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|
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##FilterLiftedVariants="analysis_type=FilterLiftedVariants input_file=[] sample_metadata=[] read_buffer_size=null phone_home=STANDARD read_filter=[] intervals=null excludeIntervals=null reference_sequence=/local/sequence/reference/BWA_ref/hg19/hg19.fasta rodBind=[/local/scratch/xyliu/0.915136538286792.sorted.vcf] rodToIntervalTrackName=null BTI_merge_rule=UNION DBSNP=null downsampling_type=null downsample_to_fraction=null downsample_to_coverage=null baq=OFF baqGapOpenPenalty=40.0 performanceLog=null useOriginalQualities=false defaultBaseQualities=-1 validation_strictness=SILENT unsafe=null num_threads=1 interval_merging=ALL read_group_black_list=null processingTracker=null restartProcessingTracker=false processingTrackerStatusFile=null processingTrackerID=-1 allow_intervals_with_unindexed_bam=false enable_experimental_low_memory_sharding=false logging_level=INFO log_to_file=null quiet_output_mode=false debug_mode=false help=false out=org.broadinstitute.sting.gatk.io.stubs.VCFWriterStub NO_HEADER=org.broadinstitute.sting.gatk.io.stubs.VCFWriterStub sites_only=org.broadinstitute.sting.gatk.io.stubs.VCFWriterStub"
##INFO=<ID=VC,Number=1,Type=String,Description="Variation Class">
##INFO=<ID=AC,Number=.,Type=Integer,Description="Allele count in genotypes, for each ALT allele, in the same order as listed">
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#CHROM POS ID REF ALT QUAL FILTER INFO
20 421805 . T TCCA . PASS VC=INDEL;AC=24;AF=0.08;AN=316;refseq.name=NM_144628;refseq.positionType=intron;OLD_VARIANT=20:421808:A/ACCA
20 1292033 . C CTTGT . PASS VC=INDEL;AC=28;AF=0.1;AN=276;refseq.name=NM_080489;refseq.positionType=intron
20 1340527 . T TGTC . PASS VC=INDEL;AC=56;AF=0.18;AN=316
20 1600125 . GAA G . PASS VC=INDEL;AC=3;AF=0.01;AN=312;refseq.name=NM_001083910;refseq.positionType=intron
20 1728298 . G GT . PASS VC=INDEL;AC=199;AF=0.63;AN=316
20 2171402 . T TA . PASS VC=INDEL;AC=223;AF=0.71;AN=316
20 2171402 . T TA . PASS VC=INDEL;AC=223;AF=0.71;AN=316;OLD_VARIANT=20:2171404:A/AA
20 2982245 . CT C . PASS VC=INDEL;AC=118;AF=0.38;AN=314;refseq.name=NM_002836;refseq.positionType=intron
20 3025866 . TCAAA T . PASS VC=INDEL;AC=31;AF=0.1;AN=306;refseq.name=NM_001501;refseq.positionType=intron
20 3373437 . GCTTT G . PASS VC=INDEL;AC=58;AF=0.18;AN=316;refseq.name=NM_001009984;refseq.positionType=intron;OLD_VARIANT=20:3373441:TCTTT/T
