id	chrl	l5	l3	chrh	h5	h3	stl	sth	paired.Flag	PD9777a	PD9777c	PD9777d	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	brass2.ever	distance.between.breakpoints	CN_A	CN_C	CN_D	CN.presence.regions	val.verdict	val.platform	consensus.regions	confidence	color	TIMING
31	2	12823133	12823464	2	12826363	12826667	+	+	1	5	3	16	(acd)	2	+	12823223	12823226	CCT	null	2	-	12826460	12826457	97	yes	3237	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
3	1	3844313	3844745	1	4006081	4006388	-	+	4	2	1	17	(acd)	1	-	3844650	3844648	GG	null	1	-	4006180	4006178	84	yes	161530	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
4	1	5520986	5521288	1	5536518	5536801	-	+	4	5	5	25	(acd)	1	-	5521195	5521194	C	null	1	-	5536613	5536612	98	yes	15418	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
10	1	47430982	47431301	1	48805475	48805724	-	+	4	7	7	22	(acd)	1	-	47431202	47431201	A	null	1	-	48805572	48805571	100	yes	1374370	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
15	1	106227729	106228089	1	106248195	106248500	-	+	4	4	6	17	(acd)	1	-	106227999	106227996	ATA	null	1	-	106248304	106248301	100	yes	20305	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
17	1	164580568	164580804	1	164617247	164617479	-	+	4	7	2	11	(acd)	1	-	164580766	164580750	CGGTGGCTCACGCCTG	null	1	-	164617342	164617326	99	yes	36576	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
19	1	195191275	195191658	14	29206340	29206635	-	+	32	5	1	18	(acd)	1	-	195191557	195191556	A	null	14	-	29206431	29206430	99	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
20	1	196597368	196597741	5	20866535	20867055	+	+	32	1	1	7	(acd)	1	+	196597506	0	null	null	5	-	20866679	0	99	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
22	1	218348767	218349153	1	218860547	218860909	-	+	4	4	4	16	(acd)	1	-	218349057	0	null	TTTA	1	-	218860650	0	98	yes	511593	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
136	8	126149721	126150022	8	126150122	126150506	+	+	1	4	0	15	(a-d)	8	+	126149815	126149817	TC	null	8	-	126150213	126150211	95	yes	398	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
24	1	224558909	224559141	1	224621216	224621496	-	+	4	4	3	30	(acd)	1	-	224559047	0	null	null	1	-	224621309	0	99	yes	62262	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
25	1	225671404	225671758	1	225705223	225705473	-	+	4	1	3	16	(acd)	1	-	225671660	225671659	T	null	1	-	225705318	225705317	99	yes	33658	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
29	1	245747828	245748110	1	245753393	245753875	-	+	4	3	0	9	(a-d)	1	-	245748007	245748005	GC	null	1	-	245753495	245753493	100	yes	5488	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
30	2	4740795	4741056	2	4875782	4876058	+	-	2	3	9	22	(acd)	2	+	4740887	4740889	TT	null	2	+	4875949	4875951	99	yes	135062	1(subclonal)	1(subclonal)	1	acD	bkpt.assoc.cn.change	copy.number.visual.inspection	acD	HIGH	green	EARLY
230	16	23476661	23477004	16	88364054	88364400	+	+	1	0	0	18	(--d)	16	+	23476756	23476757	C	null	16	-	88364153	88364152	98	yes	64887397	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
254	21	14709252	14709568	21	14710147	14710633	+	+	1	1	1	4	(acd)	21	+	14709352	14709358	GAAATT	null	21	-	14710251	14710245	90	yes	899	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
33	2	27394087	27394423	2	27417287	27417654	-	+	4	4	6	20	(acd)	2	-	27394332	27394328	GGTG	null	2	-	27417382	27417378	96	yes	23050	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
266	22	42248769	42249010	22	42254799	42255206	+	+	1	0	0	14	(--d)	22	+	42248860	42248863	GTG	null	22	-	42254887	42254884	93	yes	6027	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
