#INFO: 1000G => 1000 Genomes Project call set
#INFO: DGV => Database of Genomic Variants
#INFO: COSMIC => COSMIC v86
#INFO: Cancer_census => Cancer Census COSMIC v86
#chr	start	end	type	log2	tool	tumor--normal	info	focal	cytoband
chrX	10446	44887174	DEL	-1.73237427854362	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=P2RY8,CRLF2,ZRSR2,EIF1AX,FAM47C,BCOR,DDX3X,KDM6A;DisruptL=;DisruptR=KDM6A	no	chrXp22.33-p11.3
chrX	44887175	47658808	DEL	-0.696919044614702	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=ARAF,KDM6A,RBM10;DisruptL=KDM6A;DisruptR=UXT	yes	chrXp11.3-p11.23
chrX	47658809	56991083	DEL	-1.73953665936323	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SSX1,WAS,SSX4,GATA1,TFE3,SSX2,SMC1A,KDM5C;DisruptL=UXT;DisruptR=SPIN3	yes	chrXp11.23-p11.21
chrX	56991084	57169967	DEL	-0.749482158060241	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=SPIN3;DisruptR=	yes	chrXp11.21
chrX	57169968	57361936	DEL	-1.70630255903753	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=;DisruptR=FAAH2	yes	chrXp11.21
chrX	57361937	62463002	DEL	-0.289488763200919	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=FAAH2;DisruptR=	yes	chrXp11.21-q11.1
chrX	62463003	65752559	DUP	0.203301294023831	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=AMER1,MSN;DisruptL=;DisruptR=	yes	chrXq11.1-q12
chrX	65752560	73870954	NEU	-0.177744954255402	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=FOXO4,ZMYM3,NONO,MED12,AR;DisruptL=;DisruptR=	yes	chrXq12-q13.2
chrX	73870955	76244415	DUP	0.288449784722921	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=	yes	chrXq13.2-q13.3
chrX	76244416	84380645	DUP	0.601677207165557	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=ATRX;DisruptL=;DisruptR=HDX	yes	chrXq13.3-q21.1
chrX	84380646	87101746	DUP	0.280282617680474	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=HDX;DisruptR=	yes	chrXq21.1-q21.31
chrX	87101747	88321165	DUP	0.585521534258498	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=	yes	chrXq21.31
chrX	88321166	100877555	DUP	0.277237146631175	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=	yes	chrXq21.31-q22.1
chrX	100877556	106655099	DEL	-0.663587876703854	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=BTK;DisruptL=;DisruptR=CXorf57	yes	chrXq22.1-q22.3
chrX	106655100	106901143	NEU	-0.0708619874285016	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=CXorf57;DisruptR=RIPPLY1,CLDN2,MORC4	yes	chrXq22.3
chrX	106901144	115886049	DEL	-0.634677609398541	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=IRS4;DisruptL=RIPPLY1,CLDN2,MORC4;DisruptR=	yes	chrXq22.3-q23
chrX	115886050	116456070	NEU	-0.059776537823388	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=SLC6A14	yes	chrXq23
chrX	116456071	117971510	DUP	0.293880181452989	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=SLC6A14;DisruptR=KLHL13	yes	chrXq23-q24
chrX	117971511	118882103	DUP	1.07253039828731	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=KLHL13;DisruptR=LINC01285	yes	chrXq24
chrX	118882104	139747068	DUP	0.24351065541527	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=DCAF12L2,STAG2,ELF4,PHF6,SEPT6,GPC3,BCORL1;DisruptL=LINC01285;DisruptR=ATP11C	no	chrXq24-q27.1
chrX	139747069	140075558	DEL	-1.85175277111659	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=ATP11C;DisruptR=	yes	chrXq27.1
chrX	140075559	153146260	DEL	-0.799052287749838	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=	yes	chrXq27.1-q28
chrX	153149106	153586440	DUP	0.442986972675989	bicseq2	HCC-1143--HCC-1143BL	known=;Cancer_census=ATP2B3;DisruptL=;DisruptR=	yes	chrXq28
chrX	153586441	156030795	NEU	-0.180388744945415	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=RPL10,MTCP1,FLNA;DisruptL=;DisruptR=	yes	chrXq28
chr1	10028	6465256	NEU	0.162251988853474	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=TNFRSF14,SKI,RPL22,PRDM16;DisruptL=;DisruptR=TNFRSF25	yes	chr1p36.33-p36.31
chr1	6465257	8673995	NEU	-0.117620541824946	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CAMTA1;DisruptL=TNFRSF25;DisruptR=RERE	yes	chr1p36.31-p36.23
chr1	8673996	8950766	DUP	0.661408525506459	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=RERE;DisruptR=CA6	yes	chr1p36.23
chr1	8950767	19769880	NEU	-0.181036166487365	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CASP9,PAX7,MTOR,PRDM2,SPEN,SDHB,ARHGEF10L;DisruptL=CA6;DisruptR=TMCO4	yes	chr1p36.23-p36.13
chr1	19769881	23063290	DUP	0.250772417880742	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=TMCO4;DisruptR=KDM1A,AL031428.1	yes	chr1p36.13-p36.12
chr1	23063291	47817751	NEU	-0.154920426773283	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=ID3,MDS2,MYCL,TAL1,LCK,SFPQ,THRAP3,CSF3R,MPL,MUTYH,STIL,ARID1A;DisruptL=KDM1A,AL031428.1;DisruptR=TRABD2B	no	chr1p36.12-p33
chr1	47817752	51381046	DUP	0.234951398332382	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CDKN2C,EPS15;DisruptL=TRABD2B;DisruptR=EPS15	yes	chr1p33-p32.3
chr1	51381047	83866422	NEU	-0.156344382983207	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=JUN,FUBP1,JAK1,EPS15;DisruptL=EPS15;DisruptR=TTLL7	no	chr1p32.3-p31.1
chr1	83866423	84289901	DUP	0.64770573985166	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=TTLL7;DisruptR=	yes	chr1p31.1
chr1	84289902	94125587	NEU	-0.135025822966804	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=BCL10,RPL5;DisruptL=;DisruptR=	yes	chr1p31.1-p22.1
chr1	94125588	94476855	DUP	0.683468780906422	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=ABCD3	yes	chr1p22.1-p21.3
chr1	94476856	103478104	NEU	-0.142583545140949	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=ABCD3;DisruptR=AC095032.1	yes	chr1p21.3-p21.1
chr1	103478105	107356412	DEL	-0.749814863017939	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=AC095032.1;DisruptR=NTNG1	yes	chr1p21.1-p13.3
chr1	107356413	150474851	NEU	-0.14598238945909	bicseq2	HCC-1143--HCC-1143BL	known=;Cancer_census=RBM15,NRAS,FAM46C,BCL9,TRIM33,NOTCH2,ATP1A1,PDE4DIP;DisruptL=NTNG1;DisruptR=RPRD2	no	chr1p13.3-q21.2