20 3635158 . A AT . PASS VC=INDEL;AC=130;AF=0.47;AN=274;OLD_VARIANT=20:3635159:T/TT
20 4422115 . GGGAGCTCCCAGGCTACAGAAAGATGAT G . PASS VC=INDEL;AC=174;AF=0.55;AN=314;OLD_VARIANT=20:4422119:GCTCCCAGGCTACAGAAAGATGATGGAG/G
20 5151108 . GTTCT G . PASS VC=INDEL;AC=61;AF=0.2;AN=304;refseq.name=NM_003818;refseq.positionType=intron
20 5280839 . T TATA . PASS VC=INDEL;AC=202;AF=0.75;AN=268
20 5291223 . TCAG T . PASS VC=INDEL;AC=51;AF=0.16;AN=316;refseq.name=NM_144773;refseq.positionType=intron
20 5509358 . T TG . PASS VC=INDEL;AC=136;AF=0.43;AN=316
20 5900669 . G GC . PASS VC=INDEL;AC=69;AF=0.23;AN=300;refseq.name=NM_001819;refseq.positionType=intron
20 5900669 . G GC . PASS VC=INDEL;AC=68;AF=0.22;AN=304;refseq.name=NM_001819;refseq.positionType=intron;OLD_VARIANT=20:5900670:C/CC
20 6351757 . C CTT . PASS VC=INDEL;AC=52;AF=0.17;AN=314
20 6362163 . GC G . PASS VC=INDEL;AC=49;AF=0.2;AN=250
20 6481086 . T TTGTC . PASS VC=INDEL;AC=307;AF=0.97;AN=316
20 8080272 . CTTTG C . PASS VC=INDEL;AC=118;AF=0.37;AN=316;OLD_VARIANT=20:8080280:GTTTG/G
20 8781391 . CA C . PASS VC=INDEL;AC=122;AF=0.39;AN=316;refseq.name=NM_015192;refseq.positionType=intron;OLD_VARIANT=20:8781394:AA/A
20 8833755 . CT C . PASS VC=INDEL;AC=13;AF=0.04;AN=298;refseq.name=NM_015192;refseq.positionType=intron;OLD_VARIANT=20:8833756:TT/T
20 9035326 . A AT . PASS VC=INDEL;AC=110;AF=0.35;AN=314;OLD_VARIANT=20:9035330:T/TT
20 9311904 . TGTATCTGTCCA T . PASS VC=INDEL;AC=46;AF=0.15;AN=314;refseq.name=NM_000933;refseq.positionType=intron
20 9389232 . GGGTTTGAT G . PASS VC=INDEL;AC=77;AF=0.25;AN=306;refseq.name=NM_000933;refseq.positionType=intron
20 11213808 . A AAGCAC . PASS VC=INDEL;AC=101;AF=0.42;AN=238
20 11777597 . C CT . PASS VC=INDEL;AC=265;AF=0.84;AN=316
20 12611888 . TAAGTC T . PASS VC=INDEL;AC=29;AF=0.09;AN=316;OLD_VARIANT=20:12611892:TCAAGT/T
20 12656722 . C CA . PASS VC=INDEL;AC=171;AF=0.54;AN=316
20 12664095 . TCA T . PASS VC=INDEL;AC=79;AF=0.32;AN=250
20 12840732 . A ATT . PASS VC=INDEL;AC=8;AF=0.03;AN=314
20 12840733 . C CT . PASS VC=INDEL;AC=8;AF=0.03;AN=316
20 13073492 . G GT . PASS VC=INDEL;AC=316;AF=1;AN=316;refseq.name=NM_018327;refseq.positionType=intron
20 13149654 . AATGT A . PASS VC=INDEL;AC=54;AF=0.18;AN=296
20 13527237 . C CTTG . PASS VC=INDEL;AC=142;AF=0.45;AN=316;refseq.name=NM_017714;refseq.positionType=intron;OLD_VARIANT=20:13527241:T/TTGT
20 14563715 . C CAT . PASS VC=INDEL;AC=75;AF=0.24;AN=312;refseq.name=NM_080676;refseq.positionType=intron
20 14908890 . T TATC . PASS VC=INDEL;AC=150;AF=0.7;AN=214;refseq.name=NM_080676;refseq.positionType=intron
