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gatk-3.8/public/testdata/liftover_test.vcf

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##fileformat=VCFv4.0
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NA12878
chr2 1000206 rs62104286 A G 83.59 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.10;MQ=32.66;MQ0=12;OQ=2095.67;QD=29.52;SB=-548.23 GT:AD:DP:GL:GQ 1/1:0,71:57:-213.17,-17.17,-0.01:99
chr2 1000670 rs13398764 G T 535.46 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=1520.60;QD=33.06;SB=-629.04 GT:AD:DP:GL:GQ 1/1:0,46:44:-155.66,-13.25,-0.02:99
chr2 1000713 rs6707252 G A 639.32 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.09;MQ0=0;OQ=1574.65;QD=34.23;SB=-636.66 GT:AD:DP:GL:GQ 1/1:0,45:41:-161.06,-12.35,-0.01:99
chr2 1002582 rs6705222 T C 130.28 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=60.00;MQ0=0;OQ=2610.50;QD=35.28;SB=-1288.82 GT:AD:DP:GL:GQ 1/1:0,74:74:-264.66,-22.29,-0.03:99
chr2 1005059 rs6548173 A G 655.97 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.74;MQ0=0;OQ=2206.32;QD=31.07;SB=-829.60 GT:AD:DP:GL:GQ 1/1:0,71:69:-224.27,-20.80,-0.05:99
chr2 1007333 rs6548175 G T 65.67 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=3.12;MQ=54.06;MQ0=0;OQ=2566.98;QD=36.15;SB=-479.00 GT:AD:DP:GL:GQ 1/1:1,70:70:-260.31,-21.09,-0.03:99
chr2 1007334 rs6548176 A T 33.34 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=3.12;MQ=54.06;MQ0=0;OQ=2578.41;QD=36.32;SB=-527.80 GT:AD:DP:GL:GQ 1/1:0,71:71:-261.45,-21.39,-0.03:99
chr2 1009512 rs7580579 A C 599.14 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1830.31;QD=34.53;SB=-865.10 GT:AD:DP:GL:GQ 1/1:0,53:53:-186.63,-15.96,-0.02:99
chr2 1009753 rs9309723 T C 207.72 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=59.71;MQ0=0;OQ=2179.73;QD=34.06;SB=-849.02 GT:AD:DP:GL:GQ 1/1:0,63:62:-221.58,-18.68,-0.02:99
chr2 1010293 rs12105192 T C 26.41 PASS AC=2;AF=1.00;AN=2;DB;DP=88;Dels=0.00;HRun=1;HaplotypeScore=1.92;MQ=59.53;MQ0=0;OQ=2984.55;QD=33.92;SB=-1511.10 GT:AD:DP:GL:GQ 1/1:0,88:86:-302.08,-25.91,-0.04:99
chr2 1010690 rs13415684 G A 216.21 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=2.89;MQ=59.15;MQ0=0;OQ=2805.35;QD=39.51;SB=-1242.04 GT:AD:DP:GL:GQ 1/1:0,71:70:-284.13,-21.08,-0.01:99
chr2 1010741 rs7603971 C T 712.96 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.12;MQ0=0;OQ=2935.85;QD=39.67;SB=-1365.04 GT:AD:DP:GL:GQ 1/1:0,74:74:-297.19,-22.29,-0.02:99
chr2 1010855 rs11127446 T G 626.85 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=2185.44;QD=35.25;SB=-1039.08 GT:AD:DP:GL:GQ 1/1:0,62:62:-222.15,-18.67,-0.02:99
chr2 1010862 rs7576891 G C 729.52 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.20;MQ0=0;OQ=2200.22;QD=37.93;SB=-1115.58 GT:AD:DP:GL:GQ 1/1:0,58:56:-223.65,-16.90,-0.04:99
chr2 1011973 rs34147887 G A 169.77 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.65;MQ0=0;OQ=2602.36;QD=40.04;SB=-1113.49 GT:AD:DP:GL:GQ 1/1:0,65:65:-263.84,-19.58,-0.02:99
chr2 1012693 rs7572025 A G 609.80 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.73;MQ0=0;OQ=2059.01;QD=34.90;SB=-579.53 GT:AD:DP:GL:GQ 1/1:0,59:58:-209.51,-17.47,-0.02:99
chr2 1013370 rs7578374 T C 34.77 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=42.64;MQ0=3;OQ=1652.83;QD=27.10;SB=-823.68 GT:AD:DP:GL:GQ 1/1:0,61:47:-168.88,-14.16,-0.01:99
chr2 1013424 rs7578462 T C 259.50 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=57.15;MQ0=0;OQ=1623.39;QD=33.13;SB=-720.23 GT:AD:DP:GL:GQ 1/1:0,49:47:-165.94,-14.16,-0.02:99
chr2 1014237 rs11127447 C A 401.96 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=2058.77;QD=35.50;SB=-1031.12 GT:AD:DP:GL:GQ 1/1:0,58:57:-209.48,-17.17,-0.02:99
chr2 1014515 rs6714761 C T 107.17 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=3.87;MQ=59.40;MQ0=0;OQ=3124.25;QD=39.55;SB=-1550.04 GT:AD:DP:GL:GQ 1/1:0,78:77:-316.03,-23.19,-0.02:99
chr2 1015239 rs10201045 A G 618.49 PASS AC=2;AF=1.00;AN=2;DB;DP=95;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.76;MQ0=0;OQ=3435.94;QD=36.17;SB=-1666.29 GT:AD:DP:GL:GQ 1/1:0,95:95:-342.59,-28.61,-0.03:99
chr2 1015268 rs10203650 T C 133.18 PASS AC=2;AF=1.00;AN=2;DB;DP=86;Dels=0.00;HRun=1;HaplotypeScore=1.94;MQ=60.00;MQ0=0;OQ=3116.81;QD=36.24;SB=-1377.57 GT:AD:DP:GL:GQ 1/1:0,86:86:-315.29,-25.90,-0.02:99
chr2 1015535 rs34808515 C A 210.35 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=60.00;MQ0=0;OQ=2163.32;QD=34.89;SB=-934.02 GT:AD:DP:GL:GQ 1/1:0,62:60:-219.93,-18.07,-0.02:99
chr2 1015583 rs4971328 T C 361.76 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.74;MQ0=0;OQ=2550.79;QD=35.43;SB=-1190.14 GT:AD:DP:GL:GQ 1/1:0,71:71:-258.69,-21.39,-0.02:99
chr2 1017001 rs12478900 T C 85.46 PASS AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=754.52;QD=29.02;SB=-45.69 GT:AD:DP:GL:GQ 1/1:0,26:26:-79.07,-7.85,-0.04:78.15
chr2 1017081 rs10207582 A C 233.17 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=740.00;QD=26.43;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,28:28:-77.62,-8.44,-0.03:84.07
chr2 1017196 . A T 2.62 PASS AC=2;AF=1.00;AN=2;DP=10;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=54.55;MQ0=0;OQ=323.43;QD=32.34;SB=-47.39 GT:AD:DP:GL:GQ 1/1:1,9:9:-35.93,-2.71,-0.00:27.09
chr2 1017521 rs4971334 C G 401.59 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.22;MQ0=0;OQ=2376.71;QD=41.70;SB=-760.39 GT:AD:DP:GL:GQ 1/1:0,57:54:-241.27,-16.27,-0.02:99
chr2 1017791 rs4971335 G T 101.87 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=3.17;MQ=60.00;MQ0=0;OQ=2007.79;QD=30.42;SB=-905.65 GT:AD:DP:GL:GQ 1/1:3,63:59:-204.40,-17.78,-0.03:99
chr2 1017830 rs4971336 C A 144.28 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=1.79;MQ=59.56;MQ0=0;OQ=1842.24;QD=35.43;SB=-913.67 GT:AD:DP:GL:GQ 1/1:0,52:51:-187.82,-15.36,-0.02:99
chr2 1018034 rs7593875 A G 694.04 PASS AC=2;AF=1.00;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=2997.59;QD=34.86;SB=-1385.22 GT:AD:DP:GL:GQ 1/1:0,86:84:-303.37,-25.30,-0.03:99
chr2 1018873 rs7606830 G A 156.61 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=59.52;MQ0=0;OQ=3054.94;QD=39.67;SB=-1057.41 GT:AD:DP:GL:GQ 1/1:0,77:76:-309.10,-22.89,-0.02:99
chr2 1018901 rs7581262 C T 157.62 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=59.69;MQ0=0;OQ=2233.96;QD=37.23;SB=-840.37 GT:AD:DP:GL:GQ 1/1:0,60:57:-227.00,-17.17,-0.02:99
chr2 1019164 rs55886346 G A 621.42 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3083.19;QD=38.06;SB=-1382.67 GT:AD:DP:GL:GQ 1/1:0,81:80:-311.94,-24.11,-0.03:99
chr2 1020033 rs4971338 A G 608.91 PASS AC=2;AF=1.00;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.51;MQ0=0;OQ=3003.49;QD=34.92;SB=-1318.65 GT:AD:DP:GL:GQ 1/1:0,86:85:-303.96,-25.60,-0.03:99
chr2 1020113 rs4971339 A G 116.74 PASS AC=2;AF=1.00;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=2684.54;QD=31.22;SB=-1178.11 GT:AD:DP:GL:GQ 1/1:0,85:84:-272.10,-25.33,-0.06:99
chr2 1020295 rs4971340 C A 529.31 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2491.79;QD=36.11;SB=-1257.50 GT:AD:DP:GL:GQ 1/1:0,69:69:-252.78,-20.78,-0.02:99
chr2 1021696 rs4072384 T A 296.93 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=1.66;MQ=59.12;MQ0=0;OQ=2939.71;QD=37.21;SB=-1270.24 GT:AD:DP:GL:GQ 1/1:0,79:77:-297.57,-23.19,-0.01:99
chr2 1022444 rs12714387 C T 616.70 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.76;MQ0=0;OQ=3013.98;QD=39.14;SB=-1373.04 GT:AD:DP:GL:GQ 1/1:0,77:76:-305.00,-22.89,-0.02:99
chr2 1023122 rs35653375 G A 144.93 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=60.00;MQ0=0;OQ=1464.08;QD=18.08;SB=-416.44 GT:AD:DP:GL:GQ 0/1:39,42:80:-173.79,-24.10,-142.11:99
chr2 1023486 rs10210283 A C 627.46 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.36;MQ0=0;OQ=2490.37;QD=34.59;SB=-1084.04 GT:AD:DP:GL:GQ 1/1:0,72:71:-252.64,-21.38,-0.02:99
chr2 1023495 rs10779976 T C 211.30 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.31;MQ0=0;OQ=2432.67;QD=36.31;SB=-991.08 GT:AD:DP:GL:GQ 1/1:0,67:67:-246.87,-20.18,-0.02:99
chr2 1023530 rs10779977 G T 308.80 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.12;MQ=59.61;MQ0=0;OQ=2015.87;QD=34.17;SB=-975.42 GT:AD:DP:GL:GQ 1/1:0,58:57:-205.19,-17.17,-0.02:99