chr1	150474852	150749711	DUP	0.688041341756322	bicseq2	HCC-1143--HCC-1143BL	known=DGV;COSMIC;DisruptL=RPRD2;DisruptR=CTSS	yes	chr1q21.2-q21.3
chr1	150749712	186672816	NEU	-0.110108858228901	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=MLLT11,S100A7,TPM3,LMNA,PRCC,NTRK1,FCRL4,FCGR2B,DDR2,PRRX1,ABL2,TPR,ARNT,SDHC,MUC1,PBX1;DisruptL=CTSS;DisruptR=PTGS2	no	chr1q21.3-q31.1
chr1	186672817	203360618	DUP	0.281757474584422	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=ELF3,CDC73,PTPRC;DisruptL=PTGS2;DisruptR=	yes	chr1q31.1-q32.1
chr1	203360619	205097486	DUP	0.739441605318032	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=MDM4;DisruptL=;DisruptR=RBBP5	yes	chr1q32.1
chr1	205097487	212301736	DUP	0.463587871168543	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SLC45A3,ELK4;DisruptL=RBBP5;DisruptR=AL360091.3,PPP2R5A	yes	chr1q32.1-q32.3
chr1	212301737	213004741	DUP	0.959041032428936	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=AL360091.3,PPP2R5A;DisruptR=ANGEL2	yes	chr1q32.3
chr1	213004742	217112155	DUP	0.614819283967789	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=ANGEL2;DisruptR=ESRRG	yes	chr1q32.3-q41
chr1	217112156	217777417	DUP	0.329951901929824	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=ESRRG;DisruptR=SPATA17	yes	chr1q41
chr1	217777418	220805315	DUP	0.893352477114083	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=SPATA17;DisruptR=MARC1	yes	chr1q41
chr1	220805316	223431462	DUP	1.13397868027506	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=MARC1;DisruptR=	yes	chr1q41
chr1	223431463	234776417	NEU	-0.120904452870977	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=H3F3A;DisruptL=;DisruptR=	yes	chr1q41-q42.3
chr1	234776418	242120686	DUP	0.288508890635582	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=FH,RGS7;DisruptL=;DisruptR=PLD5	yes	chr1q42.3-q43
chr1	242120687	248946322	DUP	0.566639677191855	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=AKT3;DisruptL=PLD5;DisruptR=	yes	chr1q43-q44
chr2	10005	37825578	DEL	-0.66335126946283	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=MYCN,C2orf44,NCOA1,ASXL2,DNMT3A,STRN,ALK,BIRC6;DisruptL=;DisruptR=	no	chr2p25.3-p22.2
chr2	37825579	62620851	DEL	-0.246417095655059	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SIX2,EPAS1,MSH6,FBXO11,BCL11A,REL,XPO1,EML4,MSH2;DisruptL=;DisruptR=AC092155.1	no	chr2p22.2-p15
chr2	63608437	94141931	DEL	-0.636745601927414	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=PCBP1,DCTN1;DisruptL=WDPCP;DisruptR=	no	chr2p15-q11.1
chr2	95642457	96875569	NEU	-0.179035473902137	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=TMEM127;DisruptL=;DisruptR=	yes	chr2q11.1-q11.2
chr2	103110752	105664699	DEL	-0.398599859090756	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=AC073987.1;DisruptR=	yes	chr2q12.1-q12.2
chr2	105664700	109199259	DEL	-0.69669606053796	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=RANBP2,RGPD3;DisruptL=;DisruptR=SH3RF3	yes	chr2q12.2-q13
chr2	109199785	114973555	DEL	-0.40302753063024	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=PAX8;DisruptL=SH3RF3;DisruptR=DPP10	yes	chr2q13-q14.1
chr2	114973556	242183395	DEL	-0.708579444057225	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CXCR4,HOXD13,HOXD11,FEV,ACKR3,ACVR1,NFE2L2,CASP8,CD28,CREB1,IDH1,BARD1,ATIC,ACSL3,ERCC3,COL3A1,SF3B1,CUL3,LRP1B,ACVR2A,ITGAV,PMS1,ERBB4,PAX3;DisruptL=DPP10;DisruptR=	no	chr2q14.1-q37.3
chr3	10005	9676603	NEU	-0.166390889645803	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SRGAP3;DisruptL=;DisruptR=MTMR14	yes	chr3p26.3-p25.3
chr3	9676604	10083193	DUP	0.823518657810633	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=FANCD2;DisruptL=MTMR14;DisruptR=FANCD2,FANCD2OS	yes	chr3p25.3
chr3	10083194	37547020	NEU	-0.151761795981225	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=VHL,CCR4,PPARG,RAF1,MLH1,FANCD2,XPC,TGFBR2,FBLN2;DisruptL=FANCD2,FANCD2OS;DisruptR=ITGA9	no	chr3p25.3-p22.2
chr3	37547021	37719800	DUP	0.514389490534109	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=ITGA9;DisruptR=ITGA9	yes	chr3p22.2
chr3	37719801	39770242	NEU	-0.17465692817512	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=MYD88;DisruptL=ITGA9;DisruptR=	yes	chr3p22.2-p22.1
chr3	39770243	41312675	DUP	0.786244563986589	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CTNNB1;DisruptL=;DisruptR=ULK4	yes	chr3p22.1
chr3	41312676	52565237	DEL	-0.7424894240738	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=BAP1,NCKIPSD,RHOA,SETD2,PBRM1;DisruptL=ULK4;DisruptR=SMIM4,PBRM1	yes	chr3p22.1-p21.1
chr3	52565238	52629453	DEL	-7.1666805864719	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=PBRM1;DisruptL=SMIM4,PBRM1;DisruptR=PBRM1	yes	chr3p21.1
chr3	52629454	85183422	DEL	-0.759236596599482	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=MITF,PBRM1,CACNA1D,FOXP1,FHIT,ROBO2;DisruptL=PBRM1;DisruptR=CADM2	no	chr3p21.1-p12.1
chr3	85183423	93455911	DUP	0.29748593216516	bicseq2	HCC-1143--HCC-1143BL	known=;Cancer_census=EPHA3;DisruptL=CADM2;DisruptR=	yes	chr3p12.1-q11.1
chr3	93481450	95005470	DUP	0.694732688500178	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=LINC00879	yes	chr3q11.1-q11.2
chr3	95005471	170316551	DUP	0.283463891478201	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=FOXL2,TFG,GATA2,RPN1,CNBP,GMPS,MECOM,CBLB,POLQ,STAG1,PIK3CB,ATR,WWTR1,MLF1;DisruptL=LINC00879;DisruptR=	no	chr3q11.2-q26.2
chr3	170316552	173659062	DUP	0.683159681403736	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=NLGN1	yes	chr3q26.2-q26.31
chr3	173659063	194248003	DUP	0.341856450762404	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SOX2,EIF4A2,TBL1XR1,PIK3CA,ETV5,BCL6,MAP3K13,IGF2BP2,MB21D2,LPP,TP63;DisruptL=NLGN1;DisruptR=LINC02036,LINC02037	no	chr3q26.31-q29
chr3	194248004	198139690	DUP	0.651810144965633	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=MUC4,TFRC;DisruptL=LINC02036,LINC02037;DisruptR=	yes	chr3q29