20 14923410 . GAGCCTAAA G . PASS VC=INDEL;AC=160;AF=0.51;AN=312;refseq.name=NM_080676;refseq.positionType=intron;OLD_VARIANT=20:14923414:CTAAAAGCC/C
20 15082252 . TGGTG T . PASS VC=INDEL;AC=156;AF=0.51;AN=306;refseq.name=NM_080676;refseq.positionType=intron;OLD_VARIANT=20:15082253:GGTGG/G
20 15317286 . C CT . PASS VC=INDEL;AC=274;AF=0.89;AN=308;refseq.name=NM_080676;refseq.positionType=intron
20 15524178 . GTTCT G . PASS VC=INDEL;AC=80;AF=0.25;AN=316;refseq.name=NM_080676;refseq.positionType=intron
20 15701887 . ATCTGAAG A . PASS VC=INDEL;AC=155;AF=0.51;AN=306;refseq.name=NM_080676;refseq.positionType=intron
20 15701887 . ATCTGAAG A . PASS VC=INDEL;AC=157;AF=0.5;AN=312;refseq.name=NM_080676;refseq.positionType=intron;OLD_VARIANT=20:15701890:TGAAGTCT/T
20 16332171 . CAGCTGAGCGCAG C . PASS VC=INDEL;AC=0;AF=0;AN=316;refseq.name=NM_024704;refseq.positionType=intron
20 16336431 . TGAG T . PASS VC=INDEL;AC=18;AF=0.06;AN=316;refseq.name=NM_024704;refseq.positionType=intron
20 16464660 . C CCAGT . PASS VC=INDEL;AC=137;AF=0.43;AN=316;refseq.name=NM_024704;refseq.positionType=intron
20 16478600 . AAC A . PASS VC=INDEL;AC=45;AF=0.14;AN=316;refseq.name=NM_024704;refseq.positionType=intron
20 17187630 . C CT . PASS VC=INDEL;AC=0;AF=0;AN=316
20 17660506 . TCTAAACCCTCTC T . PASS VC=INDEL;AC=61;AF=0.21;AN=294;refseq.name=NM_001042576;refseq.positionType=intron;OLD_VARIANT=20:17660514:CTCTCCTAAACCC/C
20 18123968 . GAA G . PASS VC=INDEL;AC=74;AF=0.23;AN=316;refseq.name=NM_020536;refseq.positionType=intron
20 18487146 . GAATA G . PASS VC=INDEL;AC=91;AF=0.29;AN=316;refseq.name=NM_006363;refseq.positionType=promoter
20 18487146 . GAATA G . PASS VC=INDEL;AC=91;AF=0.29;AN=316;refseq.name=NM_006363;refseq.positionType=promoter;OLD_VARIANT=20:18487147:AATAA/A
20 18624882 . ATC A . PASS VC=INDEL;AC=81;AF=0.27;AN=304;refseq.name=NM_080820;refseq.positionType=intron;OLD_VARIANT=20:18624883:TCT/T
20 18703070 . CT C . PASS VC=INDEL;AC=88;AF=0.28;AN=314;refseq.name=NM_080820;refseq.positionType=intron
20 19076743 . ACCCTC A . PASS VC=INDEL;AC=14;AF=0.04;AN=316;OLD_VARIANT=20:19076746:CTCCCC/C
20 19250399 . C CAT . PASS VC=INDEL;AC=3;AF=0.01;AN=316;refseq.name=NM_020689;refseq.positionType=intron
20 19319754 . T TAGCTCCCAACA . PASS VC=INDEL;AC=213;AF=0.95;AN=224;refseq.name=NM_020689;refseq.positionType=intron
20 19560555 . GA G . PASS VC=INDEL;AC=215;AF=0.68;AN=316;refseq.name=NM_020689;refseq.positionType=intron
20 19860444 . GT G . PASS VC=INDEL;AC=41;AF=0.13;AN=312
