id	chrl	l5	l3	chrh	h5	h3	stl	sth	paired.Flag	PD9770a	PD9770c	PD9770d	brass1.presence.summary	brass2_chr_from	brass2_strand_from	brass2_loc_from_min	brass2_loc_from_max	brass2_microhomology	brass2_nontemplated_insertion	brass2_chr_to	brass2_strand_to	brass2_loc_to_min	brass2_loc_to_max	brass2_score	distance.between.breakpoints	a_CN	c_CN	d_CN	CN.presence.regions	val.verdict	val.platform	consensus.regions	confidence	color	TIMING
3	1	35054624	35054824	1	35160955	35161361	-	+	4	0	6	0	(-c-)	1	-	35054738	35054735	CCA	null	1	-	35161061	35161058	98	106323	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
5	1	35093466	35093890	1	65149248	65149579	-	+	4	0	5	0	(-c-)	1	-	35093775	0	null	null	1	-	65149353	0	98	30055578	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
7	1	36471960	36472285	1	52127019	52127470	+	+	1	7	7	0	(ac-)	1	+	36472054	0	null	null	1	-	52127112	0	100	15655058	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
8	1	36565993	36566428	1	69847369	69847763	-	+	4	5	3	0	(ac-)	1	-	36566327	36566325	AT	null	1	-	69847503	69847501	99	33281176	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
9	1	51287065	51287518	1	69847210	69847580	+	-	2	3	6	0	(ac-)	1	+	51287212	51287213	T	null	1	+	69847470	69847471	99	18560258	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
12	1	65121275	65121701	14	28269791	28270292	-	+	32	0	9	0	(-c-)	1	-	65121657	0	null	GTTCTTTATCCTTCTTAGTACACAGAAAATGTTCAATAAGTAGTTTGTAAAGGGATGA	14	-	28269956	0	99	NA	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
17	1	84107800	84108220	1	95459753	95460142	-	-	8	0	0	8	(--d)	1	-	84108091	0	null	ACT	1	+	95460032	0	95	11351941	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
18	1	90160421	90160645	1	90162481	90162842	-	-	8	0	0	12	(--d)	1	-	90160548	0	null	AATAT	1	+	90162747	0	97	2199	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
19	1	93037529	93037783	1	93041021	93041292	-	-	8	0	0	77	(--d)	1	-	93037688	93037684	TTAA	null	1	+	93041198	93041202	94	3510	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
20	1	93136431	93136818	1	93152069	93152427	-	-	8	0	0	13	(--d)	1	-	93136685	0	null	CTATACAC	1	+	93152286	0	100	15601	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
21	1	93142267	93142566	1	93152094	93152480	+	-	2	0	0	13	(--d)	1	+	93142380	93142381	T	null	1	+	93152364	93152365	100	9984	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
22	1	93205293	93205629	1	93208455	93208721	+	+	1	0	0	37	(--d)	1	+	93205384	93205386	AC	null	1	-	93208549	93208547	98	3165	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
23	1	93665130	93665480	1	93666051	93666451	+	+	1	0	0	5	(--d)	1	+	93665233	93665236	AGG	null	1	-	93666244	93666241	95	1011	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
24	1	93818447	93818835	10	63880357	63880657	-	+	32	6	0	0	(a--)	1	-	93818734	93818723	ATGCCTGTAAT	null	10	-	63880461	63880450	99	NA	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
25	1	94240822	94241134	1	95272359	95272622	+	-	2	0	0	47	(--d)	1	+	94240912	94240913	C	null	1	+	95272527	95272528	99	1031615	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
26	1	94389775	94390048	1	94390915	94391209	-	-	8	0	0	26	(--d)	1	-	94389958	94389955	GAT	null	1	+	94391107	94391110	90	1149	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
28	1	95337145	95337394	1	95337940	95338245	-	-	8	0	0	28	(--d)	1	-	95337293	95337292	T	null	1	+	95338132	95338133	90	839	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
27	1	95337359	95337589	1	95600508	95600730	+	+	1	0	0	60	(--d)	1	+	95337443	95337447	CAAA	null	1	-	95600603	95600599	99	263160	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
29	1	97496546	97496844	1	97498599	97498895	+	+	1	0	0	49	(--d)	1	+	97496636	97496640	CAAA	null	1	-	97498691	97498687	95	2055	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
30	1	106608721	106608976	1	106609499	106609748	+	-	2	14	4	9	(acd)	1	+	106608812	106608813	A	null	1	+	106609653	106609654	90	841	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
32	1	119210039	119210340	1	119213318	119213620	-	-	8	0	9	0	(-c-)	1	-	119210236	119210232	GCAT	null	1	+	119213503	119213507	98	3267	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
33	1	119752256	119752586	1	119755882	119756416	+	+	1	0	4	0	(-c-)	1	+	119752358	0	null	null	1	-	119756052	0	98	3694	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
35	1	151624767	151625041	8	32385663	32385959	-	+	32	10	8	0	(ac-)	1	-	151624948	151624946	AC	null	8	-	32385753	32385751	100	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
36	1	151664403	151664710	1	151665722	151666078	+	+	1	9	11	0	(ac-)	1	+	151664496	151664498	GA	null	1	-	151665835	151665833	99	1339	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
39	1	174009985	174010436	1	174015471	174015837	-	+	4	8	0	0	(a--)	1	-	174010339	174010338	T	null	1	-	174015562	174015561	99	5223	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
41	1	219818995	219819457	1	219936694	219937090	-	+	4	5	0	0	(a--)	1	-	219819366	219819363	TAT	null	1	-	219936890	219936887	97	117524	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
44	2	16573	17040	2	27551	27959	+	+	1	8	0	0	(a--)	2	+	16670	16671	C	null	2	-	27688	27687	95	11018	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
46	2	92091	92472	9	47201435	47202004	-	-	32	0	6	0	(-c-)	2	-	92376	0	null	null	9	+	47201838	0	98	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	c	MEDIUM	red	NA
47	2	166603	166925	21	28974867	28975184	-	+	32	11	37	0	(ac-)	2	-	166821	0	null	null	21	-	28974961	0	98	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
48	2	168125	168459	8	41821450	41821828	+	-	32	9	12	0	(ac-)	2	+	168227	168228	A	null	8	+	41821721	41821722	99	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
50	2	240557	240920	8	41392842	41393158	-	+	32	4	4	2	(acd)	2	-	240800	240795	TTTTC	null	8	-	41392935	41392930	99	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
52	2	856753	857153	8	34347704	34348001	-	-	32	0	0	46	(--d)	2	-	857048	0	null	null	8	+	34347907	0	67	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
53	2	1210085	1210341	2	3079694	3079953	+	+	1	0	0	19	(--d)	2	+	1210183	0	null	null	2	-	3079788	0	92	1869605	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
54	2	1210774	1211267	8	34925972	34926357	-	-	32	0	0	12	(--d)	2	-	1211140	0	null	TACAATGTTTTAAAATAAAATAAAATATTAAAACAAAAAGA	8	+	34926275	0	99	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
55	2	1300866	1301272	8	34925924	34926282	+	+	32	0	0	15	(--d)	2	+	1301003	1301004	C	null	8	-	34926035	34926034	98	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
56	2	1907230	1907611	2	3071633	3071928	-	-	8	0	0	22	(--d)	2	-	1907516	0	null	null	2	+	3071804	0	89	1164288	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
57	2	2028875	2029232	2	2031838	2032113	+	+	1	0	0	9	(--d)	2	+	2028986	0	null	C	2	-	2031953	0	97	2967	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
58	2	2066343	2066715	8	31430397	31430856	-	-	32	0	0	5	(--d)	2	-	2066611	2066609	AC	null	8	+	31430732	31430734	80	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
59	2	2253722	2254259	5	32698768	32699105	-	-	32	0	0	5	(--d)	2	-	2254133	2254128	GCAAA	null	5	+	32698973	32698978	97	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
60	2	3068050	3068397	8	28452326	28452602	-	+	32	0	0	21	(--d)	2	-	3068301	0	null	TTCCCATTTTATGGAATGGGATGGAAAGAGACTGAG	8	-	28452419	0	98	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
61	2	3074020	3074287	2	3197500	3197753	+	-	2	0	0	13	(--d)	2	+	3074108	3074111	GAA	null	2	+	3197655	3197658	93	123547	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
66	2	3307433	3307834	8	20099511	20099764	+	-	32	0	0	24	(--d)	2	+	3307529	3307530	G	null	8	+	20099670	20099671	64	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
67	2	3314684	3314933	8	19846170	19846531	-	+	32	0	0	32	(--d)	2	-	3314899	0	null	GTTTGCTTGCCAGTTTTCAAAGCACTTTTTAAGCTATTGCAATGTGATATTTCTGGTAATCG	8	-	19846267	0	96	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
68	2	3318189	3318522	8	35879523	35879885	+	-	32	0	0	37	(--d)	2	+	3318280	3318283	TGG	null	8	+	35879782	35879785	100	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
69	2	3961703	3961965	5	28243684	28243984	+	-	32	0	0	20	(--d)	2	+	3961800	0	null	null	5	+	28243862	0	100	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
70	2	4238458	4238850	8	20048135	20048369	-	+	32	0	0	7	(--d)	2	-	4238750	0	null	null	8	-	20048242	0	94	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
71	2	4674549	4674822	8	28681660	28681918	+	+	32	0	0	13	(--d)	2	+	4674644	0	null	null	8	-	28681757	0	99	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
72	2	4675829	4676167	8	28719005	28719360	-	+	32	0	0	7	(--d)	2	-	4676006	4676004	TG	null	8	-	28719114	28719112	97	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
73	2	4721953	4722427	8	19861415	19861775	+	-	32	0	0	4	(--d)	2	+	4722091	4722094	CAG	null	8	+	19861670	19861673	99	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
74	2	4752288	4752566	8	36316615	36317000	-	-	32	0	0	12	(--d)	2	-	4752447	0	null	G	8	+	36316891	0	100	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
