA_MSH6	1	1	1	T	8	T	Repeat-mediated
ffa01f6c-32a0-11e6-a04f-c66a25c9da85	6_109914588_CAC	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	6	109914588	CA	C	1137	PASS	AK9	Del	intronic	1	7	MSH6	child	6_109914588_CAC_MSH6	1	1	1	A	6	A	Repeat-mediated
ffa22c5a-328f-11e6-b52f-4eeb6f39e758	22_34409697_ATA	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	22	34409697	AT	A	720	PASS	LL22NC03-86D4.1	Del	upstream	1	8	MSH6	child	22_34409697_ATA_MSH6	1	1	1	T	7	T	Repeat-mediated
ffa5da30-3285-11e6-9546-b5936f39e758	15_92374988_GTG	.	HAP1_EXO1_40-5	HAP1_parental_75_WT_DNA	15	92374988	GT	G	300	PASS	-	Del	-	1	7	EXO1	child	15_92374988_GTG_EXO1	1	1	1	T	6	T	Repeat-mediated
ffaca27c-326f-11e6-8418-1c5942c4520d	3_5532223_ATA	.	HAP1_MSH6_30-2	HAP1_parental_75_WT_DNA	3	5532223	AT	A	480	PASS	-	Del	-	1	5	MSH6	child	3_5532223_ATA_MSH6	1	1	1	T	4	T	Repeat-mediated
ffad290e-326f-11e6-9dd9-e411987b3f23	2_99727131_CAC	.	HAP1_NEIL1_3-3	HAP1_parental_75_WT_DNA	2	99727131	CA	C	960	PASS	TSGA10	Del	intronic	1	8	NEIL1	child	2_99727131_CAC_NEIL1	1	1	1	A	7	A	Repeat-mediated
ffb0311e-3290-11e6-9413-6a7219a91649	5_19708554_CAC	.	HAP1_NEIL1_3-2	HAP1_parental_75_WT_DNA	5	19708554	CA	C	480	PASS	CDH18	Del	intronic	1	9	NEIL1	child	5_19708554_CAC_NEIL1	1	1	1	A	8	A	Repeat-mediated
ffb5e634-328d-11e6-94e1-63e1191589db	3_51295942_CTC	.	HAP1_FANCC_27-1	HAP1_parental_75_WT_DNA	3	51295942	CT	C	300	PASS	DOCK3	Del	intronic	1	9	FANCC	child	3_51295942_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
ffc03208-328b-11e6-b8e6-91c36f39e758	11_29563121_TTACTAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	11	29563121	TTACTA	T	420	PASS	CTD-3012A18.1	Del	intronic	5	1	MSH6	child	11_29563121_TTACTAT_MSH6	5	5	3	TAC	0	-	Microhomology-mediated
ffc0b6b4-327d-11e6-a700-ff0e9ecd0b3a	4_21860012_AGA	.	HAP1_POLM_21-12	HAP1_parental_75_WT_DNA	4	21860012	AG	A	840	PASS	KCNIP4	Del	intronic	1	1	POLM	child	4_21860012_AGA_POLM	1	1	0	-	0	G	None
ffc2a2e6-3299-11e6-8069-175325c9da85	12_8984331_GTG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	12	8984331	GT	G	660	PASS	A2ML1	Del	intronic	1	9	MSH6	child	12_8984331_GTG_MSH6	1	1	1	T	8	T	Repeat-mediated
ffcc2530-3255-11e6-9f9d-2c7a7872c165	12_20017273_TTA	.	HAP1_MSH6_30-18	HAP1_parental_75_WT_DNA	12	20017273	T	TA	720	PASS	RP11-405A12.2	Ins	intronic	1	1	MSH6	child	12_20017273_TTA_MSH6	1	1	-	-	-	-	Ins
ffd7cb40-329d-11e6-ae71-0c5325c9da85	1_240777049_GAG	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	240777049	GA	G	600	PASS	GREM2	Del	upstream	1	9	MSH6	child	1_240777049_GAG_MSH6	1	1	1	A	8	A	Repeat-mediated
ffdbe62a-3294-11e6-a24b-ac3c7a852e0e	6_50401607_TCT	.	HAP1_CHK2_56-3	HAP1_parental_75_WT_DNA	6	50401607	TC	T	420	PASS	-	Del	-	1	2	CHK2	child	6_50401607_TCT_CHK2	1	1	1	C	1	C	Repeat-mediated
ffe50a54-328d-11e6-bc33-715238e8a824	2_31458315_CTC	.	HAP1_FANCC_27-4	HAP1_parental_75_WT_DNA	2	31458315	CT	C	540	PASS	EHD3	Del	intronic	1	9	FANCC	child	2_31458315_CTC_FANCC	1	1	1	T	8	T	Repeat-mediated
ffe62b2e-334a-11e6-a997-309d38e8a824	4_188165002_ATA	.	HAP1_FANCC_27-3	HAP1_parental_75_WT_DNA	4	188165002	AT	A	300	PASS	-	Del	-	1	9	FANCC	child	4_188165002_ATA_FANCC	1	1	1	T	8	T	Repeat-mediated
ffea98be-3271-11e6-94a5-6c01ebb8d062	8_10158071_TTTTGTTCAGTAGAGATGGGGTTTCACCAGATTGGCCAGGCTACTCGAACTCCTGACCTCAGGTGATGCACCCTCCTCGGCCTCTCAAAGT	.	HAP1_NUDT1_41-11	HAP1_parental_75_WT_DNA	8	10158071	TTTTGTTCAGTAGAGATGGGGTTTCACCAGATTGGCCAGGCTACTCGAACTCCTGACCTCAGGTGATGCACCCTCCTCGGCCTCTCAAAG	T	600	PASS	MSRA	Del	intronic	89	1	NUDT1	child	8_10158071_TTTTGTTCAGTAGAGATGGGGTTTCACCAGATTGGCCAGGCTACTCGAACTCCTGACCTCAGGTGATGCACCCTCCTCGGCCTCTCAAAGT_NUDT1	89	>=10	2	TT	0	-	Microhomology-mediated
ffeaad48-32a0-11e6-ae71-0c5325c9da85	1_168636292_GGT	.	HAP1_MSH6_30-4	HAP1_parental_75_WT_DNA	1	168636292	G	GT	540	PASS	-	Ins	-	1	8	MSH6	child	1_168636292_GGT_MSH6	1	1	-	-	-	-	Ins
ffed0212-328e-11e6-919e-92c36f39e758	2_233004418_TTATAGGACAGAGGCCTCTTTGCTAAAAGAT	.	HAP1_MSH6_30-6	HAP1_parental_75_WT_DNA	2	233004418	TTATAGGACAGAGGCCTCTTTGCTAAAAGA	T	540	PASS	DIS3L2	Del	intronic	29	1	MSH6	child	2_233004418_TTATAGGACAGAGGCCTCTTTGCTAAAAGAT_MSH6	29	>=10	1	T	0	-	Microhomology-mediated
fffcabda-3271-11e6-9210-65fa620e6611	5_9995366_TCAATATTGTGAAAATGGCCACT	.	HAP1_EXO1_40	HAP1_parental_75_WT_DNA	5	9995366	TCAATATTGTGAAAATGGCCAC	T	498	PASS	-	Del	-	21	1	EXO1	parent	5_9995366_TCAATATTGTGAAAATGGCCACT_EXO1	21	>=10	0	-	0	-	None