20 19948252 . C CA . PASS VC=INDEL;AC=36;AF=0.11;AN=316;refseq.name=NM_018993;refseq.positionType=intron
20 20015192 . T TAAAC . PASS VC=INDEL;AC=31;AF=0.1;AN=306;refseq.name=NM_016652;refseq.positionType=exon;OLD_VARIANT=20:20015197:A/AAACA
20 20015647 . ACT A . PASS VC=INDEL;AC=15;AF=0.05;AN=316;refseq.name=NM_016652;refseq.positionType=exon;OLD_VARIANT=20:20015650:CTC/C
20 20033563 . A ATAAT . PASS VC=INDEL;AC=214;AF=0.69;AN=312;refseq.name=NM_016652;refseq.positionType=intron;OLD_VARIANT=20:20033568:T/TAATT
20 20158175 . CT C . PASS VC=INDEL;AC=227;AF=0.8;AN=282;refseq.name=NM_015585;refseq.positionType=intron;OLD_VARIANT=20:20158176:TT/T
20 20978414 . A ATC . PASS VC=INDEL;AC=188;AF=0.64;AN=296;OLD_VARIANT=20:20978417:T/TCT
20 21383366 . TCTA T . PASS VC=INDEL;AC=136;AF=0.43;AN=316;OLD_VARIANT=20:21383368:TACT/T
20 21621614 . ATATC A . PASS VC=INDEL;AC=186;AF=0.59;AN=314
20 21855321 . C CT . PASS VC=INDEL;AC=147;AF=0.6;AN=246
20 21855321 . C CT . PASS VC=INDEL;AC=171;AF=0.58;AN=296;OLD_VARIANT=20:21855322:T/TT
20 21864931 . CTGTAA C . PASS VC=INDEL;AC=1;AF=0;AN=316;OLD_VARIANT=20:21864933:GTAATG/G
20 22088982 . T TG . PASS VC=INDEL;AC=23;AF=0.09;AN=256;OLD_VARIANT=20:22088984:G/GG
20 22414326 . GT G . PASS VC=INDEL;AC=197;AF=0.62;AN=316
20 22449567 . T TCTC . PASS VC=INDEL;AC=40;AF=0.16;AN=250;OLD_VARIANT=20:22449570:C/CCTC
20 22703260 . A AGAAG . PASS VC=INDEL;AC=225;AF=0.71;AN=316
20 22703260 . A AGAAG . PASS VC=INDEL;AC=225;AF=0.71;AN=316;OLD_VARIANT=20:22703265:G/GAAGG
20 22790009 . CTT C . PASS VC=INDEL;AC=72;AF=0.23;AN=316
20 22984188 . CA C . PASS VC=INDEL;AC=88;AF=0.28;AN=312;OLD_VARIANT=20:22984189:AA/A
20 23635060 . G GCGGC . PASS VC=INDEL;AC=30;AF=0.1;AN=294
20 24183813 . GCTC G . PASS VC=INDEL;AC=4;AF=0.01;AN=316
20 24375698 . CCAGGATG C . PASS VC=INDEL;AC=68;AF=0.31;AN=220;OLD_VARIANT=20:24375706:CAGGATGC/C
20 24933608 . C CTT . PASS VC=INDEL;AC=315;AF=1;AN=316;refseq.name=NM_003650;refseq.positionType=intron
20 25179366 . GCCACGTCTCTTCTC G . PASS VC=INDEL;AC=71;AF=0.23;AN=314;refseq.name=NM_001114089;refseq.positionType=intron
20 25258739 . T TCTC . PASS VC=INDEL;AC=184;AF=0.59;AN=314;refseq.name=NM_002862;refseq.positionType=intron
20 25457049 . GCTCCCA G . PASS VC=INDEL;AC=316;AF=1;AN=316;refseq.name=NM_025176;refseq.positionType=exon
20 29900010 . TAG T . PASS VC=INDEL;AC=2;AF=0.01;AN=316;OLD_VARIANT=20:29900012:GAG/G
20 30110427 . CTG C . PASS VC=INDEL;AC=121;AF=0.39;AN=314;refseq.name=NM_030789;refseq.positionType=intron;OLD_VARIANT=20:30110429:GTG/G