76	2	6745094	6745500	6	33304243	33304611	-	-	32	0	5	0	(-c-)	2	-	6745323	6745322	C	null	6	+	33304514	33304515	97	NA	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
78	2	6780064	6780521	2	8816150	8816623	+	-	2	0	4	0	(-c-)	2	+	6780197	0	null	null	2	+	8816513	0	99	2036316	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
79	2	8563501	8563835	21	31224864	31225275	+	+	32	0	0	12	(--d)	2	+	8563607	0	null	null	21	-	31225006	0	100	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
80	2	8825382	8825954	7	96943173	96943512	+	-	32	0	4	0	(-c-)	2	+	8825518	8825519	G	null	7	+	96943388	96943389	98	NA	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
82	2	10954236	10954532	2	10979076	10979442	-	-	8	0	0	4	(--d)	2	-	10954357	0	null	TGGT	2	+	10979340	0	70	24983	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
83	2	10964062	10964457	2	11264063	11264495	+	-	2	0	0	4	(--d)	2	+	10964183	10964184	C	null	2	+	11264360	11264361	79	300177	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
84	2	11442868	11443201	8	30450514	30450889	-	-	32	0	0	12	(--d)	2	-	11443112	11443109	AAA	null	8	+	30450786	30450789	99	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
85	2	11611549	11611856	21	27505524	27505817	+	-	32	10	10	42	(acd)	2	+	11611638	11611641	CAA	null	21	+	27505727	27505730	100	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
86	2	12675371	12675628	5	74039812	74040128	-	-	32	8	6	7	(acd)	2	-	12675527	12675525	AC	null	5	+	74040035	74040037	87	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
87	2	25545960	25546280	2	25559858	25560234	+	-	2	0	5	0	(-c-)	2	+	25546064	25546068	TCAG	null	2	+	25560119	25560123	95	14055	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
88	2	28193782	28194308	2	74991325	74991792	-	+	4	0	4	0	(-c-)	2	-	28194195	0	null	null	2	-	74991435	0	99	46797240	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
91	2	31001847	31002217	2	31112383	31112766	-	+	4	4	0	0	(a--)	2	-	31002103	31002102	C	null	2	-	31112477	31112476	98	110374	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
92	2	31333786	31334120	2	50285610	50285971	+	-	2	0	22	0	(-c-)	2	+	31333880	0	null	null	2	+	50285874	0	99	18951994	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
93	2	50091304	50091603	7	57790345	57790632	-	+	32	0	15	0	(-c-)	2	-	50091500	0	null	ATA	7	-	57790446	0	71	NA	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
94	2	50644164	50644549	2	50644782	50645160	+	+	1	0	11	0	(-c-)	2	+	50644254	50644258	TTTC	null	2	-	50644891	50644887	90	637	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
95	2	63349174	63349483	2	64086502	64086842	+	-	2	0	9	0	(-c-)	2	+	63349274	63349278	CTGA	null	2	+	64086730	64086734	98	737456	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
96	2	72524546	72524979	2	73946904	73947342	+	-	2	0	5	0	(-c-)	2	+	72524666	0	null	AGAA	2	+	73947223	0	100	1422557	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
98	2	81005215	81005515	6	68947252	68947757	-	+	32	0	5	0	(-c-)	2	-	81005380	81005377	GGT	null	6	-	68947361	68947358	98	NA	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
105	2	141973720	141974200	2	142078348	142078792	+	-	2	6	2	0	(ac-)	2	+	141973825	0	null	T	2	+	142078625	0	95	104800	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
106	2	142296017	142296331	2	142343059	142343415	+	-	2	3	6	0	(ac-)	2	+	142296137	142296140	TAC	null	2	+	142343315	142343318	68	47178	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
108	2	151607436	151607881	2	151820141	151820465	-	-	8	5	0	0	(a--)	2	-	151607753	0	null	TAGACATTTCTCTGATGATTAATACTATTTTTAATATTAATTAATTAAT	2	+	151820356	0	80	212603	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
109	2	151826792	151827143	2	151847789	151848112	+	+	1	10	0	0	(a--)	2	+	151826885	0	null	TAATTAATTAT	2	-	151847907	0	98	21022	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
110	2	169101243	169101672	2	169120740	169121045	-	+	4	7	0	0	(a--)	2	-	169101579	169101577	AG	null	2	-	169120840	169120838	65	19261	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
117	3	4923780	4924058	3	5021858	5022290	+	-	2	0	7	0	(-c-)	3	+	4923892	0	null	null	3	+	5022186	0	84	98294	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
119	3	15340898	15341200	3	15407212	15407622	-	+	4	5	0	0	(a--)	3	-	15341095	15341093	CA	null	3	-	15407329	15407327	98	66234	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
123	3	37754650	37754853	7	120237252	120237552	+	+	32	14	28	11	(acd)	3	+	37754745	37754747	TT	null	7	-	120237344	120237342	100	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
122	3	37754557	37754866	7	152445012	152445347	-	+	32	6	6	12	(acd)	3	-	37754758	37754757	T	null	7	-	152445103	152445102	99	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
124	3	160964134	160964518	3	161107448	161107839	-	+	4	10	0	0	(a--)	3	-	160964417	0	null	AAG	3	-	161107574	0	98	143157	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
125	3	173860079	173860604	3	173871897	173872420	+	-	2	5	0	0	(a--)	3	+	173860223	0	null	TTATGTACATATGTACATAATCATATGTACATAAATCATATGTACATAAATCATATGTACATATGATACATATGTATTTATGTACATATTTACT	3	+	173872303	0	92	12080	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
126	3	177275317	177275655	3	177343577	177344103	-	+	4	0	4	0	(-c-)	3	-	177275535	0	null	TATTGGCTTACAGT	3	-	177343687	0	64	68152	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
127	3	187972911	187973275	3	188001524	188001795	+	-	2	0	8	0	(-c-)	3	+	187973013	0	null	null	3	+	188001685	0	98	28672	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
129	4	6753643	6753889	4	6789311	6789562	+	-	2	11	6	10	(acd)	4	+	6753738	6753740	CC	null	4	+	6789467	6789469	94	35729	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
130	4	53238489	53238800	4	57967159	57967467	+	-	2	7	0	0	(a--)	4	+	53238592	0	null	null	4	+	57967365	0	99	4728773	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
131	4	57114713	57115112	4	57118361	57118746	+	-	2	6	3	0	(ac-)	4	+	57114849	57114853	CATC	null	4	+	57118630	57118634	98	3781	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
132	4	61160850	61161200	4	71791412	71791862	+	+	1	0	0	6	(--d)	4	+	61161036	61161039	AGA	null	4	-	71791509	71791506	99	10630473	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
133	4	61171186	61171487	4	61171597	61171924	-	-	8	0	0	11	(--d)	4	-	61171414	0	null	CGTGGAGATAATTGAATCAGAAGGACAGTTCCCCCATGATATTCTCATGATAGTGAG	4	+	61171814	0	95	400	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
134	4	61171735	61172008	4	81232862	81233313	+	-	2	0	0	11	(--d)	4	+	61171849	61171853	CTCT	null	4	+	81233211	81233215	84	20061362	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
135	4	61189968	61190366	4	76165406	76165981	+	-	2	0	0	5	(--d)	4	+	61190069	0	null	ATAA	4	+	76165753	0	99	14975684	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
136	4	61197618	61197913	4	76252771	76253190	-	+	4	0	0	9	(--d)	4	-	61197815	0	null	ATTGGGTTGTTTTAAAAGTATCGGTTACAA	4	-	76252900	0	98	15055085	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
138	4	61902591	61902954	11	57318365	57318681	+	+	32	9	0	0	(a--)	4	+	61902698	61902701	CAT	null	11	-	57318460	57318457	96	NA	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
139	4	64742006	64742416	4	65318518	65319055	+	+	1	0	0	4	(--d)	4	+	64742209	64742210	T	null	4	-	65318619	65318618	92	576410	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
141	4	66946507	66946984	4	66948409	66948832	-	-	8	0	0	7	(--d)	4	-	66946843	0	null	A	4	+	66948697	0	95	1854	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
142	4	68500901	68501139	4	81644323	81644628	+	-	2	0	0	29	(--d)	4	+	68500992	68500994	AA	null	4	+	81644524	81644526	99	13143532	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
143	4	68500975	68501181	4	80674315	80674615	-	+	4	0	0	15	(--d)	4	-	68501085	68501084	T	null	4	-	80674415	80674414	100	12173330	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
144	4	72460727	72461130	4	72462400	72462759	-	-	8	0	0	11	(--d)	4	-	72460979	0	null	A	4	+	72462658	0	95	1679	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
145	4	72842551	72842912	4	81935671	81935983	+	+	1	0	0	23	(--d)	4	+	72842659	0	null	null	4	-	81935766	0	98	9093107	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
146	4	75577566	75577939	4	76254935	76255363	-	+	4	0	0	8	(--d)	4	-	75577732	75577731	G	null	4	-	76255029	76255028	98	677297	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
147	4	75680470	75680838	4	78303037	78303371	+	-	2	0	0	11	(--d)	4	+	75680638	75680640	AA	null	4	+	78303253	78303255	95	2622615	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
148	4	75680565	75680950	4	76253096	76253625	-	+	4	0	0	5	(--d)	4	-	75680848	75680847	C	null	4	-	76253229	76253228	95	572381	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
149	4	76141233	76141609	4	78263411	78263854	+	+	1	0	0	9	(--d)	4	+	76141375	76141376	T	null	4	-	78263532	78263531	100	2122157	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
150	4	76252586	76253082	4	76252809	76253356	-	-	8	0	0	5	(--d)	4	-	76252957	76252956	A	null	4	+	76253237	76253238	89	280	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
