#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	31283007	DUP	0.215632939164588	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=P2RY8,CRLF2,ZRSR2,EIF1AX;DisruptL=;DisruptR=DMD	no	chrXp22.33-p21.2
chrX	31283008	32080447	DEL	-0.644221917900276	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;DisruptL=DMD;DisruptR=DMD	yes	chrXp21.2-p21.1
chrX	32080448	32183115	DEL	-2.79737233729937	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;DisruptL=DMD;DisruptR=DMD	yes	chrXp21.1
chrX	32183116	156029936	DUP	0.297216711539632	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=ARAF,SSX1,WAS,FOXO4,ZMYM3,NONO,IRS4,DCAF12L2,RPL10,MTCP1,FAM47C,BCOR,DDX3X,SSX4,GATA1,TFE3,SSX2,SMC1A,AMER1,MSN,MED12,BTK,STAG2,ELF4,PHF6,ATP2B3,FLNA,KDM5C,AR,SEPT6,GPC3,KDM6A,RBM10,ATRX,BCORL1;DisruptL=DMD;DisruptR=	no	chrXp21.1-q28
chr1	10028	86871338	NEU	-0.105247215273338	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=TNFRSF14,ID3,MDS2,MYCL,TAL1,JUN,BCL10,SKI,RPL22,CASP9,PAX7,LCK,SFPQ,THRAP3,CSF3R,MPL,MUTYH,STIL,CDKN2C,FUBP1,MTOR,PRDM2,SPEN,SDHB,ARHGEF10L,ARID1A,JAK1,PRDM16,CAMTA1,EPS15;DisruptL=;DisruptR=SELENOF	no	chr1p36.33-p22.3
chr1	86871339	143541116	DEL	-0.657747415758473	bicseq2	COLO-829--COLO-829BL	known=;Cancer_census=RPL5,RBM15,NRAS,FAM46C,TRIM33,NOTCH2,ATP1A1;DisruptL=SELENOF;DisruptR=	no	chr1p22.3-q21.1
chr1	143541117	144101334	DEL	-5.91784039165042	bicseq2	COLO-829--COLO-829BL	known=;DisruptL=;DisruptR=	yes	chr1q21.1
chr1	144105059	169257068	DUP	0.343301336248636	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=MLLT11,S100A7,BCL9,TPM3,LMNA,PRCC,NTRK1,FCRL4,FCGR2B,DDR2,ARNT,SDHC,PDE4DIP,MUC1,PBX1;DisruptL=;DisruptR=NME7	no	chr1q21.1-q24.2
chr1	169257069	169275275	DEL	-8.17044539544559	bicseq2	COLO-829--COLO-829BL	known=DGV,1000G;COSMIC;DisruptL=NME7;DisruptR=NME7	yes	chr1q24.2
chr1	169275276	248574815	DUP	0.302311234755022	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=SLC45A3,PRRX1,ABL2,TPR,ELF3,MDM4,ELK4,H3F3A,FH,CDC73,PTPRC,AKT3,RGS7;DisruptL=NME7;DisruptR=	no	chr1q24.2-q44
chr1	248574816	248634718	DEL	-7.8766475289235	bicseq2	COLO-829--COLO-829BL	known=DGV;COSMIC;DisruptL=;DisruptR=OR2T11	yes	chr1q44
chr1	248634719	248945674	DUP	0.287560406064793	bicseq2	COLO-829--COLO-829BL	known=DGV;DisruptL=OR2T11;DisruptR=	yes	chr1q44
chr2	10005	242183395	NEU	-0.0805848440015833	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=MYCN,PCBP1,CXCR4,HOXD13,HOXD11,FEV,ACKR3,C2orf44,NCOA1,ASXL2,SIX2,EPAS1,MSH6,FBXO11,BCL11A,REL,XPO1,DCTN1,TMEM127,RANBP2,ACVR1,NFE2L2,CASP8,CD28,CREB1,IDH1,BARD1,ATIC,ACSL3,DNMT3A,STRN,EML4,MSH2,RGPD3,ERCC3,COL3A1,SF3B1,CUL3,ALK,BIRC6,AFF3,PAX8,LRP1B,ACVR2A,ITGAV,PMS1,ERBB4,PAX3;DisruptL=;DisruptR=	no	chr2p25.3-q37.3
