#INFO: PE => number of discordant paired end reads supporting the SV
#INFO: SR => number of split reads supporting the SV
#INFO: 1000G => 1000 Genomes Project call set
#INFO: DGV => Database of Genomic Variants
#INFO: GAP => UCSC gap regions
#INFO: inHouse => In-house database of SVs called in germline genomes
#INFO: COSMIC => COSMIC v86
#INFO: Cancer_census =>  Cancer Census COSMIC v86
#INFO: KnownFusion => Known list of fusions from NYGC and/or COSMIC
#chr1	start1	end1	chr2	start2	end2	type	score	strand1	strand2	evidence	tools	tumor--normal	info	cnv_changepoint_1	cnv_changepoint_2	splazerS_tumor	splazerS_normal
chrX	27188674	27188675	chrX	94069205	94069206	INV	NA	-	-	[Svaba_SR=20,Svaba_PE=25],[Manta_PE=23,Manta_SR=17],[Lumpy_PE=15,Lumpy_SR=15]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;gap;Cancer_census=ARAF,SSX1,WAS,FOXO4,ZMYM3,NONO,FAM47C,BCOR,DDX3X,SSX4,GATA1,TFE3,SSX2,SMC1A,AMER1,MSN,MED12,KDM5C,AR,KDM6A,RBM10,ATRX;DisruptL=AC107419.1;DisruptR=;ClosestL=AC112493.1;ClosestR=	27188681	94069101	16,27188673,94069205	0,0,0
chrX	77602700	77602701	chrX	77603722	77603723	DEL	NA	+	-	[Svaba_SR=30,Svaba_PE=31],[Manta_PE=20,Manta_SR=25],[Lumpy_PE=20,Lumpy_SR=18]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;Cancer_census=ATRX;DisruptL=ATRX;DisruptR=ATRX;ClosestL=;ClosestR=	94069100	94069100	21,77602701,77603722	0,0,0
chrX	79121234	79121235	chrX	80097355	80097356	INV	NA	+	+	[Manta_PE=5,Manta_SR=25]	manta	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=;ClosestL=;ClosestR=	94069100	94069100	0,0,0	0,0,0
chrX	129341026	129341027	chrX	129372988	129372989	DUP	NA	-	+	[Svaba_SR=0,Svaba_PE=26],[Manta_PE=20,Manta_SR=35]	svaba,manta	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	123576327	123576327	37,129340950,129372989	0,0,0
chrX	154977661	154977662	chrX	154998320	154998321	DEL	NA	+	-	[Svaba_SR=45,Svaba_PE=62],[Manta_PE=60,Manta_SR=35],[Lumpy_PE=46,Lumpy_SR=27]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=F8;DisruptR=F8;ClosestL=;ClosestR=	156030795	156030795	26,154977662,154998320	0,0,0
chr1	11072158	11072159	chr19	37273781	37273782	TRA	NA	+	+	[Svaba_SR=27,Svaba_PE=17],[Manta_PE=9,Manta_SR=15]	manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=AL109811.1,EXOSC10;DisruptR=;ClosestL=SRM;ClosestR=AC016590.1	11072309	37270967	16,11072163,37273782	0,0,0
chr1	30938030	30938031	chr6	42280513	42280514	TRA	NA	-	+	[Svaba_SR=138,Svaba_PE=151],[Manta_PE=157,Manta_SR=120],[Lumpy_PE=127,Lumpy_SR=70]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=PUM1;DisruptR=TRERF1;Fusion=PUM1-TRERF1;ClosestL=RN7SL371P;ClosestR=	30937958	42280534	68,30938029,42280514	0,0,0
chr1	31088968	31088969	chr6	41330099	41330100	TRA	NA	+	-	[Svaba_SR=82,Svaba_PE=54],[Manta_PE=90,Manta_SR=91],[Lumpy_PE=59,Lumpy_SR=56]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;ClosestL=SELENOWP1;ClosestR=NCR2	31088920	41330046	15,31088970,41330091	0,0,0
chr1	36957367	36957368	chr1	36957883	36957884	DUP	NA	-	+	[Svaba_SR=0,Svaba_PE=8]	svaba	HCC1187--HCC-1187BL	known=;DisruptL=GRIK3;DisruptR=GRIK3;ClosestL=;ClosestR=	31088920	31088920	2,36957293,36957707	0,0,0
chr1	37355319	37355320	chr1	37938872	37938873	DUP	NA	-	+	[Svaba_SR=30,Svaba_PE=35],[Manta_PE=31,Manta_SR=24],[Lumpy_PE=26,Lumpy_SR=19]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=INPP5B;ClosestL=;ClosestR=RF00017	31088920	31088920	21,37355319,37938873	0,0,0
chr1	63523446	63523447	chr1	63825597	63825598	INV	NA	+	+	[Lumpy_PE=2,Lumpy_SR=2]	lumpy	HCC1187--HCC-1187BL	known=;DisruptL=ITGB3BP,EFCAB7;DisruptR=ROR1;Fusion=ROR1+ITGB3BP;ClosestL=RN7SL488P;ClosestR=CFL1P3	83995849	83995849	2,63523446,63825597	0,0,0
chr1	79748086	79748087	chr1	79750126	79750127	DEL	NA	+	-	[Svaba_SR=32,Svaba_PE=35],[Manta_PE=40,Manta_SR=26],[Lumpy_PE=25,Lumpy_SR=22]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	83995849	83995849	23,79748085,79750126	0,0,0
chr1	83826732	83826733	chr8	99948485	99948486	TRA	NA	-	-	[Svaba_SR=26,Svaba_PE=16],[Manta_PE=13,Manta_SR=21],[Lumpy_PE=8,Lumpy_SR=12]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=LINC01725;DisruptR=;ClosestL=;ClosestR=RGS22	83995849	123656900	16,83826729,99948485	0,0,0
chr1	83995880	83995881	chr8	99977871	99977872	TRA	NA	+	+	[Svaba_SR=78,Svaba_PE=81],[Manta_PE=83,Manta_SR=67],[Lumpy_PE=55,Lumpy_SR=52]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=TTLL7;DisruptR=RGS22;ClosestL=TTLL7-IT1;ClosestR=	83995850	123656900	47,83995880,99977872	0,0,0
chr1	97547194	97547195	chrX	53249048	53249049	TRA	NA	+	+	[Svaba_SR=25,Svaba_PE=24],[Manta_PE=23,Manta_SR=24],[Lumpy_PE=13,Lumpy_SR=15]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=DPYD;DisruptR=IQSEC2;ClosestL=SEC63P1;ClosestR=	97547226	53248309	21,97547194,53249049	0,0,0
chr1	113503747	113503748	chr5	147605226	147605227	TRA	NA	+	+	[Manta_PE=1,Manta_SR=19]	manta	HCC1187--HCC-1187BL	known=;DisruptL=MAGI3;DisruptR=JAKMIP2-AS1,JAKMIP2;Fusion=MAGI3-JAKMIP2;ClosestL=;ClosestR=	114927901	181449255	3,113503753,147605227	0,0,0
chr1	114927985	114927986	chr8	99977924	99977925	TRA	NA	-	-	[Svaba_SR=61,Svaba_PE=51],[Manta_PE=59,Manta_SR=51],[Lumpy_PE=35,Lumpy_SR=35]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=SYCP1;DisruptR=RGS22;Fusion=RGS22-SYCP1;ClosestL=;ClosestR=	114927902	123656900	41,114927987,99977924	0,0,0
chr1	115214762	115214763	chr1	115215649	115215650	DEL	NA	+	-	[Manta_PE=35,Manta_SR=54],[Lumpy_PE=36,Lumpy_SR=37]	manta,lumpy	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	114927902	114927902	34,115214760,115215643	0,0,0
chr1	117039408	117039409	chr1	117052486	117052487	INV	NA	-	-	[Svaba_SR=10,Svaba_PE=11],[Manta_PE=12,Manta_SR=10],[Lumpy_PE=9,Lumpy_SR=8]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=AL445231.1;DisruptR=AL445231.1;ClosestL=CD101;ClosestR=TTF2	117039160	117039160	9,117039409,117052486	0,0,0
chr1	125074520	125074521	chr7	61070225	61070226	TRA	NA	+	-	[Manta_PE=8,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	122510058	16339	0,0,0	0,0,0
chr1	145915224	145915225	chr1	145917334	145917335	DEL	NA	+	-	[Svaba_SR=48,Svaba_PE=57],[Manta_PE=50,Manta_SR=38],[Lumpy_PE=39,Lumpy_SR=16]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=PEX11B;DisruptR=PEX11B;ClosestL=RBM8A;ClosestR=RBM8A	143268055	143268055	25,145915224,145917334	0,0,0
chr1	152108122	152108123	chr1	152108723	152108724	DUP	NA	-	+	[Svaba_SR=0,Svaba_PE=19]	svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=TCHH;DisruptR=TCHH;ClosestL=AL589986.1;ClosestR=AL589986.1	152269317	152269317	0,0,0	0,0,0
chr1	152266457	152266458	chr1	152268017	152268018	DEL	NA	+	-	[Manta_PE=67,Manta_SR=68]	manta	HCC1187--HCC-1187BL	known=;DisruptL=FLG-AS1;DisruptR=FLG-AS1;ClosestL=;ClosestR=	152269317	152269317	40,152266458,152268016	0,0,0
chr1	159123226	159123227	chr1	217446485	217446486	INV	NA	+	+	[Svaba_SR=44,Svaba_PE=43],[Manta_PE=42,Manta_SR=43],[Lumpy_PE=59,Lumpy_SR=80]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;Cancer_census=SLC45A3,FCGR2B,DDR2,PRRX1,ABL2,TPR,ELF3,MDM4,ELK4,SDHC,CDC73,PTPRC,PBX1;DisruptL=AIM2;DisruptR=GPATCH2;ClosestL=;ClosestR=	152269318	248946322	33,159123227,217446492	0,0,0
chr1	159123235	159123236	chr1	217446515	217446516	INV	NA	-	-	[Svaba_SR=66,Svaba_PE=41],[Manta_PE=39,Manta_SR=55],[Lumpy_PE=59,Lumpy_SR=80]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;Cancer_census=SLC45A3,FCGR2B,DDR2,PRRX1,ABL2,TPR,ELF3,MDM4,ELK4,SDHC,CDC73,PTPRC,PBX1;DisruptL=AIM2;DisruptR=GPATCH2;ClosestL=;ClosestR=	152269318	248946322	45,159123235,217446513	0,0,0
chr1	188818138	188818139	chr1	188819642	188819643	DEL	NA	+	-	[Svaba_SR=25,Svaba_PE=29],[Manta_PE=25,Manta_SR=16],[Lumpy_PE=19,Lumpy_SR=14]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	152269318	152269318	15,188818138,188819642	0,0,0
chr1	192351688	192351689	chr1	192488644	192488645	DUP	NA	-	+	[Svaba_SR=46,Svaba_PE=54],[Manta_PE=51,Manta_SR=39],[Lumpy_PE=41,Lumpy_SR=29]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=RGS21,AL390957.1;DisruptR=AL390957.1;ClosestL=;ClosestR=	152269318	152269318	30,192351692,192488645	0,0,0
chr1	229392453	229392454	chr1	230257948	230257949	DEL	NA	+	-	[Svaba_SR=0,Svaba_PE=35],[Manta_PE=35,Manta_SR=31]	manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=GALNT2;ClosestL=RNU6-180P;ClosestR=AL136988.2	248946322	248946322	10,229392477,230257953	0,0,0
chr1	229392654	229392655	chr1	230258147	230258148	DUP	NA	-	+	[Svaba_SR=0,Svaba_PE=19],[Manta_PE=19,Manta_SR=31]	manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=GALNT2;ClosestL=RNU6-180P;ClosestR=AL136988.2	248946322	248946322	7,229392643,230258121	0,0,0
chr2	1010782	1010783	chr2	1021396	1021397	DEL	NA	+	-	[Svaba_SR=34,Svaba_PE=41],[Manta_PE=34,Manta_SR=30],[Lumpy_PE=27,Lumpy_SR=19]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=SNTG2;DisruptR=SNTG2;ClosestL=;ClosestR=	10005	10005	19,1010788,1021396	0,0,0
chr2	10097680	10097681	chr2	10182038	10182039	DUP	NA	-	+	[Svaba_SR=61,Svaba_PE=57],[Manta_PE=49,Manta_SR=55],[Lumpy_PE=36,Lumpy_SR=33]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=AC007240.1,C2orf48;ClosestL=RF00568;ClosestR=MIR4261	11340610	11340610	33,10097679,10182039	0,0,0