151	4	76255070	76255371	4	80631664	80632050	-	-	8	0	0	13	(--d)	4	-	76255274	0	null	null	4	+	80631905	0	93	4376631	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
152	4	80434956	80435367	4	81619714	81619999	+	+	1	0	0	15	(--d)	4	+	80435094	0	null	ATTC	4	-	81619808	0	99	1184714	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
154	4	87589757	87590228	9	128994337	128994798	+	-	32	6	0	0	(a--)	4	+	87589905	87589906	G	null	9	+	128994687	128994688	64	NA	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
156	4	89399565	89399977	21	22839466	22839982	-	-	32	4	0	0	(a--)	4	-	89399819	0	null	null	21	+	22839849	0	99	NA	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
157	4	91024861	91025154	4	91053088	91053387	-	-	8	14	0	0	(a--)	4	-	91025057	0	null	GTTG	4	+	91053292	0	98	28235	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
158	4	91030945	91031358	4	91052850	91053284	-	+	4	7	0	0	(a--)	4	-	91031256	0	null	TAGTTTC	4	-	91052943	0	94	21687	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
161	4	100929061	100929439	12	21809372	21809735	+	-	32	0	0	8	(--d)	4	+	100929187	100929188	A	null	12	+	21809627	21809628	100	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
164	4	149556840	149557160	17	19688671	19689126	-	+	32	8	0	0	(a--)	4	-	149557064	0	null	CTAAATTT	17	-	19688819	0	100	NA	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
165	4	149668644	149669172	20	41377073	41377608	+	-	32	5	0	0	(a--)	4	+	149668768	0	null	CTAATTTAGCAAAATTTAG	20	+	41377462	0	94	NA	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
169	5	21816889	21817350	5	21821020	21821566	-	-	8	0	0	6	(--d)	5	-	21817185	0	null	AAA	5	+	21821459	0	83	4274	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
170	5	28685267	28685636	5	30729664	30729963	-	-	8	0	0	7	(--d)	5	-	28685454	28685453	A	null	5	+	30729864	30729865	99	2044410	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
172	5	31187454	31187844	5	31188737	31189096	+	+	1	0	0	8	(--d)	5	+	31187547	0	null	TTGGTAGTAAC	5	-	31188851	0	95	1304	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
173	5	32698768	32699083	5	32700618	32701060	+	+	1	0	0	10	(--d)	5	+	32698914	32698915	T	null	5	-	32700729	32700728	98	1815	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
176	5	45134596	45135137	7	55082957	55083158	-	-	32	23	40	234	(acd)	5	-	45135048	0	null	AATTG	7	+	55083053	0	99	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
177	5	45134582	45135141	7	55723902	55724214	-	-	32	4	4	123	(acd)	5	-	45135102	0	null	GAAGAAGAAGTAGATGCAGGAAAGCTCTTTGTCCTCCCTTTGTTTCACTAAAAGAATTGAATGACCTGAATTCTCTGAAAGAGGTAAGAAGAGGTGTTAATTTTTCGGTTTGCTCAG	7	+	55724114	0	70	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
179	5	58392580	58393005	5	58499389	58499787	+	-	2	0	7	0	(-c-)	5	+	58392732	0	null	G	5	+	58499675	0	99	106943	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
180	5	73161587	73161898	5	73165736	73165996	-	-	8	0	0	6	(--d)	5	-	73161808	0	null	GTAC	5	+	73165847	0	94	4039	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
181	5	73997727	73998018	11	47572960	47573309	+	-	32	1	12	15	(acd)	5	+	73997814	73997821	CATCCAA	null	11	+	47573212	47573219	93	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
184	5	148860516	148860928	5	148864450	148864925	+	-	2	6	0	0	(a--)	5	+	148860627	0	null	ATTGAGTTATTTT	5	+	148864813	0	97	4186	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
186	5	151217124	151217646	5	151224529	151224986	+	-	2	0	5	0	(-c-)	5	+	151217249	151217252	TCT	null	5	+	151224831	151224834	94	7582	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
188	5	170435785	170436139	5	170592013	170592412	-	-	8	6	0	0	(a--)	5	-	170436029	170436026	ATT	null	5	+	170592290	170592293	100	156261	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
189	5	170442752	170443060	5	170590615	170590971	+	+	1	5	0	0	(a--)	5	+	170442870	170442872	GA	null	5	-	170590711	170590709	70	147841	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
192	6	2315398	2315719	6	2351256	2351609	+	-	2	0	0	5	(--d)	6	+	2315525	0	null	null	6	+	2351469	0	93	35944	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
194	6	44826714	44827006	6	44924243	44924743	-	-	8	0	8	0	(-c-)	6	-	44826969	0	null	TACAAATACCTTTCACTAAGAGACACAGTATTACCCTCTTCTGGAGTGAAACAAATAAAACATTTTGGTTC	6	+	44924624	0	99	97655	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	c	MEDIUM	red	NA
196	6	54203979	54204334	10	58940335	58940724	+	+	32	0	4	0	(-c-)	6	+	54204077	0	null	null	10	-	58940442	0	93	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	c	MEDIUM	red	NA
197	6	55920951	55921406	10	58992226	58992579	-	+	32	0	5	0	(-c-)	6	-	55921276	55921269	AAAAATG	null	10	-	58992376	58992369	94	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	c	MEDIUM	red	NA
198	6	62814003	62814507	6	62821184	62821626	-	-	8	0	5	0	(-c-)	6	-	62814406	62814404	AA	null	6	+	62821505	62821507	95	7099	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
199	6	63403410	63403937	6	63406596	63406942	-	-	8	0	4	0	(-c-)	6	-	63403831	0	null	ATGCTATAA	6	+	63406844	0	95	3013	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	c	MEDIUM	red	NA
202	6	63625687	63626155	10	7208764	7209317	+	+	32	0	7	0	(-c-)	6	+	63625788	63625789	A	null	10	-	7208933	7208932	99	NA	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
203	6	64617282	64617713	6	64618290	64618712	+	-	2	0	5	0	(-c-)	6	+	64617381	64617382	A	null	6	+	64618531	64618532	65	1150	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	c	MEDIUM	red	NA
206	6	67372275	67372652	6	67463921	67464041	+	-	2	0	11	0	(-c-)	6	+	67372369	67372371	TC	null	6	+	67463930	67463932	100	91561	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
208	6	101172579	101172928	6	101173894	101174158	-	-	8	4	11	0	(ac-)	6	-	101172835	0	null	AATAGAGATCACTTACTAACAATGCTTTTCATTGAAAAACATGCCCATATGTTGTAAAACAAAAAA	6	+	101174125	0	94	1290	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
215	6	128267577	128268051	6	128405077	128405514	+	-	2	5	0	0	(a--)	6	+	128267738	128267741	ATA	null	6	+	128405410	128405413	95	137672	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
217	6	148662862	148663397	11	134120309	134120661	-	-	32	4	3	2	(acd)	6	-	148663302	148663300	GC	null	11	+	134120544	134120546	98	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
218	6	148663376	148663897	11	134118731	134119094	+	-	32	5	9	2	(acd)	6	+	148663467	0	null	ACCTACAGTCACCCCAACCGTCTTCTTCCCCTGGTTCATCCTTCCCCTGTCATGAAATAT	11	+	134119045	0	98	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
219	6	168446245	168446563	6	169806545	169806942	-	+	4	12	2	0	(ac-)	6	-	168446471	168446468	GTC	null	6	-	169806642	169806639	99	1360171	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
223	7	54922995	54923238	11	133791569	133791843	+	+	32	7	17	2	(acd)	7	+	54923087	54923088	A	null	11	-	133791664	133791663	98	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
224	7	55080533	55080893	7	55082774	55083148	-	-	8	48	31	401	(acd)	7	-	55080469	0	null	TTACAGGCGCCCACCACCATGCCCA	7	-	55083110	0	74	2641	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
228	7	55107969	55108207	7	55971602	55971848	+	+	1	0	0	205	(--d)	7	+	55108059	55108061	TA	null	7	-	55971693	55971691	99	863634	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
229	7	55124243	55124515	7	55783180	55783436	-	-	8	0	0	15	(--d)	7	-	55124413	55124412	C	null	7	+	55783340	55783341	100	658927	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	d	HIGH	purple	LATE
230	7	55158610	55158988	7	55511409	55511678	-	-	8	8	14	11	(acd)	7	-	55158894	0	null	ATG	7	+	55511563	0	95	352669	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	acd	HIGH	grey	EARLY
231	7	55176807	55177218	7	56958010	56958483	+	+	1	2	0	9	(a-d)	7	+	55176904	55176905	A	null	7	-	56958232	56958231	70	1781328	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	ad	HIGH	na	LATE
232	7	55185601	55185985	7	57313742	57314075	-	-	8	4	0	2	(a-d)	7	-	55185870	0	null	null	7	+	57313950	0	95	2128080	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	ad	HIGH	na	LATE
234	7	55206362	55206568	7	55777352	55777613	+	+	1	9	19	401	(acd)	7	+	55206452	0	null	C	7	-	55777446	0	99	570994	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	acd	HIGH	grey	EARLY
236	7	55278469	55278715	7	55279640	55279756	+	-	2	4	0	289	(a-d)	7	+	55278559	55278561	TT	null	7	+	55279667	55279669	85	1108	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	ad	HIGH	na	LATE
237	7	55283263	55283572	7	55442497	55442819	+	-	2	2	0	171	(a-d)	7	+	55283355	0	null	ACTCCTCTCCGTGGCCACAGGCCCCTGGCCAGCTCTCCTGTCTCATCACCACTTCCGATATCTGCTCCTTTGATGTGCAGCTCCAG	7	+	55442730	0	100	159375	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	ad	HIGH	na	LATE
238	7	55283608	55283911	7	55996947	55997228	-	-	8	8	20	6	(acd)	7	-	55283816	55283815	T	null	7	+	55997131	55997132	98	713315	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	acd	HIGH	grey	EARLY
239	7	55289382	55289681	7	56716408	56716690	+	+	1	20	41	38	(acd)	7	+	55289480	0	null	TCCCCACCTCCACGGCCTAGCACTCATCTCTGTAT	7	-	56716470	0	100	1426990	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	acd	HIGH	grey	EARLY
240	7	55289360	55289667	7	55604293	55604552	-	+	4	9	17	32	(acd)	7	-	55289569	0	null	A	7	-	55604392	0	100	314823	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	acd	HIGH	grey	EARLY