chr3	10682	24523547	DEL	-0.66253101983346	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=VHL,PPARG,RAF1,SRGAP3,FANCD2,XPC,FBLN2;DisruptL=;DisruptR=THRB-AS1	no	chr3p26.3-p24.2
chr3	24523548	25359526	DUP	1.64389135435346	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;DisruptL=THRB-AS1;DisruptR=RARB	yes	chr3p24.2
chr3	25359527	26410780	DUP	1.31345038634909	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;DisruptL=RARB;DisruptR=	yes	chr3p24.2-p24.1
chr3	26410781	26622988	DUP	1.92386383925722	bicseq2	COLO-829--COLO-829BL	known=;DisruptL=;DisruptR=LRRC3B	yes	chr3p24.1
chr3	26622989	198139690	DUP	0.326897337638713	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=CCR4,MYD88,BAP1,FOXL2,SOX2,EIF4A2,MLH1,CTNNB1,NCKIPSD,RHOA,MITF,TFG,GATA2,RPN1,CNBP,GMPS,MECOM,TBL1XR1,PIK3CA,ETV5,BCL6,MUC4,TFRC,TGFBR2,SETD2,PBRM1,CACNA1D,FOXP1,CBLB,POLQ,STAG1,PIK3CB,ATR,WWTR1,MLF1,MAP3K13,IGF2BP2,MB21D2,FHIT,ROBO2,EPHA3,LPP,TP63;DisruptL=LRRC3B;DisruptR=	no	chr3p24.1-q29
chr4	10011	49091174	DEL	-0.644200733919746	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=RHOH,FGFR3,SLC34A2,PHOX2B,TEC,WHSC1,N4BP2;DisruptL=;DisruptR=	no	chr4p16.3-p11
chr4	49714365	190066290	DUP	0.269764251910214	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=FIP1L1,CHIC2,KIT,KDR,IL2,FBXW7,CASP3,PDGFRA,PTPN13,RAP1GDS1,TET2,LEF1,FAT4,AFF1,FAT1;DisruptL=;DisruptR=DBET	no	chr4p11-q35.2
chr5	11484	17517515	DEL	-0.650219220571397	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=SDHA,TERT,CTNND2;DisruptL=;DisruptR=	yes	chr5p15.33-p15.1
chr5	17517516	17645389	DEL	-7.27467432019194	bicseq2	COLO-829--COLO-829BL	known=;DisruptL=;DisruptR=	yes	chr5p15.1
chr5	17645390	28787798	DEL	-0.673116846652638	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=CDH10;DisruptL=;DisruptR=AC008825.1	yes	chr5p15.1-p14.1
chr5	28787799	28962927	DEL	-1.80482419161529	bicseq2	COLO-829--COLO-829BL	known=DGV;DisruptL=AC008825.1;DisruptR=	yes	chr5p14.1-p13.3
chr5	28962928	180949083	DEL	-0.661372876531087	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=RAD17,IL7R,LIFR,MAP3K1,APC,PDGFRB,CD74,ITK,PWWP2A,NPM1,FGFR4,IL6ST,PIK3R1,ACSL6,AFF4,ARHGAP26,CSF1R,EBF1,TLX3,FLT4,DROSHA,NSD1;DisruptL=;DisruptR=BTNL8	no	chr5p13.3-q35.3
chr5	180949084	181003477	DEL	-9.30847930563206	bicseq2	COLO-829--COLO-829BL	known=DGV,1000G;COSMIC;DisruptL=BTNL8;DisruptR=BTNL3	yes	chr5q35.3
chr5	181003478	181449255	DEL	-0.648081285454814	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;DisruptL=BTNL3;DisruptR=	yes	chr5q35.3