37	2	83344883	83345272	2	83352171	83352434	+	-	2	3	4	18	(acd)	2	+	83344981	83344984	CAA	null	2	+	83352337	83352340	68	yes	7356	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
40	2	134072751	134073128	2	134099839	134100178	-	+	4	3	8	20	(acd)	2	-	134073033	0	null	TCATATGTAATGA	2	-	134099944	0	100	yes	26911	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
23	1	223806668	223807043	1	223822767	223823312	+	-	2	1	0	7	(a-d)	1	+	223806794	223806797	CTG	null	1	+	223823219	223823222	80	yes	16425	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
42	2	175000773	175001105	2	175031983	175032256	-	+	4	6	6	12	(acd)	2	-	175000999	0	null	CATGGTGGAAGGCATGCTT	2	-	175032076	0	92	yes	31077	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
44	2	204480345	204480720	2	204535957	204536326	-	+	4	3	4	21	(acd)	2	-	204480623	0	null	AACAGAG	2	-	204536057	0	98	yes	55434	1(subclonal)	1(subclonal)	1	acD	bkpt.assoc.cn.change	copy.number.visual.inspection	acD	HIGH	green	EARLY
46	3	71456708	71456999	3	71470863	71471171	-	+	4	3	4	17	(acd)	3	-	71456890	71456889	T	null	3	-	71470956	71470955	98	yes	14066	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
48	3	109862922	109863276	3	109866761	109867033	+	-	2	3	6	21	(acd)	3	+	109863015	0	null	GTTGGCCAGGCTGTTCTCAAACTCCTGACCTCAGGTGATCCGCCCACCTCGGCCTCCG	3	+	109866977	0	99	yes	3962	0	0	0	no.associated.cn.change	no.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
41	2	160236423	160236826	2	160605536	160605849	+	-	2	0	0	10	(--d)	2	+	160236524	0	null	CTG	2	+	160605737	0	100	yes	369213	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
52	3	173018882	173019096	3	173041321	173041537	-	+	4	19	14	43	(acd)	3	-	173019005	173019003	AT	null	3	-	173041417	173041415	74	yes	22412	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
90	6	127342102	127342423	6	127346364	127346606	+	-	2	0	0	6	(--d)	6	+	127342214	127342216	GT	null	6	+	127346511	127346513	100	yes	4297	0	0	0	no.associated.cn.change	no.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
55	4	6148636	6148908	4	6171196	6171507	-	+	4	8	4	20	(acd)	4	-	6148815	6148814	C	null	4	-	6171288	6171287	95	yes	22473	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
57	4	46924472	46924864	9	12016278	12016578	-	+	32	3	7	15	(acd)	4	-	46924774	46924773	T	null	9	-	12016370	12016369	93	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
60	4	63343358	63343646	8	212544	212818	-	+	32	5	8	17	(acd)	4	-	63343564	63343554	GGAGCTTCAT	null	8	-	212637	212627	99	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
65	5	102635144	102635455	5	102652100	102652388	+	-	2	8	3	25	(acd)	5	+	102635236	102635237	A	null	5	+	102652293	102652294	98	yes	17057	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
68	5	126482689	126483018	5	126616053	126616340	+	-	2	5	5	28	(acd)	5	+	126482779	126482780	T	null	5	+	126616242	126616243	99	yes	133463	1(subclonal)	1(subclonal)	1	acD	bkpt.assoc.cn.change	copy.number.visual.inspection	acD	HIGH	green	EARLY
107	7	67444417	67444722	7	67451358	67451680	+	-	2	1	5	20	(acd)	7	+	67444524	0	null	null	7	+	67451573	0	85	yes	7049	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
121	7	120582390	120582839	7	120586687	120586968	+	-	2	0	0	14	(--d)	7	+	120582488	120582491	TCA	null	7	+	120586880	120586883	100	yes	4392	0	0	0	no.associated.cn.change	no.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
75	6	48661492	48661810	6	48662554	48662893	-	-	8	2	10	18	(acd)	6	-	48661706	0	null	GC	6	+	48662797	0	95	yes	1091	1(subclonal)	1(subclonal)	1	acD	bkpt.assoc.cn.change	copy.number.visual.inspection	acD	HIGH	green	EARLY
76	6	48695222	48695570	9	15219087	15219417	+	+	32	6	5	23	(acd)	6	+	48695329	0	null	null	9	-	15219182	0	100	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