20 30158578 . CCA C . PASS VC=INDEL;AC=103;AF=0.35;AN=294
20 30747542 . CATT C . PASS VC=INDEL;AC=143;AF=0.47;AN=306;refseq.name=NM_014742;refseq.positionType=intron
20 30747542 . CATT C . PASS VC=INDEL;AC=144;AF=0.47;AN=306;refseq.name=NM_014742;refseq.positionType=intron;OLD_VARIANT=20:30747545:TATT/T
20 31031590 . TA T . PASS VC=INDEL;AC=98;AF=0.32;AN=304
20 31403394 . T TG . PASS VC=INDEL;AC=197;AF=0.63;AN=314
20 32537183 . C CCT . PASS VC=INDEL;AC=269;AF=0.85;AN=316
20 32646307 . A ATACT . PASS VC=INDEL;AC=266;AF=0.84;AN=316;refseq.name=NM_007367;refseq.positionType=intron
20 32871421 . AG A . PASS VC=INDEL;AC=153;AF=0.49;AN=314;refseq.name=NM_000687;refseq.positionType=intron;OLD_VARIANT=20:32871422:GG/G
20 33626399 . C CAGAA . PASS VC=INDEL;AC=204;AF=0.65;AN=316;refseq.name=NM_015638;refseq.positionType=intron
20 33626399 . C CAGA . PASS VC=INDEL;AC=200;AF=0.65;AN=306;refseq.name=NM_015638;refseq.positionType=intron;OLD_VARIANT=20:33626401:G/GAAG
20 35525287 . T TGGACA . PASS VC=INDEL;AC=193;AF=0.62;AN=310;refseq.name=NM_015474;refseq.positionType=intron;OLD_VARIANT=20:35525288:G/GGACAG
20 35958078 . C CTT . PASS VC=INDEL;AC=176;AF=0.56;AN=314
20 36010625 . A AGGTGCAG . PASS VC=INDEL;AC=109;AF=0.51;AN=212;refseq.name=NM_005417;refseq.positionType=intron;OLD_VARIANT=20:36010629:G/GCAGGGTG
20 36521334 . GGTCCAC G . PASS VC=INDEL;AC=32;AF=0.14;AN=236
20 36686810 . CTT C . PASS VC=INDEL;AC=34;AF=0.11;AN=316;refseq.name=NM_021215;refseq.positionType=intron
20 36686810 . CTT C . PASS VC=INDEL;AC=34;AF=0.11;AN=316;refseq.name=NM_021215;refseq.positionType=intron;OLD_VARIANT=20:36686811:TTT/T
20 36791656 . A ACT . PASS VC=INDEL;AC=84;AF=0.27;AN=314;refseq.name=NM_004613;refseq.positionType=intron
20 37037631 . AT A . PASS VC=INDEL;AC=193;AF=0.61;AN=316
20 37048675 . A AAT . PASS VC=INDEL;AC=14;AF=0.04;AN=316;OLD_VARIANT=20:37048678:A/ATA
20 37388009 . AACTCTAGCGAG A . PASS VC=INDEL;AC=57;AF=0.19;AN=306;refseq.name=NM_024855;refseq.positionType=intron;OLD_VARIANT=20:37388010:ACTCTAGCGAGA/A
20 37394795 . AT A . PASS VC=INDEL;AC=114;AF=0.36;AN=316;refseq.name=NM_024855;refseq.positionType=intron
20 37394795 . AT A . PASS VC=INDEL;AC=114;AF=0.36;AN=316;refseq.name=NM_024855;refseq.positionType=intron;OLD_VARIANT=20:37394796:TT/T
20 37706107 . A AC . PASS VC=INDEL;AC=55;AF=0.22;AN=254
20 38022700 . CAAG C . PASS VC=INDEL;AC=7;AF=0.02;AN=316;OLD_VARIANT=20:38022703:GAAG/G
20 38258947 . G GATGGA . PASS VC=INDEL;AC=81;AF=0.34;AN=236