chr6	89830	64637466	DUP	0.319415954382308	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=HIST1H3B,HIST1H4I,HLA-A,POU5F1,DAXX,CDKN1A,PIM1,TFEB,CCND3,NFKBIE,DEK,TRIM27,HMGA1,FANCE,SRSF3,HSP90AB1,IRF4,BMP5;DisruptL=;DisruptR=EYS	no	chr6p25.3-q12
chr6	64637467	170740360	NEU	-0.0988149583530489	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=SGK1,PRDM1,MYB,BCLAF1,TNFAIP3,ECT2L,EZR,FGFR1OP,CCNC,FOXO3,ROS1,GOPC,RSPO3,PTPRK,ARID1B,QKI,MLLT4,EPHA7,ESR1;DisruptL=EYS;DisruptR=	no	chr6q12-q27
chr7	16339	126105997	DUP	0.332370038944559	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=HOXA11,HOXA13,CARD11,PMS2,RAC1,ETV1,HNRNPA2B1,HOXA9,FKBP9,SFRP4,ZNF479,SBDS,POT1,JAZF1,EGFR,ELN,HIP1,GRM3,AKAP9,CDK6,TRRAP,CUX1,MET,IKZF1;DisruptL=AC215522.3;DisruptR=	no	chr7p22.3-q31.33
chr7	126105998	126458399	DEL	-0.621138013941355	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;DisruptL=;DisruptR=GRM8	yes	chr7q31.33
chr7	126458400	144256400	DUP	0.919343561383233	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=SMO,KIAA1549,FAM131B,CREB3L2,TRIM24,BRAF,SND1;DisruptL=GRM8;DisruptR=AC004889.1,AC074386.1	yes	chr7q31.33-q35
chr7	144256401	151049392	DUP	0.345231594332876	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=EZH2,CNTNAP2;DisruptL=AC004889.1,AC074386.1;DisruptR=ASIC3	yes	chr7q35-q36.1
chr7	151049393	159335873	DEL	-0.654186419345292	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=MNX1,KMT2C;DisruptL=ASIC3;DisruptR=	yes	chr7q36.1-q36.3
chr8	71162	145078494	DUP	0.201609155155592	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=TCEA1,PLAG1,CHCHD7,HEY1,COX6C,MYC,RECQL4,ARHGEF10,LEPROTL1,WHSC1L1,FGFR1,IKBKB,NBN,CDH17,PABPC1,EIF3E,RAD21,NDRG1,PCM1,WRN,NRG1,ANK1,NCOA2,RUNX1T1,UBR5,EXT1,FAM135B,HOOK3,PREX2,CNBD1,RSPO2,CSMD3;DisruptL=;DisruptR=	no	chr8p23.3-q24.3
chr9	10000	30338983	DEL	-0.675114453922118	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=CD274,PDCD1LG2,PSIP1,CDKN2A,JAK2,NFIB,MLLT3,PTPRD;DisruptL=;DisruptR=	no	chr9p24.3-p21.1
chr9	30338984	138313848	DUP	0.287595572576378	bicseq2	COLO-829--COLO-829BL	known=;Cancer_census=OMD,KLF4,TAL2,SET,FANCG,SYK,PTCH1,XPA,NR4A3,ABL1,RALGDS,BRD3,NOTCH1,PAX5,GNAQ,WNK2,FANCC,TNC,CNTRL,PPP6C,NUP214,TSC1,FNBP1;DisruptL=;DisruptR=	no	chr9p21.1-q34.3
chr10	10287	7592026	DEL	-0.64429558021445	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=LARP4B,KLF6;DisruptL=;DisruptR=ITIH5	yes	chr10p15.3-p14
chr10	7592027	33097569	NEU	-0.133930035261131	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=GATA3,ABI1,KIF5B,MLLT10,ZEB1;DisruptL=ITIH5;DisruptR=AL121748.1	no	chr10p14-p11.22
chr10	33097570	87940550	DEL	-0.662257290634445	bicseq2	COLO-829--COLO-829BL	known=;Cancer_census=NCOA4,PRF1,NUTM2B,NUTM2A,RET,A1CF,CCDC6,TET1,KAT6B,BMPR1A,PTEN;DisruptL=AL121748.1;DisruptR=PTEN	no	chr10p11.22-q23.31