chr2 1023547 rs10198369 C T 612.26 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.27;MQ0=0;OQ=2446.29;QD=38.83;SB=-1037.70 GT:AD:DP:GL:GQ 1/1:0,63:62:-248.23,-18.68,-0.02:99
chr2 1023756 rs7593584 A G 637.86 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.88;MQ0=0;OQ=2714.91;QD=36.20;SB=-1163.46 GT:AD:DP:GL:GQ 1/1:0,75:75:-275.10,-22.59,-0.02:99
chr2 1023890 rs11127448 T G 579.95 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=2950.64;QD=35.55;SB=-1474.16 GT:AD:DP:GL:GQ 1/1:0,83:83:-298.67,-25.00,-0.02:99
chr2 1026042 rs7603934 A G 56.21 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=1.28;MQ=59.54;MQ0=0;OQ=1655.09;QD=33.10;SB=-620.23 GT:AD:DP:GL:GQ 1/1:0,50:48:-169.12,-14.46,-0.02:99
chr2 1027581 rs4246557 T C 271.94 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=59.48;MQ0=0;OQ=2275.85;QD=31.61;SB=-1080.22 GT:AD:DP:GL:GQ 1/1:0,72:71:-231.23,-21.41,-0.06:99
chr2 1027783 rs4971329 C A 358.76 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=3095.98;QD=36.86;SB=-1530.84 GT:AD:DP:GL:GQ 1/1:0,84:84:-313.20,-25.30,-0.02:99
chr2 1029260 rs11127449 T C 69.60 PASS AC=2;AF=1.00;AN=2;DB;DP=99;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=59.62;MQ0=0;OQ=3625.07;QD=36.62;SB=-1803.04 GT:AD:DP:GL:GQ 1/1:0,99:99:-361.51,-29.82,-0.03:99
chr2 1029752 rs7575149 G T 636.78 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2463.76;QD=36.23;SB=-1188.33 GT:AD:DP:GL:GQ 1/1:0,68:68:-249.98,-20.48,-0.02:99
chr2 1029871 . T G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=1;HaplotypeScore=10.18;MQ=57.05;MQ0=0;OQ=64.82;QD=1.16;SB=68.23 GT:AD:DP:GL:GQ 0/1:33,23:40:-21.82,-12.05,-113.09:97.65
chr2 1030868 rs6548177 T A 625.47 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.37;MQ0=1;OQ=2835.53;QD=36.83;SB=-1341.01 GT:AD:DP:GL:GQ 1/1:0,77:75:-287.15,-22.59,-0.02:99
chr2 1032385 rs6548178 G C 458.05 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.78;MQ0=0;OQ=3709.06;QD=44.16;SB=-1755.15 GT:AD:DP:GL:GQ 1/1:0,84:83:-369.91,-25.00,-0.02:99
chr2 1032527 rs12479068 C T 177.59 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=58.76;MQ0=0;OQ=2656.82;QD=39.07;SB=-1137.04 GT:AD:DP:GL:GQ 1/1:0,68:68:-269.29,-20.49,-0.02:99
chr2 1033352 rs4246558 T C 616.89 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.76;MQ0=0;OQ=2726.38;QD=35.41;SB=-1276.60 GT:AD:DP:GL:GQ 1/1:0,77:76:-276.24,-22.89,-0.02:99
chr2 1035407 rs10221762 T C 115.42 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=1.95;MQ=60.00;MQ0=0;OQ=2345.86;QD=32.58;SB=-1107.17 GT:AD:DP:GL:GQ 1/1:0,72:72:-238.23,-21.71,-0.06:99
chr2 1035707 rs4971330 A G 144.49 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=2;HaplotypeScore=1.15;MQ=59.16;MQ0=0;OQ=2739.47;QD=35.58;SB=-1164.12 GT:AD:DP:GL:GQ 1/1:0,77:77:-277.56,-23.20,-0.03:99
chr2 1036980 rs7581753 G C 46.50 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=2.24;MQ=59.17;MQ0=0;OQ=3142.80;QD=43.05;SB=-1301.85 GT:AD:DP:GL:GQ 1/1:0,73:73:-317.89,-22.00,-0.03:99
chr2 1038141 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=62;Dels=0.00;HRun=2;HaplotypeScore=8.94;MQ=58.50;MQ0=0;OQ=59.63;QD=0.96;SB=62.22 GT:AD:DP:GL:GQ 0/1:46,16:43:-22.21,-12.96,-125.94:92.46
chr2 1038650 rs13007863 T C 502.84 PASS AC=2;AF=1.00;AN=2;DB;DP=101;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.77;MQ0=0;OQ=3162.13;QD=31.31;SB=-1329.86 GT:AD:DP:GL:GQ 1/1:0,101:96:-319.86,-28.94,-0.06:99
chr2 1038684 rs10183535 C A 19.69 PASS AC=2;AF=1.00;AN=2;DB;DP=97;Dels=0.00;HRun=0;HaplotypeScore=4.00;MQ=58.54;MQ0=0;OQ=3424.64;QD=35.31;SB=-1647.76 GT:AD:DP:GL:GQ 1/1:0,96:93:-341.46,-28.01,-0.03:99
chr2 1039867 rs4300865 G A 165.36 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=2.05;MQ=59.56;MQ0=0;OQ=2160.54;QD=38.58;SB=-1067.35 GT:AD:DP:GL:GQ 1/1:0,56:55:-219.65,-16.57,-0.02:99
chr2 1040007 rs4327261 C G 1.41 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=2;HaplotypeScore=1.97;MQ=59.75;MQ0=0;OQ=2016.48;QD=38.05;SB=-444.18 GT:AD:DP:GL:GQ 1/1:0,53:49:-205.25,-14.77,-0.02:99
chr2 1040109 rs4468849 G A 484.21 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.50;MQ0=0;OQ=3401.11;QD=40.98;SB=-864.18 GT:AD:DP:GL:GQ 1/1:0,83:83:-339.11,-25.00,-0.02:99
chr2 1040181 rs7425564 C T 106.74 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.93;MQ=59.41;MQ0=0;OQ=2889.15;QD=40.69;SB=-1349.39 GT:AD:DP:GL:GQ 1/1:0,71:71:-292.51,-21.38,-0.01:99
chr2 1040399 rs6712873 A G 260.61 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.74;MQ0=0;OQ=2488.78;QD=33.63;SB=-921.00 GT:AD:DP:GL:GQ 1/1:0,74:72:-252.49,-21.69,-0.03:99
chr2 1040654 rs6716393 T C 604.30 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=46.21;MQ0=0;OQ=1958.91;QD=33.20;SB=-934.04 GT:AD:DP:GL:GQ 1/1:0,59:56:-199.50,-16.87,-0.02:99
chr2 1040818 rs6716640 T A 501.88 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.58;MQ0=0;OQ=1586.94;QD=36.07;SB=-582.21 GT:AD:DP:GL:GQ 1/1:0,44:42:-162.29,-12.65,-0.01:99
chr2 1041416 rs6717150 A C 535.16 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=1694.00;QD=30.25;SB=-872.10 GT:AD:DP:GL:GQ 1/1:0,56:55:-173.04,-16.58,-0.05:99
chr2 1042625 rs7368613 C A 386.75 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=15;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=34.24;MQ0=0;QD=25.78;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,15:12:-42.27,-3.62,-0.01:36.09
chr2 1042630 rs62105931 C G 540.09 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=15;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=31.43;MQ0=0;QD=36.01;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,15:13:-57.60,-3.92,-0.01:39.13
chr2 1042634 rs62105932 C A 410.15 Indel;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=14;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=28.31;MQ0=0;QD=29.30;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,14:13:-44.60,-3.92,-0.01:39.10
chr2 1042637 rs6548179 C T 448.29 Indel;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=14;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=28.31;MQ0=0;QD=32.02;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,14:13:-48.42,-3.92,-0.01:39.11
chr2 1042764 rs7370243 G C 2.89 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=58.59;MQ0=0;OQ=1516.97;QD=37.92;SB=-187.48 GT:AD:DP:GL:GQ 1/1:0,40:38:-155.31,-11.47,-0.03:99
chr2 1042961 rs6734393 G A 656.40 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.74;MQ0=0;OQ=2155.69;QD=39.19;SB=-892.19 GT:AD:DP:GL:GQ 1/1:0,55:54:-219.17,-16.27,-0.01:99
chr2 1043645 rs6728222 T C 512.32 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=1546.59;QD=30.33;SB=-672.95 GT:AD:DP:GL:GQ 1/1:0,51:49:-158.29,-14.78,-0.04:99
chr2 1044027 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=6;HaplotypeScore=1.99;MQ=59.27;MQ0=0;OQ=759.50;QD=14.89;SB=-389.79 GT:AD:DP:GL:GQ 0/1:25,26:51:-94.60,-15.36,-95.98:99
chr2 1046077 rs6733686 A G 75.30 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=2.69;MQ=59.27;MQ0=0;OQ=1919.98;QD=33.68;SB=-647.27 GT:AD:DP:GL:GQ 1/1:0,57:53:-195.60,-15.96,-0.02:99
chr2 1048376 rs12611895 T C 668.97 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=2102.92;QD=31.39;SB=-1014.34 GT:AD:DP:GL:GQ 1/1:0,67:66:-213.93,-19.90,-0.06:99
chr2 1048688 rs4640416 T C 153.19 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=58.96;MQ0=0;OQ=2285.96;QD=34.12;SB=-1149.68 GT:AD:DP:GL:GQ 1/1:0,67:65:-232.21,-19.58,-0.03:99
chr2 1049025 rs4458241 C A 132.14 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=2.02;MQ=59.18;MQ0=0;OQ=2847.62;QD=36.05;SB=-1355.63 GT:AD:DP:GL:GQ 1/1:0,79:78:-288.37,-23.49,-0.02:99
chr2 1049574 rs4375893 C T 541.02 PASS AC=2;AF=1.00;AN=2;DB;DP=95;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.76;MQ0=0;OQ=3890.07;QD=40.95;SB=-1921.74 GT:AD:DP:GL:GQ 1/1:0,95:95:-388.01,-28.61,-0.02:99
chr2 1054572 rs12467674 G A 687.09 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3056.62;QD=38.69;SB=-1554.36 GT:AD:DP:GL:GQ 1/1:0,78:78:-309.27,-23.50,-0.02:99
chr2 1058012 . C T 174.91 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=5;HaplotypeScore=30.32;MQ=44.94;MQ0=1;QD=2.50;SB=89.25 GT:AD:DP:GL:GQ 0/1:58,11:63:-39.76,-18.98,-182.69:99