chr4	10011	14827697	DEL	-0.320011291707423	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=FGFR3,WHSC1;DisruptL=;DisruptR=LINC00504	yes	chr4p16.3-p15.33
chr4	14827698	15664843	DUP	0.477585351660049	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=LINC00504;DisruptR=FBXL5	yes	chr4p15.33-p15.32
chr4	15664844	52771714	DEL	-0.252490638907017	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=RHOH,SLC34A2,PHOX2B,TEC,N4BP2;DisruptL=FBXL5;DisruptR=	no	chr4p15.32-q12
chr4	52771742	57339073	DUP	0.650723780388871	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=FIP1L1,CHIC2,KIT,KDR,PDGFRA;DisruptL=;DisruptR=	yes	chr4q12
chr4	57339074	59832563	DUP	0.877421186524062	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=	yes	chr4q12-q13.1
chr4	59832564	62845465	DEL	-0.749932420076993	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=	yes	chr4q13.1
chr4	62845466	65266704	DUP	1.03162056111523	bicseq2	HCC-1143--HCC-1143BL	known=DGV;COSMIC;DisruptL=;DisruptR=	yes	chr4q13.1
chr4	65266705	89026438	DEL	-0.726314363422157	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=PTPN13,AFF1;DisruptL=;DisruptR=FAM13A	no	chr4q13.1-q22.1
chr4	89026439	91384037	DEL	-0.556403884567033	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=FAM13A;DisruptR=CCSER1	yes	chr4q22.1
chr4	91384038	91964419	DEL	-8.16105685350422	bicseq2	HCC-1143--HCC-1143BL	known=DGV;COSMIC;DisruptL=CCSER1;DisruptR=	yes	chr4q22.1
chr4	91964420	190066290	DEL	-0.717940479602196	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=IL2,FBXW7,CASP3,RAP1GDS1,TET2,LEF1,FAT4,FAT1;DisruptL=;DisruptR=DBET	no	chr4q22.1-q35.2
chr5	11484	12810903	DUP	0.781146356150732	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SDHA,TERT,CTNND2;DisruptL=;DisruptR=	yes	chr5p15.33-p15.2
chr5	12810904	12820362	DEL	-8.39265069810235	bicseq2	HCC-1143--HCC-1143BL	known=DGV,1000G;DisruptL=;DisruptR=;Intergenic;Closest=LINC01194	yes	chr5p15.2
chr5	12820363	32366972	DUP	0.654624435490621	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CDH10,DROSHA;DisruptL=;DisruptR=ZFR	yes	chr5p15.2-p13.3
chr5	32366973	164930824	DUP	0.262621126740147	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=RAD17,IL7R,LIFR,MAP3K1,APC,PDGFRB,CD74,ITK,PWWP2A,IL6ST,PIK3R1,ACSL6,AFF4,ARHGAP26,CSF1R,EBF1;DisruptL=ZFR;DisruptR=AC109466.1	no	chr5p13.3-q34
chr5	164930825	180949083	DUP	0.658645324078323	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=NPM1,FGFR4,TLX3,FLT4,NSD1;DisruptL=AC109466.1;DisruptR=BTNL8	yes	chr5q34-q35.3
chr5	180949084	181003477	DEL	-8.73690394697571	bicseq2	HCC-1143--HCC-1143BL	known=DGV,1000G;COSMIC;DisruptL=BTNL8;DisruptR=BTNL3	yes	chr5q35.3
chr5	181003478	181449255	DUP	0.605548722374198	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=BTNL3;DisruptR=	yes	chr5q35.3
chr6	89830	607294	NEU	-0.126024390220462	bicseq2	HCC-1143--HCC-1143BL	known=DGV;COSMIC;Cancer_census=IRF4;DisruptL=;DisruptR=EXOC2	yes	chr6p25.3
chr6	607295	882087	DEL	-1.65886203562907	bicseq2	HCC-1143--HCC-1143BL	known=DGV;DisruptL=EXOC2;DisruptR=	yes	chr6p25.3
chr6	882088	24909815	NEU	-0.0463879968514967	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=DEK;DisruptL=;DisruptR=RIPOR2	no	chr6p25.3-p22.3
chr6	24909816	32487100	DEL	-0.660675713580436	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=HIST1H3B,HIST1H4I,HLA-A,POU5F1,TRIM27;DisruptL=RIPOR2;DisruptR=	yes	chr6p22.3-p21.32
chr6	32487101	36092605	DUP	0.309708609137892	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=DAXX,HMGA1,FANCE;DisruptL=;DisruptR=Z95152.1,MAPK14	yes	chr6p21.32-p21.31
chr6	36092606	37947068	NEU	-0.084197192973988	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CDKN1A,PIM1,SRSF3;DisruptL=Z95152.1,MAPK14;DisruptR=ZFAND3	yes	chr6p21.31-p21.2
chr6	37947069	38141254	DUP	1.18958842268882	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=ZFAND3;DisruptR=ZFAND3	yes	chr6p21.2
chr6	38141255	41251784	DUP	0.549756948769388	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=ZFAND3;DisruptR=	yes	chr6p21.2-p21.1
chr6	41251785	52221978	DUP	0.295625285579979	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=TFEB,CCND3,NFKBIE,HSP90AB1;DisruptL=;DisruptR=	yes	chr6p21.1-p12.2
chr6	52221979	52679253	DUP	0.677350273516078	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=TMEM14A	yes	chr6p12.2
chr6	52679254	54303155	NEU	-0.112215728207667	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=TMEM14A;DisruptR=	yes	chr6p12.2-p12.1
chr6	54303156	54849566	DEL	-0.665445276399371	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=FAM83B	yes	chr6p12.1
chr6	54849567	60230119	DEL	-1.61008942210762	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=BMP5;DisruptL=FAM83B;DisruptR=	yes	chr6p12.1-q11.1
chr6	60241646	78257462	NEU	0.159246872801796	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=	yes	chr6q11.1-q14.1
chr6	78257463	78326601	DEL	-7.49172576863568	bicseq2	HCC-1143--HCC-1143BL	known=DGV,1000G;DisruptL=;DisruptR=;Intergenic;Closest=	yes	chr6q14.1
chr6	78326602	129707604	NEU	0.151254851718586	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=PRDM1,CCNC,FOXO3,ROS1,GOPC,RSPO3,PTPRK,EPHA7;DisruptL=;DisruptR=ARHGAP18	no	chr6q14.1-q22.33
chr6	129707605	130003966	DUP	1.13336701453638	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=ARHGAP18;DisruptR=	yes	chr6q22.33-q23.1
chr6	130003967	166890852	NEU	0.135649817740482	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SGK1,MYB,BCLAF1,TNFAIP3,ECT2L,EZR,ARID1B,QKI,ESR1;DisruptL=;DisruptR=AL159163.1,RPS6KA2	no	chr6q23.1-q27
chr6	166890853	170740360	DUP	0.38276477384593	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=FGFR1OP,MLLT4;DisruptL=AL159163.1,RPS6KA2;DisruptR=	yes	chr6q27
chr7	16339	43477638	DEL	-0.559862625385455	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=HOXA11,HOXA13,CARD11,PMS2,RAC1,ETV1,HNRNPA2B1,HOXA9,FKBP9,SFRP4,JAZF1;DisruptL=AC215522.3;DisruptR=HECW1	no	chr7p22.3-p13