79	6	103777081	103777380	6	103778453	103778834	+	-	2	4	5	19	(acd)	6	+	103777173	0	null	CA	6	+	103778735	0	88	yes	1562	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
81	6	125306898	125307120	6	125308889	125309060	-	-	8	51	71	237	(acd)	6	-	125307027	0	null	A	6	+	125308968	0	99	yes	1941	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
82	6	125353128	125353468	6	125442288	125442580	+	+	1	3	10	18	(acd)	6	+	125353219	125353221	AA	null	6	-	125442389	125442387	94	yes	89170	0	0	0	no.associated.cn.change	no.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
122	7	120587828	120588098	7	120613827	120614199	+	-	2	0	0	28	(--d)	7	+	120587916	120587918	CT	null	7	+	120614085	120614087	99	yes	26169	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
168	9	139713122	139713481	9	139714244	139714602	+	-	2	2	1	10	(acd)	9	+	139713231	139713233	TA	null	9	+	139714497	139714499	99	yes	1266	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
85	6	125512803	125513057	11	65191319	65191583	+	-	32	9	25	79	(acd)	6	+	125512893	125512896	GTC	null	11	+	65191490	65191493	99	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
88	6	126292168	126292389	6	126305811	126306176	+	+	1	0	0	5	(--d)	6	+	126292264	126292266	GA	null	6	-	126305910	126305908	93	yes	13646	0	0	0	no.associated.cn.change	no.cn.change	copy.number.visual.inspection	d	MEDIUM	blue	NA
89	6	126786838	126787078	6	133177316	133177619	-	-	8	7	11	33	(acd)	6	-	126786986	126786983	TGT	null	6	+	133177523	133177526	94	yes	6390537	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
170	10	21595904	21596140	10	21609168	21609541	+	-	2	6	6	28	(acd)	10	+	21595965	21595991	CCTGTAATCCCAGCACTTTGGGAGGC	null	10	+	21609436	21609462	97	yes	13471	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
91	6	128925023	128925283	6	128926769	128927057	+	+	1	21	32	103	(acd)	6	+	128925109	128925113	AAAT	null	6	-	128926861	128926857	84	yes	1752	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
92	6	133198605	133198864	9	12059259	12059574	+	+	32	8	18	49	(acd)	6	+	133198697	133198700	TTG	null	9	-	12059349	12059346	94	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
93	6	133206704	133207046	9	11553828	11554129	-	-	32	7	11	30	(acd)	6	-	133206949	133206948	A	null	9	+	11554032	11554033	98	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
94	6	133617492	133617701	9	11623773	11624050	+	-	32	5	20	46	(acd)	6	+	133617583	133617585	GT	null	9	+	11623956	11623958	99	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
96	6	158560867	158561260	6	158583920	158584226	+	-	2	6	11	16	(acd)	6	+	158560952	158560954	AT	null	6	+	158584121	158584123	99	yes	23169	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
97	6	159209133	159209471	6	159294896	159295267	+	+	1	2	11	35	(acd)	6	+	159209229	0	null	C	6	-	159294986	0	95	yes	85757	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
98	6	159248114	159248438	6	159314556	159314829	-	-	8	5	3	25	(acd)	6	-	159248350	159248347	ACA	null	6	+	159314721	159314724	93	yes	66371	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
99	6	159269496	159269842	6	159289615	159289872	+	-	2	4	12	19	(acd)	6	+	159269573	159269587	GATTACAGGTGTGA	null	6	+	159289795	159289809	98	yes	20222	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
100	6	163872606	163872923	6	163874986	163875307	+	+	1	10	9	23	(acd)	6	+	163872703	163872705	GC	null	6	-	163875079	163875077	98	yes	2376	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
102	7	6648740	6649163	7	6664441	6664819	-	+	4	5	0	11	(a-d)	7	-	6649064	0	null	GGC	7	-	6664532	0	91	yes	15468	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