241	7	55291817	55292217	7	55941776	55942118	+	-	2	7	5	10	(acd)	7	+	55291915	55291916	T	null	7	+	55942016	55942017	99	650101	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	acd	HIGH	grey	EARLY
242	7	55303781	55304218	7	56619030	56619507	-	+	4	0	0	4	(--d)	7	-	55304074	55304073	A	null	7	-	56619187	56619186	78	1315113	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	d	HIGH	purple	LATE
243	7	55309274	55309536	7	55401910	55402194	+	+	1	13	20	40	(acd)	7	+	55309363	55309366	CCC	null	7	-	55401998	55401995	98	92635	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	acd	HIGH	grey	EARLY
244	7	55314521	55314858	7	56013414	56013685	-	+	4	5	6	8	(acd)	7	-	55314764	55314761	ATC	null	7	-	56013516	56013513	70	698752	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	acd	HIGH	grey	EARLY
250	7	55572171	55572551	7	55581294	55581634	+	+	1	0	0	17	(--d)	7	+	55572302	55572304	AG	null	7	-	55581395	55581393	99	9093	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	d	HIGH	purple	LATE
251	7	55600327	55600660	7	55603219	55603456	+	+	1	0	0	61	(--d)	7	+	55600414	55600418	GGCT	null	7	-	55603312	55603308	99	2898	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	d	HIGH	purple	LATE
258	7	55966896	55967244	7	55978450	55978805	-	-	8	4	0	0	(a--)	7	-	55967140	55967139	C	null	7	+	55978705	55978706	98	11565	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	a	HIGH	orange	LATE
260	7	56038469	56038886	7	56142692	56143087	-	-	8	0	11	0	(-c-)	7	-	56038790	56038789	T	null	7	+	56142983	56142984	98	104193	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	c	HIGH	red	LATE
261	7	56353177	56353580	7	56901896	56902443	-	+	4	5	3	3	(acd)	7	-	56353389	0	null	null	7	-	56901991	0	98	548602	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	acd	HIGH	grey	EARLY
262	7	56459043	56459406	7	56900389	56900747	-	+	4	7	14	19	(acd)	7	-	56459314	56459312	CA	null	7	-	56900529	56900527	98	441215	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	acd	HIGH	grey	EARLY
263	7	56469192	56469512	7	56470916	56471374	-	-	8	0	0	20	(--d)	7	-	56469408	56469406	TT	null	7	+	56471277	56471279	98	1869	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	d	HIGH	purple	LATE
264	7	56535121	56535443	7	56538247	56538576	+	-	2	0	0	25	(--d)	7	+	56535223	56535224	A	null	7	+	56538469	56538470	84	3246	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	d	HIGH	purple	LATE
265	7	56818065	56818541	9	27783849	27784372	-	-	32	0	4	0	(-c-)	7	-	56818425	56818424	T	null	9	+	27784244	27784245	99	NA	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	c	HIGH	red	LATE
267	7	56905923	56906395	7	57447438	57447918	+	-	2	3	6	9	(acd)	7	+	56906020	0	null	ATGATTTTATTAAGCTCTCGGAGCCACAGAAGGTTGTAGGCAGAGGAAGGAGTGTGGAGAAGACAGTGAGGCTGGAAGCAGGAAGAGCAGAGGAGGGGCAA	7	+	57447820	0	93	541800	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	acd	HIGH	grey	EARLY
268	7	57310517	57310855	7	57315907	57316286	+	-	2	8	0	0	(a--)	7	+	57310601	57310605	GGCC	null	7	+	57316168	57316172	99	5567	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	a	HIGH	orange	LATE
269	7	57314502	57314912	7	57317869	57318243	+	+	1	7	0	0	(a--)	7	+	57314596	0	null	null	7	-	57317977	0	90	3381	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	a	HIGH	orange	LATE
270	7	57450328	57450742	7	57451091	57451492	+	+	1	8	7	6	(acd)	7	+	57450418	57450419	A	null	7	-	57451187	57451186	95	769	NA	NA	NA	"unaccessible, within high level amplicon"		not.assessed	acd	HIGH	grey	EARLY
273	7	63871872	63872265	7	63892533	63892904	+	-	2	5	0	0	(a--)	7	+	63871950	63871960	GCTCTGTCGC	null	7	+	63892788	63892798	99	20838	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
274	7	70239444	70239935	7	70246269	70246731	+	-	2	0	5	0	(-c-)	7	+	70239549	0	null	null	7	+	70246589	0	99	7040	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
279	7	84831304	84831822	7	103207220	103207588	-	+	4	3	5	0	(ac-)	7	-	84831669	84831667	AA	null	7	-	103207326	103207324	94	18375657	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
281	7	90379406	90379782	7	90431181	90431503	+	-	2	0	5	0	(-c-)	7	+	90379506	90379508	AA	null	7	+	90431405	90431407	95	51899	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
283	7	97782424	97782802	10	13038467	13038757	-	+	32	11	13	0	(ac-)	7	-	97782712	97782710	AG	null	10	-	13038586	13038584	98	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
284	7	97792652	97793025	7	99598184	99598568	+	-	2	6	11	0	(ac-)	7	+	97792746	97792747	T	null	7	+	99598469	99598470	94	1805723	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
285	7	99197453	99197804	7	99198648	99199036	+	-	2	5	0	0	(a--)	7	+	99197562	0	null	T	7	+	99198914	0	85	1352	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
287	7	103301539	103301821	10	59789229	59789626	+	+	32	7	11	0	(ac-)	7	+	103301633	0	null	CCCTCCATGGTCATAG	10	-	59789345	0	100	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
288	7	105560078	105560459	7	108347150	108347602	-	+	4	11	4	0	(ac-)	7	-	105560356	105560355	A	null	7	-	108347245	108347244	99	2786889	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
289	7	105575004	105575353	7	108025607	108026007	+	+	1	6	12	0	(ac-)	7	+	105575107	105575109	GG	null	7	-	108025713	108025711	99	2450606	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
290	7	106641609	106642038	10	81533425	81533717	-	-	32	7	4	0	(ac-)	7	-	106641936	106641935	C	null	10	+	81533576	81533577	99	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
291	7	106851792	106852114	7	108322962	108323150	+	-	2	10	10	0	(ac-)	7	+	106851884	106851886	AT	null	7	+	108323052	108323054	100	1471168	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
294	7	120334953	120335220	7	152445100	152445444	-	-	8	6	8	7	(acd)	7	-	120335119	0	null	null	7	+	152445332	0	98	32110213	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
296	7	138828968	138829368	7	138853156	138853567	-	-	8	10	0	0	(a--)	7	-	138829259	138829256	AAA	null	7	+	138853458	138853461	100	24199	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
298	8	766706	767070	8	767553	767905	-	-	8	6	7	6	(acd)	8	-	766965	766963	GT	null	8	+	767808	767810	95	843	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
303	8	6948679	6948969	8	15507414	15507721	-	+	4	11	5	7	(acd)	8	-	6948875	6948874	G	null	8	-	15507518	15507517	90	8558643	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
304	8	10134867	10135339	X	120819145	120819560	+	+	32	3	3	9	(acd)	8	+	10135002	10135006	ACTT	null	X	-	120819246	120819242	80	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
305	8	15913820	15914104	14	20214103	20214365	-	+	32	27	35	5	(acd)	8	-	15914011	0	null	null	14	-	20214196	0	93	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
306	8	17397093	17397373	8	73898500	73898935	-	+	4	0	0	14	(--d)	8	-	17397268	17397266	GA	null	8	-	73898593	73898591	99	56501325	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
307	8	17529584	17529927	X	120811100	120811473	-	-	32	5	5	6	(acd)	8	-	17529824	17529823	A	null	X	+	120811316	120811317	100	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
308	8	17870558	17870889	8	27671594	27671910	-	-	8	26	33	0	(ac-)	8	-	17870796	17870795	T	null	8	+	27671816	27671817	94	9801020	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
310	8	18403082	18403568	8	18435603	18435996	+	-	2	0	0	15	(--d)	8	+	18403206	18403207	T	null	8	+	18435882	18435883	96	32676	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
312	8	20078713	20078998	8	39156880	39157135	+	+	1	0	0	37	(--d)	8	+	20078808	0	null	null	8	-	39156973	0	100	19078165	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
315	8	20721224	20721591	8	38723432	38723728	+	+	1	0	0	8	(--d)	8	+	20721349	20721350	T	null	8	-	38723541	38723540	99	18002192	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
316	8	23897364	23897779	8	34161807	34162191	+	+	1	3	7	7	(acd)	8	+	23897461	23897465	TTTA	null	8	-	34161893	34161889	100	10264432	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
317	8	25539391	25539776	8	35698673	35699249	+	-	2	0	0	4	(--d)	8	+	25539536	0	null	null	8	+	35699067	0	99	10159531	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
318	8	25848853	25849134	8	36313594	36313887	-	+	4	0	0	33	(--d)	8	-	25849047	25849045	TC	null	8	-	36313701	36313699	100	10464654	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
319	8	27563409	27563837	8	38127505	38127815	-	-	8	3	8	5	(acd)	8	-	27563738	27563737	A	null	8	+	38127720	38127721	95	10563982	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
320	8	28028364	28028627	8	35878293	35878567	-	+	4	0	0	42	(--d)	8	-	28028535	28028533	TT	null	8	-	35878389	35878387	100	7849854	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
321	8	28036875	28037262	X	143060612	143061052	-	+	32	4	3	0	(ac-)	8	-	28037167	28037166	C	null	X	-	143060748	143060747	100	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
322	8	28237942	28238339	X	62125198	62125587	+	+	32	0	0	11	(--d)	8	+	28238043	0	null	null	X	-	62125348	0	95	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
323	8	28240022	28240266	X	146529154	146529506	+	-	32	7	4	0	(ac-)	8	+	28240115	0	null	null	X	+	146529395	0	100	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