chr10	87940551	87952530	DEL	-9.2368428747328	bicseq2	COLO-829--COLO-829BL	known=;Cancer_census=PTEN;DisruptL=PTEN;DisruptR=PTEN	yes	chr10q23.31
chr10	87952531	133787316	DEL	-0.643604416102991	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=TLX1,CYP2C8,NFKB2,PTEN,FAS,CPEB3,SUFU,NT5C2,VTI1A,TCF7L2,KIAA1598,FGFR2,MGMT;DisruptL=PTEN;DisruptR=	no	chr10q23.31-q26.3
chr11	128355	81074540	NEU	-0.063939660050564	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=HRAS,MYOD1,FANCF,CLP1,FEN1,MEN1,MALAT1,NUP98,WT1,LMO2,CREB3L1,DDB2,SDHAF2,CCND1,NUMA1,CARS,LMO1,EXT2,CTNND1;DisruptL=LINC01001;DisruptR=	no	chr11p15.5-q14.1
chr11	81074541	81382721	DEL	-1.00983434852347	bicseq2	COLO-829--COLO-829BL	known=;DisruptL=;DisruptR=;Intergenic;Closest=	yes	chr11q14.1
chr11	81382722	135076522	NEU	-0.123760863092719	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=SDHD,KCNJ5,FAT3,BIRC3,POU2AF1,PAFAH1B2,DDX6,BCL9L,FOXR1,EED,MAML2,ATM,DDX10,ZBTB16,CBL,ARHGEF12,FLI1,PICALM,KMT2A;DisruptL=;DisruptR=	no	chr11q14.1-q25
chr12	41087	133264924	NEU	-0.0791764369800577	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=PTPN6,CDKN1B,HOXC13,HOXC11,NAB2,GLI1,DDIT3,CDK4,BTG1,TBX3,SETD1B,KDM5A,CCND2,CHD4,ZNF384,KRAS,COL2A1,KMT2D,PRPF40B,SMARCD1,ATF1,NACA,STAT6,LRIG3,WIF1,PTPRB,USP44,SH2B3,ZCCHC8,ETV6,ETNK1,PPFIBP1,ARID2,ERBB3,HMGA2,MDM2,CHST11,ALDH2,PTPN11,HNF1A,BCL7A,CLIP1,NCOR2,POLE,ERC1;DisruptL=;DisruptR=	no	chr12p13.33-q24.33
chr13	16000006	114354111	NEU	0.0951217253718867	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=CYSLTR2,SOX21,CDX2,ERCC5,ZNF198,FLT3,BRCA2,LHFP,FOXO1,RB1,NBEA,LCP1,GPC5;DisruptL=;DisruptR=	no	chr13p11.2-q34
chr14	18670975	18697902	DEL	-7.04700959474347	bicseq2	COLO-829--COLO-829BL	known=DGV;DisruptL=;DisruptR=	yes	chr14q11.2
chr14	18697903	106883618	NEU	-0.071545503485618	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=NKX2-1,FOXA1,SIX1,TCL1A,NIN,KTN1,MAX,DICER1,AKT1,CCNB1IP1,ARHGAP5,BAZ1A,HIF1A,TSHR,TRIP11,GOLGA5,BCL11B,HSP90AA1,RAD51B,GPHN;DisruptL=;DisruptR=	no	chr14q11.2-q32.33
chr15	17083473	23747520	DUP	0.319210200637249	bicseq2	COLO-829--COLO-829BL	known=;DisruptL=;DisruptR=	yes	chr15p11.2-q11.2
chr15	23747521	84142010	DEL	-0.642682929873408	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=NUTM1,BUB1B,KNSTRN,B2M,PML,CASC5,USP8,TCF12,MAP2K1,MYO5A,SMAD3;DisruptL=;DisruptR=	no	chr15q11.2-q25.2
chr15	84142011	101981087	DUP	0.337847348720923	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=FES,POLG,IDH2,BLM,CRTC3,CHD2,NTRK3;DisruptL=;DisruptR=	yes	chr15q25.2-q26.3
