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test.vcf
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test.vcf
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#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT SM_FPD047_1_DHE08521-22_HJMN5ALXX_L5 SM_FPD_047_02_GATCAG_L001 SM_FPD_047_04_TAGCTT_L001 SM_FPD047_5_DHE08521-23_HJMN5ALXX_L5 SM_FPD_047_08_GGCTAC_L001 SM_FPD047_1_DHE08521-22_HJMNdfg_L5 SM_FPD047_1_DHEasd_HJMN5ALXX_L5
chrM 195 . C T 156.37 . AC=9;AF=1.000;AN=10;BaseQRankSum=1.550;ClippingRankSum=-0.000;DP=31;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.000;MQ=60.00;MQRankSum=-0.000;QD=29.76;ReadPosRankSum=-0.493;SF=0,1,2,3,4;SOR=1.179 GT:DP:AD:PL:GQ 1/1:3:0,3:117,9,0:9 1/1:10:0,10:375,30,0:30 1/1:2:0,2:79,6,0:6 1/1:3:0,3:99,9,0:9 0/1:12:4,8:251,0,88:88 1/1:3:0,3:117,9,0:9 0/1:12:4,8:251,0,88:88
chrM 2391 . C T 196.37 . AC=8;AF=1.000;AN=8;DP=28;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.000;MQ=50.99;QD=27.51;SF=1,2,3,4;SOR=1.609 GT:GQ:PL:AD:DP . 1/1:12:138,12,0:0,4:4 1/1:33:359,33,0:0,11:11 1/1:15:136,15,0:0,5:5 1/1:24:265,24,0:0,8:8 . 1/1:24:265,24,0:0,8:8
chr3 66040954 . C A 12.05 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=-0.967;ClippingRankSum=-0.000;DP=3;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQRankSum=-0.000;QD=4.02;ReadPosRankSum=-0.431;SF=4f;SOR=0.223 GT:GQ:PL:AD:DP . . . . 0/1:32:40,0,32:1,2:3 . 0/1:32:40,0,32:1,2:3
chr3 66044569 rs28478459 C A 48.74 . AC=2;AF=1.000;AN=2;DB;DP=2;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.000;MQ=60.00;QD=24.37;SF=1;SOR=2.303 GT:PL:GQ:DP:AD . 1/1:76,6,0:6:2:0,2 . . . . .
chr3 60945890 . G A 12.05 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=-0.967;ClippingRankSum=-0.000;DP=3;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQRankSum=-0.000;QD=4.02;ReadPosRankSum=-0.431;SF=1f;SOR=0.223 GT:AD:DP:GQ:PL . 0/1:1,2:3:32:40,0,32 . . . . .
chr3 66050000 . G T 21.77 LowQual AC=2;AF=1.000;AN=2;DP=2;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.000;MQ=60.00;QD=10.88;SF=2f;SOR=0.693 GT:AD:DP:GQ:PL . . 1/1:0,2:2:6:49,6,0 . . . .
chr3 66051579 rs75845192 C T 99.03 . AC=2;AF=1.000;AN=2;DB;DP=4;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.000;MQ=60.00;QD=24.76;SF=2;SOR=0.693 GT:AD:DP:GQ:PL . . 1/1:0,4:4:12:127,12,0 . . . .
chr10 101462198 rs10748790 C T 243.79 LowQual AC=8;AF=1.000;AN=10;BaseQRankSum=-0.253;ClippingRankSum=-0.000;DB;DP=49;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.000;MQ=60.00;MQRankSum=-0.000;QD=31.04;ReadPosRankSum=0.431;SF=0,1f,2,3,4;SOR=2.093 GT:AD:DP:GQ:PL 1/1:0,20:20:60:649,60,0 0/1:4,2:6:58:58,0,137 1/1:0,6:6:18:229,18,0 1/1:0,9:9:27:301,27,0 0/1:4,4:8:99:123,0,132 1/1:0,20:20:60:649,60,0 0/1:4,4:8:99:123,0,132
chr10 101466280 rs10883406 A T 13.71 LowQual AC=2;AF=1.000;AN=2;DB;DP=2;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.000;MQ=60.00;QD=6.85;SF=0f;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0 . . . . 1/1:0,2:2:6:49,6,0 .
chr15 54439902 rs150874303 G GGTGT,GGGGG 85.75 . AC=4;AF=1.000;AN=4;DB;DP=6;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.000;MQ=60.00;QD=24.42;SF=0,1;SOR=1.179 GT:GQ:PL:AD:DP 1/1:9:110,9,0:0,3:3 1/2:9:135,9,0:0,3:3 . . . 1/1:9:110,9,0:0,3:3 .
chr20 53522173 rs6014209 C T 21.77 LowQual AC=2;AF=1.000;AN=2;DB;DP=2;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.000;MQ=34.00;QD=10.88;SF=2f;SOR=0.693 GT:GQ:PL:AD:DP . . 1/1:6:49,6,0:0,2:2 . . . .
chr20 53542580 rs6091999 C T 40.74 . AC=2;AF=1.000;AN=2;DB;DP=2;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.000;MQ=60.00;QD=20.37;SF=1;SOR=2.303 GT:DP:AD:PL:GQ . 1/1:2:0,2:68,6,0:6 . . . . .
chr20 53543648 rs11422634 A AT,AAA,TTGGG 19.75 LowQual AC=2;AF=1.000;AN=2;DB;DP=2;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.000;MQ=60.00;QD=9.88;SF=4f;SOR=0.693 GT:GQ:PL:AD:DP . . . . 1/2:6:56,6,0:0,2:2 . 1/3:6:56,6,0:0,2:2
chr9_gl000198_random 1430 . C A 18.59 LowQual AC=2;AF=1.000;AN=2;DP=1;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.000;MQ=37.00;QD=18.59;SF=1f;SOR=1.609 GT:GQ:PL:AD:DP . 1/1:3:45,3,0:0,1:1 . . . . .
chr9_gl000198_random 55630 . G A 62.74 . AC=2;AF=1.000;AN=2;DP=4;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.000;MQ=43.79;QD=31.37;SF=1;SOR=2.303 GT:PL:GQ:DP:AD . 1/1:90,6,0:6:2:0,2 . . . . .