176	10	89684700	89685028	10	89690466	89690794	+	-	2	3	2	29	(acd)	10	+	89684785	89684789	ACAG	null	10	+	89690687	89690691	100	yes	5902	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
204	12	87526109	87526373	12	87563367	87563729	+	-	2	4	6	20	(acd)	12	+	87526204	0	null	null	12	+	87563635	0	99	yes	37431	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
111	7	72705269	72705687	7	72841124	72841474	-	+	4	1	0	20	(a-d)	7	-	72705530	72705528	CA	null	7	-	72841220	72841218	98	yes	135690	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
117	7	99737441	99737848	7	100847052	100847334	-	+	4	5	3	23	(acd)	7	-	99737753	0	null	CG	7	-	100847169	0	98	yes	1109416	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
119	7	111265217	111265609	7	111367905	111368223	-	+	4	2	9	21	(acd)	7	-	111265510	0	null	CTGAGGTGG	7	-	111368005	0	100	yes	102495	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
255	21	23770663	23771048	21	23809111	23809434	+	-	2	0	0	21	(--d)	21	+	23770759	23770761	TC	null	21	+	23809338	23809340	94	yes	38579	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
264	22	29019132	29019472	22	29027848	29028184	+	-	2	0	0	14	(--d)	22	+	29019240	0	null	null	22	+	29028087	0	99	yes	8847	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
124	7	130912051	130912408	7	130933615	130933942	-	+	4	0	4	22	(-cd)	7	-	130912311	130912310	G	null	7	-	130933707	130933706	70	yes	21396	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
125	7	146330289	146330579	7	146344287	146344547	-	+	4	6	4	28	(acd)	7	-	146330484	146330482	AA	null	7	-	146344377	146344375	98	yes	13893	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
126	8	4243956	4244258	8	4695195	4695552	-	+	4	3	4	1	(acd)	8	-	4244166	4244163	AAC	null	8	-	4695288	4695285	97	yes	451122	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
128	8	48647028	48647345	8	48670432	48670846	-	+	4	0	4	20	(-cd)	8	-	48647257	48647253	CATT	null	8	-	48670534	48670530	98	yes	23277	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
129	8	60720394	60720688	8	60731841	60732127	-	+	4	5	6	26	(acd)	8	-	60720591	60720590	T	null	8	-	60731933	60731932	97	yes	11342	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
132	8	112418679	112418987	8	112421204	112421558	+	-	2	5	14	23	(acd)	8	+	112418770	0	null	null	8	+	112421463	0	92	yes	2693	0	0	0	no.associated.cn.change	no.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
268	22	42257586	42258003	22	42323013	42323314	+	-	2	0	0	14	(--d)	22	+	42257677	42257681	GCAC	null	22	+	42323214	42323218	100	yes	65537	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
1	1	814010	814220	1	880632	881106	-	+	4	2	1	9	(acd)	1	-	814087	814085	CT	null	1	-	880728	880726	64	yes	66641	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
36	2	64114205	64114607	2	64658050	64658517	-	+	4	0	0	7	(--d)	2	-	64114505	64114503	CA	null	2	-	64658179	64658177	94	yes	543674	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
139	8	135549639	135549970	11	94336678	94336994	-	+	32	5	7	13	(acd)	8	-	135549878	135549875	AGT	null	11	-	94336774	94336771	98	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
49	3	123647756	123648028	3	123734089	123734443	-	+	4	5	7	22	(acd)	3	-	123647938	123647937	C	null	3	-	123734188	123734187	99	yes	86250	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
146	9	4482762	4483041	9	4483662	4483948	-	-	8	9	14	42	(acd)	9	-	4482959	0	null	GCTTCCAATAAATGTTTTTT	9	+	4483855	0	88	yes	896	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
147	9	5283352	5283642	9	12107893	12108135	+	+	1	19	31	101	(acd)	9	+	5283441	5283445	TATT	null	9	-	12107986	12107982	100	yes	6824545	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