chr2	11340628	11340629	chr2	55078510	55078511	DEL	NA	+	-	[Svaba_SR=25,Svaba_PE=36],[Manta_PE=32,Manta_SR=25],[Lumpy_PE=19,Lumpy_SR=19]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;gap;Cancer_census=MYCN,C2orf44,NCOA1,ASXL2,SIX2,EPAS1,MSH6,FBXO11,DNMT3A,STRN,EML4,MSH2,ALK,BIRC6;DisruptL=ROCK2;DisruptR=RTN4;Fusion=RTN4+ROCK2;ClosestL=PPIAP60;ClosestR=	11340611	55078447	22,11340627,55078510	0,0,0
chr2	19255709	19255710	chr2	19259885	19259886	INV	NA	+	+	[Svaba_SR=29,Svaba_PE=21],[Manta_PE=19,Manta_SR=22],[Lumpy_PE=33,Lumpy_SR=11]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=LINC01376;DisruptR=LINC01376;ClosestL=;ClosestR=	11340611	11340611	22,19255711,19259894	0,0,0
chr2	19255718	19255719	chr2	19260148	19260149	INV	NA	-	-	[Svaba_SR=30,Svaba_PE=13],[Manta_PE=22,Manta_SR=25],[Lumpy_PE=33,Lumpy_SR=11]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=LINC01376;DisruptR=LINC01376;ClosestL=;ClosestR=	11340611	11340611	0,0,0	0,0,0
chr2	22295031	22295032	chr2	22295565	22295566	DEL	NA	+	-	[Manta_PE=20,Manta_SR=6],[Lumpy_PE=6,Lumpy_SR=7]	lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=LINC01830;DisruptR=LINC01830;ClosestL=;ClosestR=	32953080	32953080	7,22295033,22295564	0,0,0
chr2	32953102	32953103	chr2	33018183	33018184	DEL	NA	+	-	[Svaba_SR=40,Svaba_PE=49],[Manta_PE=56,Manta_SR=39],[Lumpy_PE=36,Lumpy_SR=31]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=LTBP1;DisruptR=LTBP1;ClosestL=RF00019;ClosestR=	32953081	33018158	33,32953101,33018183	0,0,0
chr2	42434317	42434318	chr2	42451731	42451732	INV	NA	+	+	[Svaba_SR=29,Svaba_PE=35],[Manta_PE=30,Manta_SR=27],[Lumpy_PE=29,Lumpy_SR=5]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=KCNG3;ClosestL=RF00612;ClosestR=RF00612	33018158	33018158	22,42434321,42451735	0,0,0
chr2	42438491	42438492	chr2	42452836	42452837	INV	NA	-	-	[Svaba_SR=26,Svaba_PE=23],[Manta_PE=24,Manta_SR=24],[Lumpy_PE=17,Lumpy_SR=15]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=KCNG3;ClosestL=RF00612;ClosestR=VDAC1P13	33018158	33018158	16,42438483,42452836	0,0,0
chr2	53970216	53970217	chr2	90381210	90381211	INV	NA	+	+	[Svaba_SR=0,Svaba_PE=26],[Lumpy_PE=14,Lumpy_SR=6]	lumpy,svaba	HCC1187--HCC-1187BL	known=;gap;Cancer_census=PCBP1,BCL11A,REL,XPO1,DCTN1;DisruptL=PSME4;DisruptR=;ClosestL=ACYP2;ClosestR=AC233263.6	53970246	67038352	18,53970217,90381211	0,0,0
chr2	66780784	66780785	chr2	67038412	67038413	DEL	NA	+	-	[Svaba_SR=31,Svaba_PE=41],[Manta_PE=32,Manta_SR=25],[Lumpy_PE=24,Lumpy_SR=19]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=;ClosestL=;ClosestR=AC007403.1	66780863	67038352	18,66780786,67038410	0,0,0
chr2	69932313	69932314	chr2	70131231	70131232	DEL	NA	+	-	[Svaba_SR=27,Svaba_PE=33],[Manta_PE=33,Manta_SR=30],[Lumpy_PE=23,Lumpy_SR=21]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;Cancer_census=PCBP1;DisruptL=MXD1;DisruptR=;ClosestL=;ClosestR=LINC01816	67038352	67038352	24,69932315,70131221	0,0,0
chr2	78163397	78163398	chr2	78164890	78164891	DEL	NA	+	-	[Svaba_SR=28,Svaba_PE=34],[Manta_PE=33,Manta_SR=22],[Lumpy_PE=22,Lumpy_SR=15]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	67038352	67038352	20,78163395,78164890	0,0,0
chr2	92530458	92530459	chr20	32713327	32713328	TRA	NA	-	+	[Svaba_SR=34,Svaba_PE=28]	svaba	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=COMMD7,FO393400.1;ClosestL=;ClosestR=	67038352	32713333	36,92530458,32713328	0,0,0
chr2	104950249	104950250	chr2	105274698	105274699	DUP	NA	-	+	[Manta_PE=30,Manta_SR=25],[Lumpy_PE=27,Lumpy_SR=17]	manta,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=AC010884.1;DisruptR=TGFBRAP1;Fusion=AC010884.1+TGFBRAP1;ClosestL=;ClosestR=	67038352	67038352	24,104950254,105274704	0,0,0
chr2	139754838	139754839	chr2	139755905	139755906	DEL	NA	+	-	[Svaba_SR=18,Svaba_PE=25],[Manta_PE=11,Manta_SR=17],[Lumpy_PE=16,Lumpy_SR=14]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	165996671	165996671	14,139754840,139755904	0,0,0
chr2	165996707	165996708	chr2	166087685	166087686	DEL	NA	+	-	[Svaba_SR=48,Svaba_PE=59],[Manta_PE=53,Manta_SR=40],[Lumpy_PE=35,Lumpy_SR=31]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;DisruptL=AC010127.1,SCN1A;DisruptR=AC010127.1,SCN1A;ClosestL=;ClosestR=	165996672	166087602	32,165996709,166087685	0,0,0
chr2	172150939	172150940	chr2	172227309	172227310	DUP	NA	-	+	[Svaba_SR=28,Svaba_PE=31],[Manta_PE=27,Manta_SR=22],[Lumpy_PE=23,Lumpy_SR=15]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	166087602	166087602	20,172150939,172227310	0,0,0
chr2	216347781	216347782	chr2	216348698	216348699	DEL	NA	+	-	[Svaba_SR=41,Svaba_PE=65],[Manta_PE=44,Manta_SR=33],[Lumpy_PE=39,Lumpy_SR=25]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=MARCH4;DisruptR=MARCH4;ClosestL=RF00019;ClosestR=RF00019	221633776	221633776	23,216347781,216348698	0,0,0
chr2	221633792	221633793	chr2	222290638	222290639	DUP	NA	-	+	[Svaba_SR=35,Svaba_PE=31],[Manta_PE=26,Manta_SR=31],[Lumpy_PE=25,Lumpy_SR=21]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;COSMIC;Cancer_census=PAX3;DisruptL=;DisruptR=PAX3;ClosestL=AC068489.1;ClosestR=CCDC140	221633777	222290576	25,221633793,222290639	0,0,0
chr2	239473113	239473114	chr2	239518898	239518899	DUP	NA	-	+	[Svaba_SR=37,Svaba_PE=54],[Manta_PE=45,Manta_SR=34],[Lumpy_PE=38,Lumpy_SR=30]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;ClosestL=;ClosestR=	242183395	242183395	28,239473115,239518899	0,0,0
chr3	9464893	9464894	chr3	10566006	10566007	DUP	NA	-	+	[Svaba_SR=25,Svaba_PE=28],[Manta_PE=23,Manta_SR=20],[Lumpy_PE=23,Lumpy_SR=13]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;Cancer_census=VHL,FANCD2;DisruptL=SETD5;DisruptR=ATP2B2;ClosestL=;ClosestR=ATP2B2-IT1	9464868	10565956	17,9464892,10566007	0,0,0
chr3	49398237	49398238	chr3	49547607	49547608	DUP	NA	-	+	[Svaba_SR=34,Svaba_PE=35],[Manta_PE=31,Manta_SR=23],[Lumpy_PE=30,Lumpy_SR=10]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=RHOA;DisruptR=;ClosestL=TCTA;ClosestR=BSN-DT	10565956	10565956	22,49398238,49547608	0,0,0
chr3	56435398	56435399	chr3	56440738	56440739	DUP	NA	-	+	[Svaba_SR=51,Svaba_PE=67],[Manta_PE=60,Manta_SR=41],[Lumpy_PE=52,Lumpy_SR=32]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=ERC2;DisruptR=ERC2;ClosestL=;ClosestR=	10565956	10565956	29,56435399,56440739	0,0,0
chr3	57140943	57140944	chr3	57246774	57246775	DUP	NA	-	+	[Svaba_SR=58,Svaba_PE=78],[Manta_PE=74,Manta_SR=52],[Lumpy_PE=65,Lumpy_SR=32]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=IL17RD;DisruptR=APPL1;ClosestL=AC097358.1;ClosestR=	10565956	10565956	40,57140944,57246775	0,0,0
chr3	93470626	93470627	chr13	88970812	88970813	TRA	NA	+	-	[Svaba_SR=60,Svaba_PE=0]	svaba	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=GRPEL2P1	129572182	88970766	45,93470637,88970810	0,0,0
chr3	129573007	129573008	chr3	129701071	129701072	DUP	NA	-	+	[Svaba_SR=63,Svaba_PE=73],[Manta_PE=71,Manta_SR=52],[Lumpy_PE=62,Lumpy_SR=37]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=PLXND1;DisruptR=TMCC1;Fusion=PLXND1+TMCC1;ClosestL=RN7SL752P;ClosestR=	129572183	129701071	40,129573010,129701072	0,0,0
chr3	134620709	134620710	chr3	134621344	134621345	DEL	NA	+	-	[Svaba_SR=51,Svaba_PE=50],[Manta_PE=27,Manta_SR=40],[Lumpy_PE=25,Lumpy_SR=36]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=EPHB1,KY;DisruptR=EPHB1,KY;ClosestL=;ClosestR=	129701072	129701072	29,134620709,134621344	0,0,0
chr3	155419720	155419721	chr3	155430641	155430642	DEL	NA	+	-	[Svaba_SR=50,Svaba_PE=59],[Manta_PE=57,Manta_SR=37],[Lumpy_PE=46,Lumpy_SR=28]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=PLCH1;DisruptR=PLCH1;ClosestL=AC108729.1;ClosestR=AC108729.1	129701072	129701072	30,155419721,155430641	0,0,0
chr3	172265667	172265668	chr8	68677772	68677773	TRA	NA	+	+	[Manta_PE=2,Manta_SR=2]	manta	HCC1187--HCC-1187BL	known=;DisruptL=FNDC3B;DisruptR=C8orf34;ClosestL=;ClosestR=RNA5SP269	198139690	123656900	0,0,0	0,0,0
chr4	13433848	13433849	chr4	13867779	13867780	DUP	NA	-	+	[Svaba_SR=36,Svaba_PE=31],[Manta_PE=33,Manta_SR=30],[Lumpy_PE=27,Lumpy_SR=26]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=RAB28;DisruptR=LINC01182;ClosestL=;ClosestR=	13433767	13868011	24,13433848,13867780	0,0,0
chr4	15623654	15623655	chr4	15715678	15715679	DUP	NA	-	+	[Svaba_SR=32,Svaba_PE=41],[Manta_PE=32,Manta_SR=25],[Lumpy_PE=28,Lumpy_SR=17]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;DisruptL=FBXL5;DisruptR=BST1;ClosestL=;ClosestR=FAM200B	13868012	13868012	19,15623654,15715679	0,0,0
chr4	16864875	16864876	chr19	22301446	22301447	TRA	NA	+	-	[Svaba_SR=0,Svaba_PE=9]	svaba	HCC1187--HCC-1187BL	known=;DisruptL=LDB2;DisruptR=ZNF729;ClosestL=;ClosestR=BNIP3P31	13868012	37270966	0,0,0	0,0,0
chr4	33264345	33264346	chrX	11934675	11934676	TRA	NA	-	-	[Manta_PE=13,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	13868012	10446	0,0,0	0,0,0
chr4	33264466	33264467	chrX	11935156	11935157	TRA	NA	+	+	[Manta_PE=13,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	13868012	10446	0,0,0	0,0,0