20 38416231 . CTGAT C . PASS VC=INDEL;AC=268;AF=0.86;AN=312;OLD_VARIANT=20:38416239:TTGAT/T
20 38441276 . TA T . PASS VC=INDEL;AC=87;AF=0.28;AN=306;OLD_VARIANT=20:38441280:AA/A
20 39074860 . TTC T . PASS VC=INDEL;AC=9;AF=0.03;AN=316;OLD_VARIANT=20:39074861:TCT/T
20 39475162 . TG T . PASS VC=INDEL;AC=1;AF=0;AN=250
20 39611561 . AG A . PASS VC=INDEL;AC=277;AF=0.89;AN=310
20 39918077 . CAG C . PASS VC=INDEL;AC=101;AF=0.32;AN=316;refseq.name=NM_015035;refseq.positionType=intron;OLD_VARIANT=20:39918080:AGA/A
20 40552038 . TATG T . PASS VC=INDEL;AC=2;AF=0.01;AN=316
20 41086658 . CA C . PASS VC=INDEL;AC=0;AF=0;AN=316;refseq.name=NM_133170;refseq.positionType=intron;OLD_VARIANT=20:41086660:AA/A
20 41284374 . G GTT . PASS VC=INDEL;AC=101;AF=0.32;AN=316;refseq.name=NM_133170;refseq.positionType=intron
20 41284374 . G GTT . PASS VC=INDEL;AC=101;AF=0.32;AN=316;refseq.name=NM_133170;refseq.positionType=intron;OLD_VARIANT=20:41284377:T/TTT
20 41771255 . CAA C . PASS VC=INDEL;AC=65;AF=0.21;AN=316;refseq.name=NM_133170;refseq.positionType=intron
20 41900315 . GT G . PASS VC=INDEL;AC=4;AF=0.01;AN=278
20 42493962 . T TA . PASS VC=INDEL;AC=0;AF=0;AN=316
20 42551667 . C CAG . PASS VC=INDEL;AC=147;AF=0.47;AN=314;refseq.name=NM_001098797;refseq.positionType=intron
20 42551667 . C CAG . PASS VC=INDEL;AC=148;AF=0.47;AN=314;refseq.name=NM_001098797;refseq.positionType=intron;OLD_VARIANT=20:42551669:G/GAG
20 42595599 . CCACCAA C . PASS VC=INDEL;AC=74;AF=0.3;AN=248;refseq.name=NM_001098797;refseq.positionType=intron;OLD_VARIANT=20:42595607:ACCAACA/A
20 43521313 . TTACTC T . PASS VC=INDEL;AC=1;AF=0;AN=316;refseq.name=NM_003404;refseq.positionType=intron;OLD_VARIANT=20:43521315:ACTCTA/A
20 43893147 . A AGT . PASS VC=INDEL;AC=70;AF=0.22;AN=314
20 44442298 . C CTA . PASS VC=INDEL;AC=30;AF=0.1;AN=312;refseq.name=NM_007019;refseq.positionType=intron
20 45088514 . AGATGATATT A . PASS VC=INDEL;AC=35;AF=0.11;AN=316
20 45849248 . T TAACA . PASS VC=INDEL;AC=19;AF=0.06;AN=312;refseq.name=NM_012408;refseq.positionType=intron
20 45850735 . TAG T . PASS VC=INDEL;AC=188;AF=0.66;AN=284;refseq.name=NM_012408;refseq.positionType=intron;OLD_VARIANT=20:45850737:GAG/G
20 45924827 . CT C . PASS VC=INDEL;AC=35;AF=0.17;AN=206;refseq.name=NM_012408;refseq.positionType=intron;OLD_VARIANT=20:45924828:TT/T
20 46657103 . A ACTC . PASS VC=INDEL;AC=219;AF=0.69;AN=316;OLD_VARIANT=20:46657104:C/CTCC
20 46687122 . T TTA . PASS VC=INDEL;AC=191;AF=0.66;AN=290
20 46687122 . T TTA . PASS VC=INDEL;AC=199;AF=0.66;AN=300;OLD_VARIANT=20:46687123:T/TAT