chr16	10005	34502581	NEU	0.17692483077354	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=TRAF7,SOCS1,RMI2,TNFRSF17,FUS,AXIN1,TSC2,RUNDC2A,ERCC4,PALB2,IL21R,CREBBP,GRIN2A,CIITA,NTHL1,MYH11,PRKCB;DisruptL=;DisruptR=	no	chr16p13.3-p11.2
chr16	34596149	58590672	DEL	-0.629943770306656	bicseq2	COLO-829--COLO-829BL	known=;Cancer_census=CYLD,HERPUD1;DisruptL=;DisruptR=CNOT1	no	chr16p11.2-q21
chr16	58590673	58629425	DEL	-7.04917953325424	bicseq2	COLO-829--COLO-829BL	known=;DisruptL=CNOT1;DisruptR=CNOT1	yes	chr16q21
chr16	58629426	78894747	DEL	-0.61211667796047	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=CDH11,CBFB,RFWD3,CTCF,CDH1,ZFHX3;DisruptL=CNOT1;DisruptR=WWOX	no	chr16q21-q23.1
chr16	78894748	79061089	DEL	-1.61960321880116	bicseq2	COLO-829--COLO-829BL	known=DGV;COSMIC;DisruptL=WWOX;DisruptR=WWOX	yes	chr16q23.1
chr16	79061090	90226217	DEL	-0.622471510367274	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=MAF,CBFA2T3,FANCA;DisruptL=WWOX;DisruptR=	yes	chr16q23.1-q24.3
chr17	168977	83247341	NEU	0.0184624020503762	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=TP53,CCR7,H3F3B,SRSF2,CANT1,YWHAE,USP6,PER1,FLCN,TAF15,MLLT6,LASP1,CDK12,RARA,ETV4,SPOP,RNF43,PPM1D,CD79B,DDX5,PRKAR1A,ASPSCR1,RABEP1,GAS7,MAP2K4,NCOR1,SPECC1,NF1,SUZ12,ERBB2,SMARCE1,STAT5B,STAT3,BRCA1,KAT7,COL1A1,HLF,MSI2,CLTC,BRIP1,AXIN2,SEPT9,RNF213;DisruptL=DOC2B;DisruptR=	no	chr17p13.3-q25.3
chr18	10010	9868588	DEL	-0.656205063093127	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;DisruptL=;DisruptR=	yes	chr18p11.32-p11.22
chr18	9868589	80263172	NEU	-0.120998824438066	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=SMAD2,SMAD4,KDSR,SS18,SETBP1,BCL2,DCC,ZNF521,MALT1;DisruptL=;DisruptR=	no	chr18p11.22-q23
chr19	90733	58607515	NEU	-0.0506847373654668	bicseq2	COLO-829--COLO-829BL	known=;Cancer_census=FSTL3,CD209,KEAP1,LYL1,CEBPA,BCL3,BCL2L12,KLK2,TFPT,STK11,TCF3,GNA11,MAP2K2,SH3GL1,MLLT1,MUC16,CALR,PRKACA,DNAJB1,BRD4,TPM4,JAK3,ZNF429,CCNE1,CD79A,CIC,CBLC,ERCC2,BAX,POLD1,PPP2R1A,ZNF331,CNOT3,VAV1,DNM2,SMARCA4,ELL,CRTC1,CEP89,LSM14A,AKT2;DisruptL=;DisruptR=	no	chr19p13.3-q13.43
chr20	67260	64334067	DUP	0.350731810839874	bicseq2	COLO-829--COLO-829BL	known=;Cancer_census=MAFB,SIRPA,SRC,TOP1,SDC4,SALL4,GNAS,SS18L1,PTK6,CRNKL1,ASXL1,PLCG1,NFATC2,PTPRT;DisruptL=;DisruptR=	no	chr20p13-q13.33
chr21	9040000	46699872	NEU	-0.0799637137117355	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=OLIG2,TMPRSS2,U2AF1,RUNX1,ERG;DisruptL=;DisruptR=	no	chr21p11.2-q22.3
chr22	10514978	50808368	DUP	0.367333663226249	bicseq2	COLO-829--COLO-829BL	known=;COSMIC;Cancer_census=SEPT5,APOBEC3B,DGCR8,LZTR1,MAPK1,SMARCB1,ZNRF3,EWSR1,ZNF278,ISX,PDGFB,MKL1,CLTCL1,BCR,MN1,CHEK2,NF2,MYH9,EP300;DisruptL=;DisruptR=	no	chr22p11.2-q13.33