chr2 1058017 rs12328465 T C 1219.09 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=39.81;MQ=43.10;MQ0=1;QD=16.70;SB=-523.24 GT:AD:DP:GL:GQ 0/1:32,41:54:-141.46,-16.27,-53.40:99
chr2 1058018 rs12327988 C T 1503.71 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.01;HRun=5;HaplotypeScore=42.60;MQ=42.82;MQ0=1;QD=20.88;SB=-594.50 GT:AD:DP:GL:GQ 0/1:18,53:56:-170.22,-16.57,-44.00:99
chr2 1058029 rs12327989 C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.01;HRun=5;HaplotypeScore=23.85;MQ=42.94;MQ0=1;OQ=1327.54;QD=16.80;SB=-587.50 GT:AD:DP:GL:GQ 0/1:25,53:60:-153.82,-17.78,-63.22:99
chr2 1058035 rs12327990 C T 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.04;HRun=16;HaplotypeScore=12.75;MQ=43.22;MQ0=1;OQ=2463.91;QD=33.30;SB=-995.67 GT:AD:DP:GL:GQ 1/1:1,70:68:-250.00,-19.59,-0.02:99
chr2 1058649 rs7598015 C T 612.35 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=2805.47;QD=39.51;SB=-1193.60 GT:AD:DP:GL:GQ 1/1:0,71:70:-284.15,-21.09,-0.02:99
chr2 1058686 rs7561563 T C 2.50 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=6.00;MQ=59.70;MQ0=0;OQ=2722.05;QD=35.82;SB=-1252.50 GT:AD:DP:GL:GQ 1/1:0,76:76:-275.81,-22.89,-0.02:99
chr2 1059334 rs11127451 C T 584.87 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.74;MQ0=0;OQ=2954.73;QD=40.48;SB=-1145.52 GT:AD:DP:GL:GQ 1/1:0,73:73:-299.07,-21.99,-0.01:99
chr2 1059572 rs34061807 C G 613.65 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.45;MQ0=0;OQ=3320.87;QD=39.53;SB=-1358.92 GT:AD:DP:GL:GQ 1/1:0,84:83:-331.09,-25.04,-0.06:99
chr2 1059606 rs11893144 T C 1.37 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.01;HRun=0;HaplotypeScore=7.89;MQ=60.00;MQ0=0;OQ=2715.49;QD=35.27;SB=-1316.89 GT:AD:DP:GL:GQ 1/1:0,76:77:-275.16,-22.89,-0.02:99
chr2 1059867 rs10469999 G A 484.30 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=2248.09;QD=38.10;SB=-876.01 GT:AD:DP:GL:GQ 1/1:0,59:57:-228.41,-17.17,-0.02:99
chr2 1059949 rs4586665 C T 714.74 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2776.29;QD=39.66;SB=-1253.15 GT:AD:DP:GL:GQ 1/1:0,70:70:-281.24,-21.09,-0.02:99
chr2 1060270 rs4246568 T A 628.45 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.76;MQ0=0;OQ=2989.70;QD=38.33;SB=-1299.26 GT:AD:DP:GL:GQ 1/1:0,78:78:-302.57,-23.49,-0.01:99
chr2 1060384 rs4246569 T C 637.28 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.49;MQ0=0;OQ=2701.07;QD=37.00;SB=-1186.51 GT:AD:DP:GL:GQ 1/1:0,73:73:-273.71,-21.98,-0.01:99
chr2 1060552 rs4493300 A G 590.69 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3023.07;QD=35.99;SB=-1462.62 GT:AD:DP:GL:GQ 1/1:0,84:84:-305.91,-25.30,-0.02:99
chr2 1060718 rs4246570 C A 591.16 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2872.92;QD=35.91;SB=-1456.80 GT:AD:DP:GL:GQ 1/1:0,80:79:-290.90,-23.79,-0.02:99
chr2 1060782 rs13020106 C T 226.50 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=2.01;MQ=60.00;MQ0=0;OQ=1300.51;QD=14.61;SB=-599.53 GT:AD:DP:GL:GQ 0/1:49,40:88:-159.84,-26.51,-177.74:99
chr2 1061191 rs4614964 A G 605.64 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.75;MQ0=0;OQ=2587.15;QD=34.04;SB=-988.74 GT:AD:DP:GL:GQ 1/1:0,76:72:-262.32,-21.69,-0.02:99
chr2 1061585 rs4258828 G A 608.99 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.72;MQ0=0;OQ=2674.69;QD=39.92;SB=-1261.05 GT:AD:DP:GL:GQ 1/1:0,67:67:-271.07,-20.18,-0.01:99
chr2 1061607 rs4443028 T C 510.63 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.72;MQ0=0;OQ=2143.14;QD=34.57;SB=-954.37 GT:AD:DP:GL:GQ 1/1:0,62:60:-217.92,-18.08,-0.02:99
chr2 1062174 rs7562749 G A 0.41 PASS AC=2;AF=1.00;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=10.20;MQ=59.53;MQ0=0;OQ=3555.49;QD=40.40;SB=-1655.71 GT:AD:DP:GL:GQ 1/1:0,88:88:-354.55,-26.51,-0.02:99
chr2 1063052 rs4971426 C A 635.08 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.78;MQ0=0;OQ=3150.99;QD=37.07;SB=-1254.51 GT:AD:DP:GL:GQ 1/1:0,85:85:-318.70,-25.60,-0.02:99
chr2 1063089 rs4971427 G T 0.01 FDRtranche2.00to10.00 AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=6;HaplotypeScore=0.16;MQ=59.16;MQ0=0;OQ=2696.28;QD=34.57;SB=-1245.21 GT:AD:DP:GL:GQ 1/1:0,78:77:-273.24,-23.19,-0.03:99
chr2 1063482 rs4383364 C G 92.76 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=3.50;MQ=59.19;MQ0=0;OQ=3500.19;QD=43.21;SB=-1409.68 GT:AD:DP:GL:GQ 1/1:0,80:80:-349.02,-24.10,-0.02:99
chr2 1063543 rs4390800 C T 606.36 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2839.47;QD=39.99;SB=-1235.61 GT:AD:DP:GL:GQ 1/1:0,71:70:-287.55,-21.09,-0.02:99
chr2 1063589 rs4078138 C T 123.66 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=0.92;MQ=59.68;MQ0=0;OQ=2790.94;QD=38.76;SB=-1083.96 GT:AD:DP:GL:GQ 1/1:0,72:70:-282.70,-21.09,-0.02:99
chr2 1063704 rs11127453 T C 599.05 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2089.11;QD=35.41;SB=-841.33 GT:AD:DP:GL:GQ 1/1:0,59:58:-212.51,-17.47,-0.02:99
chr2 1064217 rs11885848 C T 23.16 PASS AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=2.23;MQ=57.94;MQ0=0;OQ=1209.91;QD=34.57;SB=-302.39 GT:AD:DP:GL:GQ 1/1:0,34:31:-124.59,-9.34,-0.01:93.30
chr2 1064240 rs11896376 G A 428.02 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=1611.89;QD=38.38;SB=-743.01 GT:AD:DP:GL:GQ 1/1:0,42:41:-164.79,-12.35,-0.01:99
chr2 1064530 rs6712735 T C 21.17 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=2.38;MQ=59.56;MQ0=0;OQ=1604.36;QD=30.27;SB=-559.10 GT:AD:DP:GL:GQ 1/1:0,53:49:-164.05,-14.77,-0.03:99
chr2 1064903 rs6548180 T C 401.45 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1919.74;QD=32.54;SB=-595.04 GT:AD:DP:GL:GQ 1/1:0,59:58:-195.60,-17.48,-0.04:99
chr2 1064941 rs6548181 A G 217.44 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=60.00;MQ0=0;OQ=2320.34;QD=34.63;SB=-1007.72 GT:AD:DP:GL:GQ 1/1:0,67:66:-235.64,-19.88,-0.03:99
chr2 1065540 rs4971428 A G 153.13 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.62;MQ0=0;OQ=1823.26;QD=29.89;SB=-935.73 GT:AD:DP:GL:GQ 1/1:0,61:57:-185.96,-17.19,-0.05:99
chr2 1065711 rs11127454 G A 524.69 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=1668.80;QD=39.73;SB=-853.63 GT:AD:DP:GL:GQ 1/1:0,42:42:-170.47,-12.65,-0.01:99
chr2 1065751 rs10188332 T C 99.95 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.16;MQ0=0;OQ=1470.70;QD=29.41;SB=-641.88 GT:AD:DP:GL:GQ 1/1:0,50:47:-150.70,-14.18,-0.04:99
chr2 1066113 rs11127455 A C 52.68 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=2.96;MQ=59.36;MQ0=0;OQ=2533.45;QD=35.19;SB=-1132.13 GT:AD:DP:GL:GQ 1/1:0,72:71:-256.95,-21.38,-0.02:99
chr2 1066684 rs4971371 C T 301.18 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=58.46;MQ0=0;OQ=2285.89;QD=34.12;SB=-1126.64 GT:AD:DP:GL:GQ 1/1:0,65:61:-232.21,-18.39,-0.04:99
chr2 1066796 rs6760642 C T 513.49 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.46;MQ0=0;OQ=1611.29;QD=37.47;SB=-683.31 GT:AD:DP:GL:GQ 1/1:0,43:42:-164.73,-12.66,-0.02:99
chr2 1066935 rs6548182 T C 18.57 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=0.33;MQ=58.87;MQ0=0;OQ=1475.70;QD=35.99;SB=-361.82 GT:AD:DP:GL:GQ 1/1:0,41:41:-151.17,-12.35,-0.01:99
chr2 1066968 rs6548183 C T 81.19 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=3.34;MQ=58.27;MQ0=0;OQ=2034.48;QD=37.68;SB=-649.35 GT:AD:DP:GL:GQ 1/1:0,53:53:-207.06,-15.97,-0.02:99
chr2 1067047 rs6548184 G A 209.84 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.59;MQ0=0;OQ=2170.88;QD=38.77;SB=-808.34 GT:AD:DP:GL:GQ 1/1:0,56:55:-220.69,-16.57,-0.01:99
chr2 1067222 rs7581520 G A 308.35 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.98;MQ0=0;OQ=1539.79;QD=37.56;SB=-475.63 GT:AD:DP:GL:GQ 1/1:0,41:39:-157.58,-11.75,-0.01:99
chr2 1067718 rs10470000 T C 236.09 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.82;MQ=59.60;MQ0=0;OQ=1879.33;QD=32.97;SB=-615.97 GT:AD:DP:GL:GQ 1/1:0,57:57:-191.56,-17.18,-0.04:99
chr2 1068046 rs58212925 G A 164.64 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.62;MQ0=0;OQ=2305.26;QD=38.42;SB=-913.73 GT:AD:DP:GL:GQ 1/1:0,59:58:-234.12,-17.47,-0.01:99
chr2 1068109 rs60226002 A G 3.36 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=3;HaplotypeScore=0.27;MQ=59.25;MQ0=0;OQ=917.77;QD=29.61;SB=-476.09 GT:AD:DP:GL:GQ 1/1:0,31:30:-95.40,-9.05,-0.04:90.18