chr4	40767408	40767409	chr4	40818586	40818587	DUP	NA	-	+	[Svaba_SR=69,Svaba_PE=62],[Manta_PE=41,Manta_SR=59]	manta,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=NSUN7;DisruptR=AC131953.1,APBB2;Fusion=AC131953.1+NSUN7;ClosestL=ARL4AP2;ClosestR=RF00019	13868012	13868012	48,40767410,40818587	0,0,0
chr4	42401409	42401410	chr4	42405144	42405145	DEL	NA	+	-	[Svaba_SR=37,Svaba_PE=39],[Manta_PE=33,Manta_SR=32],[Lumpy_PE=23,Lumpy_SR=20]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=SHISA3;DisruptR=;ClosestL=ATP8A1;ClosestR=SHISA3	13868012	13868012	27,42401416,42405144	0,0,0
chr4	78063526	78063527	chr4	78098602	78098603	DUP	NA	-	+	[Svaba_SR=55,Svaba_PE=65],[Manta_PE=63,Manta_SR=54],[Lumpy_PE=52,Lumpy_SR=38]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=FRAS1;DisruptR=FRAS1;ClosestL=;ClosestR=	136871289	136871289	36,78063516,78098603	0,0,0
chr4	81355261	81355262	chr4	81461460	81461461	DUP	NA	-	+	[Svaba_SR=32,Svaba_PE=34],[Manta_PE=27,Manta_SR=26],[Lumpy_PE=22,Lumpy_SR=19]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=RASGEF1B;ClosestL=;ClosestR=	136871289	136871289	24,81355263,81461461	0,0,0
chr4	90900818	90900819	chr4	90936440	90936441	DUP	NA	-	+	[Svaba_SR=46,Svaba_PE=59],[Manta_PE=56,Manta_SR=38],[Lumpy_PE=44,Lumpy_SR=23]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=CCSER1;DisruptR=CCSER1;ClosestL=;ClosestR=	136871289	136871289	32,90900819,90936441	0,0,0
chr4	109850223	109850224	chr19	17349248	17349249	TRA	NA	-	+	[Manta_PE=8,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;DisruptL=LRIT3;DisruptR=;ClosestL=RRH;ClosestR=PLVAP	136871289	5824139	2,109850423,17349163	0,0,0
chr4	116456576	116456577	chr4	116469025	116469026	DUP	NA	-	+	[Svaba_SR=28,Svaba_PE=37],[Manta_PE=35,Manta_SR=28],[Lumpy_PE=33,Lumpy_SR=15]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;ClosestL=;ClosestR=	136871289	136871289	22,116456575,116469028	0,0,0
chr4	136871281	136871282	chr4	136898160	136898161	DEL	NA	+	-	[Svaba_SR=60,Svaba_PE=58],[Manta_PE=53,Manta_SR=50],[Lumpy_PE=34,Lumpy_SR=25]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=LINC02511;DisruptR=LINC02511;ClosestL=;ClosestR=	136871289	136898090	13,136871279,136898160	0,0,0
chr4	145157655	145157656	chr4	145585044	145585045	DUP	NA	-	+	[Svaba_SR=34,Svaba_PE=63],[Manta_PE=67,Manta_SR=28],[Lumpy_PE=62,Lumpy_SR=7]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=OTUD4;DisruptR=;ClosestL=RF00019;ClosestR=LINC02491	145157668	145584969	18,145157654,145585046	0,0,0
chr4	153058298	153058299	chr14	19787408	19787409	TRA	NA	+	-	[Svaba_SR=0,Svaba_PE=10]	svaba	HCC1187--HCC-1187BL	known=;DisruptL=AC093599.1;DisruptR=OR4N2;Fusion=AC093599.1-OR4N2;ClosestL=;ClosestR=OR4M1	145584969	18263373	4,153058298,19787255	0,0,0
chr4	172008972	172008973	chr4	172009700	172009701	DEL	NA	+	-	[Manta_PE=17,Manta_SR=18],[Lumpy_PE=22,Lumpy_SR=13]	lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=GALNTL6;DisruptR=GALNTL6;ClosestL=;ClosestR=	190066290	190066290	13,172008974,172009697	0,0,0
chr4	180318744	180318745	chr9	108067171	108067172	TRA	NA	-	-	[Manta_PE=2,Manta_SR=2]	manta	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	190066290	112114443	0,0,0	0,0,0
chr4	189048539	189048540	chr5	52136510	52136511	TRA	NA	-	-	[Lumpy_PE=3,Lumpy_SR=1]	lumpy	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	190066290	46502195	0,0,0	0,0,0
chr5	1300944	1300945	chr5	1341135	1341136	DEL	NA	+	-	[Svaba_SR=29,Svaba_PE=31],[Manta_PE=26,Manta_SR=30],[Lumpy_PE=15,Lumpy_SR=24]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=CLPTM1L;ClosestL=TERT;ClosestR=	11484	11484	28,1300946,1341134	0,0,0
chr5	35556288	35556289	chr5	35558777	35558778	DEL	NA	+	-	[Svaba_SR=48,Svaba_PE=51],[Manta_PE=51,Manta_SR=41],[Lumpy_PE=39,Lumpy_SR=24]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	46502194	46502194	27,35556294,35558776	0,0,0
chr5	37047378	37047379	chr5	37139698	37139699	DUP	NA	-	+	[Svaba_SR=29,Svaba_PE=33],[Manta_PE=31,Manta_SR=26]	manta,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=NIPBL;DisruptR=CPLANE1;ClosestL=;ClosestR=C8orf59P2	46502194	46502194	20,37047378,37139699	0,0,0
chr5	66379919	66379920	chr5	66401392	66401393	DUP	NA	-	+	[Svaba_SR=24,Svaba_PE=32],[Manta_PE=32,Manta_SR=22],[Lumpy_PE=26,Lumpy_SR=14]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	46502195	46502195	20,66379919,66401393	0,0,0
chr5	77043379	77043380	chr5	176305681	176305682	INV	NA	-	-	[Manta_PE=0,Manta_SR=12]	manta	HCC1187--HCC-1187BL	known=;gap;Cancer_census=APC,PDGFRB,CD74,ITK,PWWP2A,NPM1,ACSL6,AFF4,ARHGAP26,CSF1R,EBF1,TLX3;DisruptL=AGGF1,AC008581.2;DisruptR=SIMC1;ClosestL=;ClosestR=BRCC3P1	46502195	181449255	0,0,0	0,0,0
chr5	103966799	103966800	chr6	160114953	160114954	TRA	NA	+	-	[Manta_PE=0,Manta_SR=48]	manta	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=IGF2R	46502195	149655901	32,103966801,160114953	0,0,0
chr5	175048147	175048148	chr5	175109272	175109273	DUP	NA	-	+	[Svaba_SR=33,Svaba_PE=34],[Manta_PE=29,Manta_SR=25],[Lumpy_PE=26,Lumpy_SR=18]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;COSMIC;ClosestL=;ClosestR=	181449255	181449255	20,175048148,175109273	0,0,0
chr6	1719768	1719769	chr6	5740662	5740663	DEL	NA	+	-	[Svaba_SR=23,Svaba_PE=28],[Manta_PE=29,Manta_SR=24],[Lumpy_PE=23,Lumpy_SR=13]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=GMDS;DisruptR=FARS2;ClosestL=;ClosestR=	1864356	5740656	0,0,0	0,0,0
chr6	1809635	1809636	chr6	1864313	1864314	DUP	NA	-	+	[Svaba_SR=66,Svaba_PE=77],[Manta_PE=65,Manta_SR=55],[Lumpy_PE=59,Lumpy_SR=45]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=GMDS;DisruptR=GMDS;ClosestL=;ClosestR=	1864356	1864356	44,1809636,1864314	0,0,0
chr6	2101212	2101213	chr6	2119073	2119074	DUP	NA	-	+	[Svaba_SR=18,Svaba_PE=35],[Manta_PE=31,Manta_SR=11],[Lumpy_PE=29,Lumpy_SR=9]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=GMDS;DisruptR=GMDS;ClosestL=;ClosestR=	1864357	1864357	11,2101213,2119074	0,0,0
chr6	11282995	11282996	chr6	11465415	11465416	DUP	NA	-	+	[Svaba_SR=26,Svaba_PE=27],[Manta_PE=21,Manta_SR=23],[Lumpy_PE=17,Lumpy_SR=19]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=NEDD9;DisruptR=AL445430.1;ClosestL=;ClosestR=	5740656	5740656	22,11282995,11465416	0,0,0
chr6	13190584	13190585	chr18	4779389	4779390	TRA	NA	-	-	[Manta_PE=2,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;DisruptL=PHACTR1;DisruptR=AP005203.1;Fusion=AP005203.1-PHACTR1;ClosestL=;ClosestR=	5740656	8940325	0,0,0	0,0,0
chr6	13191165	13191166	chr14	41267267	41267268	TRA	NA	-	+	[Manta_PE=0,Manta_SR=9]	manta	HCC1187--HCC-1187BL	known=;DisruptL=PHACTR1;DisruptR=;ClosestL=;ClosestR=	5740656	41200381	4,13191164,41267268	0,0,0
chr6	13191247	13191248	chr18	4779476	4779477	TRA	NA	+	+	[Manta_PE=20,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;DisruptL=PHACTR1;DisruptR=AP005203.1;Fusion=PHACTR1-AP005203.1;ClosestL=;ClosestR=	5740656	8940325	0,0,0	0,0,0
chr6	15084384	15084385	chr12	103294424	103294425	TRA	NA	-	+	[Manta_PE=2,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;DisruptL=AL138720.1;DisruptR=C12orf42;Fusion=AL138720.1-C12orf42;ClosestL=AL050335.1;ClosestR=	5740656	128424712	14,15084550,103294414	4,15084550,103294414
chr6	15084817	15084818	chr12	103294462	103294463	TRA	NA	+	-	[Manta_PE=7,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;DisruptL=AL138720.1;DisruptR=C12orf42;Fusion=C12orf42-AL138720.1;ClosestL=AL050335.1;ClosestR=	5740656	128424712	2,15084643,103294473	3,15084590,103294428
chr6	29975776	29975777	chr11	16655731	16655732	TRA	NA	-	-	[Manta_PE=11,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;DisruptL=HCG9;DisruptR=SOX6,C11orf58;Fusion=SOX6-HCG9;ClosestL=MICD;ClosestR=	41330045	10460501	0,0,0	0,0,0
chr6	29975777	29975778	chr10	106813681	106813682	TRA	NA	-	-	[Manta_PE=7,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;DisruptL=HCG9;DisruptR=SORCS1;Fusion=SORCS1-HCG9;ClosestL=MICD;ClosestR=	41330045	82676187	0,0,0	0,0,0
chr6	32385546	32385547	chr7	99888627	99888628	TRA	NA	+	-	[Svaba_SR=0,Svaba_PE=8]	svaba	HCC1187--HCC-1187BL	known=;DisruptL=AL662796.1;DisruptR=TRIM4;ClosestL=BTNL2;ClosestR=OR2AE1	41330045	149545816	5,32385505,99888661	2,32385505,99888661
chr6	32591084	32591085	chr11	108643501	108643502	TRA	NA	-	-	[Manta_PE=10,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;ClosestL=HLA-DRB1;ClosestR=	41330045	90936583	0,0,0	0,0,0
chr6	38868675	38868676	chr6	38961594	38961595	DUP	NA	-	+	[Svaba_SR=27,Svaba_PE=39],[Manta_PE=34,Manta_SR=25],[Lumpy_PE=26,Lumpy_SR=20]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;DisruptL=DNAH8;DisruptR=DNAH8;ClosestL=;ClosestR=AL034345.2	41330045	41330045	20,38868675,38961595	0,0,0
chr6	41234532	41234533	chr6	41719688	41719689	DUP	NA	-	+	[Svaba_SR=37,Svaba_PE=40],[Manta_PE=29,Manta_SR=32],[Lumpy_PE=26,Lumpy_SR=27]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;Cancer_census=TFEB;DisruptL=TREML4;DisruptR=TFEB;ClosestL=RNA5SP207;ClosestR=AL035588.1	41330045	41330046	23,41234532,41719689	0,0,0