chr7	43477639	57487363	DUP	0.631567989697342	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=ZNF479,EGFR,IKZF1;DisruptL=HECW1;DisruptR=	yes	chr7p13-p11.2
chr7	57497083	62116180	DUP	0.961980560769386	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=;DisruptR=	yes	chr7p11.2-q11.21
chr7	62454737	62742771	DEL	-0.242575777864454	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=;DisruptR=;Intergenic;Closest=	yes	chr7q11.21
chr7	62742772	69920123	DEL	-0.797343239808169	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SBDS;DisruptL=;DisruptR=AUTS2	yes	chr7q11.21-q11.22
chr7	69920124	70236679	DEL	-1.79324611142346	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=AUTS2;DisruptR=AUTS2	yes	chr7q11.22
chr7	70236680	84167674	DEL	-0.737245215132442	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=ELN,HIP1;DisruptL=AUTS2;DisruptR=SEMA3A	yes	chr7q11.22-q21.11
chr7	84167675	84789192	NEU	-0.0587243012198314	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=SEMA3A;DisruptR=	yes	chr7q21.11
chr7	84789193	92202778	DEL	-0.724096345051886	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=GRM3,AKAP9;DisruptL=;DisruptR=AC000120.1,KRIT1	yes	chr7q21.11-q21.2
chr7	92202779	92380732	DEL	-1.65009015050416	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=AC000120.1,KRIT1;DisruptR=ANKIB1	yes	chr7q21.2
chr7	92380733	116918672	DEL	-0.728418651120014	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CDK6,TRRAP,CUX1,MET;DisruptL=ANKIB1;DisruptR=CAPZA2	no	chr7q21.2-q31.2
chr7	116918673	125559131	NEU	-0.157572711784173	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=POT1;DisruptL=CAPZA2;DisruptR=	yes	chr7q31.2-q31.33
chr7	125559132	137445253	DEL	-0.746354633807499	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SMO,SND1;DisruptL=;DisruptR=DGKI	yes	chr7q31.33-q33
chr7	137445254	144556595	NEU	-0.157051866699174	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=KIAA1549,FAM131B,CREB3L2,TRIM24,BRAF;DisruptL=DGKI;DisruptR=TPK1	yes	chr7q33-q35
chr7	144556596	159335873	DEL	-0.778735281466419	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=EZH2,MNX1,KMT2C,CNTNAP2;DisruptL=TPK1;DisruptR=	yes	chr7q35-q36.3
chr8	71162	36461420	DEL	-0.745480586935567	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=ARHGEF10,LEPROTL1,PCM1,WRN,NRG1;DisruptL=;DisruptR=	no	chr8p23.3-p12
chr8	36461421	43475932	NEU	-0.151854319643376	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=WHSC1L1,FGFR1,IKBKB,ANK1,HOOK3;DisruptL=;DisruptR=	yes	chr8p12-p11.1
chr8	43475933	43646293	DUP	1.94268820869811	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=;DisruptR=	yes	chr8p11.1
chr8	43646294	45740170	NEU	-0.114933206530266	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=;DisruptR=	yes	chr8p11.1-q11.1
chr8	45740171	60480153	DUP	0.721326477604689	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=TCEA1,PLAG1,CHCHD7;DisruptL=;DisruptR=LINC01301	yes	chr8q11.1-q12.1
chr8	60480154	69392451	DUP	0.940969363541789	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=PREX2;DisruptL=LINC01301;DisruptR=	yes	chr8q12.1-q13.2
chr8	69392452	96324265	DUP	0.69986065193018	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=HEY1,NBN,CDH17,NCOA2,RUNX1T1,CNBD1;DisruptL=;DisruptR=PTDSS1	no	chr8q13.2-q22.1
chr8	96324266	97238581	DUP	1.07556590762955	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=PTDSS1;DisruptR=	yes	chr8q22.1
chr8	97238582	101450436	DUP	0.719257257323568	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=COX6C,PABPC1;DisruptL=;DisruptR=AP001208.2	yes	chr8q22.1-q22.3
chr8	101450437	113847102	DUP	1.46830306576277	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=EIF3E,UBR5,RSPO2,CSMD3;DisruptL=AP001208.2;DisruptR=	yes	chr8q22.3-q23.3
chr8	113847103	114412877	DUP	0.696829446160484	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=;DisruptR=	yes	chr8q23.3
chr8	114412878	121696690	DUP	1.13351665803139	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=RAD21,EXT1;DisruptL=;DisruptR=AC104233.1	yes	chr8q23.3-q24.13
chr8	121696691	145078494	DUP	1.2323579410735	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=MYC,RECQL4,NDRG1,FAM135B;DisruptL=AC104233.1;DisruptR=	no	chr8q24.13-q24.3
chr9	10000	28551864	DEL	-1.48759740672161	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CD274,PDCD1LG2,PSIP1,CDKN2A,JAK2,NFIB,MLLT3,PTPRD;DisruptL=;DisruptR=LINGO2	no	chr9p24.3-p21.1
chr9	28551865	30540068	DUP	0.706630639765931	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=LINGO2;DisruptR=LINC01242	yes	chr9p21.1
chr9	30540069	45516998	NEU	-0.051158333224752	bicseq2	HCC-1143--HCC-1143BL	known=;Cancer_census=FANCG,PAX5;DisruptL=LINC01242;DisruptR=	yes	chr9p21.1-q12
chr9	45516999	66040021	DEL	-0.770006708488101	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=;DisruptR=	no	chr9q12-q21.11
chr9	66040022	138313848	NEU	-0.151937060288429	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=OMD,KLF4,TAL2,SET,SYK,PTCH1,XPA,NR4A3,ABL1,RALGDS,BRD3,NOTCH1,GNAQ,WNK2,FANCC,TNC,CNTRL,PPP6C,NUP214,TSC1,FNBP1;DisruptL=;DisruptR=	no	chr9q21.11-q34.3
chr10	10287	3411101	DUP	0.372573571313233	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=LARP4B;DisruptL=;DisruptR=	yes	chr10p15.3-p15.2
chr10	3411102	23965103	DUP	0.667878043696345	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=KLF6,GATA3,MLLT10;DisruptL=;DisruptR=KIAA1217	no	chr10p15.2-p12.2
chr10	23965104	27758013	DUP	0.965013088046764	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=ABI1;DisruptL=KIAA1217;DisruptR=MKX-AS1	yes	chr10p12.2-p12.1
chr10	27758014	29240715	DUP	0.691733748058986	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=MKX-AS1;DisruptR=	yes	chr10p12.1
chr10	29240716	37167257	DUP	0.247327401781466	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=KIF5B,ZEB1;DisruptL=;DisruptR=ANKRD30A	yes	chr10p12.1-p11.21