chr2 1068463 rs55901309 T C 147.36 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=60.00;MQ0=0;OQ=1383.79;QD=32.95;SB=-684.57 GT:AD:DP:GL:GQ 1/1:0,42:41:-141.99,-12.36,-0.03:99
chr2 1068464 rs11127457 G A 142.08 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=60.00;MQ0=0;OQ=1582.98;QD=36.81;SB=-768.67 GT:AD:DP:GL:GQ 1/1:1,42:41:-161.90,-12.35,-0.01:99
chr2 1068651 rs11127458 G A 252.76 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.81;MQ0=0;OQ=1545.68;QD=39.63;SB=-510.17 GT:AD:DP:GL:GQ 1/1:0,39:39:-158.17,-11.75,-0.01:99
chr2 1069130 rs4971429 G A 424.14 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.28;MQ0=0;OQ=1877.45;QD=38.32;SB=-562.26 GT:AD:DP:GL:GQ 1/1:0,49:48:-191.35,-14.46,-0.02:99
chr2 1069132 rs4971430 G A 398.31 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.15;MQ0=0;OQ=1893.45;QD=39.45;SB=-587.30 GT:AD:DP:GL:GQ 1/1:0,48:48:-192.95,-14.46,-0.02:99
chr2 1069143 rs4971431 A G 129.37 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=53.33;MQ0=0;OQ=1693.09;QD=34.55;SB=-599.23 GT:AD:DP:GL:GQ 1/1:0,49:49:-172.91,-14.76,-0.02:99
chr2 1069320 rs4971432 C T 678.34 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=1681.18;QD=35.77;SB=-773.04 GT:AD:DP:GL:GQ 1/1:0,47:44:-171.72,-13.26,-0.02:99
chr2 1069442 rs35463228 G A 611.28 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.47;MQ0=0;OQ=2557.31;QD=39.34;SB=-1151.68 GT:AD:DP:GL:GQ 1/1:0,65:65:-259.33,-19.58,-0.02:99
chr2 1069651 rs7566450 C T 490.08 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2425.87;QD=38.51;SB=-692.33 GT:AD:DP:GL:GQ 1/1:0,63:61:-246.19,-18.37,-0.01:99
chr2 1070167 rs4971372 A G 72.75 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=59.49;MQ0=0;OQ=1280.95;QD=28.47;SB=-380.41 GT:AD:DP:GL:GQ 1/1:0,45:39:-131.70,-11.75,-0.02:99
chr2 1070238 rs4971373 C T 347.67 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=1930.54;QD=37.85;SB=-809.08 GT:AD:DP:GL:GQ 1/1:0,51:49:-196.66,-14.76,-0.02:99
chr2 1070428 rs4971374 G A 168.97 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=2.36;MQ=58.99;MQ0=0;OQ=2624.97;QD=38.04;SB=-1102.46 GT:AD:DP:GL:GQ 1/1:0,68:66:-266.10,-19.88,-0.02:99
chr2 1070670 rs4971375 G A 108.38 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.68;MQ0=0;OQ=2288.94;QD=39.46;SB=-951.74 GT:AD:DP:GL:GQ 1/1:0,58:58:-232.50,-17.48,-0.02:99
chr2 1070896 rs4971433 C G 87.48 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=2.01;MQ=59.44;MQ0=0;OQ=3072.60;QD=41.52;SB=-1517.23 GT:AD:DP:GL:GQ 1/1:0,74:72:-310.87,-21.70,-0.03:99
chr2 1071034 rs4246571 G A 270.96 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.32;MQ=60.00;MQ0=0;OQ=2801.14;QD=40.02;SB=-1341.29 GT:AD:DP:GL:GQ 1/1:0,70:70:-283.71,-21.08,-0.02:99
chr2 1071204 rs4290688 A G 394.26 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.67;MQ0=0;OQ=2472.80;QD=35.33;SB=-1207.77 GT:AD:DP:GL:GQ 1/1:0,70:69:-250.88,-20.78,-0.02:99
chr2 1071348 rs4290689 A G 93 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.68;MQ0=0;OQ=2162.48;QD=29.62;SB=-1043.27 GT:AD:DP:GL:GQ 1/1:0,72:68:-223.53,-23.99,-3.69:99
chr2 1071594 rs10865542 G T 317.24 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.73;MQ0=0;OQ=2456.19;QD=35.60;SB=-1133.98 GT:AD:DP:GL:GQ 1/1:0,69:67:-249.22,-20.18,-0.01:99
chr2 1073364 rs11891572 C T 566.56 PASS AC=2;AF=1.00;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3639.49;QD=40.44;SB=-1598.02 GT:AD:DP:GL:GQ 1/1:0,90:90:-362.95,-27.11,-0.02:99
chr2 1074661 rs6548185 T C 101.85 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=59.70;MQ0=0;OQ=2509.27;QD=32.59;SB=-962.47 GT:AD:DP:GL:GQ 1/1:0,77:76:-254.56,-22.91,-0.05:99
chr2 1074780 rs6548186 A G 271.50 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=59.72;MQ0=0;OQ=2020.44;QD=30.16;SB=-1004.09 GT:AD:DP:GL:GQ 1/1:0,67:63:-205.68,-19.00,-0.05:99
chr2 1075110 rs7582327 T C 212.19 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=1.38;MQ=59.69;MQ0=0;OQ=2593.50;QD=35.05;SB=-1174.75 GT:AD:DP:GL:GQ 1/1:0,74:73:-262.96,-21.99,-0.02:99
chr2 1075649 rs4971434 T C 509.88 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.48;MQ0=0;OQ=2013.72;QD=35.96;SB=-891.08 GT:AD:DP:GL:GQ 1/1:0,56:56:-204.97,-16.87,-0.01:99
chr2 1075854 rs4971435 A T 610.13 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2938.77;QD=38.17;SB=-1481.19 GT:AD:DP:GL:GQ 1/1:0,77:76:-297.47,-22.89,-0.01:99
chr2 1076510 rs6736795 A G 67.19 PASS AC=2;AF=1.00;AN=2;DB;DP=88;Dels=0.00;HRun=1;HaplotypeScore=2.67;MQ=59.00;MQ0=0;OQ=3091.69;QD=35.13;SB=-1520.30 GT:AD:DP:GL:GQ 1/1:0,88:86:-312.78,-25.90,-0.03:99
chr2 1076928 rs7586779 A G 52.24 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=2.12;MQ=58.92;MQ0=0;OQ=1124.98;QD=26.16;SB=-427.26 GT:AD:DP:GL:GQ 1/1:0,43:37:-116.12,-11.16,-0.04:99
chr2 1077298 rs10865543 G A 182.79 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.69;MQ0=0;OQ=2348.97;QD=39.15;SB=-1081.45 GT:AD:DP:GL:GQ 1/1:0,60:60:-238.50,-18.08,-0.02:99
chr2 1077941 . G A 2876.57 Indel AC=2;AF=1.00;AN=2;DP=75;Dels=0.01;HRun=9;HaplotypeScore=23.12;MQ=54.51;MQ0=0;QD=38.35;SB=-869.70 GT:AD:DP:GL:GQ 1/1:1,73:73:-291.26,-21.69,-0.02:99
chr2 1077950 . A G 1.66 PASS AC=2;AF=1.00;AN=2;DP=72;Dels=0.00;HRun=0;HaplotypeScore=4.69;MQ=53.19;MQ0=0;OQ=2081.23;QD=28.91;SB=-747.58 GT:AD:DP:GL:GQ 1/1:4,68:67:-223.72,-20.19,-12.01:81.80
chr2 1078385 rs6548187 A C 615.84 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.69;MQ0=0;OQ=2204.21;QD=36.13;SB=-932.12 GT:AD:DP:GL:GQ 1/1:0,61:61:-224.02,-18.37,-0.01:99
chr2 1078926 rs4971436 C G 574.12 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.40;MQ0=0;OQ=3200.83;QD=41.57;SB=-1273.76 GT:AD:DP:GL:GQ 1/1:0,77:75:-323.69,-22.60,-0.03:99
chr2 1079055 rs4971437 G A 708.67 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.17;MQ0=0;OQ=2494.26;QD=39.59;SB=-1158.06 GT:AD:DP:GL:GQ 1/1:0,63:62:-253.02,-18.67,-0.01:99
chr2 1079589 . C G 34.32 DPFilter;HARD_TO_VALIDATE;Indel;LowQual AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=1;HaplotypeScore=3.70;MQ=46.16;MQ0=14;QD=0.53;SB=5.05 GT:AD:DP:GL:GQ 0/1:59,5:43:-22.44,-15.72,-170.45:67.16
chr2 1079599 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=1;HaplotypeScore=7.52;MQ=43.06;MQ0=14;OQ=150.37;QD=2.21;SB=2.04 GT:AD:DP:GL:GQ 0/1:54,14:43:-31.28,-12.96,-138.54:99
chr2 1079666 rs28519440 A C 0.11 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=9.47;MQ=25.30;MQ0=0;OQ=76.02;QD=1.95;SB=-10.00 GT:AD:DP:GL:GQ 0/1:19,20:23:-17.82,-6.94,-61.51:99
chr2 1079735 rs6548188 T C 241.75 PASS AC=2;AF=1.00;AN=2;DB;DP=7;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=23.36;MQ0=0;OQ=71.99;QD=10.28;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,7:3:-10.69,-0.90,-0.00:9.03
chr2 1079769 . T G 37.28 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=9;Dels=0.00;HRun=2;HaplotypeScore=8.00;MQ=32.21;MQ0=2;QD=4.14;SB=-10.00 GT:AD:DP:GL:GQ 0/1:7,2:3:-7.91,-0.90,-3.64:27.36
chr2 1079773 . A T 80.11 SnpCluster AC=1;AF=0.50;AN=2;DP=11;Dels=0.00;HRun=1;HaplotypeScore=11.98;MQ=34.29;MQ0=3;QD=7.28;SB=-10.00 GT:AD:DP:GL:GQ 0/1:7,4:4:-12.50,-1.20,-3.14:19.35
chr2 1079774 . G T 64.29 Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=11;Dels=0.00;HRun=0;HaplotypeScore=13.97;MQ=34.29;MQ0=3;QD=5.84;SB=-10.00 GT:AD:DP:GL:GQ 0/1:7,4:4:-10.92,-1.20,-3.66:24.53
chr2 1079775 . A G 60.17 Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=11;Dels=0.00;HRun=1;HaplotypeScore=15.97;MQ=34.29;MQ0=3;QD=5.47;SB=-10.00 GT:AD:DP:GL:GQ 0/1:7,4:4:-10.51,-1.20,-4.06:28.52
chr2 1079928 . C T 0.64 PASS AC=1;AF=0.50;AN=2;DP=6;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=115.78;QD=19.30;SB=-10.00 GT:AD:DP:GL:GQ 0/1:2,4:6:-16.67,-1.81,-7.09:52.86
chr2 1079929 rs13385687 A G 55.56 PASS AC=1;AF=0.50;AN=2;DB;DP=6;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=91.84;QD=15.31;SB=-10.00 GT:AD:DP:GL:GQ 0/1:2,4:6:-14.28,-1.81,-7.11:53.04
chr2 1079996 rs13423472 C T 49.25 LowQual AC=2;AF=1.00;AN=2;DB;DP=4;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=20.51;MQ0=2;QD=12.31;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,4:2:-8.33,-0.60,-0.00:6.02
chr2 1080478 rs9679096 A C 38.86 PASS AC=2;AF=1.00;AN=2;DB;DP=20;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=21.01;MQ0=3;OQ=332.85;QD=16.64;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,20:10:-36.87,-3.01,-0.00:30.09