20 46981903 . GATGAGCTCTAA G . PASS VC=INDEL;AC=197;AF=0.63;AN=314
20 46981903 . GATGAGCTCTAA G . PASS VC=INDEL;AC=196;AF=0.62;AN=314;OLD_VARIANT=20:46981904:ATGAGCTCTAAA/A
20 47673119 . CCAA C . PASS VC=INDEL;AC=6;AF=0.02;AN=310;refseq.name=NM_001316;refseq.positionType=intron
20 48602568 . AG A . PASS VC=INDEL;AC=93;AF=0.34;AN=270;refseq.name=NM_005985;refseq.positionType=intron
20 48696635 . A AG . PASS VC=INDEL;AC=242;AF=0.79;AN=308;OLD_VARIANT=20:48696636:G/GG
20 49350127 . C CTA . PASS VC=INDEL;AC=89;AF=0.28;AN=316;refseq.name=NM_032521;refseq.positionType=intron;OLD_VARIANT=20:49350131:A/ATA
20 50018386 . AAGGTGTCAACAAAT A . PASS VC=INDEL;AC=267;AF=0.84;AN=316;refseq.name=NM_012340;refseq.positionType=intron;OLD_VARIANT=20:50018388:GGTGTCAACAAATAG/G
20 50114685 . CT C . PASS VC=INDEL;AC=316;AF=1;AN=316;refseq.name=NM_012340;refseq.positionType=intron;OLD_VARIANT=20:50114687:TT/T
20 50711979 . TG T . PASS VC=INDEL;AC=79;AF=0.25;AN=316;refseq.name=NM_199427;refseq.positionType=intron
20 50712019 . G GTC . PASS VC=INDEL;AC=79;AF=0.25;AN=314;refseq.name=NM_199427;refseq.positionType=intron;OLD_VARIANT=20:50712021:C/CTC
20 50897361 . G GGAATGTCAGCC . PASS VC=INDEL;AC=316;AF=1;AN=316
20 51027772 . CCT C . PASS VC=INDEL;AC=36;AF=0.11;AN=314
20 51055421 . AC A . PASS VC=INDEL;AC=0;AF=0;AN=296
20 51127873 . ATTCCAAATCC A . PASS VC=INDEL;AC=26;AF=0.08;AN=316
20 51235290 . C CTT . PASS VC=INDEL;AC=246;AF=0.78;AN=316
20 51512772 . GCT G . PASS VC=INDEL;AC=0;AF=0;AN=316;OLD_VARIANT=20:51512776:TCT/T
20 51630299 . AC A . PASS VC=INDEL;AC=27;AF=0.09;AN=316;refseq.name=NM_173485;refseq.positionType=intron
20 51731202 . T TC . PASS VC=INDEL;AC=53;AF=0.18;AN=290;refseq.name=NM_173485;refseq.positionType=intron;OLD_VARIANT=20:51731206:C/CC
20 52772452 . T TA . PASS VC=INDEL;AC=174;AF=0.58;AN=300;refseq.name=NM_000782;refseq.positionType=intron;OLD_VARIANT=20:52772453:A/AA
20 53713059 . AG A . PASS VC=INDEL;AC=118;AF=0.38;AN=312
20 53802839 . TATAG T . PASS VC=INDEL;AC=201;AF=0.64;AN=316
20 53804546 . AAC A . PASS VC=INDEL;AC=80;AF=0.25;AN=316
20 54125169 . T TAA . PASS VC=INDEL;AC=186;AF=0.59;AN=316
20 54158730 . G GTCTC . PASS VC=INDEL;AC=191;AF=0.65;AN=296;OLD_VARIANT=20:54158733:T/TCTCT
20 54375029 . A ACACT . PASS VC=INDEL;AC=36;AF=0.17;AN=214
20 54664037 . T TAA . PASS VC=INDEL;AC=147;AF=0.55;AN=266;OLD_VARIANT=20:54664038:A/AAA
20 54665425 . T TTATTTCCA . PASS VC=INDEL;AC=0;AF=0;AN=314
20 55292357 . GTT G . PASS VC=INDEL;AC=61;AF=0.22;AN=278