chr10	37167258	39580116	DUP	0.541966069104647	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=ANKRD30A;DisruptR=	yes	chr10p11.21-p11.1
chr10	39580117	63904755	DUP	0.356403862760663	bicseq2	HCC-1143--HCC-1143BL	known=;Cancer_census=NCOA4,RET,A1CF,CCDC6;DisruptL=;DisruptR=AC022387.1	no	chr10p11.1-q21.3
chr10	63904756	133787316	NEU	-0.175972735781432	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=TLX1,PRF1,NUTM2B,NUTM2A,CYP2C8,NFKB2,TET1,KAT6B,BMPR1A,PTEN,FAS,CPEB3,SUFU,NT5C2,VTI1A,TCF7L2,KIAA1598,FGFR2,MGMT;DisruptL=AC022387.1;DisruptR=	no	chr10q21.3-q26.3
chr11	128355	4827727	NEU	-0.230664387353433	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=HRAS,NUP98,CARS;DisruptL=LINC01001;DisruptR=MMP26	yes	chr11p15.5-p15.4
chr11	4827728	7289777	DUP	0.600369054355065	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=MMP26;DisruptR=SYT9	yes	chr11p15.4
chr11	7289778	7844446	DUP	0.997613506688025	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=SYT9;DisruptR=AC044810.3,AC044810.2	yes	chr11p15.4
chr11	7844447	10522050	DUP	0.578559221864828	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=LMO1;DisruptL=AC044810.3,AC044810.2;DisruptR=RNF141	yes	chr11p15.4
chr11	10522051	11283093	NEU	-0.155561467046115	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=RNF141;DisruptR=GALNT18	yes	chr11p15.4
chr11	11283094	12343615	DUP	0.563181859031106	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=GALNT18;DisruptR=MICAL2	yes	chr11p15.4-p15.3
chr11	12343616	27802256	NEU	-0.183624645900313	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=MYOD1,FANCF;DisruptL=MICAL2;DisruptR=AC103796.1	yes	chr11p15.3-p14.1
chr11	27802257	29804998	DUP	0.595303789138194	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=AC103796.1;DisruptR=AC107973.1	yes	chr11p14.1
chr11	29804999	36593149	NEU	-0.15723472698293	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=WT1,LMO2;DisruptL=AC107973.1;DisruptR=RAG2,RAG1	yes	chr11p14.1-p12
chr11	36593150	39290297	DUP	0.594612753623676	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=RAG2,RAG1;DisruptR=	yes	chr11p12
chr11	39290298	45539524	NEU	-0.20210800505752	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=EXT2;DisruptL=;DisruptR=AC103855.2	yes	chr11p12-p11.2
chr11	45539525	48860163	DUP	0.540464153287913	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CREB3L1,DDB2;DisruptL=AC103855.2;DisruptR=	yes	chr11p11.2-p11.12
chr11	48860164	49740712	DUP	1.03326298182875	bicseq2	HCC-1143--HCC-1143BL	known=DGV;COSMIC;DisruptL=;DisruptR=AC136759.1	yes	chr11p11.12
chr11	49740713	54537482	DUP	0.511412691465576	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=AC136759.1;DisruptR=	yes	chr11p11.12-q11
chr11	54537483	58828468	NEU	0.147636582285318	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CLP1,CTNND1;DisruptL=;DisruptR=	yes	chr11q11-q12.1
chr11	58828469	59869482	DUP	0.432395544226432	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=	yes	chr11q12.1
chr11	59869483	60292595	DUP	0.83514888285741	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=MS4A4A	yes	chr11q12.1-q12.2
chr11	60292596	62369130	NEU	-0.194708979562925	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=FEN1,SDHAF2;DisruptL=MS4A4A;DisruptR=ASRGL1	yes	chr11q12.2-q12.3
chr11	62369131	62579733	DUP	0.430960496619429	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=ASRGL1;DisruptR=AP002990.1,TUT1	yes	chr11q12.3
chr11	62579734	65505149	NEU	-0.179526694282548	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=MEN1,MALAT1;DisruptL=AP002990.1,TUT1;DisruptR=MALAT1	yes	chr11q12.3-q13.1
chr11	65505150	67782749	DUP	0.24470199502394	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=MALAT1;DisruptR=	yes	chr11q13.1-q13.2
chr11	67782750	69098161	NEU	-0.182362812757293	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=TPCN2	yes	chr11q13.2-q13.3
chr11	69098162	69779346	DUP	2.90761691282613	bicseq2	HCC-1143--HCC-1143BL	known=;Cancer_census=CCND1;DisruptL=TPCN2;DisruptR=	yes	chr11q13.3
chr11	69779347	70550613	DUP	1.95440482702704	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=;DisruptR=SHANK2	yes	chr11q13.3-q13.4
chr11	70550614	72659617	NEU	-0.21755814390614	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=NUMA1;DisruptL=SHANK2;DisruptR=PDE2A	yes	chr11q13.4
chr11	72659618	73060414	DUP	0.283184141870374	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=PDE2A;DisruptR=FCHSD2	yes	chr11q13.4
chr11	73060415	74628478	NEU	-0.0891710585997192	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=FCHSD2;DisruptR=POLD3	yes	chr11q13.4
chr11	74628479	78640369	DUP	0.630335089873619	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=POLD3;DisruptR=	yes	chr11q13.4-q14.1
chr11	78640370	80765305	NEU	-0.196654285542326	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=	yes	chr11q14.1
chr11	80765306	121197406	DEL	-0.742009620359217	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SDHD,FAT3,BIRC3,POU2AF1,PAFAH1B2,DDX6,BCL9L,FOXR1,EED,MAML2,ATM,DDX10,ZBTB16,CBL,ARHGEF12,PICALM,KMT2A;DisruptL=;DisruptR=	no	chr11q14.1-q23.3
chr11	121197407	121473002	NEU	-0.206731357959017	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=SORL1	yes	chr11q23.3-q24.1
chr11	121473003	133551052	DEL	-0.793987945846238	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=KCNJ5,FLI1;DisruptL=SORL1;DisruptR=	yes	chr11q24.1-q25
chr11	133551053	135076522	DEL	-1.86477001152033	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=	yes	chr11q25
chr12	41087	56255606	NEU	-0.155391797812124	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=PTPN6,CDKN1B,HOXC13,HOXC11,KDM5A,CCND2,CHD4,ZNF384,KRAS,COL2A1,KMT2D,PRPF40B,SMARCD1,ATF1,ETV6,ETNK1,PPFIBP1,ARID2,ERBB3,ERC1;DisruptL=;DisruptR=ANKRD52	no	chr12p13.33-q13.3
chr12	56255607	61144793	DUP	0.853517373229003	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=NAB2,GLI1,DDIT3,CDK4,NACA,STAT6,LRIG3;DisruptL=ANKRD52;DisruptR=	yes	chr12q13.3-q14.1