chr2 1080517 rs6744491 G A 4.15 PASS AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=0;HaplotypeScore=0.10;MQ=24.99;MQ0=0;OQ=395.48;QD=24.72;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,16:11:-43.14,-3.32,-0.00:33.11
chr2 1080551 rs6744601 G C 0.95 PASS AC=2;AF=1.00;AN=2;DB;DP=16;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=23.27;MQ0=0;OQ=337.36;QD=21.09;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,16:9:-37.32,-2.71,-0.00:27.09
chr2 1080919 rs6744980 G C 738.61 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=52.53;MQ0=0;OQ=2376.37;QD=36.56;SB=-1201.26 GT:AD:DP:GL:GQ 1/1:0,65:61:-241.27,-18.41,-0.05:99
chr2 1081101 rs6717701 C T 730.02 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.69;MQ0=0;OQ=2845.67;QD=38.46;SB=-1215.15 GT:AD:DP:GL:GQ 1/1:0,74:72:-288.17,-21.69,-0.02:99
chr2 1081421 rs11674922 G A 702.31 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2690.59;QD=40.16;SB=-1210.38 GT:AD:DP:GL:GQ 1/1:0,67:67:-272.66,-20.18,-0.01:99
chr2 1081787 rs11686452 C T 738.77 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=2559.77;QD=36.57;SB=-1138.00 GT:AD:DP:GL:GQ 1/1:0,69:66:-259.59,-19.89,-0.03:99
chr2 1081831 rs11127459 A G 626.12 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.46;MQ0=0;OQ=2680.09;QD=34.81;SB=-1007.89 GT:AD:DP:GL:GQ 1/1:0,77:77:-271.62,-23.19,-0.02:99
chr2 1082195 rs4971439 A C 199.13 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=59.69;MQ0=0;OQ=2018.44;QD=33.09;SB=-916.10 GT:AD:DP:GL:GQ 1/1:0,61:58:-205.45,-17.47,-0.02:99
chr2 1082884 rs9973395 G T 177.74 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=59.27;MQ0=0;OQ=1853.05;QD=32.51;SB=-847.71 GT:AD:DP:GL:GQ 1/1:1,56:52:-188.91,-15.66,-0.02:99
chr2 1084806 rs3935927 A G 121 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.19;MQ0=0;OQ=1621.58;QD=28.45;SB=-831.43 GT:AD:DP:GL:GQ 1/1:0,57:53:-165.80,-15.99,-0.06:99
chr2 1085275 rs4991942 C T 1.77 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=2.69;MQ=49.96;MQ0=0;OQ=240.00;QD=3.16;SB=-115.55 GT:AD:DP:GL:GQ 0/1:59,17:67:-47.47,-20.18,-197.88:99
chr2 1085300 rs13021108 C A 231.80 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=49.54;MQ0=0;OQ=1373.70;QD=17.61;SB=-435.52 GT:AD:DP:GL:GQ 0/1:32,46:74:-162.94,-22.29,-107.32:99
chr2 1085315 . C T 52.79 PASS AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=0;HaplotypeScore=1.36;MQ=48.98;MQ0=0;OQ=1203.08;QD=15.62;SB=-242.68 GT:AD:DP:GL:GQ 0/1:37,40:73:-145.59,-22.00,-128.64:99
chr2 1085327 rs4414714 C T 432.96 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=47.89;MQ0=0;OQ=1034.90;QD=13.80;SB=-264.73 GT:AD:DP:GL:GQ 0/1:42,33:70:-127.88,-21.10,-121.52:99
chr2 1085340 rs4502454 A C 66.60 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=49.30;MQ0=0;OQ=567.53;QD=8.47;SB=-122.65 GT:AD:DP:GL:GQ 0/1:40,27:59:-77.81,-17.77,-136.18:99
chr2 1085355 rs13002204 T C 0.24 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.01;HRun=0;HaplotypeScore=7.46;MQ=53.47;MQ0=0;OQ=309.09;QD=4.48;SB=-23.80 GT:AD:DP:GL:GQ 0/1:53,15:67:-54.09,-19.89,-196.75:99
chr2 1085356 rs4627607 G A 19.03 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=2.30;MQ=53.47;MQ0=0;OQ=386.73;QD=5.60;SB=-39.74 GT:AD:DP:GL:GQ 0/1:53,16:68:-62.44,-20.49,-185.53:99
chr2 1085502 rs12477098 C T 258.37 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=1.67;MQ=59.17;MQ0=0;OQ=3299.28;QD=39.28;SB=-1483.96 GT:AD:DP:GL:GQ 1/1:0,84:83:-328.93,-25.01,-0.03:99
chr2 1087651 rs10176540 A G 314.32 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.34;MQ0=0;OQ=2484.29;QD=35.49;SB=-1024.75 GT:AD:DP:GL:GQ 1/1:0,70:69:-252.03,-20.78,-0.02:99
chr2 1088378 rs6709553 T C 233.06 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=59.22;MQ0=0;OQ=1904.34;QD=32.28;SB=-604.59 GT:AD:DP:GL:GQ 1/1:0,59:52:-194.03,-15.66,-0.01:99
chr2 1088891 rs10180028 A G 604.45 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.98;MQ0=0;OQ=1944.00;QD=35.35;SB=-863.05 GT:AD:DP:GL:GQ 1/1:0,55:55:-198.00,-16.57,-0.02:99
chr2 1089077 rs4971440 A C 108.17 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=58.45;MQ0=0;OQ=1673.06;QD=27.88;SB=-860.27 GT:AD:DP:GL:GQ 1/1:0,56:54:-175.00,-19.95,-4.11:99
chr2 1089597 rs4971441 C T 610.15 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.72;MQ0=0;OQ=2652.68;QD=40.19;SB=-1239.14 GT:AD:DP:GL:GQ 1/1:0,66:66:-268.87,-19.88,-0.02:99
chr2 1090287 rs55695057 A G 364.73 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.94;MQ=60.00;MQ0=0;OQ=1140.82;QD=14.26;SB=-516.93 GT:AD:DP:GL:GQ 0/1:40,39:79:-141.17,-23.80,-157.60:99
chr2 1090510 . C G 25.65 PASS AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=0;HaplotypeScore=4.37;MQ=59.06;MQ0=0;OQ=1045.24;QD=11.74;SB=-255.08 GT:AD:DP:GL:GQ 0/1:53,36:85:-133.42,-25.62,-234.20:99
chr2 1091080 rs4482521 A C 645.51 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.86;MQ0=0;OQ=1788.05;QD=31.37;SB=-722.83 GT:AD:DP:GL:GQ 1/1:0,57:56:-182.43,-16.88,-0.04:99
chr2 1091127 rs12469446 G A 128.62 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.03;MQ0=0;OQ=1653.95;QD=38.46;SB=-593.77 GT:AD:DP:GL:GQ 1/1:0,43:43:-169.00,-12.96,-0.02:99
chr2 1091472 rs4479454 A G 131.25 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.36;MQ=55.36;MQ0=0;OQ=1136.52;QD=24.18;SB=-552.48 GT:AD:DP:GL:GQ 1/1:0,47:38:-117.28,-11.47,-0.05:99
chr2 1091703 rs12465969 A G 1331.86 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.21;MQ=43.10;MQ0=1;QD=28.95;SB=-579.55 GT:AD:DP:GL:GQ 1/1:0,46:38:-136.78,-11.45,-0.01:99
chr2 1091708 . C T 1233.22 SnpCluster AC=2;AF=1.00;AN=2;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=41.33;MQ0=1;QD=32.45;SB=-509.02 GT:AD:DP:GL:GQ 1/1:0,38:32:-126.92,-9.64,-0.01:96.31
chr2 1091709 rs12465970 A G 1138.52 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=41.06;MQ0=1;QD=29.19;SB=-432.18 GT:AD:DP:GL:GQ 1/1:0,39:32:-117.45,-9.64,-0.01:96.30
chr2 1091734 rs13390538 A G 5.67 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=9.95;MQ=41.33;MQ0=7;OQ=756.13;QD=12.40;SB=-382.66 GT:AD:DP:GL:GQ 0/1:20,40:36:-89.74,-10.85,-38.39:99
chr2 1091744 . C G 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=73;Dels=0.00;HRun=0;HaplotypeScore=9.14;MQ=40.40;MQ0=7;OQ=337.06;QD=4.62;SB=-71.53 GT:AD:DP:GL:GQ 0/1:55,18:48:-51.46,-14.47,-151.59:99
chr2 1091796 rs28564205 C G 67.04 PASS AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=0;HaplotypeScore=1.15;MQ=37.79;MQ0=10;OQ=619.57;QD=6.81;SB=-318.00 GT:AD:DP:GL:GQ 0/1:61,30:50:-80.31,-15.07,-135.29:99
chr2 1091868 . T C 0.89 PASS AC=2;AF=1.00;AN=2;DP=28;Dels=0.00;HRun=0;HaplotypeScore=3.88;MQ=20.19;MQ0=6;OQ=106.58;QD=3.81;SB=-63.33 GT:AD:DP:GL:GQ 1/1:3,25:5:-14.23,-1.51,-0.01:15.01
chr2 1091883 . T G 17.02 PASS AC=2;AF=1.00;AN=2;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=27.47;MQ0=7;OQ=305.30;QD=10.18;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,30:9:-34.11,-2.71,-0.00:27.09
chr2 1091916 . T C 1.42 PASS AC=2;AF=1.00;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=6.48;MQ=34.21;MQ0=12;OQ=513.58;QD=12.84;SB=-112.18 GT:AD:DP:GL:GQ 1/1:4,36:20:-58.82,-6.04,-3.88:21.57
chr2 1091994 . A G 76.52 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=0;HaplotypeScore=2.85;MQ=37.77;MQ0=6;OQ=751.17;QD=14.17;SB=-332.35 GT:AD:DP:GL:GQ 0/1:21,32:44:-91.66,-13.26,-65.25:99
chr2 1092126 . G T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=127;Dels=0.00;HRun=1;HaplotypeScore=14.01;MQ=21.13;MQ0=41;OQ=321.69;QD=2.53;SB=26.10 GT:AD:DP:GL:GQ 0/1:94,28:60:-56.32,-20.87,-136.58:99
chr2 1092168 . G T 31.13 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=187;Dels=0.00;HRun=0;HaplotypeScore=58.89;MQ=19.26;MQ0=65;QD=0.17;SB=23.09 GT:AD:DP:GL:GQ 0/1:169,18:76:-29.29,-22.89,-231.77:63.96
chr2 1092174 . A T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=177;Dels=0.00;HRun=0;HaplotypeScore=31.89;MQ=19.34;MQ0=61;OQ=54.99;QD=0.31;SB=32.10 GT:AD:DP:GL:GQ 0/1:159,18:70:-29.87,-21.09,-232.39:87.82
chr2 1092272 . C G 1.94 PASS AC=1;AF=0.50;AN=2;DP=104;Dels=0.00;HRun=0;HaplotypeScore=2.02;MQ=40.44;MQ0=1;OQ=575.62;QD=5.53;SB=-230.70 GT:AD:DP:GL:GQ 0/1:80,24:88:-87.38,-26.53,-284.52:99