325	8	28460191	28460589	8	28776825	28777128	+	-	2	0	0	17	(--d)	8	+	28460285	28460287	CT	null	8	+	28776983	28776985	97	316698	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
326	8	29084964	29085382	X	138101787	138102223	-	+	32	1	5	0	(ac-)	8	+	29085250	0	null	TATTTATCTAGCTAAAAAAAATAATAATAAATATGTGTGTGAGTGTTCATGTCTAT	X	-	138101880	0	100	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
327	8	30414276	30414685	12	112424384	112424831	+	-	32	3	4	0	(ac-)	8	+	30414404	0	null	AAATAGATT	12	+	112424715	0	100	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
328	8	30532244	30532645	12	106726059	106726434	-	-	32	6	8	0	(ac-)	8	-	30532507	0	null	null	12	+	106726340	0	100	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
330	8	30592023	30592315	12	116750172	116750512	-	-	32	3	6	0	(ac-)	8	-	30592217	0	null	T	12	+	116750407	0	99	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
331	8	31424935	31425193	8	33245408	33245698	-	-	8	4	4	7	(acd)	8	-	31425097	31425095	AT	null	8	+	33245583	33245585	100	1820486	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
332	8	32528782	32529124	21	27799375	27799650	-	-	32	0	0	24	(--d)	8	-	32529023	0	null	null	21	+	27799554	0	84	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
335	8	34326281	34326662	8	34335881	34336210	-	-	8	12	16	0	(ac-)	8	-	34326563	34326560	CTG	null	8	+	34336115	34336118	99	9552	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
336	8	34458350	34458658	8	34610234	34610559	+	-	2	0	0	13	(--d)	8	+	34458518	34458519	A	null	8	+	34610459	34610460	98	151941	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
337	8	35226978	35227425	8	35227359	35227714	+	+	1	0	0	8	(--d)	8	+	35227088	0	null	AAGGTACAAAGGTACAGCAAAAAGAA	8	-	35227445	0	95	357	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
338	8	35691137	35691430	8	35691474	35691755	+	+	1	0	0	47	(--d)	8	+	35691227	0	null	null	8	-	35691578	0	95	351	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
339	8	35776892	35777172	8	39366715	39367062	-	-	8	0	0	39	(--d)	8	-	35777086	35777084	CA	null	8	+	39366968	39366970	100	3589882	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
340	8	38723795	38724131	8	39169414	39169671	-	-	8	0	0	44	(--d)	8	-	38724032	0	null	null	8	+	39169565	0	100	445533	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
341	8	39039413	39039834	X	148378165	148378488	+	+	32	3	6	0	(ac-)	8	+	39039524	39039526	TA	null	X	-	148378256	148378254	99	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
342	8	39042087	39042495	X	140849918	140850278	-	-	32	5	10	0	(ac-)	8	-	39042386	39042384	TT	null	X	+	140850166	140850168	92	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
343	8	39055829	39056209	12	123774956	123775353	+	+	32	7	5	0	(ac-)	8	+	39055929	39055930	T	null	12	-	123775051	123775050	91	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
344	8	39365358	39365624	8	39400169	39400517	+	+	1	0	0	35	(--d)	8	+	39365447	0	null	ATTGACCCTTT	8	-	39400270	0	99	34823	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
345	8	39441488	39441989	8	39443990	39444295	-	-	8	0	0	5	(--d)	8	-	39441871	0	null	TA	8	+	39444164	0	84	2293	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
346	8	41869031	41869412	21	28555584	28556050	+	-	32	0	9	0	(-c-)	8	+	41869144	0	null	AAACCCCGTCTT	21	+	28555958	0	98	NA	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
347	8	41899673	41900152	8	41906286	41906645	-	-	8	0	0	7	(--d)	8	-	41900011	41900007	TTTT	null	8	+	41906553	41906557	100	6542	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
348	8	66913999	66914353	8	66916270	66916529	-	-	8	0	0	13	(--d)	8	-	66914256	66914253	TTC	null	8	+	66916419	66916422	94	2163	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
349	8	70526600	70527025	X	5230052	5230471	-	+	32	0	0	6	(--d)	8	-	70526845	70526843	TG	null	X	-	5230165	5230163	93	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
351	8	76682955	76683382	8	79244411	79244718	+	+	1	0	0	8	(--d)	8	+	76683082	0	null	null	8	-	79244510	0	100	2561428	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
352	8	79064987	79065261	8	79066786	79067064	+	-	2	0	0	13	(--d)	8	+	79065078	0	null	T	8	+	79066947	0	100	1869	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
353	8	84307297	84307785	8	84315007	84315480	+	-	2	6	0	0	(a--)	8	+	84307411	84307412	T	null	8	+	84315311	84315312	93	7900	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
354	8	87959893	87960181	8	87981092	87981409	-	+	4	0	0	8	(--d)	8	-	87960078	0	null	TTAGTGAAAT	8	-	87981196	0	99	21118	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
355	8	90937991	90938282	8	91835254	91835556	+	-	2	7	8	0	(ac-)	8	+	90938082	90938085	CAG	null	8	+	91835452	91835455	100	897370	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
356	8	99825328	99825471	10	80720806	80721004	-	-	32	61	59	5	(acd)	8	-	99825373	0	null	null	10	+	80720913	0	94	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
357	8	100036888	100037227	8	101206697	101207137	+	-	2	6	10	0	(ac-)	8	+	100036991	100036992	A	null	8	+	101207026	101207027	98	1170035	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
359	8	100087326	100087835	8	100217824	100218195	+	-	2	0	0	11	(--d)	8	+	100087532	0	null	TGGTAAATGAGAT	8	+	100218116	0	99	130584	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
360	8	100150456	100150818	8	100836781	100837171	+	+	1	7	6	0	(ac-)	8	+	100150593	0	null	TATACCTATGTAT	8	-	100836901	0	97	686308	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
361	8	100153277	100153535	10	10395193	10395368	-	+	32	35	33	0	(ac-)	8	-	100153442	100153441	T	null	10	-	10395288	10395287	94	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
363	8	101501671	101501990	10	79866730	79867134	-	-	32	12	4	0	(ac-)	8	-	101501893	0	null	A	10	+	79867044	0	98	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
364	8	101855189	101855436	10	59881258	59881421	+	+	32	126	114	0	(ac-)	8	+	101855281	0	null	ACCTAAGAAAAAAAGCTAAATCCATGA	10	-	59881325	0	99	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
365	8	104042536	104042836	10	74149995	74150372	-	+	32	14	8	0	(ac-)	8	-	104042731	104042725	TCCAGA	null	10	-	74150102	74150096	93	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
367	8	104299761	104300051	8	105636128	105636395	+	-	2	10	2	0	(ac-)	8	+	104299859	104299862	CAT	null	8	+	105636300	105636303	99	1336441	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
368	8	105158552	105159035	10	69321422	69321767	-	-	32	5	4	0	(ac-)	8	-	105158934	0	null	null	10	+	69321666	0	80	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
369	8	105169074	105169346	10	55696370	55696641	+	+	32	9	12	0	(ac-)	8	+	105169171	105169173	TG	null	10	-	55696458	55696456	100	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
370	8	106175287	106175637	10	74843386	74843670	+	-	32	13	8	0	(ac-)	8	+	106175379	106175382	CCT	null	10	+	74843567	74843570	100	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
371	8	106523984	106524372	8	106525138	106525577	-	-	8	1	4	0	(ac-)	8	-	106524248	0	null	TCCCCACCATCACACGCGTCTAAATTTTGTATTTTTAGTAGAGATGGGGTTTCACCATGTTGG	8	+	106525479	0	95	1231	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
372	8	107602323	107602596	8	107929562	107929818	+	-	2	22	15	0	(ac-)	8	+	107602415	107602416	A	null	8	+	107929720	107929721	99	327305	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
373	8	108004155	108004442	10	3361804	3362097	+	+	32	8	9	0	(ac-)	8	+	108004260	0	null	AC	10	-	3361897	0	100	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
374	8	108058924	108059270	8	112155622	112155920	+	+	1	12	5	0	(ac-)	8	+	108059017	108059018	A	null	8	-	112155726	112155725	99	4096709	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
375	8	108061025	108061571	8	112007553	112008013	+	-	2	5	1	0	(ac-)	8	+	108061111	108061114	CCA	null	8	+	112007859	112007862	100	3946748	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
376	8	115800662	115801114	8	115856367	115856807	-	+	4	5	0	0	(a--)	8	-	115800988	115800984	TTAT	null	8	-	115856499	115856495	98	55511	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
379	8	136780652	136781279	19	39245605	39245978	-	+	32	0	0	5	(--d)	8	-	136781121	0	null	GCCACACACCAGCAAAGGCAG	19	-	39245729	0	65	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
382	9	13835976	13836298	9	14649437	14649768	+	-	2	4	8	12	(acd)	9	+	13836079	0	null	AGAATTATCTACTAAATTTTGGTAATA	9	+	14649702	0	98	813623	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
383	9	16073371	16073735	9	16074189	16074485	+	-	2	0	6	0	(-c-)	9	+	16073467	16073473	ATGTTG	null	9	+	16074382	16074388	75	915	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
384	9	20730697	20731141	14	20769644	20770155	+	+	32	0	4	0	(-c-)	9	+	20730799	20730804	GCAGT	null	14	-	20769763	20769758	80	NA	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
388	9	88874870	88875354	21	47795671	47796136	+	-	32	4	0	0	(a--)	9	+	88875004	88875008	CTCT	null	21	+	47795983	47795987	98	NA	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