148	9	6263286	6263549	9	6264685	6265039	-	-	8	10	8	38	(acd)	9	-	6263460	6263456	CAAA	null	9	+	6264943	6264947	95	yes	1483	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
149	9	11233520	11233798	9	11234218	11234585	-	-	8	4	9	32	(acd)	9	-	11233701	11233700	C	null	9	+	11234484	11234485	90	yes	783	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
150	9	11613651	11613895	9	12994243	12994555	+	-	2	4	14	36	(acd)	9	+	11613738	11613745	ACATACA	null	9	+	12994459	12994466	100	yes	1380721	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
153	9	12103940	12104180	9	17908347	17908598	-	+	4	23	22	119	(acd)	9	-	12104090	12104088	TT	null	9	-	17908439	17908437	100	yes	5804349	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
154	9	12772808	12773094	13	28398960	28399273	-	+	32	4	3	29	(acd)	9	-	12773000	12772998	CT	null	13	-	28399065	28399063	99	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
155	9	13098874	13099282	9	13107729	13108084	+	-	2	0	0	17	(--d)	9	+	13098969	0	null	GTCCTTTT	9	+	13107919	0	100	yes	8950	0	0	0	no.associated.cn.change	no.cn.change	copy.number.visual.inspection	d	MEDIUM	blue	NA
156	9	13804218	13804501	9	14218986	14219270	-	+	4	30	29	77	(acd)	9	-	13804412	13804410	GC	null	9	-	14219073	14219071	93	yes	414661	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
159	9	14242770	14243095	9	14250208	14250510	-	+	4	16	11	44	(acd)	9	-	14243003	0	null	T	9	-	14250308	0	98	yes	7305	0	0	0	no.associated.cn.change	no.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
160	9	90199207	90199632	9	90265614	90265933	-	+	4	2	7	15	(acd)	9	-	90199532	90199530	AC	null	9	-	90265742	90265740	95	yes	66210	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
161	9	92800454	92800790	9	92814589	92814894	+	-	2	2	7	28	(acd)	9	+	92800547	0	null	GTGTGACT	9	+	92814801	0	95	yes	14254	1(subclonal)	1(subclonal)	1	acD	bkpt.assoc.cn.change	copy.number.visual.inspection	acD	HIGH	green	EARLY
164	9	130093462	130093751	9	130292501	130292743	-	+	4	4	3	20	(acd)	9	-	130093654	0	null	GTTATAGGCATACACCTATA	9	-	130292594	0	97	yes	198940	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
165	9	136554348	136554617	17	50394274	50394571	-	-	32	4	4	27	(acd)	9	-	136554518	0	null	TGACA	17	+	50394481	0	99	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
166	9	136557356	136557682	9	136558753	136559121	+	+	1	6	0	12	(a-d)	9	+	136557447	136557449	GT	null	9	-	136558847	136558845	94	yes	1400	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
167	9	139507574	139507929	9	139717240	139717571	-	+	4	3	0	15	(a-d)	9	-	139507832	139507829	GCC	null	9	-	139717315	139717312	100	yes	209483	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
53	3	183005574	183005832	3	183121966	183122280	-	+	4	5	7	29	(acd)	3	-	183005751	0	null	AAGGCCATGGGCTCAAATGAAC	3	-	183122063	0	98	yes	116312	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
71	6	22059041	22059485	6	22078584	22079027	-	+	4	0	0	6	(--d)	6	-	22059359	22059355	GAGA	null	6	-	22078746	22078742	80	yes	19387	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
173	10	70037061	70037456	10	70087792	70088111	-	+	4	7	7	16	(acd)	10	-	70037343	70037342	T	null	10	-	70087894	70087893	98	yes	50551	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
72	6	31822823	31823160	6	31824412	31824809	-	+	4	0	0	11	(--d)	6	-	31823020	31823015	TGCCA	null	6	-	31824519	31824514	74	yes	1499	0	0	0	no.associated.cn.change	no.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
83	6	125405091	125405470	6	125480846	125481375	-	+	4	0	0	4	(--d)	6	-	125405321	0	null	null	6	-	125481000	0	85	yes	75679	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