chr2 1092305 rs4971445 A G 8.46 PASS AC=1;AF=0.50;AN=2;DB;DP=124;Dels=0.00;HRun=0;HaplotypeScore=0.10;MQ=40.46;MQ0=5;OQ=1508.73;QD=12.17;SB=-759.36 GT:AD:DP:GL:GQ 0/1:67,57:112:-187.90,-33.74,-227.13:99
chr2 1092357 . A G 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=159;Dels=0.00;HRun=0;HaplotypeScore=3.39;MQ=36.17;MQ0=21;OQ=327.37;QD=2.06;SB=-142.21 GT:AD:DP:GL:GQ 0/1:132,27:121:-72.49,-36.47,-389.94:99
chr2 1092383 rs13014569 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=134;Dels=0.00;HRun=0;HaplotypeScore=29.92;MQ=31.46;MQ0=35;OQ=1053.21;QD=7.86;SB=-284.98 GT:AD:DP:GL:GQ 0/1:67,67:80:-132.72,-24.11,-157.91:99
chr2 1092386 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=132;Dels=0.00;HRun=0;HaplotypeScore=29.39;MQ=30.52;MQ0=37;OQ=817.84;QD=6.20;SB=-329.23 GT:AD:DP:GL:GQ 0/1:86,46:77:-108.29,-23.22,-157.91:99
chr2 1092438 rs4971446 G T 0.13 PASS AC=1;AF=0.50;AN=2;DB;DP=130;Dels=0.00;HRun=1;HaplotypeScore=11.48;MQ=14.38;MQ0=79;OQ=382.34;QD=2.94;SB=-10.00 GT:AD:DP:GL:GQ 0/1:55,75:24:-48.75,-7.23,-34.28:99
chr2 1092538 . T A 1.48 PASS AC=1;AF=0.50;AN=2;DP=123;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=26.38;MQ0=33;OQ=481.75;QD=3.92;SB=2.01 GT:AD:DP:GL:GQ 0/1:56,66:47:-65.62,-14.16,-109.93:99
chr2 1092594 . G C 44.84 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=38;Dels=0.00;HRun=1;HaplotypeScore=25.12;MQ=9.99;MQ0=18;QD=1.18;SB=-10.00 GT:AD:DP:GL:GQ 1/1:33,5:2:-7.89,-0.60,-0.00:6.02
chr2 1092627 . G C 25.03 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=1;HaplotypeScore=9.99;MQ=12.61;MQ0=23;QD=0.60;SB=5.04 GT:AD:DP:GL:GQ 0/1:32,10:8:-8.20,-2.41,-23.53:57.85
chr2 1092636 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=20.93;MQ=12.74;MQ0=28;OQ=182.48;QD=3.58;SB=-33.97 GT:AD:DP:GL:GQ 0/1:30,21:10:-24.55,-3.01,-10.79:77.74
chr2 1092642 . A T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=16.01;MQ=12.50;MQ0=30;OQ=140.34;QD=2.55;SB=-35.36 GT:AD:DP:GL:GQ 0/1:47,8:13:-21.24,-3.92,-24.36:99
chr2 1092773 . A G 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=14.84;MQ0=47;OQ=97.48;QD=1.43;SB=-6.99 GT:AD:DP:GL:GQ 0/1:58,9:8:-15.44,-2.41,-12.28:98.72
chr2 1092788 . G A 95.32 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=4.12;MQ=16.80;MQ0=37;QD=1.70;SB=-6.99 GT:AD:DP:GL:GQ 0/1:47,9:7:-14.93,-2.11,-9.83:77.25
chr2 1092792 rs58110946 G T 200.17 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=7.10;MQ=16.92;MQ0=36;QD=3.57;SB=-7.01 GT:AD:DP:GL:GQ 0/1:42,14:10:-26.31,-3.01,-6.16:31.49
chr2 1092794 . G A 137.35 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=1;HaplotypeScore=6.94;MQ=16.92;MQ0=36;QD=2.45;SB=-6.99 GT:AD:DP:GL:GQ 0/1:45,11:8:-19.43,-2.42,-7.17:47.58
chr2 1094456 . G T 12.50 PASS AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=22.20;MQ0=2;OQ=84.85;QD=4.99;SB=-10.00 GT:AD:DP:GL:GQ 0/1:13,4:12:-15.38,-3.61,-26.61:99
chr2 1094529 . C T 5.70 PASS AC=1;AF=0.50;AN=2;DP=36;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=20.08;MQ0=2;OQ=384.15;QD=10.67;SB=-10.00 GT:AD:DP:GL:GQ 0/1:13,23:17:-46.83,-5.13,-12.59:74.57
chr2 1094655 rs4971448 C G 34.93 LowQual AC=1;AF=0.50;AN=2;DB;DP=17;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=23.07;MQ0=2;QD=2.05;SB=-10.00 GT:AD:DP:GL:GQ 0/1:13,4:8:-9.19,-2.41,-25.48:67.76
chr2 1094664 rs4971449 G T 28.77 PASS AC=1;AF=0.50;AN=2;DB;DP=16;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=21.17;MQ0=1;OQ=98.88;QD=6.18;SB=-10.00 GT:AD:DP:GL:GQ 0/1:12,4:8:-15.58,-2.41,-14.10:99
chr2 1094674 rs4971450 A G 14.92 PASS AC=2;AF=1.00;AN=2;DB;DP=21;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=22.30;MQ0=1;OQ=422.39;QD=20.11;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,21:15:-45.84,-4.53,-0.02:45.09
chr2 1095058 rs4971379 T C 139.09 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=56.73;MQ0=0;OQ=2372.30;QD=30.81;SB=-1051.30 GT:AD:DP:GL:GQ 1/1:0,77:75:-240.88,-22.61,-0.06:99
chr2 1095153 rs4971380 T A 736.60 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.46;MQ0=0;OQ=2854.46;QD=37.07;SB=-1121.03 GT:AD:DP:GL:GQ 1/1:0,77:76:-289.05,-22.89,-0.02:99
chr2 1097122 . G A 452.13 PASS AC=2;AF=1.00;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.63;MQ0=0;OQ=2403.95;QD=38.77;SB=-1202.13 GT:AD:DP:GL:GQ 1/1:0,62:62:-244.00,-18.68,-0.02:99
chr2 1097472 . A G 0.24 PASS AC=1;AF=0.50;AN=2;DP=88;Dels=0.00;HRun=1;HaplotypeScore=2.27;MQ=57.80;MQ0=0;OQ=460.14;QD=5.23;SB=-238.25 GT:AD:DP:GL:GQ 0/1:66,22:86:-75.20,-25.90,-266.17:99
chr2 1097474 . A G 0.20 PASS AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=1;HaplotypeScore=3.25;MQ=57.82;MQ0=0;OQ=546.78;QD=6.14;SB=-273.21 GT:AD:DP:GL:GQ 0/1:65,24:86:-83.86,-25.90,-258.75:99
chr2 1097623 . T G 0.08 PASS AC=1;AF=0.50;AN=2;DP=128;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=52.06;MQ0=2;OQ=419.33;QD=3.28;SB=-183.62 GT:AD:DP:GL:GQ 0/1:105,23:114:-79.56,-34.34,-328.36:99
chr2 1097648 rs55974723 C G 464.65 PASS AC=1;AF=0.50;AN=2;DB;DP=101;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=47.79;MQ0=1;OQ=1591.04;QD=15.75;SB=-626.34 GT:AD:DP:GL:GQ 0/1:51,50:88:-188.91,-26.52,-184.46:99
chr2 1097660 rs34534641 G A 594.74 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=1;HaplotypeScore=20.99;MQ=45.34;MQ0=0;QD=7.00;SB=-175.57 GT:AD:DP:GL:GQ 0/1:57,28:69:-83.54,-20.79,-173.09:99
chr2 1097663 rs34863240 G A 485.84 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=1;HaplotypeScore=21.99;MQ=45.29;MQ0=0;QD=5.58;SB=-136.99 GT:AD:DP:GL:GQ 0/1:60,27:69:-72.65,-20.78,-186.25:99
chr2 1097670 rs4971451 G T 816.89 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=37.48;MQ=43.90;MQ0=0;QD=9.72;SB=-313.09 GT:AD:DP:GL:GQ 0/1:42,42:68:-105.46,-20.48,-139.85:99
chr2 1097710 . G A 0.29 PASS AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=49.14;MQ0=2;OQ=387.35;QD=4.50;SB=83.28 GT:AD:DP:GL:GQ 0/1:62,24:76:-64.91,-22.89,-218.27:99
chr2 1097901 rs12468727 C G 6.28 PASS AC=2;AF=1.00;AN=2;DB;DP=89;Dels=0.00;HRun=1;HaplotypeScore=4.64;MQ=56.87;MQ0=3;OQ=3537.30;QD=39.74;SB=-1265.99 GT:AD:DP:GL:GQ 1/1:6,83:82:-352.73,-24.71,-8.52:99
chr2 1098221 rs4971452 C G 561.97 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.79;MQ0=2;OQ=3576.13;QD=42.07;SB=-1381.64 GT:AD:DP:GL:GQ 1/1:0,85:82:-356.61,-24.70,-0.02:99
chr2 1098787 rs4971453 A G 134.79 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.00;HRun=1;HaplotypeScore=3.99;MQ=45.22;MQ0=2;QD=1.47;SB=41.60 GT:AD:DP:GL:GQ 0/1:69,23:71:-38.15,-21.39,-250.07:99
chr2 1098794 rs4971454 G T 176.71 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=1;HaplotypeScore=2.16;MQ=41.69;MQ0=3;QD=1.96;SB=22.82 GT:AD:DP:GL:GQ 0/1:66,24:62:-39.64,-18.68,-162.58:99
chr2 1098796 rs4971455 G T 159.51 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=1;HaplotypeScore=2.16;MQ=41.69;MQ0=3;QD=1.77;SB=21.82 GT:AD:DP:GL:GQ 0/1:66,24:62:-37.91,-18.67,-183.68:99
chr2 1098811 rs4971456 T C 17.62 PASS AC=1;AF=0.50;AN=2;DB;DP=95;Dels=0.00;HRun=0;HaplotypeScore=1.78;MQ=40.85;MQ0=3;OQ=522.06;QD=5.50;SB=-226.40 GT:AD:DP:GL:GQ 0/1:59,35:67:-75.67,-20.18,-184.49:99
chr2 1098822 rs4971457 C T 176.75 PASS AC=1;AF=0.50;AN=2;DB;DP=99;Dels=0.00;HRun=0;HaplotypeScore=1.32;MQ=40.09;MQ0=3;OQ=1089.49;QD=11.00;SB=-532.72 GT:AD:DP:GL:GQ 0/1:49,49:72:-133.92,-21.69,-138.82:99
chr2 1098837 rs4971458 G A 1685.15 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=106;Dels=0.00;HRun=1;HaplotypeScore=9.09;MQ=38.35;MQ0=4;QD=15.90;SB=-710.76 GT:AD:DP:GL:GQ 0/1:42,64:78:-195.29,-23.50,-112.04:99
chr2 1098841 . G A 1911.86 SnpCluster AC=2;AF=1.00;AN=2;DP=104;Dels=0.00;HRun=0;HaplotypeScore=9.92;MQ=38.37;MQ0=5;QD=18.38;SB=-801.04 GT:AD:DP:GL:GQ 1/1:5,64:77:-301.79,-117.83,-107.02:99
chr2 1098843 . G T 537.34 SnpCluster AC=1;AF=0.50;AN=2;DP=101;Dels=0.00;HRun=1;HaplotypeScore=9.92;MQ=37.35;MQ0=6;QD=5.32;SB=-252.20 GT:AD:DP:GL:GQ 0/1:71,30:72:-78.70,-21.69,-179.58:99
chr2 1098844 rs4971459 G T 2663.81 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=102;Dels=0.00;HRun=0;HaplotypeScore=9.92;MQ=37.19;MQ0=6;QD=26.12;SB=-1128.95 GT:AD:DP:GL:GQ 1/1:2,100:73:-269.99,-21.99,-0.02:99