chr6	41400802	41400803	chr6	41494575	41494576	DUP	NA	-	+	[Svaba_SR=59,Svaba_PE=65],[Manta_PE=58,Manta_SR=58],[Lumpy_PE=50,Lumpy_SR=41]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=;ClosestL=AL136967.2;ClosestR=FOXP4-AS1	41330046	41330046	38,41400801,41494578	0,0,0
chr6	100490954	100490955	chr6	100700604	100700605	DEL	NA	+	-	[Svaba_SR=36,Svaba_PE=43],[Manta_PE=35,Manta_SR=29],[Lumpy_PE=23,Lumpy_SR=19]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=ASCC3;ClosestL=ASCC3;ClosestR=	78326602	78326602	23,100490955,100700604	0,0,0
chr6	108232269	108232270	chr6	108399087	108399088	DEL	NA	+	-	[Lumpy_PE=3,Lumpy_SR=1]	lumpy	HCC1187--HCC-1187BL	known=;DisruptL=SNX3;DisruptR=AFG1L;ClosestL=Z98742.2;ClosestR=RNU6-770P	134006347	134006347	3,108232267,108399087	0,0,0
chr6	134006352	134006353	chr6	134216603	134216604	DEL	NA	+	-	[Svaba_SR=58,Svaba_PE=67],[Manta_PE=50,Manta_SR=52],[Lumpy_PE=42,Lumpy_SR=36]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;Cancer_census=SGK1;DisruptL=SLC2A12;DisruptR=SGK1;Fusion=SGK1+SLC2A12;ClosestL=AL449363.1;ClosestR=RPS29P32	134006348	134216593	37,134006354,134216603	0,0,0
chr6	149186418	149186419	chr6	149655862	149655863	DUP	NA	-	+	[Svaba_SR=32,Svaba_PE=32],[Manta_PE=27,Manta_SR=23],[Lumpy_PE=22,Lumpy_SR=15]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=;ClosestL=;ClosestR=LATS1	149186362	149655900	19,149186420,149655863	0,0,0
chr6	165025170	165025171	chr20	51294749	51294750	TRA	NA	+	-	[Manta_PE=2,Manta_SR=2]	manta	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	170740360	64334067	0,0,0	0,0,0
chr7	56125408	56125409	chr7	56125919	56125920	DEL	NA	+	-	[Svaba_SR=22,Svaba_PE=27],[Manta_PE=19,Manta_SR=19],[Lumpy_PE=8,Lumpy_SR=13]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;ClosestL=NUPR2;ClosestR=NUPR2	16339	16339	14,56125414,56125919	0,0,0
chr7	70495123	70495124	chr7	70530566	70530567	DUP	NA	-	+	[Svaba_SR=23,Svaba_PE=33],[Manta_PE=30,Manta_SR=24],[Lumpy_PE=26,Lumpy_SR=17]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=AUTS2;DisruptR=AUTS2;ClosestL=;ClosestR=	16339	16339	16,70495128,70530567	0,0,0
chr7	73486322	73486323	chr7	73690169	73690170	DUP	NA	-	+	[Manta_PE=38,Manta_SR=22],[Lumpy_PE=32,Lumpy_SR=7]	manta,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=BAZ1B;DisruptR=BUD23;ClosestL=;ClosestR=DNAJC30	16339	16339	19,73486327,73690175	0,0,0
chr7	91888219	91888220	chr7	91888826	91888827	DUP	NA	-	+	[Svaba_SR=0,Svaba_PE=8]	svaba	HCC1187--HCC-1187BL	known=;ClosestL=MTERF1;ClosestR=MTERF1	149545816	149545816	0,0,0	0,0,0
chr7	104903199	104903200	chr7	105089002	105089003	DUP	NA	-	+	[Svaba_SR=15,Svaba_PE=22],[Manta_PE=23,Manta_SR=9],[Lumpy_PE=18,Lumpy_SR=8]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=LHFPL3-AS2,LHFPL3;DisruptR=KMT2E;Fusion=KMT2E+LHFPL3;ClosestL=RN7SL8P;ClosestR=AC005070.3	149545816	149545816	8,104903200,105089003	0,0,0
chr7	111418017	111418018	chr7	111440360	111440361	DEL	NA	+	-	[Svaba_SR=40,Svaba_PE=57],[Manta_PE=50,Manta_SR=36],[Lumpy_PE=40,Lumpy_SR=30]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=IMMP2L;DisruptR=IMMP2L;ClosestL=AC003989.1;ClosestR=	149545816	149545816	29,111418018,111440360	0,0,0
chr7	115363718	115363719	chr19	37758268	37758269	TRA	NA	+	+	[Svaba_SR=0,Svaba_PE=8],[Manta_PE=8,Manta_SR=0]	svaba,manta	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=ZNF573;ClosestL=;ClosestR=	149545816	37270967	0,0,0	0,0,0
chr7	133451388	133451389	chr7	133535567	133535568	DEL	NA	+	-	[Svaba_SR=50,Svaba_PE=58],[Manta_PE=54,Manta_SR=44],[Lumpy_PE=39,Lumpy_SR=33]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=EXOC4;DisruptR=EXOC4;ClosestL=;ClosestR=	149545816	149545816	35,133451390,133535567	0,0,0
chr7	142457026	142457027	chr7	142513427	142513428	DEL	NA	+	-	[Svaba_SR=0,Svaba_PE=8]	svaba	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=;ClosestL=TRBV7-4;ClosestR=TRBV7-7	149545816	149545816	0,0,0	0,0,0
chr7	148080561	148080562	chr7	148086389	148086390	DUP	NA	-	+	[Svaba_SR=16,Svaba_PE=27],[Manta_PE=28,Manta_SR=15],[Lumpy_PE=28,Lumpy_SR=2]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;Cancer_census=CNTNAP2;DisruptL=CNTNAP2;DisruptR=CNTNAP2;ClosestL=;ClosestR=	149545816	149545816	10,148080560,148086390	0,0,0
chr7	149545776	149545777	chr8	142901156	142901157	TRA	NA	+	-	[Svaba_SR=54,Svaba_PE=69],[Manta_PE=68,Manta_SR=49],[Lumpy_PE=48,Lumpy_SR=33]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=GML;ClosestL=ZNF767P;ClosestR=CYP11B2	149545816	142901154	28,149545777,142901156	0,0,0
chr8	1287716	1287717	chr8	1288383	1288384	DUP	NA	-	+	[Manta_PE=8,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;DisruptL=DLGAP2;DisruptR=DLGAP2;ClosestL=AF067845.2;ClosestR=AF067845.2	71162	71162	0,0,0	0,0,0
chr8	6065794	6065795	chr8	6141974	6141975	DUP	NA	-	+	[Svaba_SR=36,Svaba_PE=37],[Manta_PE=37,Manta_SR=29],[Lumpy_PE=30,Lumpy_SR=19]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=AC009435.1;DisruptR=AC009435.1;ClosestL=;ClosestR=	71162	71162	26,6065797,6141975	0,0,0
chr8	6635783	6635784	chr8	6742182	6742183	DUP	NA	-	+	[Svaba_SR=36,Svaba_PE=45],[Manta_PE=40,Manta_SR=29],[Lumpy_PE=34,Lumpy_SR=20]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=MCPH1,MCPH1-AS1;DisruptR=AGPAT5;Fusion=AGPAT5+MCPH1;ClosestL=MIR8055;ClosestR=MIR4659A	71162	71162	24,6635787,6742183	0,0,0
chr8	18290510	18290511	chr8	18291372	18291373	DEL	NA	+	-	[Svaba_SR=40,Svaba_PE=0],[Manta_PE=27,Manta_SR=32],[Lumpy_PE=19,Lumpy_SR=25]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	71162	71162	30,18290511,18291372	0,0,0
chr8	41600317	41600318	chr8	41611794	41611795	DEL	NA	+	-	[Svaba_SR=62,Svaba_PE=64],[Manta_PE=57,Manta_SR=50],[Lumpy_PE=39,Lumpy_SR=32]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=GPAT4;DisruptR=GPAT4,AC009630.3;ClosestL=AC009630.3;ClosestR=	71162	71162	43,41600315,41611794	0,0,0
chr8	47515973	47515974	chr8	47553070	47553071	DUP	NA	-	+	[Svaba_SR=27,Svaba_PE=27],[Manta_PE=24,Manta_SR=19],[Lumpy_PE=21,Lumpy_SR=3]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;DisruptL=SPIDR;DisruptR=SPIDR;ClosestL=AC024451.2;ClosestR=AC024451.1	71162	71162	18,47515975,47553071	0,0,0
chr8	52066260	52066261	chr8	52081342	52081343	DEL	NA	+	-	[Svaba_SR=27,Svaba_PE=27],[Manta_PE=18,Manta_SR=23],[Lumpy_PE=12,Lumpy_SR=19]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	71162	71162	19,52066261,52081342	0,0,0
chr8	53957268	53957269	chr8	54114333	54114334	DUP	NA	-	+	[Svaba_SR=31,Svaba_PE=29],[Manta_PE=28,Manta_SR=24],[Lumpy_PE=20,Lumpy_SR=17]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;Cancer_census=TCEA1;DisruptL=RGS20;DisruptR=;ClosestL=TCEA1;ClosestR=LYPLA1	71162	71162	18,53957267,54114334	0,0,0
chr8	69198197	69198198	chr8	69202920	69202921	DEL	NA	+	-	[Svaba_SR=23,Svaba_PE=35],[Manta_PE=30,Manta_SR=23],[Lumpy_PE=22,Lumpy_SR=18]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;COSMIC;ClosestL=;ClosestR=	123656900	123656900	19,69198197,69202920	0,0,0
chr8	78849924	78849925	chr8	78875721	78875722	DUP	NA	-	+	[Svaba_SR=27,Svaba_PE=31],[Manta_PE=26,Manta_SR=20],[Lumpy_PE=22,Lumpy_SR=16]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;ClosestL=AC083837.1;ClosestR=	123656900	123656900	18,78849924,78875722	0,0,0
chr8	101318365	101318366	chr8	101478031	101478032	DUP	NA	-	+	[Svaba_SR=56,Svaba_PE=62],[Manta_PE=52,Manta_SR=46],[Lumpy_PE=42,Lumpy_SR=40]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=AP001207.3;ClosestL=RNU7-67P;ClosestR=GRHL2	123656900	123656900	21,101318367,101478032	0,0,0
chr8	104058587	104058588	chr8	104062024	104062025	DEL	NA	+	-	[Svaba_SR=56,Svaba_PE=18]	svaba	HCC1187--HCC-1187BL	known=;DisruptL=RIMS2;DisruptR=RIMS2;ClosestL=;ClosestR=	123656900	123656900	39,104058589,104062024	0,0,0
chr8	107973150	107973151	chr8	107974357	107974358	DEL	NA	+	-	[Svaba_SR=14,Svaba_PE=27],[Manta_PE=20,Manta_SR=14],[Lumpy_PE=24,Lumpy_SR=6]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;Cancer_census=RSPO2;DisruptL=RSPO2;DisruptR=RSPO2;ClosestL=NRBF2P4;ClosestR=NRBF2P4	123656900	123656900	13,107973141,107974382	0,0,0
chr8	123656928	123656929	chr8	126449890	126449891	DEL	NA	+	-	[Svaba_SR=65,Svaba_PE=57],[Manta_PE=45,Manta_SR=50],[Lumpy_PE=30,Lumpy_SR=28]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;DisruptL=AC090193.1;DisruptR=;ClosestL=KLHL38;ClosestR=	123656901	126449872	39,123656930,126449890	0,0,0
chr9	12889268	12889269	chr9	13056053	13056054	DUP	NA	-	+	[Svaba_SR=105,Svaba_PE=122],[Manta_PE=117,Manta_SR=91],[Lumpy_PE=98,Lumpy_SR=71]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=;ClosestL=RF00019;ClosestR=	12889209	13056040	57,12889270,13056062	0,0,0
chr9	15234457	15234458	chr19	41768775	41768776	TRA	NA	+	+	[Manta_PE=3,Manta_SR=32]	manta	HCC1187--HCC-1187BL	known=;DisruptL=TTC39B;DisruptR=CEACAM6,AC243967.2;Fusion=CEACAM6-TTC39B;ClosestL=;ClosestR=AC243967.1	13056040	37270967	19,15234459,41768776	0,0,0
chr9	27320055	27320056	chr9	27369387	27369388	DUP	NA	-	+	[Svaba_SR=26,Svaba_PE=24],[Manta_PE=25,Manta_SR=22],[Lumpy_PE=18,Lumpy_SR=16]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=MOB3B;ClosestL=MOB3B;ClosestR=	13056040	13056040	17,27320056,27369388	0,0,0