chr12	61144794	65713849	NEU	-0.137046126994414	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=WIF1;DisruptL=;DisruptR=	yes	chr12q14.1-q14.3
chr12	65713850	67923115	DUP	2.43760014224659	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=HMGA2;DisruptL=;DisruptR=	yes	chr12q14.3-q15
chr12	67923116	69782592	DUP	1.62274984146031	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=MDM2;DisruptL=;DisruptR=RAB3IP	yes	chr12q15
chr12	69782593	69869146	NEU	-0.172367999209635	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=RAB3IP;DisruptR=MYRFL	yes	chr12q15
chr12	69869147	71964313	DUP	1.48427843079597	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=PTPRB;DisruptL=MYRFL;DisruptR=TPH2	yes	chr12q15-q21.1
chr12	71964314	72511936	DUP	2.0979540070363	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=TPH2;DisruptR=TRHDE	yes	chr12q21.1
chr12	72511937	112325530	NEU	-0.156854605229544	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=BTG1,USP44,SH2B3,CHST11,ALDH2;DisruptL=TRHDE;DisruptR=HECTD4	no	chr12q21.1-q24.13
chr12	112325531	112386380	DUP	2.47210768872007	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=HECTD4;DisruptR=	yes	chr12q24.13
chr12	112386381	125881976	NEU	-0.209652569218838	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=TBX3,SETD1B,ZCCHC8,PTPN11,HNF1A,BCL7A,CLIP1,NCOR2;DisruptL=;DisruptR=	yes	chr12q24.13-q24.32
chr12	125881977	133264924	NEU	0.13610003330619	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=POLE;DisruptL=;DisruptR=	yes	chr12q24.32-q24.33
chr13	16000006	17402857	DUP	0.433597586485025	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=;DisruptR=;Intergenic;Closest=	yes	chr13p11.2-p11.1
chr13	17417970	23788056	DEL	-0.389166598870933	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=ZNF198;DisruptL=;DisruptR=MIPEP	yes	chr13p11.1-q12.12
chr13	23788057	24952905	NEU	0.0307774402872448	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=MIPEP;DisruptR=TPTE2P1	yes	chr13q12.12-q12.13
chr13	24952906	28880401	DUP	0.303471781222723	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CDX2,FLT3;DisruptL=TPTE2P1;DisruptR=MTUS2	yes	chr13q12.13-q12.3
chr13	28880402	68670604	DEL	-0.741554216177134	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CYSLTR2,BRCA2,LHFP,FOXO1,RB1,NBEA,LCP1;DisruptL=MTUS2;DisruptR=	no	chr13q12.3-q21.33
chr13	68670605	68694604	DEL	-6.83182924816124	bicseq2	HCC-1143--HCC-1143BL	known=DGV,1000G;DisruptL=;DisruptR=	yes	chr13q21.33
chr13	68694605	97331911	DEL	-0.719254538609216	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SOX21,GPC5;DisruptL=;DisruptR=MBNL2	no	chr13q21.33-q32.1
chr13	97331912	97689209	DEL	-1.65928474361097	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=MBNL2;DisruptR=	yes	chr13q32.1-q32.2
chr13	97689210	98509394	DEL	-0.751960206357689	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=STK24	yes	chr13q32.2
chr13	98509395	107326494	DUP	0.355939123669805	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=ERCC5;DisruptL=STK24;DisruptR=FAM155A	yes	chr13q32.2-q33.3
chr13	107326495	110418575	DUP	0.550474902651204	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=FAM155A;DisruptR=COL4A2	yes	chr13q33.3-q34
chr13	110418576	114354111	NEU	-0.215578852988003	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=COL4A2;DisruptR=	yes	chr13q34
chr14	16140244	20575058	NEU	0.118890492854997	bicseq2	HCC-1143--HCC-1143BL	known=;Cancer_census=CCNB1IP1;DisruptL=;DisruptR=	yes	chr14p11.1-q11.2
chr14	20575059	21264197	DUP	0.693517287011225	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=HNRNPC	yes	chr14q11.2
chr14	21264198	41140316	NEU	0.0987920134972969	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=NKX2-1,FOXA1,ARHGAP5,BAZ1A;DisruptL=HNRNPC;DisruptR=	yes	chr14q11.2-q21.1
chr14	41140317	41200380	DEL	-7.48988733483001	bicseq2	HCC-1143--HCC-1143BL	known=DGV,1000G;DisruptL=;DisruptR=;Intergenic;Closest=	yes	chr14q21.1
chr14	41200381	91109906	NEU	0.086281617105372	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SIX1,NIN,KTN1,MAX,HIF1A,TSHR,RAD51B,GPHN;DisruptL=;DisruptR=DGLUCY	no	chr14q21.1-q32.11
chr14	91109907	91493434	DUP	0.595078138462357	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=DGLUCY;DisruptR=PPP4R3A	yes	chr14q32.11-q32.12
chr14	91493435	104243063	NEU	0.0105289753184306	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=TCL1A,DICER1,TRIP11,GOLGA5,BCL11B,HSP90AA1;DisruptL=PPP4R3A;DisruptR=AL590079.1	yes	chr14q32.12-q32.33
chr14	104243064	104326322	DUP	1.19121503104515	bicseq2	HCC-1143--HCC-1143BL	known=DGV;COSMIC;DisruptL=AL590079.1;DisruptR=	yes	chr14q32.33
chr14	104326323	105433357	DUP	1.85734767915159	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=AKT1;DisruptL=;DisruptR=TEX22,MTA1	yes	chr14q32.33
chr14	105433358	106883618	DUP	1.20688240783185	bicseq2	HCC-1143--HCC-1143BL	known=DGV;COSMIC;DisruptL=TEX22,MTA1;DisruptR=	yes	chr14q32.33
chr15	17083473	56746778	NEU	-0.126867837781307	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=NUTM1,BUB1B,KNSTRN,B2M,CASC5,USP8,MYO5A;DisruptL=;DisruptR=AC090517.4	no	chr15p11.2-q21.3
chr15	56746779	65078651	DUP	0.603904534849267	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=TCF12;DisruptL=AC090517.4;DisruptR=	yes	chr15q21.3-q22.31
chr15	65078652	71999743	NEU	0.190712321047592	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=MAP2K1,SMAD3;DisruptL=;DisruptR=AC022872.1,MYO9A	yes	chr15q22.31-q23
chr15	71999744	72362589	DUP	0.83158472122641	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=AC022872.1,MYO9A;DisruptR=AC009690.1,HEXA	yes	chr15q23
chr15	72362590	101981087	NEU	0.142136067151049	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=FES,PML,POLG,IDH2,BLM,CRTC3,CHD2,NTRK3;DisruptL=AC009690.1,HEXA;DisruptR=	no	chr15q23-q26.3
chr16	10005	13287277	NEU	-0.095392923541069	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=TRAF7,SOCS1,RMI2,TNFRSF17,AXIN1,TSC2,RUNDC2A,CREBBP,GRIN2A,CIITA,NTHL1;DisruptL=;DisruptR=U91319.1	yes	chr16p13.3-p13.12