389	9	88899634	88899978	21	47796402	47796844	-	+	32	6	0	0	(a--)	9	-	88899884	88899881	TGG	null	21	-	47796493	47796490	99	NA	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
390	9	91457752	91458183	9	91483137	91483536	+	+	1	7	0	0	(a--)	9	+	91457874	0	null	TATACAAAATAATGGGAATTGTATAATGGGAATTGTATACAAGTTCTTCAAGTATA	9	-	91483259	0	80	25385	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
392	9	100068523	100068965	9	100069175	100069543	+	-	2	6	5	0	(ac-)	9	+	100068619	100068622	AGT	null	9	+	100069445	100069448	85	826	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
393	9	115602763	115603124	9	115604022	115604404	+	-	2	5	0	0	(a--)	9	+	115602833	115602850	TGGCTCACTGCAACCTC	null	9	+	115604292	115604309	70	1459	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
395	9	117579747	117580207	10	71929127	71929500	-	+	32	10	6	14	(acd)	9	-	117580112	117580111	G	null	10	-	71929269	71929268	99	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
394	9	117580252	117580705	10	71928138	71928434	+	+	32	6	10	18	(acd)	9	+	117580346	0	null	null	10	-	71928271	0	99	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
396	9	121100961	121101255	9	121108488	121108786	+	-	2	0	11	0	(-c-)	9	+	121101079	121101080	A	null	9	+	121108694	121108695	99	7615	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
400	10	4950779	4951038	10	7848229	7848473	-	+	4	41	50	0	(ac-)	10	-	4950946	4950944	TT	null	10	-	7848324	7848322	98	2897378	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
401	10	5279911	5280381	10	5386851	5387208	-	+	4	5	0	0	(a--)	10	-	5280285	5280283	TG	null	10	-	5387013	5387011	91	106728	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
404	10	5955108	5955667	10	5957226	5957597	-	-	8	10	8	0	(ac-)	10	-	5955577	0	null	null	10	+	5957442	0	98	1865	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
406	10	5957121	5957536	10	8727710	8728131	-	+	4	6	7	0	(ac-)	10	-	5957442	0	null	CTTTTTTCCATTAAATGGTGGTAGGTATTTTCTTTTTAGAAATGGGAAGGAGTTTAAATCCATCTGAGGAAAAATAAGATGCAGATTGTGACTTGAATTTGAGACTTTCTAAATCTACTTTTTTTTCCTCAGATGGATGCTC	10	-	8727802	0	90	2770360	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
407	10	6070398	6070725	10	6302924	6303183	+	-	2	22	44	0	(ac-)	10	+	6070492	6070493	T	null	10	+	6303090	6303091	94	232598	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
408	10	6977736	6978068	10	6979070	6979389	+	-	2	7	0	0	(a--)	10	+	6977912	6977915	GTG	null	10	+	6979299	6979302	74	1387	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
409	10	7560922	7561248	10	80355895	80356235	-	-	8	23	13	0	(ac-)	10	-	7561153	7561151	GA	null	10	+	80356142	80356144	70	72794989	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
410	10	7825474	7825880	10	7963739	7964180	+	-	2	0	7	0	(-c-)	10	+	7825620	7825621	A	null	10	+	7964080	7964081	94	138460	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
411	10	10394474	10394747	10	12569983	12570317	-	+	4	28	23	0	(ac-)	10	-	10394655	0	null	AGACACTGTTCTGAGCATTATGTTTATAAATGGGTTACTATAAACATAATGCTCAGAACAGTGTCTGGCCCTTAGTAAC	10	-	12570021	0	82	2175366	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
413	10	12559084	12559352	10	12564216	12564597	-	-	8	24	24	0	(ac-)	10	-	12559317	0	null	TATAACATGATTCTTTATGTTTTTAAAAATCTCAAAGAACTGACCCAAAAAAAGCATCTAGAACTATTAAGGGTTG	10	+	12564502	0	96	5185	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
414	10	12574050	12574289	10	12575216	12575501	+	-	2	49	44	0	(ac-)	10	+	12574142	0	null	null	10	+	12575407	0	73	1265	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
415	10	13868553	13868825	10	58163467	58163751	+	-	2	92	85	0	(ac-)	10	+	13868645	0	null	ATG	10	+	58163661	0	98	44295016	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
416	10	14641750	14642196	10	14646148	14646559	+	-	2	4	2	0	(ac-)	10	+	14641905	0	null	TT	10	+	14646464	0	96	4559	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
418	10	18222007	18222481	10	18564025	18564551	-	+	4	0	0	4	(--d)	10	-	18222376	0	null	ATTTCGTTTTCT	10	-	18564180	0	100	341804	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
420	10	28128726	28129081	10	28138968	28139354	+	+	1	11	0	0	(a--)	10	+	28128828	28128830	AG	null	10	-	28139057	28139055	98	10229	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
421	10	28128707	28129022	10	28139531	28139876	-	-	8	8	0	0	(a--)	10	-	28128875	0	null	CAGTC	10	+	28139776	0	98	10901	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
422	10	42911905	42912363	10	42998305	42998657	+	-	2	9	0	0	(a--)	10	+	42912025	0	null	A	10	+	42998501	0	98	86476	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
423	10	43868033	43868542	10	43906266	43906645	+	-	2	0	4	0	(-c-)	10	+	43868129	43868131	TA	null	10	+	43906546	43906548	99	38417	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
425	10	45146442	45146751	10	58447334	58447587	-	-	8	18	16	0	(ac-)	10	-	45146662	0	null	null	10	+	58447477	0	99	13300815	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
426	10	45206498	45206785	10	66607183	66607505	+	-	2	28	19	0	(ac-)	10	+	45206589	45206591	AG	null	10	+	66607414	66607416	100	21400825	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
428	10	45629933	45630251	10	66606161	66606653	-	-	8	18	21	0	(ac-)	10	-	45630156	45630155	A	null	10	+	66606551	66606552	99	20976395	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
429	10	45876906	45877411	10	58941128	58941579	+	-	2	0	4	0	(-c-)	10	+	45877018	0	null	null	10	+	58941481	0	93	13064463	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
430	10	45885438	45885802	10	52008474	52008805	+	+	1	23	11	1	(acd)	10	+	45885593	0	null	null	10	-	52008566	0	97	6122973	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
431	10	47015388	47015648	10	71260387	71260483	+	-	2	34	46	0	(ac-)	10	+	47015480	0	null	CAGG	10	+	71260390	0	94	24244910	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
432	10	47620483	47620877	10	51549567	51549993	+	+	1	5	0	0	(a--)	10	+	47620651	47620653	CA	null	10	-	51549659	51549657	100	3929008	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
433	10	49515522	49515846	10	77308469	77308795	+	+	1	10	6	0	(ac-)	10	+	49515619	49515620	T	null	10	-	77308569	77308568	94	27792950	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
434	10	49721340	49721659	10	49722823	49723203	+	+	1	14	10	0	(ac-)	10	+	49721430	49721432	AT	null	10	-	49722919	49722917	90	1489	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
435	10	51570679	51571001	10	51572128	51572463	-	-	8	1	9	0	(ac-)	10	-	51570906	51570903	GGG	null	10	+	51572360	51572363	92	1454	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
436	10	53772501	53772885	10	68894310	68894558	+	+	1	30	27	0	(ac-)	10	+	53772593	53772594	T	null	10	-	68894402	68894401	98	15121809	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
437	10	53895672	53895952	10	66606666	66607147	+	+	1	22	18	0	(ac-)	10	+	53895735	0	null	CAAAGCAGGGCGGTGTAGGAAACTTCAGAAAGCAAGAGGATATT	10	-	66606760	0	98	12711025	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
442	10	63755514	63756014	10	63879727	63880194	-	+	4	4	0	0	(a--)	10	-	63755908	63755905	CAT	null	10	-	63879916	63879913	100	124008	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
444	10	71070238	71070596	10	71192677	71193051	+	-	2	7	9	16	(acd)	10	+	71070331	71070332	A	null	10	+	71192958	71192959	96	122627	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
443	10	71070917	71071243	10	71733390	71733629	-	-	8	14	9	12	(acd)	10	-	71071149	0	null	null	10	+	71733531	0	99	662382	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	acd	MEDIUM	grey	NA
445	10	71183086	71183417	10	71183697	71183955	+	+	1	5	8	11	(acd)	10	+	71183178	0	null	AGTGGGGATAA	10	-	71183781	0	92	603	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
446	10	77184024	77184417	10	78036020	78036404	-	-	8	7	8	0	(ac-)	10	-	77184322	0	null	null	10	+	78036276	0	95	851954	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
448	10	82117164	82117464	10	82118864	82118896	+	+	1	78	74	18	(acd)	10	+	82117257	0	null	AGCACCCTGTCAAAATGA	10	-	82118932	0	78	1675	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
450	10	109068257	109068720	10	109074013	109074444	+	-	2	0	5	0	(-c-)	10	+	109068398	0	null	ATCATA	10	+	109074333	0	98	5935	0	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
452	11	10716579	10717058	11	10755671	10756103	+	-	2	0	4	0	(-c-)	11	+	10716718	10716720	TC	null	11	+	10755988	10755990	74	39270	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
453	11	44899735	44900169	17	26087520	26087881	-	-	32	6	3	12	(acd)	11	-	44900039	0	null	null	17	+	26087784	0	97	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
454	11	45024065	45024439	17	27001981	27002238	-	+	32	6	6	12	(acd)	11	-	45024346	0	null	null	17	-	27002084	0	99	NA	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
456	11	65199256	65199698	11	65246193	65246593	-	+	4	9	0	0	(a--)	11	-	65199598	65199597	G	null	11	-	65246311	65246310	94	46713	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
457	11	100070484	100070861	11	100070949	100071285	+	-	2	9	2	0	(ac-)	11	+	100070581	0	null	ATTAC	11	+	100071176	0	84	595	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
458	11	126917304	126917619	11	126934156	126934473	+	-	2	15	15	7	(acd)	11	+	126917394	126917395	G	null	11	+	126934375	126934376	100	16981	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