chr9	100401327	100401328	chr9	100463898	100463899	DUP	NA	-	+	[Svaba_SR=28,Svaba_PE=39],[Manta_PE=33,Manta_SR=21],[Lumpy_PE=29,Lumpy_SR=20]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=MSANTD3-TMEFF1;ClosestL=;ClosestR=TMEFF1	112114443	112114443	19,100401333,100463899	0,0,0
chr9	112114499	112114500	chr9	112332630	112332631	DUP	NA	-	+	[Svaba_SR=62,Svaba_PE=70],[Manta_PE=60,Manta_SR=52],[Lumpy_PE=48,Lumpy_SR=45]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=SUSD1;DisruptR=PTBP3;Fusion=SUSD1+PTBP3;ClosestL=;ClosestR=	112114444	112332601	39,112114502,112332631	0,0,0
chr9	126736718	126736719	chrX	115125574	115125575	TRA	NA	+	+	[Manta_PE=3,Manta_SR=11]	manta	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=LRCH2;ClosestL=;ClosestR=SNORA35B	138313848	123576326	0,0,0	0,0,0
chr9	127393514	127393515	chr9	127484137	127484138	DEL	NA	+	-	[Manta_PE=3,Manta_SR=3]	manta	HCC1187--HCC-1187BL	known=;DisruptL=GARNL3;DisruptR=LRSAM1;Fusion=GARNL3+LRSAM1;ClosestL=SLC2A8;ClosestR=RF00019	138313848	138313848	2,127393516,127484138	0,0,0
chr9	128994609	128994610	chr9	129001531	129001532	DUP	NA	-	+	[Svaba_SR=103,Svaba_PE=121],[Manta_PE=104,Manta_SR=89],[Lumpy_PE=82,Lumpy_SR=71]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=NUP188;DisruptR=NUP188;ClosestL=AL592211.1;ClosestR=AL592211.1	138313848	138313848	65,128994611,129001532	0,0,0
chr9	132950665	132950666	chr9	137560745	137560746	INV	NA	+	+	[Svaba_SR=0,Svaba_PE=12],[Manta_PE=9,Manta_SR=0]	svaba,manta	HCC1187--HCC-1187BL	known=;gap;Cancer_census=RALGDS,BRD3,NOTCH1;DisruptL=GFI1B;DisruptR=DPH7;Fusion=GFI1B+DPH7;ClosestL=TSC1;ClosestR=MRPL41	138313848	138313848	0,0,0	0,0,0
chr10	429108	429109	chr10	429634	429635	DUP	NA	-	+	[Svaba_SR=0,Svaba_PE=11]	svaba	HCC1187--HCC-1187BL	known=;DisruptL=DIP2C;DisruptR=DIP2C;ClosestL=RN7SL754P;ClosestR=RN7SL754P	10287	10287	0,0,0	0,0,0
chr10	1138254	1138255	chr10	1549146	1549147	DEL	NA	+	-	[Svaba_SR=46,Svaba_PE=72],[Manta_PE=71,Manta_SR=38],[Lumpy_PE=60,Lumpy_SR=24]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=ADARB2-AS1,ADARB2;ClosestL=WDR37;ClosestR=	1138218	1549131	0,0,0	0,0,0
chr10	14534638	14534639	chr10	14566897	14566898	DEL	NA	+	-	[Svaba_SR=82,Svaba_PE=99],[Manta_PE=84,Manta_SR=72],[Lumpy_PE=59,Lumpy_SR=41]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=FAM107B;DisruptR=FAM107B;ClosestL=;ClosestR=	22502952	22502952	50,14534635,14566897	0,0,0
chr10	22502966	22502967	chr13	58800117	58800118	TRA	NA	+	+	[Svaba_SR=84,Svaba_PE=79],[Manta_PE=86,Manta_SR=67],[Lumpy_PE=74,Lumpy_SR=80]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;ClosestL=;ClosestR=	22502953	58800127	48,22502966,58800118	0,0,0
chr10	22503061	22503062	chr13	58800154	58800155	TRA	NA	-	-	[Svaba_SR=31,Svaba_PE=31],[Manta_PE=29,Manta_SR=21]	manta,svaba	HCC1187--HCC-1187BL	known=;COSMIC;ClosestL=;ClosestR=	22502953	58800128	4,22503062,58800154	0,0,0
chr10	29842811	29842812	chr10	30116446	30116447	DUP	NA	-	+	[Svaba_SR=18,Svaba_PE=19],[Manta_PE=18,Manta_SR=16],[Lumpy_PE=13,Lumpy_SR=11]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=;ClosestL=;ClosestR=JCAD	22502953	22502953	12,29842813,30116447	0,0,0
chr10	48536425	48536426	chr10	48844584	48844585	DUP	NA	-	+	[Svaba_SR=2,Svaba_PE=3],[Lumpy_PE=6,Lumpy_SR=1]	lumpy,svaba	HCC1187--HCC-1187BL	known=;DisruptL=ARHGAP22;DisruptR=WDFY4;ClosestL=AC016397.1;ClosestR=	71740918	71740918	0,0,0	0,0,0
chr10	62245654	62245655	chr10	62246248	62246249	DEL	NA	+	-	[Manta_PE=18,Manta_SR=17],[Lumpy_PE=13,Lumpy_SR=21]	manta,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=RTKN2;DisruptR=RTKN2;ClosestL=;ClosestR=	71740918	71740918	2,62245660,62246253	0,0,0
chr10	71741183	71741184	chr19	50944475	50944476	TRA	NA	-	-	[Svaba_SR=37,Svaba_PE=43],[Manta_PE=42,Manta_SR=29],[Lumpy_PE=30,Lumpy_SR=19]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=CDH23;DisruptR=KLK5;Fusion=KLK5-CDH23;ClosestL=C10orf105;ClosestR=AC011483.2	71740919	50944419	21,71741183,50944475	0,0,0
chr10	72412803	72412804	chr10	72415253	72415254	DEL	NA	+	-	[Svaba_SR=30,Svaba_PE=27],[Manta_PE=26,Manta_SR=27],[Lumpy_PE=18,Lumpy_SR=6]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=MICU1;DisruptR=MICU1;ClosestL=;ClosestR=	71740919	71740919	20,72412802,72415253	0,0,0
chr10	75984728	75984729	chr10	77999541	77999542	DEL	NA	+	-	[Svaba_SR=56,Svaba_PE=72],[Manta_PE=62,Manta_SR=47],[Lumpy_PE=49,Lumpy_SR=32]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=LRMDA;DisruptR=POLR3A;ClosestL=;ClosestR=	77999458	77999459	33,75984730,77999541	0,0,0
chr10	75985008	75985009	chr10	75986186	75986187	INV	NA	-	-	[Svaba_SR=31,Svaba_PE=28],[Manta_PE=30,Manta_SR=28],[Lumpy_PE=17,Lumpy_SR=25]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=LRMDA;DisruptR=LRMDA;ClosestL=;ClosestR=	77999458	77999458	23,75985010,75986186	0,0,0
chr10	80289274	80289275	chr10	80908600	80908601	DUP	NA	-	+	[Svaba_SR=31,Svaba_PE=35],[Manta_PE=37,Manta_SR=24],[Lumpy_PE=28,Lumpy_SR=16]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=MAT1A;DisruptR=;ClosestL=ZNF519P1;ClosestR=	77999459	82676186	11,80289274,80908601	0,0,0
chr10	89486431	89486432	chr19	54168915	54168916	TRA	NA	-	-	[Manta_PE=12,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;DisruptL=SLC16A12;DisruptR=TMC4;ClosestL=SLC16A12-AS1;ClosestR=MBOAT7	82676187	50944419	0,0,0	0,0,0
chr11	4259246	4259247	chr11	4260589	4260590	DEL	NA	+	-	[Manta_PE=9,Manta_SR=31]	manta	HCC1187--HCC-1187BL	known=;ClosestL=SSU72P2;ClosestR=SSU72P2	5558211	5558211	32,4259247,4260587	0,0,0
chr11	5558236	5558237	chr12	28617176	28617177	TRA	NA	-	+	[Svaba_SR=55,Svaba_PE=66],[Manta_PE=57,Manta_SR=46],[Lumpy_PE=45,Lumpy_SR=33]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=OR52B5P,AC104389.4;DisruptR=;ClosestL=OR52H2P;ClosestR=	5558212	28617173	34,5558235,28617180	0,0,0
chr11	9130421	9130422	chr11	10541407	10541408	DEL	NA	+	-	[Svaba_SR=33,Svaba_PE=39],[Manta_PE=35,Manta_SR=29],[Lumpy_PE=29,Lumpy_SR=19]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=SCUBE2;DisruptR=MRVI1-AS1;ClosestL=DENND5A;ClosestR=RNF141	9130420	10460501	22,9130422,10541405	0,0,0
chr11	10460540	10460541	chr16	67552015	67552016	TRA	NA	-	-	[Svaba_SR=23,Svaba_PE=27],[Manta_PE=25,Manta_SR=21],[Lumpy_PE=17,Lumpy_SR=11]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=AMPD3;DisruptR=AC027682.4,AC027682.7;Fusion=AC027682.4-AMPD3|AC027682.7-AMPD3;ClosestL=;ClosestR=RIPOR1	10460501	90226217	19,10460541,67552015	0,0,0
chr11	10542794	10542795	chr16	67606458	67606459	TRA	NA	+	+	[Svaba_SR=0,Svaba_PE=32]	svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=MRVI1-AS1;DisruptR=CTCF;ClosestL=RNF141;ClosestR=AC009095.1	10460501	90226217	0,0,0	0,0,0
chr11	10542794	10542795	chr16	67606763	67606764	TRA	NA	+	+	[Svaba_SR=33,Svaba_PE=36],[Manta_PE=36,Manta_SR=26],[Lumpy_PE=27,Lumpy_SR=20]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=MRVI1-AS1;DisruptR=CTCF;ClosestL=RNF141;ClosestR=AC009095.1	10460501	90226217	22,10542788,67606764	0,0,0
chr11	16848705	16848706	chr11	16901881	16901882	DUP	NA	-	+	[Svaba_SR=37,Svaba_PE=29],[Manta_PE=28,Manta_SR=29],[Lumpy_PE=25,Lumpy_SR=12]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=PLEKHA7;DisruptR=PLEKHA7;ClosestL=RN7SKP90;ClosestR=	10460501	10460501	3,16848707,16901893	0,0,0
chr11	34094976	34094977	chr11	34104287	34104288	DEL	NA	+	-	[Svaba_SR=61,Svaba_PE=69],[Manta_PE=65,Manta_SR=54],[Lumpy_PE=37,Lumpy_SR=41]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=CAPRIN1;DisruptR=;ClosestL=NAT10;ClosestR=NAT10	10460501	10460501	41,34094976,34104287	0,0,0
chr11	55979739	55979740	chr11	55983661	55983662	DEL	NA	+	-	[Svaba_SR=29,Svaba_PE=23],[Manta_PE=22,Manta_SR=26],[Lumpy_PE=12,Lumpy_SR=18]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=OR7E5P;DisruptR=;ClosestL=OR10AG1;ClosestR=OR7E5P	78421457	78421457	24,55979740,55983661	0,0,0
chr11	57548726	57548727	chr11	57771620	57771621	DUP	NA	-	+	[Svaba_SR=26,Svaba_PE=30],[Manta_PE=28,Manta_SR=20],[Lumpy_PE=23,Lumpy_SR=16]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;Cancer_census=CLP1;DisruptL=SMTNL1;DisruptR=TMX2-CTNND1,AP001931.1,CTNND1;Fusion=TMX2-CTNND1+SMTNL1|AP001931.1+SMTNL1|CTNND1+SMTNL1;ClosestL=UBE2L6;ClosestR=BTBD18	78421457	78421457	16,57548727,57771621	0,0,0
chr11	59727216	59727217	chr11	59784139	59784140	INV	NA	+	+	[Lumpy_PE=3,Lumpy_SR=2]	lumpy	HCC1187--HCC-1187BL	known=;DisruptL=STX3;DisruptR=STX3;ClosestL=OR10Y1P;ClosestR=FABP5P7	78421457	78421457	2,59727215,59784139	0,0,0
chr11	63962462	63962463	chr11	64024132	64024133	DUP	NA	-	+	[Svaba_SR=22,Svaba_PE=17],[Manta_PE=17,Manta_SR=21],[Lumpy_PE=18,Lumpy_SR=16]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=MACROD1;ClosestL=NAA40;ClosestR=AP000721.2	78421457	78421457	19,63962462,64024133	0,0,0
chr11	78000818	78000819	chr11	78055610	78055611	DUP	NA	-	+	[Svaba_SR=59,Svaba_PE=69],[Manta_PE=63,Manta_SR=52],[Lumpy_PE=57,Lumpy_SR=30]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=NDUFC2-KCTD14;ClosestL=INTS4;ClosestR=THRSP	78421457	78421457	38,78000820,78055611	0,0,0