chr16	13287278	34502581	DUP	0.311521570535338	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=FUS,ERCC4,PALB2,IL21R,MYH11,PRKCB;DisruptL=U91319.1;DisruptR=	no	chr16p13.12-p11.2
chr16	34596149	90226217	NEU	-0.180317912155539	bicseq2	HCC-1143--HCC-1143BL	known=;Cancer_census=MAF,CYLD,HERPUD1,CDH11,CBFB,RFWD3,CBFA2T3,CTCF,CDH1,ZFHX3,FANCA;DisruptL=;DisruptR=	no	chr16p11.2-q24.3
chr17	168977	21658447	DUP	0.216544766605456	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=TP53,YWHAE,USP6,PER1,FLCN,RABEP1,GAS7,MAP2K4,NCOR1,SPECC1;DisruptL=DOC2B;DisruptR=	no	chr17p13.3-p11.2
chr17	22044138	34345057	DEL	-0.255160703219509	bicseq2	HCC-1143--HCC-1143BL	known=;Cancer_census=NF1,SUZ12;DisruptL=;DisruptR=	yes	chr17p11.2-q12
chr17	34345058	36041470	DUP	0.250072792255519	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=TAF15;DisruptL=;DisruptR=	yes	chr17q12
chr17	36041471	39577425	DEL	-0.711708966898317	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=MLLT6,LASP1,CDK12;DisruptL=;DisruptR=	yes	chr17q12
chr17	39577426	39805109	DUP	0.243992451341752	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=ERBB2;DisruptL=;DisruptR=IKZF3	yes	chr17q12-q21.1
chr17	39805110	43301596	DEL	-0.71556148536716	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CCR7,RARA,SMARCE1,STAT5B,STAT3,BRCA1;DisruptL=IKZF3;DisruptR=LINC00854	yes	chr17q21.1-q21.31
chr17	43301597	47874812	NEU	0.168440183046823	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=ETV4;DisruptL=LINC00854;DisruptR=	yes	chr17q21.31-q21.32
chr17	47874813	48072289	DUP	1.19519981734482	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=CBX1	yes	chr17q21.32
chr17	48072290	55607901	DUP	0.204897137247458	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SPOP,KAT7,COL1A1,HLF;DisruptL=CBX1;DisruptR=	yes	chr17q21.32-q22
chr17	55607902	59518846	DUP	0.820906102530966	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=RNF43,MSI2;DisruptL=;DisruptR=LINC01476	yes	chr17q22-q23.1
chr17	59518847	67102559	NEU	-0.139628215789972	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=PPM1D,CD79B,DDX5,CLTC,BRIP1,AXIN2;DisruptL=LINC01476;DisruptR=HELZ	yes	chr17q23.1-q24.2
chr17	67102560	83247341	DUP	0.793384971154052	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=H3F3B,SRSF2,CANT1,PRKAR1A,ASPSCR1,SEPT9,RNF213;DisruptL=HELZ;DisruptR=	yes	chr17q24.2-q25.3
chr18	10010	276979	DUP	0.22860302654358	bicseq2	HCC-1143--HCC-1143BL	known=DGV;COSMIC;DisruptL=;DisruptR=	yes	chr18p11.32
chr18	276980	1091192	DUP	1.04980433158816	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=AP005328.1	yes	chr18p11.32
chr18	1091193	1158563	DEL	-0.320107852164771	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=AP005328.1;DisruptR=AP005328.1	yes	chr18p11.32
chr18	1158564	3047703	DUP	0.933836142015981	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=AP005328.1;DisruptR=	yes	chr18p11.32-p11.31
chr18	3047704	7909753	DUP	1.15432975594468	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=PTPRM	yes	chr18p11.31-p11.23
chr18	7909754	11293417	DUP	1.47162163803628	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=PTPRM;DisruptR=	yes	chr18p11.23-p11.21
chr18	11293418	11707457	DUP	1.09223069276192	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=GNAL	yes	chr18p11.21
chr18	11707458	20553041	NEU	0.148697666338307	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=GNAL;DisruptR=	yes	chr18p11.21-q11.1
chr18	20553042	23307595	DEL	-0.262395045213694	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=TMEM241	yes	chr18q11.1-q11.2
chr18	23307596	23971374	DUP	1.22976913156531	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=TMEM241;DisruptR=AC010754.1	yes	chr18q11.2
chr18	23971375	24279287	DUP	0.54839276009857	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=AC010754.1;DisruptR=OSBPL1A	yes	chr18q11.2
chr18	24279288	24683977	DEL	-0.261867604444192	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=OSBPL1A;DisruptR=	yes	chr18q11.2
chr18	24683978	30129550	DEL	-0.702819129129518	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SS18,ZNF521;DisruptL=;DisruptR=	yes	chr18q11.2-q12.1
chr18	30129551	40264437	DEL	-0.897404915536954	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=	yes	chr18q12.1-q12.3
chr18	40264438	49181719	DEL	-0.28781754969317	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SMAD2,SETBP1;DisruptL=;DisruptR=DYM	yes	chr18q12.3-q21.1
chr18	49181720	57411729	DEL	-0.931735437110507	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SMAD4,DCC;DisruptL=DYM;DisruptR=	yes	chr18q21.1-q21.31
chr18	57411730	59280927	DEL	-0.484441133153598	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=MALT1;DisruptL=;DisruptR=CPLX4	yes	chr18q21.31-q21.32
chr18	59280928	61626459	DEL	-0.887953409090301	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=CPLX4;DisruptR=AC105094.2	yes	chr18q21.32-q21.33
chr18	61626460	67194496	DUP	0.409343465183625	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=KDSR,BCL2;DisruptL=AC105094.2;DisruptR=	yes	chr18q21.33-q22.1
chr18	67194497	73989168	NEU	0.178025520447517	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=AC090125.1	yes	chr18q22.1-q22.3
chr18	73989169	80263172	DUP	0.425585992945217	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=AC090125.1;DisruptR=	yes	chr18q22.3-q23
chr19	90733	12858860	NEU	-0.182517073683293	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=FSTL3,CD209,KEAP1,STK11,TCF3,GNA11,MAP2K2,SH3GL1,MLLT1,MUC16,VAV1,DNM2,SMARCA4;DisruptL=;DisruptR=HOOK2,MAST1	yes	chr19p13.3-p13.13
chr19	12858861	12880012	DEL	-7.29109172362065	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=HOOK2,MAST1;DisruptR=DNASE2	yes	chr19p13.13
chr19	12880013	14687523	NEU	-0.157520864594875	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=LYL1,CALR,PRKACA,DNAJB1;DisruptL=DNASE2;DisruptR=ADGRE3	yes	chr19p13.13-p13.12
chr19	14687524	15684658	DUP	1.93978859963185	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=BRD4;DisruptL=ADGRE3;DisruptR=CYP4F12	yes	chr19p13.12