chr2 1098858 rs56136814 T C 0.11 PASS AC=1;AF=0.50;AN=2;DB;DP=101;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=39.11;MQ0=9;OQ=55.56;QD=0.55;SB=-1.65 GT:AD:DP:GL:GQ 0/1:77,24:64:-28.12,-19.28,-223.40:88.39
chr2 1098869 rs55941907 C T 0.14 PASS AC=1;AF=0.50;AN=2;DB;DP=105;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=41.80;MQ0=12;OQ=98.23;QD=0.94;SB=24.21 GT:AD:DP:GL:GQ 0/1:91,14:79:-36.90,-23.79,-251.54:99
chr2 1099724 rs7422414 A T 39.59 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=2.99;MQ=57.74;MQ0=3;OQ=2336.87;QD=33.38;SB=-1158.53 GT:AD:DP:GL:GQ 1/1:3,66:63:-237.29,-18.98,-0.02:99
chr2 1100763 rs4971381 G A 618.05 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.12;MQ0=1;OQ=3032.56;QD=39.38;SB=-1294.73 GT:AD:DP:GL:GQ 1/1:0,77:75:-306.86,-22.59,-0.02:99
chr2 1100918 rs4971382 T C 126.08 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=1.13;MQ=59.67;MQ0=0;OQ=2516.57;QD=35.95;SB=-1229.84 GT:AD:DP:GL:GQ 1/1:0,70:70:-255.26,-21.08,-0.02:99
chr2 1101283 rs62107417 T A 631.71 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2638.78;QD=37.70;SB=-1293.25 GT:AD:DP:GL:GQ 1/1:0,70:70:-267.48,-21.08,-0.02:99
chr2 1101597 rs4971460 C G 624.82 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=3052.81;QD=42.40;SB=-1150.04 GT:AD:DP:GL:GQ 1/1:0,72:71:-308.89,-21.39,-0.02:99
chr2 1103298 rs4971383 A T 608.86 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.45;MQ0=0;OQ=1466.86;QD=34.93;SB=-578.21 GT:AD:DP:GL:GQ 1/1:0,42:41:-150.29,-12.36,-0.02:99
chr2 1103989 rs4971461 T A 211.85 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=2.66;MQ=59.03;MQ0=0;OQ=1749.59;QD=36.45;SB=-815.88 GT:AD:DP:GL:GQ 1/1:0,48:48:-178.57,-14.46,-0.02:99
chr2 1104077 rs4971462 T C 185.75 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=59.13;MQ0=0;OQ=1676.78;QD=31.64;SB=-479.10 GT:AD:DP:GL:GQ 1/1:0,53:52:-171.30,-15.68,-0.04:99
chr2 1104495 rs12994581 G C 607.40 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=2954.53;QD=42.82;SB=-1147.61 GT:AD:DP:GL:GQ 1/1:0,69:68:-299.06,-20.49,-0.02:99
chr2 1106222 rs9631081 C T 591.73 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.37;MQ0=0;OQ=2578.68;QD=39.07;SB=-1008.84 GT:AD:DP:GL:GQ 1/1:0,66:65:-261.47,-19.58,-0.02:99
chr2 1106328 rs9631079 T C 352.41 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=1;HaplotypeScore=1.66;MQ=59.73;MQ0=0;OQ=1461.24;QD=16.99;SB=-512.71 GT:AD:DP:GL:GQ 0/1:34,52:85:-175.02,-25.61,-136.36:99
chr2 1106648 rs4971463 A G 693.77 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.46;MQ0=0;OQ=2884.29;QD=33.93;SB=-1305.49 GT:AD:DP:GL:GQ 1/1:0,85:84:-292.05,-25.31,-0.03:99
chr2 1107283 rs6730881 G C 67.17 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=0.87;MQ=60.00;MQ0=0;OQ=2531.04;QD=42.18;SB=-1176.06 GT:AD:DP:GL:GQ 1/1:0,60:59:-256.71,-17.78,-0.02:99
chr2 1107377 rs6733723 G C 394.88 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=2321.41;QD=41.45;SB=-932.67 GT:AD:DP:GL:GQ 1/1:0,56:54:-235.74,-16.27,-0.02:99
chr2 1107511 rs28873988 C T 622.35 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3214.37;QD=38.73;SB=-1162.56 GT:AD:DP:GL:GQ 1/1:0,83:82:-325.05,-24.71,-0.03:99
chr2 1107512 rs28871995 A G 266.42 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2940.76;QD=35.43;SB=-1099.83 GT:AD:DP:GL:GQ 1/1:0,83:83:-297.68,-25.00,-0.02:99
chr2 1107640 rs28866610 G C 543.19 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.48;MQ0=0;OQ=3458.19;QD=42.69;SB=-1376.65 GT:AD:DP:GL:GQ 1/1:0,81:80:-344.82,-24.11,-0.03:99
chr2 1107929 rs28796297 T C 482.61 PASS AC=2;AF=1.00;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2730.85;QD=31.03;SB=-1353.77 GT:AD:DP:GL:GQ 1/1:0,88:85:-276.74,-25.63,-0.07:99
chr2 1107958 rs28782286 G A 540.64 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3517.84;QD=40.43;SB=-1688.27 GT:AD:DP:GL:GQ 1/1:0,87:86:-350.78,-25.90,-0.02:99
chr2 1108032 rs28848298 G C 557.89 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.62;MQ0=0;OQ=2769.27;QD=41.33;SB=-1134.03 GT:AD:DP:GL:GQ 1/1:0,67:66:-280.53,-19.89,-0.02:99
chr2 1108150 rs28795429 A C 623 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.90;MQ0=0;OQ=2638.24;QD=34.26;SB=-1029.92 GT:AD:DP:GL:GQ 1/1:1,76:76:-267.43,-22.89,-0.02:99
chr2 1108198 rs28841344 G C 94.69 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=58.29;MQ0=0;OQ=3604.32;QD=43.96;SB=-1440.87 GT:AD:DP:GL:GQ 1/1:0,82:82:-359.43,-24.71,-0.03:99
chr2 1108239 rs28759468 G A 323.77 PASS AC=2;AF=1.00;AN=2;DB;DP=97;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=54.85;MQ0=0;OQ=4011.52;QD=41.36;SB=-1970.61 GT:AD:DP:GL:GQ 1/1:0,97:97:-400.15,-29.22,-0.02:99
chr2 1108313 rs28896578 C T 547.70 PASS AC=2;AF=1.00;AN=2;DB;DP=92;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=51.09;MQ0=0;OQ=3735.72;QD=40.61;SB=-1661.72 GT:AD:DP:GL:GQ 1/1:0,92:92:-372.57,-27.71,-0.02:99
chr2 1108357 rs28846744 T C 578 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=48.72;MQ0=0;OQ=2286.44;QD=31.76;SB=-1003.42 GT:AD:DP:GL:GQ 1/1:0,72:70:-232.28,-21.10,-0.05:99
chr2 1108362 rs28776240 A C 601.03 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=48.40;MQ0=0;OQ=2232.11;QD=32.83;SB=-975.04 GT:AD:DP:GL:GQ 1/1:0,68:65:-226.82,-19.58,-0.03:99
chr2 1108436 rs28834390 G A 49.01 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=2;HaplotypeScore=0.73;MQ=44.11;MQ0=0;OQ=2199.58;QD=39.28;SB=-1065.35 GT:AD:DP:GL:GQ 1/1:0,56:55:-223.55,-16.57,-0.01:99
chr2 1108488 rs28879455 T A 632.16 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.85;MQ0=0;OQ=2341.07;QD=35.47;SB=-1193.46 GT:AD:DP:GL:GQ 1/1:0,66:63:-237.71,-18.98,-0.02:99
chr2 1108490 rs28838311 G T 273.11 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=57.88;MQ0=0;OQ=2407.63;QD=35.93;SB=-1158.33 GT:AD:DP:GL:GQ 1/1:0,67:66:-244.37,-19.88,-0.02:99
chr2 1108587 rs28891809 C T 497.95 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=41.14;MQ0=0;OQ=3344.73;QD=40.30;SB=-1481.48 GT:AD:DP:GL:GQ 1/1:0,83:82:-333.47,-24.70,-0.02:99
chr2 1108756 rs7561843 C A 272.52 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=55.21;MQ0=0;OQ=3038.21;QD=35.74;SB=-1391.91 GT:AD:DP:GL:GQ 1/1:0,85:85:-307.43,-25.60,-0.02:99
chr2 1108812 rs7578403 T C 476.75 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=56.43;MQ0=0;OQ=3034.34;QD=35.70;SB=-1468.94 GT:AD:DP:GL:GQ 1/1:0,85:84:-307.04,-25.30,-0.02:99
chr2 1109004 rs7575784 A G 616.43 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.44;MQ0=0;OQ=2918.22;QD=35.16;SB=-1297.84 GT:AD:DP:GL:GQ 1/1:0,83:82:-295.43,-24.70,-0.03:99
chr2 1109070 rs7575879 A G 582.30 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=3083.94;QD=36.28;SB=-1504.44 GT:AD:DP:GL:GQ 1/1:0,85:85:-312.00,-25.60,-0.02:99
chr2 1109076 rs7575887 A G 48.54 PASS AC=2;AF=1.00;AN=2;DB;DP=89;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.53;MQ0=0;OQ=2893.85;QD=32.52;SB=-1240.01 GT:AD:DP:GL:GQ 1/1:0,89:88:-293.03,-26.53,-0.06:99
chr2 1109127 rs7587905 G A 614.54 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.72;MQ0=0;OQ=2765.83;QD=40.08;SB=-1344.29 GT:AD:DP:GL:GQ 1/1:0,69:68:-280.18,-20.48,-0.01:99
chr2 1109213 rs7578854 T C 525.58 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=51.77;MQ0=0;OQ=2323.15;QD=35.20;SB=-1055.43 GT:AD:DP:GL:GQ 1/1:0,66:65:-235.92,-19.58,-0.02:99
chr2 1109227 rs7588028 G A 721.75 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=51.64;MQ0=0;OQ=2666.79;QD=39.22;SB=-1282.71 GT:AD:DP:GL:GQ 1/1:0,68:67:-270.28,-20.18,-0.01:99
chr2 1109365 rs7565112 C T 569.65 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=2626.59;QD=39.20;SB=-907.72 GT:AD:DP:GL:GQ 1/1:0,67:66:-266.26,-19.88,-0.02:99
chr2 1109392 rs13420844 T A 2.64 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=3;HaplotypeScore=3.71;MQ=59.68;MQ0=0;OQ=2633.21;QD=36.57;SB=-1048.58 GT:AD:DP:GL:GQ 1/1:0,71:71:-266.92,-21.38,-0.02:99
chr2 1109415 rs13405062 C T 405.10 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2358.24;QD=37.43;SB=-1011.85 GT:AD:DP:GL:GQ 1/1:0,63:60:-239.44,-18.08,-0.03:99
chr2 1109531 rs57545666 C G 3542.91 Indel AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=35.03;MQ0=0;QD=44.29;SB=-1314.46 GT:AD:DP:GL:GQ 1/1:0,80:79:-353.29,-23.80,-0.02:99