chr11	78421472	78421473	chr11	90936596	90936597	DEL	NA	+	-	[Svaba_SR=51,Svaba_PE=59],[Manta_PE=48,Manta_SR=44],[Lumpy_PE=34,Lumpy_SR=31]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;COSMIC;gap;Cancer_census=EED,PICALM;DisruptL=AP003086.2;DisruptR=;ClosestL=AP003086.1;ClosestR=	78421458	90936583	35,78421473,90936596	0,0,0
chr11	105716409	105716410	chr11	105734303	105734304	DEL	NA	+	-	[Svaba_SR=52,Svaba_PE=66],[Manta_PE=57,Manta_SR=44],[Lumpy_PE=38,Lumpy_SR=35]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=GRIA4;DisruptR=GRIA4;ClosestL=AP000641.1;ClosestR=	90936583	90936583	34,105716410,105734303	0,0,0
chr11	108381260	108381261	chr11	108487235	108487236	DUP	NA	-	+	[Svaba_SR=36,Svaba_PE=67],[Manta_PE=62,Manta_SR=32],[Lumpy_PE=61,Lumpy_SR=21]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;DisruptL=C11orf65;DisruptR=KDELC2;Fusion=C11orf65+KDELC2;ClosestL=ATM;ClosestR=EXPH5	90936583	90936583	23,108381261,108487236	0,0,0
chr11	111916768	111916769	chr11	111978526	111978527	DUP	NA	-	+	[Svaba_SR=35,Svaba_PE=35],[Manta_PE=28,Manta_SR=29],[Lumpy_PE=27,Lumpy_SR=22]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=CRYAB,HSPB2-C11orf52;DisruptR=DIXDC1;Fusion=DIXDC1+HSPB2-C11orf52;ClosestL=C11orf52;ClosestR=	90936583	90936583	22,111916767,111978527	0,0,0
chr11	118925920	118925921	chr11	118940643	118940644	DUP	NA	-	+	[Svaba_SR=18,Svaba_PE=17],[Manta_PE=17,Manta_SR=17],[Lumpy_PE=17,Lumpy_SR=10]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=UPK2;DisruptR=UPK2;ClosestL=BCL9L;ClosestR=RN7SL688P	135076522	135076522	0,0,0	0,0,0
chr11	121159576	121159577	chr11	121161049	121161050	DEL	NA	+	-	[Svaba_SR=58,Svaba_PE=60],[Manta_PE=55,Manta_SR=44],[Lumpy_PE=38,Lumpy_SR=37]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=TECTA;DisruptR=TECTA;ClosestL=;ClosestR=	135076522	135076522	32,121159578,121161049	0,0,0
chr12	10009416	10009417	chr12	11092417	11092418	INV	NA	+	+	[Manta_PE=6,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;DisruptL=CLEC1B;DisruptR=PRH1,AC018630.2,TAS2R14;ClosestL=CLEC12B;ClosestR=TAS2R43	41087	41087	0,0,0	0,0,0
chr12	11730208	11730209	chr12	11760929	11760930	DUP	NA	-	+	[Manta_PE=70,Manta_SR=67],[Lumpy_PE=65,Lumpy_SR=29]	lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;Cancer_census=ETV6;DisruptL=ETV6;DisruptR=ETV6;ClosestL=;ClosestR=	41087	41087	15,11730208,11760931	0,0,0
chr12	19622729	19622730	chr12	19623501	19623502	DEL	NA	+	-	[Svaba_SR=33,Svaba_PE=0],[Manta_PE=24,Manta_SR=30],[Lumpy_PE=21,Lumpy_SR=24]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=AEBP2;DisruptR=AEBP2;ClosestL=;ClosestR=	28617172	28617172	25,19622726,19623501	0,0,0
chr12	27487877	27487878	chr12	27551610	27551611	DUP	NA	-	+	[Svaba_SR=32,Svaba_PE=33],[Manta_PE=33,Manta_SR=25],[Lumpy_PE=24,Lumpy_SR=22]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=SMCO2;DisruptR=AC087257.1,PPFIBP1;Fusion=PPFIBP1+SMCO2;ClosestL=RARSP1;ClosestR=	28617172	28617172	20,27487876,27551611	0,0,0
chr12	33688515	33688516	chr12	33712987	33712988	DUP	NA	-	+	[Svaba_SR=0,Svaba_PE=8]	svaba	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=AC024153.1	33711440	33711440	0,0,0	0,0,0
chr12	33688515	33688516	chr12	34614204	34614205	DUP	NA	-	+	[Svaba_SR=0,Svaba_PE=14]	svaba	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=;ClosestL=;ClosestR=	33711440	34655817	6,33688516,34614388	0,0,0
chr12	33688547	33688548	chr12	34143276	34143277	DEL	NA	+	-	[Svaba_SR=0,Svaba_PE=28],[Lumpy_PE=4,Lumpy_SR=14]	lumpy,svaba	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=;ClosestL=;ClosestR=AC140847.1	33711440	33711440	3,33688546,34143266	0,0,0
chr12	33711445	33711446	chr12	34615079	34615080	INV	NA	+	+	[Svaba_SR=59,Svaba_PE=22],[Manta_PE=23,Manta_SR=53]	svaba,manta	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=;ClosestL=AC024153.1;ClosestR=	33711440	34655817	0,0,0	0,0,0
chr12	33711445	33711446	chr12	34616789	34616790	DEL	NA	+	-	[Svaba_SR=40,Svaba_PE=26]	svaba	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=;ClosestL=AC024153.1;ClosestR=	33711440	34655817	12,33711443,34616789	0,0,0
chr12	33711546	33711547	chr12	34143816	34143817	INV	NA	+	+	[Manta_PE=18,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=;ClosestL=AC024153.1;ClosestR=AC140847.1	33711440	33711440	0,0,0	0,0,0
chr12	33712987	33712988	chr12	34143265	34143266	DEL	NA	+	-	[Svaba_SR=0,Svaba_PE=11]	svaba	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=;ClosestL=AC024153.1;ClosestR=AC140847.1	33711440	33711440	0,0,0	0,0,0
chr12	33712987	33712988	chr12	34614074	34614075	DEL	NA	+	-	[Manta_PE=18,Manta_SR=61],[Lumpy_PE=11,Lumpy_SR=25]	manta,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=;ClosestL=AC024153.1;ClosestR=	33711440	34655817	29,33712989,34614075	0,0,0
chr12	33999946	33999947	chr12	34227764	34227765	INV	NA	-	-	[Svaba_SR=96,Svaba_PE=95],[Manta_PE=100,Manta_SR=71],[Lumpy_PE=81,Lumpy_SR=26]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=;ClosestL=RF00019;ClosestR=AC140847.2	33711440	34655817	46,33999945,34227764	0,0,0
chr12	34143266	34143267	chr12	34614387	34614388	DUP	NA	-	+	[Svaba_SR=50,Svaba_PE=0],[Manta_PE=52,Manta_SR=69],[Lumpy_PE=38,Lumpy_SR=1]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=;ClosestL=AC140847.1;ClosestR=	33711440	34655817	0,0,0	0,0,0
chr12	34143764	34143765	chr12	34614941	34614942	DEL	NA	+	-	[Svaba_SR=42,Svaba_PE=34],[Manta_PE=19,Manta_SR=36]	manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=;ClosestL=AC140847.1;ClosestR=	33711440	34655817	31,34143762,34614941	0,0,0
chr12	34187766	34187767	chr12	34561952	34561953	INV	NA	+	+	[Svaba_SR=121,Svaba_PE=114],[Manta_PE=105,Manta_SR=111],[Lumpy_PE=93,Lumpy_SR=68]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=;ClosestL=AC140847.2;ClosestR=	34655817	34655817	72,34187767,34561953	0,0,0
chr12	34536281	34536282	chr12	34537017	34537018	INV	NA	-	-	[Svaba_SR=48,Svaba_PE=65],[Manta_PE=65,Manta_SR=44],[Lumpy_PE=48,Lumpy_SR=27]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	34655817	34655817	31,34536282,34537017	0,0,0
chr12	34615079	34615080	chr12	34616837	34616838	INV	NA	+	+	[Svaba_SR=39,Svaba_PE=2],[Lumpy_PE=2,Lumpy_SR=9]	svaba,lumpy	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	34655817	34655817	7,34615077,34616838	0,0,0
chr12	37975722	37975723	chr12	38003307	38003308	DUP	NA	-	+	[Svaba_SR=33,Svaba_PE=32],[Manta_PE=36,Manta_SR=26],[Lumpy_PE=28,Lumpy_SR=13]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	34655818	34655818	23,37975723,38003308	0,0,0
chr12	49218863	49218864	chr12	49301181	49301182	DUP	NA	-	+	[Svaba_SR=43,Svaba_PE=15],[Manta_PE=14,Manta_SR=0]	manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=TUBA1C;DisruptR=AC125611.4;ClosestL=AC010173.1;ClosestR=PRPH	34655818	34655818	0,0,0	0,0,0
chr12	49218878	49218879	chr12	49287105	49287106	DUP	NA	-	+	[Svaba_SR=0,Svaba_PE=17],[Manta_PE=12,Manta_SR=16],[Lumpy_PE=13,Lumpy_SR=1]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=TUBA1C;DisruptR=;ClosestL=AC010173.1;ClosestR=AC125611.4	34655818	34655818	13,49218881,49287040	0,0,0
chr12	49286890	49286891	chr12	49301179	49301180	DUP	NA	-	+	[Manta_PE=2,Manta_SR=17],[Lumpy_PE=2,Lumpy_SR=13]	lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=AC125611.4;ClosestL=AC125611.4;ClosestR=PRPH	34655818	34655818	15,49286892,49301182	0,0,0
chr12	98468942	98468943	chr12	107469714	107469715	INV	NA	-	-	[Manta_PE=7,Manta_SR=0]	manta	HCC1187--HCC-1187BL	known=;Cancer_census=CHST11;DisruptL=;DisruptR=BTBD11;ClosestL=SLC9A7P1;ClosestR=RNA5SP371	128424712	128424712	2,98468826,107469940	0,0,0
chr12	113419165	113419166	chr12	113485774	113485775	DUP	NA	-	+	[Svaba_SR=31,Svaba_PE=32],[Manta_PE=30,Manta_SR=26],[Lumpy_PE=23,Lumpy_SR=15]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;DisruptL=SDS;DisruptR=;ClosestL=SDSL;ClosestR=LHX5-AS1	128424712	128424712	19,113419167,113485775	0,0,0
chr12	116013885	116013886	chr12	116039172	116039173	DEL	NA	+	-	[Svaba_SR=38,Svaba_PE=40],[Manta_PE=37,Manta_SR=29],[Lumpy_PE=27,Lumpy_SR=16]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=MED13L;DisruptR=MED13L;ClosestL=;ClosestR=	128424712	128424712	25,116013885,116039172	0,0,0
chr12	119167936	119167937	chr12	119174029	119174030	DUP	NA	-	+	[Svaba_SR=23,Svaba_PE=30],[Manta_PE=29,Manta_SR=17],[Lumpy_PE=26,Lumpy_SR=11]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;ClosestL=SRRM4;ClosestR=AC084880.4	128424712	128424712	16,119167939,119174030	0,0,0
chr12	128424692	128424693	chr12	129071439	129071440	DEL	NA	+	-	[Svaba_SR=29,Svaba_PE=38],[Manta_PE=36,Manta_SR=24],[Lumpy_PE=27,Lumpy_SR=17]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=TMEM132C;DisruptR=;ClosestL=AC090424.1;ClosestR=TMEM132D	128424712	129071366	18,128424693,129071439	0,0,0
chr13	32528399	32528400	chr13	32601724	32601725	DUP	NA	-	+	[Svaba_SR=26,Svaba_PE=25],[Manta_PE=24,Manta_SR=18],[Lumpy_PE=20,Lumpy_SR=15]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=N4BP2L2;DisruptR=PDS5B;ClosestL=N4BP2L2-IT2;ClosestR=	16166247	16166247	16,32528400,32601725	0,0,0