chr19	15684659	20137237	NEU	-0.0248531317493045	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=TPM4,JAK3,ELL,CRTC1;DisruptL=CYP4F12;DisruptR=AC011447.2,AC011447.3	yes	chr19p13.12-p12
chr19	20137238	20490394	DUP	0.901981102929921	bicseq2	HCC-1143--HCC-1143BL	known=DGV;DisruptL=AC011447.2,AC011447.3;DisruptR=AC008554.1	yes	chr19p12
chr19	20490395	23544694	NEU	-0.180986115333854	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=ZNF429;DisruptL=AC008554.1;DisruptR=ZNF675	yes	chr19p12
chr19	23544695	24018595	DUP	0.362193283553416	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=ZNF675;DisruptR=	yes	chr19p12
chr19	24018596	58607515	NEU	-0.106080229362788	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CEBPA,BCL3,BCL2L12,KLK2,TFPT,CCNE1,CD79A,CIC,CBLC,ERCC2,BAX,POLD1,PPP2R1A,ZNF331,CNOT3,CEP89,LSM14A,AKT2;DisruptL=;DisruptR=	no	chr19p12-q13.43
chr20	67260	8764419	DUP	0.529318032238936	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SIRPA;DisruptL=;DisruptR=PLCB1	yes	chr20p13-p12.3
chr20	8764420	21885644	DUP	0.788570458390897	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=CRNKL1;DisruptL=PLCB1;DisruptR=	yes	chr20p12.3-p11.22
chr20	21885645	28506070	DUP	0.939883564025602	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=;DisruptR=	yes	chr20p11.22-q11.1
chr20	29339193	30761316	NEU	0.153104213006086	bicseq2	HCC-1143--HCC-1143BL	known=;DisruptL=;DisruptR=	yes	chr20q11.1-q11.21
chr20	31245066	31539738	DUP	1.21897604883588	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=HM13	yes	chr20q11.21
chr20	31539739	34230620	DUP	1.85300499210722	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=ASXL1;DisruptL=HM13;DisruptR=ASIP	yes	chr20q11.21-q11.22
chr20	34230621	36912630	DUP	1.25603604055699	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=ASIP;DisruptR=SAMHD1	yes	chr20q11.22-q11.23
chr20	36912631	39349550	DUP	1.01630891121221	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=SRC;DisruptL=SAMHD1;DisruptR=	yes	chr20q11.23-q12
chr20	39349551	64334067	NEU	0.185221630110118	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=MAFB,TOP1,SDC4,SALL4,GNAS,SS18L1,PTK6,PLCG1,NFATC2,PTPRT;DisruptL=;DisruptR=	no	chr20q12-q13.33
chr21	13282812	13507200	DUP	0.395600736598049	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=	yes	chr21q11.2
chr21	13507201	15873584	DUP	1.46846620777363	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=USP25	yes	chr21q11.2-q21.1
chr21	15873585	17474345	DUP	0.286485189902171	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=USP25;DisruptR=	yes	chr21q21.1
chr21	17474346	17986205	DUP	1.59706114891367	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=CHODL	yes	chr21q21.1
chr21	17986206	18484759	DUP	0.480308562870455	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=CHODL;DisruptR=TMPRSS15,AL109763.1	yes	chr21q21.1
chr21	18484760	20111383	NEU	0.0992877015251297	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=TMPRSS15,AL109763.1;DisruptR=	yes	chr21q21.1
chr21	20111384	26635290	NEU	-0.153493035496949	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=	yes	chr21q21.1-q21.3
chr21	26635291	31947284	DEL	-0.634459919851137	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=HUNK	yes	chr21q21.3-q22.11
chr21	31947285	32741359	DUP	0.734418463844501	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=HUNK;DisruptR=PAXBP1-AS1,PAXBP1	yes	chr21q22.11
chr21	32741360	34714666	DUP	0.274219291452345	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=OLIG2;DisruptL=PAXBP1-AS1,PAXBP1;DisruptR=CLIC6	yes	chr21q22.11-q22.12
chr21	34714667	34819639	DEL	-1.22664581560556	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=RUNX1;DisruptL=CLIC6;DisruptR=RUNX1	yes	chr21q22.12
chr21	34819640	34847754	DEL	-7.88413223299808	bicseq2	HCC-1143--HCC-1143BL	known=;Cancer_census=RUNX1;DisruptL=RUNX1;DisruptR=RUNX1	yes	chr21q22.12
chr21	34847755	40764259	DEL	-0.478295361160678	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=RUNX1,ERG;DisruptL=RUNX1;DisruptR=DSCAM	yes	chr21q22.12-q22.2
chr21	40764260	41078298	DUP	1.15054014110436	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=DSCAM;DisruptR=	yes	chr21q22.2
chr21	41078299	41570936	DEL	-0.517945309042045	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=TMPRSS2;DisruptL=;DisruptR=	yes	chr21q22.2-q22.3
chr21	41570937	41825925	NEU	-0.0368578209147104	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=;DisruptR=PRDM15	yes	chr21q22.3
chr21	41825926	42103908	DUP	1.13115820285319	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=PRDM15;DisruptR=UMODL1-AS1,UMODL1	yes	chr21q22.3
chr21	42103909	44064549	NEU	-0.0761029792932823	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=U2AF1;DisruptL=UMODL1-AS1,UMODL1;DisruptR=TRAPPC10	yes	chr21q22.3
chr21	44064550	46107841	DUP	1.22098297661152	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=TRAPPC10;DisruptR=COL6A2	yes	chr21q22.3
chr21	46107842	46699872	NEU	-0.0621819723118766	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=COL6A2;DisruptR=	yes	chr21q22.3
chr22	10514978	24015968	DUP	0.871238819395061	bicseq2	HCC-1143--HCC-1143BL	known=;Cancer_census=SEPT5,DGCR8,LZTR1,MAPK1,SMARCB1,CLTCL1,BCR;DisruptL=;DisruptR=CABIN1	yes	chr22p11.2-q11.23
chr22	24015969	29344638	DUP	1.12771414245307	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=ZNRF3,EWSR1,MN1,CHEK2;DisruptL=CABIN1;DisruptR=AP1B1	yes	chr22q11.23-q12.2
chr22	29344639	46073918	DUP	0.707981895870343	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;Cancer_census=APOBEC3B,ZNF278,ISX,PDGFB,MKL1,NF2,MYH9,EP300;DisruptL=AP1B1;DisruptR=MIRLET7BHG	yes	chr22q12.2-q13.31
chr22	46073919	46234133	DUP	1.28026079868754	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=MIRLET7BHG;DisruptR=PPARA	yes	chr22q13.31
chr22	46234134	50808368	DUP	0.635532526859455	bicseq2	HCC-1143--HCC-1143BL	known=;COSMIC;DisruptL=PPARA;DisruptR=	yes	chr22q13.31-q13.33