84	6	125492117	125492425	6	125546019	125546411	-	+	4	0	0	25	(--d)	6	-	125492328	125492326	GT	null	6	-	125546110	125546108	93	yes	53782	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
110	7	69708241	69708640	7	70479921	70480384	-	+	4	0	0	13	(--d)	7	-	69708547	69708546	A	null	7	-	70480047	70480046	94	yes	771500	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
137	8	128642682	128643093	8	128715391	128715826	-	+	4	0	0	10	(--d)	8	-	128642871	0	null	GC	8	-	128715485	0	97	yes	72614	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
138	8	128703500	128703743	8	128760061	128760306	-	+	4	0	0	123	(--d)	8	-	128703654	128703652	CT	null	8	-	128760159	128760157	96	yes	56505	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
187	11	18247198	18247463	11	44466810	44467124	-	+	4	7	10	26	(acd)	11	-	18247370	0	null	null	11	-	44466912	0	83	yes	26219542	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
188	11	19906409	19906787	11	20021073	20021399	-	+	4	1	7	30	(acd)	11	-	19906697	19906692	AGATG	null	11	-	20021167	20021162	98	yes	114470	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
191	11	44422708	44423093	11	44463731	44464060	-	-	8	6	7	17	(acd)	11	-	44422995	44422992	GCA	null	11	+	44463956	44463959	100	yes	40961	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
192	11	44444038	44444561	11	44468462	44468821	+	+	1	3	1	5	(acd)	11	+	44444148	44444151	GCC	null	11	-	44468556	44468553	99	yes	24408	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
142	8	144892652	144893081	8	144997296	144997778	-	+	4	0	0	5	(--d)	8	-	144892983	144892981	TG	null	8	-	144997420	144997418	89	yes	104437	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
194	11	122460854	122461034	11	122461610	122461853	+	-	2	8	2	24	(acd)	11	+	122460915	122460936	AATCCCAGCACTTTGGGAGGC	null	11	+	122461777	122461798	85	yes	862	0	0	0	no.associated.cn.change	no.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
196	12	7999489	7999797	12	8006069	8006409	+	-	2	5	3	18	(acd)	12	+	7999593	0	null	GTGT	12	+	8006314	0	99	yes	6721	0	0	0	no.associated.cn.change	no.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
177	10	122677565	122677860	10	123313142	123313445	-	+	4	0	0	46	(--d)	10	-	122677754	0	null	AATCATGTAA	10	-	123313234	0	100	yes	635480	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
199	12	12016188	12016511	19	8138703	8138978	+	-	32	6	12	42	(acd)	12	+	12016283	12016285	TG	null	19	+	8138872	8138874	98	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
178	10	122871908	122872280	10	123295961	123296315	-	+	4	2	5	90	(acd)	10	-	122872184	0	null	T	10	-	123296052	0	99	yes	423868	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
180	10	123013635	123013872	10	123428802	123429102	-	+	4	42	0	0	(a--)	10	-	123013778	123013775	GAA	null	10	-	123428900	123428897	98	yes	415122	1	0	0	a	bkpt.assoc.cn.change	copy.number.visual.inspection	a	HIGH	red	LATE
205	12	133279924	133280222	12	133497050	133497335	+	-	2	4	2	26	(acd)	12	+	133280023	133280025	GT	null	12	+	133497240	133497242	98	yes	217217	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
208	13	48942912	48943234	13	48954839	48955128	-	+	4	12	9	21	(acd)	13	-	48943141	48943139	GA	null	13	-	48954930	48954928	100	yes	11789	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
210	13	55930100	55930426	13	56024454	56024769	-	+	4	7	8	27	(acd)	13	-	55930328	0	null	A	13	-	56024551	0	100	yes	94223	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
212	13	63434317	63434725	20	1984251	1984596	-	-	32	1	5	18	(acd)	13	-	63434638	63434636	GA	null	20	+	1984477	1984479	99	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
213	13	83807045	83807346	17	54658467	54658822	-	+	32	3	5	15	(acd)	13	-	83807253	0	null	null	17	-	54658583	0	100	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