459	11	133977373	133977649	11	134137893	134138141	+	+	1	19	20	15	(acd)	11	+	133977464	133977465	G	null	11	-	134137982	134137981	94	160518	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
461	12	29882369	29882762	12	29883958	29884241	+	+	1	0	0	5	(--d)	12	+	29882497	29882500	CCA	null	12	-	29884070	29884067	79	1573	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
462	12	32943993	32944287	22	18315247	18315629	-	+	32	0	0	9	(--d)	12	-	32944189	0	null	null	22	-	18315353	0	99	NA	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
463	12	32947531	32947799	12	32949298	32949735	+	+	1	0	0	10	(--d)	12	+	32947622	32947624	GA	null	12	-	32949439	32949437	100	1817	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
464	12	40791233	40791661	12	40792899	40793276	+	+	1	0	0	7	(--d)	12	+	40791374	0	null	C	12	-	40793003	0	95	1629	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
466	12	42386828	42387108	12	65976393	65976732	+	-	2	9	5	0	(ac-)	12	+	42386922	42386923	A	null	12	+	65976627	65976628	100	23589705	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
467	12	42761546	42761844	12	42762956	42763345	+	-	2	8	9	0	(ac-)	12	+	42761654	0	null	AACTCCTGACCTCATTGAGACCAG	12	+	42763250	0	75	1596	1	1	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
468	12	43965292	43965623	12	89692454	89692721	-	+	4	9	11	0	(ac-)	12	-	43965526	43965525	G	null	12	-	89692552	89692551	99	45727026	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
469	12	44783003	44783308	12	55118211	55118531	+	-	2	5	11	0	(ac-)	12	+	44783081	0	null	TAAATGTGACTTTCTCCCACCTATTCTCAACCTGGCAAATTACCACCTTGGCTTACTATGAAGAGGCTTATTGCATTAAGTCATTATTGC	12	+	55118491	0	99	10335410	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
472	12	74842516	74842854	12	75680725	75681036	+	-	2	17	14	0	(ac-)	12	+	74842616	74842619	TTC	null	12	+	75680930	75680933	100	838314	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
473	12	75689095	75689364	12	75698451	75698724	+	-	2	19	16	0	(ac-)	12	+	75689180	0	null	GCAAC	12	+	75698629	0	100	9449	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
474	12	82281003	82281432	15	97134417	97134948	-	+	32	6	0	0	(a--)	12	-	82281263	0	null	GC	15	-	97134525	0	96	NA	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
475	12	87053624	87053951	12	88534156	88534571	+	-	2	6	10	0	(ac-)	12	+	87053737	0	null	TTG	12	+	88534458	0	100	1480721	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
477	12	91073735	91074105	12	91895683	91895965	-	+	4	12	0	0	(a--)	12	-	91073994	91073993	T	null	12	-	91895788	91895787	94	821794	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
478	12	92123387	92123791	X	154845522	154845866	-	-	32	5	6	0	(ac-)	12	-	92123693	0	null	null	X	+	154845730	0	98	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
479	12	93447476	93447744	X	150098425	150098763	+	-	32	25	22	0	(ac-)	12	+	93447564	93447567	TTA	null	X	+	150098669	150098672	99	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
481	12	99434516	99434872	12	99620290	99620583	+	-	2	4	7	15	(acd)	12	+	99434618	0	null	null	12	+	99620490	0	100	185872	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
482	12	99966380	99966681	12	100061161	100061445	+	-	2	10	10	0	(ac-)	12	+	99966480	0	null	null	12	+	100061341	0	100	94861	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
483	12	104845722	104846019	X	120436287	120436628	-	-	32	7	10	0	(ac-)	12	-	104845930	104845927	CTG	null	X	+	120436526	120436529	97	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
484	12	104851460	104851760	X	149390036	149390321	+	-	32	7	5	0	(ac-)	12	+	104851563	0	null	null	X	+	149390223	0	85	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
486	12	106812262	106812657	X	151846367	151846782	-	+	32	2	8	0	(ac-)	12	-	106812541	0	null	null	X	-	151846471	0	98	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
487	12	106825774	106826226	12	106827567	106828030	+	+	1	5	6	0	(ac-)	12	+	106825901	106825904	TAT	null	12	-	106827696	106827693	95	1795	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
489	12	112567438	112567767	X	137843902	137844244	-	+	32	5	1	0	(ac-)	12	-	112567672	0	null	null	X	-	137843995	0	99	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
490	12	116537662	116537948	X	148083848	148084155	-	-	32	8	11	0	(ac-)	12	-	116537848	116537846	CA	null	X	+	148084060	148084062	89	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
491	12	116542921	116543249	X	140529568	140529988	+	-	32	7	4	0	(ac-)	12	+	116543048	116543049	A	null	X	+	140529884	140529885	100	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
492	12	123465580	123465932	X	148378248	148378682	+	-	32	8	4	0	(ac-)	12	+	123465675	123465678	CCC	null	X	+	148378583	148378586	100	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
493	12	123775272	123775633	X	149187690	149187971	-	+	32	2	10	0	(ac-)	12	-	123775533	0	null	null	X	-	149187797	0	93	NA	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
494	12	123836857	123837081	12	123837183	123837501	+	-	2	19	4	1	(acd)	12	+	123836944	123836948	GCCT	null	12	+	123837431	123837435	63	487	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
496	14	34567045	34567485	14	34716999	34717564	-	+	4	4	0	0	(a--)	14	-	34567285	0	null	TAGCCCAGAAGTGTGTGGCTA	14	-	34717107	0	100	149822	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
497	14	34651668	34652134	14	34676042	34676486	+	-	2	5	0	0	(a--)	14	+	34651809	0	null	AGTGAGTTAGA	14	+	34676354	0	95	24545	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
499	14	79947536	79947950	14	80582027	80582423	+	-	2	0	5	0	(-c-)	14	+	79947640	79947646	CAAATT	null	14	+	80582307	80582313	100	634667	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
501	14	79989780	79990211	14	80162770	80163186	+	-	2	0	6	0	(-c-)	14	+	79989875	79989879	GAAA	null	14	+	80163083	80163087	95	173208	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
506	15	40246267	40246602	15	97131657	97132021	+	+	1	9	15	0	(ac-)	15	+	40246368	40246369	A	null	15	-	97131760	97131759	99	56885392	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
507	15	41093034	41093374	15	41156295	41156634	-	+	4	7	0	0	(a--)	15	-	41093281	0	null	TAAAA	15	-	41156453	0	99	63172	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
513	15	68293692	68294162	15	68869333	68869761	-	+	4	0	0	4	(--d)	15	-	68294056	68294053	TCC	null	15	-	68869440	68869437	64	575384	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
514	15	69682232	69682722	15	69698110	69698537	-	+	4	5	0	0	(a--)	15	-	69682620	69682619	A	null	15	-	69698261	69698260	80	15641	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
515	15	81940478	81940770	15	97124939	97125213	-	-	8	16	9	0	(ac-)	15	-	81940671	0	null	null	15	+	97125111	0	75	15184440	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
517	15	98808223	98808663	15	98808470	98808911	-	-	8	4	3	0	(ac-)	15	-	98808560	0	null	null	15	+	98808818	0	94	258	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
518	16	3754574	3755142	16	3757668	3758051	+	-	2	0	0	4	(--d)	16	+	3754722	3754723	A	null	16	+	3757953	3757954	99	3231	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	d	MEDIUM	purple	NA
522	16	66228094	66228566	16	66288370	66288768	-	+	4	6	0	0	(a--)	16	-	66228453	66228450	TCT	null	16	-	66288543	66288540	99	60090	1	1	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
524	17	16272537	16272919	17	71328007	71328575	-	-	8	10	4	3	(acd)	17	-	16272682	16272679	TAG	null	17	+	71328520	71328523	97	55055838	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	acd	MEDIUM	grey	NA
525	17	26023560	26023805	17	26177604	26177832	+	-	2	4	7	13	(acd)	17	+	26023656	26023657	C	null	17	+	26177733	26177734	97	154077	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
526	17	26023863	26024136	17	26215643	26215989	-	+	4	9	8	6	(acd)	17	-	26024042	0	null	GAAAA	17	-	26215741	0	94	191699	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
527	17	26076901	26077264	17	26078905	26079214	+	+	1	4	0	11	(a-d)	17	+	26076992	26076995	CTG	null	17	-	26079016	26079013	96	2024	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
528	17	26169077	26169420	17	27008446	27008722	+	-	2	2	5	10	(acd)	17	+	26169164	26169166	AT	null	17	+	27008610	27008612	100	839446	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
529	17	26987120	26987370	17	28372282	28372585	-	-	8	5	6	7	(acd)	17	-	26987284	0	null	ACGTTTCCCTCTC	17	+	28372485	0	98	1385201	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
530	17	27271699	27271976	17	28333696	28333964	+	+	1	5	2	17	(acd)	17	+	27271799	27271802	TTG	null	17	-	28333794	28333791	100	1061995	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
531	17	27453839	27454257	17	32478247	32478642	-	+	4	3	6	3	(acd)	17	-	27454104	27454103	C	null	17	-	32478339	32478338	99	5024235	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
532	17	27501838	27502143	17	32458981	32459320	+	+	1	5	6	15	(acd)	17	+	27501935	0	null	null	17	-	32459079	0	82	4957144	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
533	17	28367061	28367428	17	32477728	32478128	-	-	8	2	2	8	(acd)	17	-	28367329	28367327	CA	null	17	+	32478027	32478029	95	4110698	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	acd	MEDIUM	grey	NA