chr13	41538430	41538431	chr13	41559623	41559624	DUP	NA	-	+	[Svaba_SR=29,Svaba_PE=28],[Manta_PE=12,Manta_SR=16]	manta,svaba	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=VWA8	58800127	58800127	17,41538430,41559624	0,0,0
chr13	48375134	48375135	chr13	48378608	48378609	DEL	NA	+	-	[Svaba_SR=39,Svaba_PE=34],[Manta_PE=30,Manta_SR=30],[Lumpy_PE=19,Lumpy_SR=21]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;COSMIC;Cancer_census=RB1;DisruptL=RB1;DisruptR=RB1;ClosestL=LPAR6;ClosestR=LPAR6	58800127	58800127	2,48375137,48378612	0,0,0
chr13	49038442	49038443	chr14	104498613	104498614	TRA	NA	+	+	[Svaba_SR=0,Svaba_PE=17]	svaba	HCC1187--HCC-1187BL	known=;DisruptL=FNDC3A;DisruptR=TMEM179;Fusion=FNDC3A-TMEM179;ClosestL=RAD17P2;ClosestR=	58800127	106883618	0,0,0	0,0,0
chr13	76927590	76927591	chr13	76944256	76944257	INV	NA	-	-	[Svaba_SR=0,Svaba_PE=28],[Manta_PE=29,Manta_SR=14]	svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=;ClosestL=BTF3P11;ClosestR=ACOD1	88970765	88970765	3,76927590,76944254	0,0,0
chr13	76943976	76943977	chr13	76960662	76960663	INV	NA	+	+	[Svaba_SR=21,Svaba_PE=28],[Manta_PE=31,Manta_SR=18],[Lumpy_PE=27,Lumpy_SR=12]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=;ClosestL=ACOD1;ClosestR=ACOD1	88970765	88970765	13,76943984,76960663	0,0,0
chr13	102428501	102428502	chr13	102801823	102801824	DUP	NA	-	+	[Svaba_SR=45,Svaba_PE=50],[Manta_PE=52,Manta_SR=41],[Lumpy_PE=41,Lumpy_SR=36]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=BIVM,BIVM-ERCC5;ClosestL=;ClosestR=KDELC1	102428502	102801718	34,102428503,102801824	0,0,0
chr14	32214734	32214735	chr14	32219731	32219732	DEL	NA	+	-	[Svaba_SR=52,Svaba_PE=64],[Manta_PE=58,Manta_SR=40],[Lumpy_PE=56,Lumpy_SR=2]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;ClosestL=RNU6-8;ClosestR=RNU6-8	39133588	39133588	24,32214734,32219731	0,0,0
chr14	34442880	34442881	chr14	34535891	34535892	DUP	NA	-	+	[Svaba_SR=18,Svaba_PE=19],[Manta_PE=16,Manta_SR=14],[Lumpy_PE=15,Lumpy_SR=5]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=SPTSSA,EGLN3;DisruptR=EAPP;Fusion=SPTSSA+EAPP|EGLN3+EAPP;ClosestL=;ClosestR=AL445363.3	39133588	39133588	12,34442882,34535892	0,0,0
chr14	39133636	39133637	chr14	39342797	39342798	DUP	NA	-	+	[Svaba_SR=65,Svaba_PE=62],[Manta_PE=51,Manta_SR=59],[Lumpy_PE=37,Lumpy_SR=31]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=GEMIN2;DisruptR=MIA2;Fusion=MIA2+GEMIN2;ClosestL=TRAPPC6B;ClosestR=	39133589	39342723	34,39133635,39342805	0,0,0
chr14	49931594	49931595	chr14	50028318	50028319	DUP	NA	-	+	[Svaba_SR=15,Svaba_PE=21],[Manta_PE=23,Manta_SR=14],[Lumpy_PE=20,Lumpy_SR=9]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=LINC01588;DisruptR=LINC01588;ClosestL=RF00017;ClosestR=	41200381	41200381	10,49931595,50028322	0,0,0
chr14	64117734	64117735	chr14	64374357	64374358	DUP	NA	-	+	[Svaba_SR=54,Svaba_PE=66],[Manta_PE=61,Manta_SR=48],[Lumpy_PE=49,Lumpy_SR=33]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=ESR2,SYNE2;DisruptR=TEX21P;Fusion=ESR2+TEX21P;ClosestL=;ClosestR=AL161756.2	64117655	64374267	37,64117735,64374358	0,0,0
chr14	68302189	68302190	chr14	68621145	68621146	DUP	NA	-	+	[Svaba_SR=68,Svaba_PE=81],[Manta_PE=72,Manta_SR=60],[Lumpy_PE=59,Lumpy_SR=40]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;COSMIC;Cancer_census=RAD51B;DisruptL=RAD51B;DisruptR=RAD51B;ClosestL=;ClosestR=AL121820.2	68302168	68621130	44,68302189,68621151	0,0,0
chr14	73199754	73199755	chr20	6218580	6218581	TRA	NA	-	+	[Svaba_SR=22,Svaba_PE=31],[Manta_PE=25,Manta_SR=18],[Lumpy_PE=22,Lumpy_SR=11]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=PSEN1;DisruptR=;ClosestL=AC004858.1;ClosestR=AL109618.2	73199737	6218413	14,73199753,6218581	0,0,0
chr14	73706446	73706447	chr14	73726852	73726853	INV	NA	+	+	[Svaba_SR=110,Svaba_PE=115],[Manta_PE=64,Manta_SR=96],[Lumpy_PE=58,Lumpy_SR=58]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=ELMSAN1;ClosestL=DNAL1;ClosestR=PNMA1	73199737	73199737	59,73706448,73726854	0,0,0
chr14	73708979	73708980	chr14	73726875	73726876	INV	NA	-	-	[Svaba_SR=99,Svaba_PE=93],[Manta_PE=91,Manta_SR=73],[Lumpy_PE=68,Lumpy_SR=24]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=ELMSAN1;ClosestL=PNMA1;ClosestR=PNMA1	73199737	73199737	49,73708980,73726875	0,0,0
chr14	80321677	80321678	chr14	80331498	80331499	DEL	NA	+	-	[Svaba_SR=71,Svaba_PE=81],[Manta_PE=80,Manta_SR=61],[Lumpy_PE=54,Lumpy_SR=53]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=DIO2,DIO2-AS1;DisruptR=DIO2,DIO2-AS1;ClosestL=;ClosestR=	73199737	73199737	46,80321676,80331498	0,0,0
chr14	99315057	99315058	chr14	99319824	99319825	DEL	NA	+	-	[Svaba_SR=97,Svaba_PE=110],[Manta_PE=111,Manta_SR=78],[Lumpy_PE=85,Lumpy_SR=40]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;ClosestL=AL132819.1;ClosestR=AL132819.1	106883618	106883618	45,99315059,99319820	0,0,0
chr14	99534775	99534776	chr14	99658345	99658346	DUP	NA	-	+	[Svaba_SR=39,Svaba_PE=29],[Manta_PE=30,Manta_SR=33],[Lumpy_PE=23,Lumpy_SR=25]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=CCDC85C,CCNK;DisruptR=HHIPL1;Fusion=HHIPL1+CCNK;ClosestL=;ClosestR=	106883618	106883618	27,99534777,99658346	0,0,0
chr14	103542159	103542160	chr14	103543091	103543092	DUP	NA	-	+	[Svaba_SR=104,Svaba_PE=138],[Manta_PE=119,Manta_SR=77],[Lumpy_PE=106,Lumpy_SR=62]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;ClosestL=TRMT61A;ClosestR=TRMT61A	106883618	106883618	45,103542159,103543092	0,0,0
chr14	105740486	105740487	chr14	105768235	105768236	DUP	NA	-	+	[Manta_PE=3,Manta_SR=57]	manta	HCC1187--HCC-1187BL	known=;DisruptL=IGHG1;DisruptR=IGHG3;Fusion=IGHG1+IGHG3;ClosestL=IGHEP1;ClosestR=AL122127.1	106883618	106883618	0,0,0	0,0,0
chr15	49998583	49998584	chr15	50057998	50057999	DUP	NA	-	+	[Svaba_SR=29,Svaba_PE=32],[Manta_PE=20,Manta_SR=24]	svaba,manta	HCC1187--HCC-1187BL	known=;DisruptL=ATP8B4;DisruptR=ATP8B4;ClosestL=RNA5SP394;ClosestR=	34526120	34526120	24,49998583,50057999	0,0,0
chr15	63663915	63663916	chr18	37738212	37738213	TRA	NA	-	+	[Manta_PE=2,Manta_SR=2]	manta	HCC1187--HCC-1187BL	known=;DisruptL=HERC1;DisruptR=;ClosestL=AC073167.1;ClosestR=	71887858	55692428	0,0,0	0,0,0
chr15	71887826	71887827	chr15	72152284	72152285	DEL	NA	+	-	[Svaba_SR=66,Svaba_PE=78],[Manta_PE=61,Manta_SR=54],[Lumpy_PE=48,Lumpy_SR=40]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=MYO9A;DisruptR=AC020779.2;Fusion=AC020779.2+MYO9A;ClosestL=;ClosestR=GRAMD2A	71887858	72152244	44,71887824,72152284	0,0,0
chr15	75503527	75503528	chr15	75504190	75504191	DUP	NA	-	+	[Svaba_SR=0,Svaba_PE=15]	svaba	HCC1187--HCC-1187BL	known=;DisruptL=PTPN9;DisruptR=PTPN9;ClosestL=AC105036.1;ClosestR=AC105036.1	72152244	72152244	0,0,0	0,0,0
chr15	84936470	84936471	chr15	85490843	85490844	DUP	NA	-	+	[Svaba_SR=25,Svaba_PE=33],[Manta_PE=28,Manta_SR=20],[Lumpy_PE=26,Lumpy_SR=14]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;DisruptL=SLC28A1;DisruptR=AKAP13;Fusion=AKAP13+SLC28A1;ClosestL=RNU6-339P;ClosestR=	84936397	85513789	17,84936466,85490844	0,0,0
chr15	90138924	90138925	chr15	90290343	90290344	DUP	NA	-	+	[Svaba_SR=107,Svaba_PE=97],[Manta_PE=92,Manta_SR=88],[Lumpy_PE=72,Lumpy_SR=48]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=AC091167.6;ClosestL=IDH2-DT;ClosestR=GOLGA2P8	90138916	90290295	62,90138923,90290344	0,0,0
chr15	91576954	91576955	chr15	91579869	91579870	DEL	NA	+	-	[Svaba_SR=50,Svaba_PE=59],[Manta_PE=36,Manta_SR=41],[Lumpy_PE=29,Lumpy_SR=9]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=AC104035.1;DisruptR=AC104035.1;ClosestL=;ClosestR=	90290295	90290295	26,91576953,91579869	0,0,0
chr16	12897046	12897047	chr16	30066679	30066680	DUP	NA	-	+	[Svaba_SR=18,Svaba_PE=36],[Manta_PE=32,Manta_SR=11],[Lumpy_PE=34,Lumpy_SR=9]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;gap;Cancer_census=ERCC4,PALB2,IL21R,MYH11,PRKCB;DisruptL=;DisruptR=AC093512.2,ALDOA;ClosestL=SHISA9;ClosestR=AC093512.1	12896987	30065417	10,12897046,30066680	0,0,0
chr16	67103909	67103910	chr16	67237337	67237338	DUP	NA	-	+	[Svaba_SR=38,Svaba_PE=29],[Manta_PE=27,Manta_SR=28],[Lumpy_PE=26,Lumpy_SR=1]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=FHOD1;ClosestL=CBFB;ClosestR=SLC9A5	90226217	90226217	27,67103913,67237338	0,0,0
chr16	81023880	81023881	chr16	81088348	81088349	DUP	NA	-	+	[Svaba_SR=31,Svaba_PE=28],[Manta_PE=20,Manta_SR=30],[Lumpy_PE=17,Lumpy_SR=23]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=CENPN,AC092718.2,AC092718.8;DisruptR=AC092718.8,AC092718.3,GCSH;Fusion=AC092718.2+AC092718.8|AC092718.2+AC092718.3|AC092718.2+GCSH|AC092718.8+AC092718.3|AC092718.8+GCSH;ClosestL=CMC2;ClosestR=AC092718.1	90226217	90226217	24,81023880,81088349	0,0,0
chr16	84467831	84467832	chr16	84468363	84468364	DEL	NA	+	-	[Manta_PE=0,Manta_SR=23]	manta	HCC1187--HCC-1187BL	known=;ClosestL=ATP2C2-AS1;ClosestR=ATP2C2-AS1	90226217	90226217	0,0,0	0,0,0