214	13	100778060	100778369	13	100822417	100822663	-	+	4	5	8	22	(acd)	13	-	100778277	100778274	ACA	null	13	-	100822518	100822515	99	yes	44241	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
217	14	72166088	72166402	14	72191913	72192232	-	+	4	3	7	27	(acd)	14	-	72166306	0	null	null	14	-	72192021	0	100	yes	25715	1(subclonal)	1(subclonal)	1	acD	bkpt.assoc.cn.change	copy.number.visual.inspection	acD	HIGH	green	EARLY
218	14	89770657	89770956	14	89771598	89771953	-	+	4	3	4	19	(acd)	14	-	89770855	0	null	AA	14	-	89771698	0	85	yes	843	0	0	0	no.associated.cn.change	no.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
220	15	43464578	43464826	19	41520027	41520412	-	+	32	5	5	31	(acd)	15	-	43464733	43464730	TGT	null	19	-	41520126	41520123	93	yes	NA	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
181	10	123050318	123050685	10	123256502	123256988	-	+	4	0	0	4	(--d)	10	-	123050582	123050580	GG	null	10	-	123256604	123256602	95	yes	206022	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
229	16	19237435	19237734	16	19275514	19275810	-	+	4	7	6	36	(acd)	16	-	19237639	0	null	TTACCCTGGAGAAGGATG	16	-	19275605	0	93	yes	37966	1(subclonal)	1(subclonal)	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
183	10	123174866	123175319	10	123375653	123376131	-	+	4	0	0	6	(--d)	10	-	123175226	123175225	G	null	10	-	123375745	123375744	99	yes	200519	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
193	11	47198227	47198663	11	47351643	47352075	-	+	4	0	0	13	(--d)	11	-	47198559	0	null	null	11	-	47351756	0	95	yes	153197	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
232	16	29905201	29905607	16	29907822	29908361	+	-	2	1	2	5	(acd)	16	+	29905352	0	null	null	16	+	29908222	0	94	yes	2870	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
233	16	33594519	33594889	16	33814479	33815026	-	+	4	1	1	7	(acd)	16	-	33594768	0	null	TATTTTAA	16	-	33814619	0	97	yes	219851	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
234	16	70109232	70109566	16	70118952	70119306	+	-	2	4	0	17	(a-d)	16	+	70109317	0	null	CTGAGA	16	+	70119165	0	98	yes	9848	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
235	16	80105169	80105481	16	80117031	80117328	+	-	2	8	2	22	(acd)	16	+	80105263	80105265	GA	null	16	+	80117224	80117226	93	yes	11961	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
239	17	74320010	74320449	17	74340914	74341311	+	-	2	1	0	13	(a-d)	17	+	74320120	74320136	GCTGAGGCAGGAGAAT	null	17	+	74341214	74341230	98	yes	21094	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
244	19	14502605	14502909	19	14537121	14537412	+	-	2	6	2	31	(acd)	19	+	14502697	14502699	AG	null	19	+	14537316	14537318	61	yes	34619	1(subclonal)	1(subclonal)	1	acD	bkpt.assoc.cn.change	copy.number.visual.inspection	acD	HIGH	green	EARLY
245	19	18327793	18328150	19	18328969	18329239	+	-	2	4	0	9	(a-d)	19	+	18327884	0	null	A	19	+	18329134	0	89	yes	1250	1	1	1	acd	bkpt.assoc.cn.change	copy.number.visual.inspection	acd	HIGH	grey	EARLY
198	12	12012102	12012455	12	12164280	12164719	-	+	4	0	0	18	(--d)	12	-	12012355	12012353	GC	null	12	-	12164370	12164368	93	yes	152015	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
201	12	12071846	12072167	12	12209033	12209344	-	+	4	2	3	32	(acd)	12	-	12072075	12072074	T	null	12	-	12209130	12209129	97	yes	137055	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
224	15	99393887	99394247	15	99425855	99426295	-	+	4	0	0	21	(--d)	15	-	99394157	99394153	TATA	null	15	-	99425949	99425945	100	yes	31792	0	0	1	d	bkpt.assoc.cn.change	copy.number.visual.inspection	d	HIGH	blue	LATE
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