534	17	28374300	28374619	17	28391358	28391624	+	+	1	8	8	8	(acd)	17	+	28374389	28374395	AAGTTC	null	17	-	28391457	28391451	99	17068	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
537	17	32277021	32277360	17	32464879	32465221	-	-	8	10	8	12	(acd)	17	-	32277265	32277264	T	null	17	+	32465127	32465128	100	187862	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
539	17	37491201	37491587	17	37535925	37536321	+	-	2	4	0	0	(a--)	17	+	37491342	37491351	AGACCCTGT	null	17	+	37536221	37536230	93	44879	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
540	17	37704659	37704938	17	37888962	37889430	-	+	4	9	0	0	(a--)	17	-	37704822	37704818	TAAC	null	17	-	37889060	37889056	99	184238	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
541	17	61899975	61900328	17	62521944	62522284	+	-	2	0	0	5	(--d)	17	+	61900169	61900173	TATT	null	17	+	62522181	62522185	100	622012	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
542	17	65193937	65194318	17	65213013	65213494	-	+	4	5	0	0	(a--)	17	-	65194215	65194212	ATT	null	17	-	65213176	65213173	95	18961	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
544	18	21369985	21370361	18	21453978	21454345	-	+	4	8	0	0	(a--)	18	-	21370251	0	null	null	18	-	21454080	0	100	83829	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
547	19	4219697	4220107	19	4223116	4223605	+	-	2	7	0	0	(a--)	19	+	4219788	4219791	GGC	null	19	+	4223491	4223494	92	3703	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
548	19	15524747	15525240	19	15632973	15633480	-	+	4	4	0	0	(a--)	19	-	15525116	0	null	null	19	-	15633123	0	97	108007	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
550	19	36647562	36648187	19	39245555	39246040	-	+	4	0	0	5	(--d)	19	-	36648029	36648026	GCT	null	19	-	39245729	39245726	94	2597700	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
553	19	38134807	38135148	19	38137848	38138111	-	-	8	0	0	14	(--d)	19	-	38135053	0	null	GTAGCTTGAATTACAATTATTTTGGAT	19	+	38138031	0	99	2978	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
554	19	39244059	39244463	19	39245638	39246040	+	+	1	0	0	22	(--d)	19	+	39244278	39244281	GCT	null	19	-	39245729	39245726	95	1451	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
556	20	8288380	8288876	20	8360188	8360655	-	+	4	5	0	0	(a--)	20	-	8288656	8288653	CAG	null	20	-	8360318	8360315	100	71662	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
557	20	13348059	13348324	20	13349392	13349744	+	-	2	0	13	0	(-c-)	20	+	13348153	0	null	ATATTCAGGGTA	20	+	13349666	0	88	1513	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	c	MEDIUM	red	NA
558	20	39282891	39283394	20	41635286	41635787	-	-	8	6	0	0	(a--)	20	-	39283285	39283282	TAG	null	20	+	41635533	41635536	99	2352248	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
560	20	41151126	41151512	20	41151337	41151814	+	+	1	4	0	0	(a--)	20	+	41151234	41151242	GGACTATA	null	20	-	41151507	41151499	65	273	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
564	20	41549971	41550297	20	41595812	41596232	+	-	2	5	0	0	(a--)	20	+	41550105	0	null	AAGAGACAGTTGGAAG	20	+	41596126	0	100	46021	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
565	20	41594681	41595121	20	41629528	41630015	+	+	1	8	0	0	(a--)	20	+	41594826	0	null	null	20	-	41629644	0	100	34818	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	a	MEDIUM	orange	NA
566	20	52345021	52345457	20	52428422	52428812	-	+	4	0	6	0	(-c-)	20	-	52345343	52345342	T	null	20	-	52428577	52428576	95	83234	0	1	0	c	breakpoint.assoc.cn.change	copy.number.visual.inspection	c	HIGH	red	LATE
567	21	19159947	19160246	21	40163025	40163282	+	+	1	14	7	7	(acd)	21	+	19160042	19160045	ACT	null	21	-	40163127	40163124	99	21003085	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
568	21	22837489	22837954	21	22899782	22900134	+	+	1	9	0	0	(a--)	21	+	22837602	0	null	A	21	-	22899883	0	100	62281	1	0	0	a	breakpoint.assoc.cn.change	copy.number.visual.inspection	a	HIGH	orange	LATE
569	21	24839834	24840113	21	39708106	39708481	-	-	8	12	13	10	(acd)	21	-	24840022	24840019	AGT	null	21	+	39708388	39708391	98	14868366	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
570	21	27514672	27514977	21	27515678	27515957	+	-	2	15	12	60	(acd)	21	+	27514763	0	null	null	21	+	27515863	0	85	1100	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
571	21	28657580	28657812	21	28975883	28976125	+	-	2	3	15	71	(acd)	21	+	28657673	28657675	AG	null	21	+	28976029	28976031	100	318356	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
572	21	28962670	28962967	21	31962424	31962708	-	+	4	11	38	0	(ac-)	21	-	28962875	28962873	CA	null	21	-	31962513	31962511	94	2999638	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
573	21	29160490	29160775	21	29162142	29162363	-	-	8	0	0	33	(--d)	21	-	29160683	29160679	GAAG	null	21	+	29162265	29162269	95	1582	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
574	21	29286787	29287056	21	31239606	31239917	+	+	1	0	0	116	(--d)	21	+	29286874	29286876	TT	null	21	-	31239702	31239700	99	1952828	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
576	21	31027511	31027915	21	31338833	31339181	-	-	8	6	20	0	(ac-)	21	-	31027819	31027817	AC	null	21	+	31339069	31339071	98	311250	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
577	21	31177176	31177293	21	31184662	31184981	-	-	8	0	0	69	(--d)	21	-	31177202	31177200	GT	null	21	+	31184886	31184888	100	7684	0	0	1	d	breakpoint.assoc.cn.change	copy.number.visual.inspection	d	HIGH	purple	LATE
578	21	31228950	31229303	21	31230436	31230822	+	+	1	8	13	0	(ac-)	21	+	31229057	31229062	AAAAT	null	21	-	31230529	31230524	95	1472	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
579	21	31859182	31859440	21	31867813	31868147	+	+	1	5	17	0	(ac-)	21	+	31859271	31859275	CCTG	null	21	-	31867907	31867903	99	8636	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
580	21	31874735	31875033	21	31944427	31944739	-	-	8	15	31	1	(acd)	21	-	31874939	31874937	CA	null	21	+	31944646	31944648	99	69707	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	acd	MEDIUM	grey	NA
582	21	39707503	39707958	21	40245488	40245846	+	-	2	8	6	9	(acd)	21	+	39707603	39707606	CAG	null	21	+	40245749	40245752	100	538146	1	1	1	acd	breakpoint.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
586	X	113506261	113506590	X	137775459	137775787	-	-	8	8	8	0	(ac-)	X	-	113506465	113506463	TG	null	X	+	137775674	137775676	100	24269209	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
588	X	120436494	120436891	X	120436916	120437138	+	+	1	8	8	0	(ac-)	X	+	120436582	120436587	TTAAA	null	X	-	120437014	120437009	88	432	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA
590	X	120537578	120537909	X	120538341	120538656	+	-	2	6	6	0	(ac-)	X	+	120537670	120537674	GTAT	null	X	+	120538562	120538566	90	892	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
591	X	120579314	120579562	X	126973589	126974034	+	-	2	11	12	0	(ac-)	X	+	120579410	120579413	ACT	null	X	+	126973937	126973940	98	6394527	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
592	X	126885815	126885956	X	130546771	130547028	-	-	8	12	12	0	(ac-)	X	-	126885868	126885862	AGATAC	null	X	+	130546938	130546944	99	3661070	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
593	X	126973853	126974194	X	126974156	126974537	+	+	1	11	5	0	(ac-)	X	+	126973958	126973961	TTA	null	X	-	126974257	126974254	95	299	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
594	X	130550803	130551145	X	140050401	140050759	+	+	1	4	6	0	(ac-)	X	+	130550946	130550947	C	null	X	-	140050520	140050519	98	9499574	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
596	X	137875412	137875748	X	149539271	149539658	-	+	4	12	3	0	(ac-)	X	-	137875629	137875625	GCAG	null	X	-	149539376	149539372	100	11663747	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
597	X	138003252	138003577	X	146636232	146636757	+	-	2	4	5	0	(ac-)	X	+	138003372	0	null	AA	X	+	146636641	0	98	8633269	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
598	X	138086110	138086543	X	146691572	146691995	-	-	8	1	4	0	(ac-)	X	-	138086349	0	null	null	X	+	146691900	0	99	8605551	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
599	X	138103617	138104020	X	146697434	146697736	-	+	4	6	8	0	(ac-)	X	-	138103927	138103922	TCTTT	null	X	-	146697573	146697568	100	8593646	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
600	X	138154783	138155080	X	150548682	150549038	+	+	1	7	7	0	(ac-)	X	+	138154898	138154899	C	null	X	-	150548774	150548773	69	12393876	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
601	X	140039282	140039786	X	140040230	140040545	-	-	8	8	5	0	(ac-)	X	-	140039694	140039691	CCT	null	X	+	140040401	140040404	94	707	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
602	X	140841168	140841480	X	150315328	150315660	+	-	2	4	6	0	(ac-)	X	+	140841326	140841327	T	null	X	+	150315565	150315566	89	9474239	1	1	0	ac	breakpoint.assoc.cn.change	copy.number.visual.inspection	ac	HIGH	yellow	LATE
604	X	154821204	154821561	X	154849960	154850287	+	+	1	7	2	0	(ac-)	X	+	154821332	154821335	GCT	null	X	-	154850067	154850064	85	28735	0	0	0	na	no cn change seen	breakpoint.assoc.cn.change	ac	MEDIUM	yellow	NA