chr17	20712372	20712373	chr17	20720249	20720250	DUP	NA	-	+	[Svaba_SR=21,Svaba_PE=0],[Manta_PE=25,Manta_SR=22]	manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=AC087499.2;ClosestL=AC087499.6;ClosestR=AC087499.6	39261864	39261864	11,20712384,20720250	0,0,0
chr17	39261884	39261885	chr17	39350108	39350109	DEL	NA	+	-	[Svaba_SR=57,Svaba_PE=61],[Manta_PE=55,Manta_SR=54],[Lumpy_PE=39,Lumpy_SR=22]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=FBXL20;DisruptR=FBXL20;ClosestL=AC015910.1;ClosestR=	39261865	39350015	40,39261886,39350107	0,0,0
chr17	50701666	50701667	chr17	50762091	50762092	DUP	NA	-	+	[Svaba_SR=56,Svaba_PE=81],[Manta_PE=72,Manta_SR=45],[Lumpy_PE=61,Lumpy_SR=37]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=ANKRD40;DisruptR=LINC00483;Fusion=ANKRD40+LINC00483;ClosestL=RF00019;ClosestR=LUC7L3	39350015	39350015	36,50701670,50762092	0,0,0
chr17	59870406	59870407	chr17	59871038	59871039	DEL	NA	+	-	[Manta_PE=18,Manta_SR=11],[Lumpy_PE=25,Lumpy_SR=2]	lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=TUBD1;DisruptR=TUBD1;ClosestL=NDUFB8P2;ClosestR=NDUFB8P2	39350015	39350015	2,59870405,59871039	0,0,0
chr17	77358115	77358116	chr17	77398291	77398292	DUP	NA	-	+	[Svaba_SR=42,Svaba_PE=49],[Manta_PE=45,Manta_SR=40],[Lumpy_PE=36,Lumpy_SR=31]	svaba,manta,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;Cancer_census=SEPT9;DisruptL=SEPT9;DisruptR=SEPT9;ClosestL=AC111182.1;ClosestR=MIR4316	83247341	83247341	31,77358115,77398292	0,0,0
chr17	81497957	81497958	chr17	81583672	81583673	DUP	NA	-	+	[Svaba_SR=23,Svaba_PE=32],[Manta_PE=31,Manta_SR=25],[Lumpy_PE=27,Lumpy_SR=13]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=NPLOC4;ClosestL=ACTG1;ClosestR=RF00019	83247341	83247341	4,81497944,81583673	0,0,0
chr18	616133	616134	chr18	641824	641825	DUP	NA	-	+	[Svaba_SR=29,Svaba_PE=31],[Manta_PE=28,Manta_SR=28],[Lumpy_PE=21,Lumpy_SR=22]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=CLUL1;DisruptR=CLUL1,TYMSOS;ClosestL=;ClosestR=AP001178.3	10010	10010	24,616135,641825	0,0,0
chr18	8939082	8939083	chr18	10814209	10814210	DUP	NA	-	+	[Svaba_SR=20,Svaba_PE=25],[Manta_PE=24,Manta_SR=16],[Lumpy_PE=22,Lumpy_SR=2]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=PIEZO2;ClosestL=;ClosestR=	8940325	10814016	15,8939084,10814210	0,0,0
chr18	9778010	9778011	chr18	9783361	9783362	INV	NA	+	+	[Svaba_SR=27,Svaba_PE=18],[Manta_PE=20,Manta_SR=26],[Lumpy_PE=20,Lumpy_SR=8]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=RAB31;DisruptR=RAB31;ClosestL=ZNF415P1;ClosestR=ZNF415P1	8940326	8940326	19,9778010,9783362	0,0,0
chr18	9783139	9783140	chr18	9788175	9788176	INV	NA	-	-	[Svaba_SR=26,Svaba_PE=25],[Manta_PE=17,Manta_SR=23],[Lumpy_PE=10,Lumpy_SR=17]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;DisruptL=RAB31;DisruptR=RAB31;ClosestL=ZNF415P1;ClosestR=ZNF415P1	8940326	8940326	22,9783138,9788175	0,0,0
chr18	14667076	14667077	chr21	13490576	13490577	TRA	NA	+	+	[Manta_PE=5,Manta_SR=19],[Lumpy_PE=4,Lumpy_SR=1]	manta,lumpy	HCC1187--HCC-1187BL	known=;ClosestL=VN1R74P;ClosestR=GTF2IP2	10814016	13044018	0,0,0	0,0,0
chr18	35873694	35873695	chr18	35962466	35962467	DUP	NA	-	+	[Svaba_SR=66,Svaba_PE=76],[Manta_PE=64,Manta_SR=56],[Lumpy_PE=53,Lumpy_SR=41]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=AC118757.1;ClosestL=;ClosestR=C18orf21	55692428	55692428	40,35873694,35962467	0,0,0
chr18	55686264	55686265	chr18	55692541	55692542	INV	NA	+	+	[Svaba_SR=22,Svaba_PE=22],[Manta_PE=28,Manta_SR=23],[Lumpy_PE=26,Lumpy_SR=14]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;COSMIC;ClosestL=;ClosestR=	55692428	55692429	15,55686278,55692542	0,0,0
chr18	60608573	60608574	chrX	11935071	11935072	TRA	NA	-	-	[Svaba_SR=0,Svaba_PE=16]	svaba	HCC1187--HCC-1187BL	known=;ClosestL=AC010928.1;ClosestR=	55692429	10446	0,0,0	0,0,0
chr18	75678071	75678072	chr18	75694182	75694183	INV	NA	-	-	[Manta_PE=2,Manta_SR=4]	manta	HCC1187--HCC-1187BL	known=;ClosestL=LINC01898;ClosestR=LINC01898	80263172	80263172	4,75678072,75694182	0,0,0
chr19	10426988	10426989	chr19	10538521	10538522	DUP	NA	-	+	[Svaba_SR=27,Svaba_PE=37],[Manta_PE=33,Manta_SR=21],[Lumpy_PE=26,Lumpy_SR=13]	manta,svaba,lumpy	HCC1187--HCC-1187BL	known=;COSMIC;Cancer_census=KEAP1;DisruptL=PDE4A;DisruptR=;ClosestL=CDC37;ClosestR=ATG4D	5824139	5824139	17,10426987,10538522	0,0,0
chr19	16856241	16856242	chr19	16968701	16968702	DUP	NA	-	+	[Svaba_SR=50,Svaba_PE=66],[Manta_PE=57,Manta_SR=47],[Lumpy_PE=54,Lumpy_SR=23]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=SIN3B;DisruptR=CPAMD8;ClosestL=AC008737.1;ClosestR=	5824139	5824139	35,16856240,16968702	0,0,0
chr19	18743352	18743353	chr19	18809683	18809684	DUP	NA	-	+	[Svaba_SR=31,Svaba_PE=23],[Manta_PE=22,Manta_SR=21],[Lumpy_PE=15,Lumpy_SR=14]	lumpy,svaba,manta	HCC1187--HCC-1187BL	known=;Cancer_census=CRTC1;DisruptL=CRTC1;DisruptR=;ClosestL=;ClosestR=COMP	5824139	5824139	15,18743353,18809684	0,0,0
chr19	18954389	18954390	chr19	18955038	18955039	DUP	NA	-	+	[Svaba_SR=0,Svaba_PE=10]	svaba	HCC1187--HCC-1187BL	known=;ClosestL=RN7SL70P;ClosestR=RN7SL70P	5824139	5824139	0,0,0	0,0,0
chr19	23360895	23360896	chr19	23361803	23361804	DUP	NA	-	+	[Svaba_SR=0,Svaba_PE=9]	svaba	HCC1187--HCC-1187BL	known=;DisruptL=ZNF91;DisruptR=ZNF91;ClosestL=BNIP3P8;ClosestR=BNIP3P8	37270966	37270966	0,0,0	0,0,0
chr19	27382468	27382469	chr19	27383094	27383095	DUP	NA	-	+	[Svaba_SR=0,Svaba_PE=10]	svaba	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	37270966	37270966	0,0,0	0,0,0
chr19	58076219	58076220	chr19	58209952	58209953	DUP	NA	-	+	[Svaba_SR=19,Svaba_PE=32],[Manta_PE=27,Manta_SR=17],[Lumpy_PE=23,Lumpy_SR=14]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=ZNF135;DisruptR=ZNF274;Fusion=ZNF274+ZNF135;ClosestL=RN7SL526P;ClosestR=RPS15AP36	58607515	58607515	15,58076223,58209953	0,0,0
chr20	6466456	6466457	chr20	60439291	60439292	INV	NA	+	+	[Lumpy_PE=2,Lumpy_SR=2]	lumpy	HCC1187--HCC-1187BL	known=;gap;Cancer_census=MAFB,SRC,TOP1,SDC4,SALL4,GNAS,CRNKL1,ASXL1,PLCG1,NFATC2,PTPRT;DisruptL=CASC20;DisruptR=MIR646HG;ClosestL=;ClosestR=	6218413	64334067	0,0,0	0,0,0
chr20	9153165	9153166	chr20	9202353	9202354	DEL	NA	+	-	[Svaba_SR=64,Svaba_PE=56],[Manta_PE=60,Manta_SR=50]	manta,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=PLCB4;DisruptR=PLCB4;ClosestL=;ClosestR=	6218413	6218413	35,9153165,9202353	0,0,0
chr20	9843321	9843322	chr20	9852610	9852611	INV	NA	+	+	[Svaba_SR=17,Svaba_PE=19],[Manta_PE=22,Manta_SR=14],[Lumpy_PE=21,Lumpy_SR=12]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;ClosestL=PAK5;ClosestR=PAK5	6218413	6218413	12,9843321,9852611	0,0,0
chr20	19183298	19183299	chr20	19282322	19282323	DUP	NA	-	+	[Svaba_SR=35,Svaba_PE=32],[Manta_PE=28,Manta_SR=35],[Lumpy_PE=22,Lumpy_SR=18]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=SLC24A3,AL049647.1;ClosestL=;ClosestR=	6218413	6218413	0,0,0	0,0,0
chr20	32141963	32141964	chr20	32229874	32229875	DUP	NA	-	+	[Svaba_SR=32,Svaba_PE=28],[Manta_PE=26,Manta_SR=25],[Lumpy_PE=22,Lumpy_SR=19]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;DisruptL=TM9SF4;DisruptR=POFUT1;Fusion=POFUT1+TM9SF4;ClosestL=;ClosestR=MIR1825	32713333	32713333	22,32141965,32229875	0,0,0
chr20	32340799	32340800	chr20	32595112	32595113	DUP	NA	-	+	[Svaba_SR=40,Svaba_PE=42],[Manta_PE=34,Manta_SR=33],[Lumpy_PE=30,Lumpy_SR=22]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;Cancer_census=ASXL1;DisruptL=;DisruptR=NOL4L-DT;ClosestL=KIF3B;ClosestR=AL133343.1	32713333	32713333	24,32340799,32595113	0,0,0
chr20	54223947	54223948	chr20	54231711	54231712	DEL	NA	+	-	[Svaba_SR=49,Svaba_PE=49],[Manta_PE=43,Manta_SR=40],[Lumpy_PE=36,Lumpy_SR=29]	lumpy,manta,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=PFDN4;DisruptR=;ClosestL=;ClosestR=PFDN4	64334067	64334067	27,54223948,54231711	0,0,0
chr20	54837554	54837555	chr20	54869346	54869347	DEL	NA	+	-	[Svaba_SR=31,Svaba_PE=39],[Manta_PE=35,Manta_SR=28],[Lumpy_PE=25,Lumpy_SR=22]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;COSMIC;DisruptL=;DisruptR=;ClosestL=;ClosestR=RNU4ATAC7P	64334067	64334067	25,54837555,54869346	0,0,0
chr21	18895977	18895978	chr21	18897092	18897093	DEL	NA	+	-	[Svaba_SR=18,Svaba_PE=28],[Manta_PE=27,Manta_SR=0],[Lumpy_PE=22,Lumpy_SR=3]	svaba,lumpy,manta	HCC1187--HCC-1187BL	known=;ClosestL=;ClosestR=	13044018	13044018	5,18895977,18897092	0,0,0
chr21	35647327	35647328	chr21	35770578	35770579	DUP	NA	-	+	[Svaba_SR=19,Svaba_PE=25],[Manta_PE=25,Manta_SR=18],[Lumpy_PE=21,Lumpy_SR=14]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;DisruptL=RUNX1;DisruptR=RUNX1;ClosestL=;ClosestR=	46699872	46699872	15,35647329,35770579	0,0,0
chr22	36439278	36439279	chr22	36531210	36531211	DUP	NA	-	+	[Svaba_SR=26,Svaba_PE=28],[Manta_PE=23,Manta_SR=20],[Lumpy_PE=22,Lumpy_SR=1]	manta,lumpy,svaba	HCC1187--HCC-1187BL	known=;DisruptL=;DisruptR=;ClosestL=RF00019;ClosestR=EIF3D	50808368	50808368	18,36439278,36531211	0,0,0
chr22	50279654	50279655	chr22	50280218	50280219	DEL	NA	+	-	[Manta_PE=48,Manta_SR=57],[Lumpy_PE=34,Lumpy_SR=43]	lumpy,manta	HCC1187--HCC-1187BL	known=;DisruptL=PLXNB2;DisruptR=PLXNB2;ClosestL=MAPK11;ClosestR=MAPK11	50808368	50808368	46,50279656,50280219	0,0,0