20 55292357 . GTT G . PASS VC=INDEL;AC=63;AF=0.23;AN=276;OLD_VARIANT=20:55292358:TTT/T
20 55444413 . AGAG A . PASS VC=INDEL;AC=64;AF=0.2;AN=316;OLD_VARIANT=20:55444416:GGAG/G
20 55557711 . AGAGCTCT A . PASS VC=INDEL;AC=38;AF=0.12;AN=312;OLD_VARIANT=20:55557713:AGCTCTGA/A
20 55622401 . CAG C . PASS VC=INDEL;AC=132;AF=0.55;AN=238
20 56311461 . A AT . PASS VC=INDEL;AC=7;AF=0.02;AN=286;OLD_VARIANT=20:56311463:T/TT
20 56383576 . TTTG T . PASS VC=INDEL;AC=2;AF=0.01;AN=224
20 56564760 . C CT . PASS VC=INDEL;AC=0;AF=0;AN=312
20 56788029 . T TTA . PASS VC=INDEL;AC=111;AF=0.38;AN=292
20 56788029 . T TTA . PASS VC=INDEL;AC=113;AF=0.38;AN=296;OLD_VARIANT=20:56788032:T/TAT
20 57863961 . G GAAACC . PASS VC=INDEL;AC=190;AF=0.61;AN=314;OLD_VARIANT=20:57863967:A/AAACCA
20 57882335 . T TCATGATGCCAAG . PASS VC=INDEL;AC=65;AF=0.21;AN=316;refseq.name=NM_000114;refseq.positionType=intron
20 57967772 . A AT . PASS VC=INDEL;AC=1;AF=0;AN=316;OLD_VARIANT=20:57967774:T/TT
20 58475138 . AC A . PASS VC=INDEL;AC=13;AF=0.04;AN=312;refseq.name=NM_014258;refseq.positionType=intron
20 58742717 . CTACTGA C . PASS VC=INDEL;AC=0;AF=0;AN=314;OLD_VARIANT=20:58742718:TACTGAT/T
20 59201326 . G GT . PASS VC=INDEL;AC=9;AF=0.03;AN=308
20 59641522 . C CAGGGAACCAAGCGAGGGAGATTCAGACCCTGCCT . PASS VC=INDEL;AC=105;AF=0.35;AN=302
20 59705552 . CTTTG C . PASS VC=INDEL;AC=246;AF=0.78;AN=316;OLD_VARIANT=20:59705557:TTTGT/T
20 59917971 . C CATT . PASS VC=INDEL;AC=46;AF=0.15;AN=316;refseq.name=NM_001794;refseq.positionType=intron;OLD_VARIANT=20:59917975:A/ATTA
20 59961559 . CTT C . PASS VC=INDEL;AC=35;AF=0.11;AN=316;refseq.name=NM_001794;refseq.positionType=intron;OLD_VARIANT=20:59961560:TTT/T
20 60159925 . TGTC T . PASS VC=INDEL;AC=310;AF=1;AN=310;refseq.name=NM_001794;refseq.positionType=intron
20 60274581 . TC T . PASS VC=INDEL;AC=7;AF=0.03;AN=262;refseq.name=NM_001794;refseq.positionType=intron
20 60378250 . C CCA . PASS VC=INDEL;AC=0;AF=0;AN=314;refseq.name=NM_001794;refseq.positionType=intron
20 60744897 . TGTCCACACC T . PASS VC=INDEL;AC=100;AF=0.5;AN=202;refseq.name=NM_198935;refseq.positionType=intron;OLD_VARIANT=20:60744904:ACCGTCCACA/A
20 62523744 . C CTT . PASS VC=INDEL;AC=186;AF=0.6;AN=310;refseq.name=NM_025219;refseq.positionType=promoter
20 62762721 . C CAT . PASS VC=INDEL;AC=26;AF=0.11;AN=240
20 62762759 . CAT C . PASS VC=INDEL;AC=46;AF=0.21;AN=218
20 62812114 . AGC A . PASS VC=INDEL;AC=0;AF=0;AN=316;refseq.name=NM_004535;refseq.positionType=intron
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