chr2 1109588 rs13405192 C G 603.42 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=50.40;MQ0=0;OQ=3200.02;QD=42.67;SB=-1108.56 GT:AD:DP:GL:GQ 1/1:0,75:74:-323.61,-22.30,-0.02:99
chr2 1109629 rs13430002 G A 41.62 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=56.46;MQ0=0;OQ=2641.72;QD=39.43;SB=-1002.85 GT:AD:DP:GL:GQ 1/1:0,67:65:-267.77,-19.58,-0.01:99
chr2 1109736 rs13418489 A G 318 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=56.00;MQ0=0;OQ=2230.96;QD=35.41;SB=-1071.11 GT:AD:DP:GL:GQ 1/1:0,63:63:-226.70,-18.98,-0.02:99
chr2 1109997 rs55928292 C T 98.93 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=5;HaplotypeScore=24.68;MQ=51.30;MQ0=0;QD=1.74;SB=-63.78 GT:AD:DP:GL:GQ 0/1:50,7:50:-28.24,-15.06,-157.13:99
chr2 1109999 . C G 302.11 SnpCluster AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=25.20;MQ=51.62;MQ0=0;QD=5.12;SB=-159.37 GT:AD:DP:GL:GQ 0/1:39,18:46:-47.36,-13.86,-149.67:99
chr2 1110003 rs56336710 C T 323.98 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=52.95;MQ0=0;QD=6.23;SB=-168.18 GT:AD:DP:GL:GQ 0/1:32,20:44:-48.93,-13.25,-113.32:99
chr2 1110004 . A G 303.81 SnpCluster AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=52.81;MQ0=0;QD=5.96;SB=-127.24 GT:AD:DP:GL:GQ 0/1:31,20:44:-46.92,-13.26,-127.05:99
chr2 1110044 rs28796319 G A 371.37 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=54.79;MQ0=0;OQ=1174.41;QD=19.57;SB=-470.52 GT:AD:DP:GL:GQ 0/1:25,35:59:-138.51,-17.79,-76.44:99
chr2 1110274 rs4971464 G A 181.16 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=2.07;MQ=57.05;MQ0=0;OQ=1998.29;QD=35.68;SB=-911.69 GT:AD:DP:GL:GQ 1/1:0,54:53:-206.03,-18.54,-2.62:99
chr2 1110566 rs4971465 G A 156.11 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.92;MQ=60.00;MQ0=0;OQ=1976.39;QD=39.53;SB=-906.20 GT:AD:DP:GL:GQ 1/1:0,50:49:-201.23,-14.76,-0.01:99
chr2 1110852 rs6548190 T C 518.58 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=2392.61;QD=35.19;SB=-1222.81 GT:AD:DP:GL:GQ 1/1:0,68:68:-242.87,-20.48,-0.02:99
chr2 1110880 rs6548191 C T 179.97 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=2984.69;QD=40.33;SB=-1295.72 GT:AD:DP:GL:GQ 1/1:0,74:74:-302.07,-22.29,-0.01:99
chr2 1110944 rs6725118 G A 470 PASS AC=2;AF=1.00;AN=2;DB;DP=89;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3668.19;QD=41.22;SB=-1561.61 GT:AD:DP:GL:GQ 1/1:0,89:89:-365.82,-26.80,-0.02:99
chr2 1110984 rs6715197 T C 631.89 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.77;MQ0=0;OQ=2853.55;QD=35.67;SB=-1219.72 GT:AD:DP:GL:GQ 1/1:0,80:80:-288.96,-24.09,-0.02:99
chr2 1111339 rs4266052 A G 529.76 PASS AC=2;AF=1.00;AN=2;DB;DP=92;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.80;MQ0=0;OQ=3317.61;QD=36.06;SB=-1633.33 GT:AD:DP:GL:GQ 1/1:0,92:92:-330.76,-27.71,-0.03:99
chr2 1111378 rs4511755 T A 715.05 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.50;MQ0=0;OQ=2820.75;QD=37.61;SB=-1427.42 GT:AD:DP:GL:GQ 1/1:0,75:75:-285.68,-22.59,-0.02:99
chr2 1112191 . T G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=2;HaplotypeScore=10.83;MQ=57.65;MQ0=0;OQ=58.71;QD=0.86;SB=101.32 GT:AD:DP:GL:GQ 0/1:42,25:51:-24.52,-15.36,-151.33:91.54
chr2 1112415 rs4254534 A G 7.63 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=1;HaplotypeScore=4.56;MQ=55.56;MQ0=0;OQ=2933.21;QD=34.51;SB=-1293.84 GT:AD:DP:GL:GQ 1/1:0,85:82:-296.93,-24.70,-0.03:99
chr2 1112448 rs4321400 T G 157.92 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=2.85;MQ=57.49;MQ0=0;OQ=2489.96;QD=34.11;SB=-1134.64 GT:AD:DP:GL:GQ 1/1:1,72:71:-252.60,-21.38,-0.02:99
chr2 1113126 rs4464313 T C 135.84 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=58.99;MQ0=0;OQ=2929.75;QD=35.30;SB=-1182.50 GT:AD:DP:GL:GQ 1/1:0,83:80:-296.58,-24.09,-0.02:99
chr2 1113140 rs4432486 C T 173.77 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.71;MQ=59.10;MQ0=0;OQ=2796.70;QD=38.84;SB=-1106.49 GT:AD:DP:GL:GQ 1/1:0,72:70:-283.27,-21.09,-0.02:99
chr2 1113152 rs4380274 A G 169.98 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.43;MQ0=0;OQ=2321.65;QD=31.80;SB=-1052.27 GT:AD:DP:GL:GQ 1/1:0,73:71:-235.80,-21.41,-0.05:99
chr2 1113340 rs4528790 G A 558.47 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.71;MQ0=0;OQ=3209.35;QD=40.62;SB=-1623.04 GT:AD:DP:GL:GQ 1/1:0,79:79:-324.54,-23.80,-0.02:99
chr2 1113400 rs4519559 T C 528.18 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2763.90;QD=31.77;SB=-1306.20 GT:AD:DP:GL:GQ 1/1:0,87:86:-280.05,-25.93,-0.07:99
chr2 1113547 rs6723738 A G 148.27 PASS AC=2;AF=1.00;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=59.35;MQ0=0;OQ=2978.08;QD=34.63;SB=-1475.61 GT:AD:DP:GL:GQ 1/1:0,85:83:-301.42,-25.00,-0.02:99
chr2 1113738 rs6723973 A C 1.57 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=6.86;MQ=59.46;MQ0=0;OQ=2709.68;QD=35.19;SB=-1276.35 GT:AD:DP:GL:GQ 1/1:1,76:76:-274.57,-22.89,-0.02:99
chr2 1113747 rs6736978 G A 602.20 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=3062.25;QD=39.77;SB=-1446.38 GT:AD:DP:GL:GQ 1/1:0,76:76:-309.83,-22.89,-0.02:99
chr2 1113910 rs6724119 A G 709.69 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.12;MQ0=0;OQ=2800.31;QD=35.00;SB=-1328.57 GT:AD:DP:GL:GQ 1/1:0,80:80:-283.65,-24.10,-0.03:99
chr2 1114416 rs7580578 T G 134.23 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=2;HaplotypeScore=0.89;MQ=58.91;MQ0=0;OQ=2078.73;QD=34.08;SB=-1059.10 GT:AD:DP:GL:GQ 1/1:0,61:59:-211.48,-17.77,-0.02:99
chr2 1114501 rs7589852 G A 132.18 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=59.08;MQ0=0;OQ=2320.22;QD=38.04;SB=-1083.35 GT:AD:DP:GL:GQ 1/1:0,61:58:-235.62,-17.47,-0.01:99
chr2 1114868 rs28522891 G A 285.40 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2757.45;QD=40.55;SB=-1369.40 GT:AD:DP:GL:GQ 1/1:0,68:68:-279.35,-20.48,-0.02:99
chr2 1115089 rs28532183 A G 188.27 PASS AC=2;AF=1.00;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.79;MQ0=0;OQ=3113.12;QD=34.98;SB=-1372.55 GT:AD:DP:GL:GQ 1/1:0,89:88:-314.92,-26.50,-0.02:99
chr2 1115913 rs6732346 A G 70.93 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=3.65;MQ=60.00;MQ0=0;OQ=2207.90;QD=33.97;SB=-1010.90 GT:AD:DP:GL:GQ 1/1:1,64:62:-224.39,-18.67,-0.02:99
chr2 1116490 rs6548196 G A 139.05 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=1.31;MQ=59.22;MQ0=0;OQ=3339.38;QD=40.23;SB=-1642.17 GT:AD:DP:GL:GQ 1/1:0,83:82:-332.94,-24.70,-0.02:99
chr2 1116758 rs7588450 T C 546.85 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2355.61;QD=31.41;SB=-1181.50 GT:AD:DP:GL:GQ 1/1:0,75:73:-239.21,-22.01,-0.06:99
chr2 1117016 rs6548197 G T 609.52 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.76;MQ0=0;OQ=2816.61;QD=36.58;SB=-1417.01 GT:AD:DP:GL:GQ 1/1:0,77:77:-285.26,-23.19,-0.02:99
chr2 1117317 rs6736725 A G 551.88 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.96;MQ0=0;OQ=2400.82;QD=30.78;SB=-952.39 GT:AD:DP:GL:GQ 1/1:0,78:74:-243.72,-22.31,-0.06:99
chr2 1117616 rs28439899 G A 122.14 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=3.10;MQ=55.08;MQ0=1;OQ=1661.18;QD=34.61;SB=-827.35 GT:AD:DP:GL:GQ 1/1:1,46:43:-169.72,-12.96,-0.02:99
chr2 1117934 rs28560482 C T 545.79 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=2413.72;QD=38.31;SB=-805.33 GT:AD:DP:GL:GQ 1/1:0,63:62:-244.98,-18.68,-0.02:99
chr2 1118498 rs6548198 T C 183.89 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.96;MQ=58.73;MQ0=0;OQ=1830.97;QD=33.29;SB=-843.04 GT:AD:DP:GL:GQ 1/1:0,54:52:-186.70,-15.66,-0.02:99
chr2 1119066 rs6744472 A G 593.79 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.41;MQ0=0;OQ=2377.81;QD=36.03;SB=-836.35 GT:AD:DP:GL:GQ 1/1:0,66:66:-241.38,-19.88,-0.02:99
chr2 1119236 rs28525553 G A 618.13 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2190.95;QD=37.13;SB=-985.62 GT:AD:DP:GL:GQ 1/1:0,59:56:-222.70,-16.87,-0.02:99
chr2 1119624 rs7599503 T C 123.54 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.26;MQ=57.83;MQ0=1;OQ=1936.04;QD=28.47;SB=-876.68 GT:AD:DP:GL:GQ 1/1:0,68:62:-197.24,-18.70,-0.05:99
chr2 1119666 rs4366937 T C 610.17 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.10;MQ0=1;OQ=1833.77;QD=34.60;SB=-890.66 GT:AD:DP:GL:GQ 1/1:0,53:52:-186.98,-15.66,-0.02:99
chr2 1120028 rs4971472 T G 158.85 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=50.38;MQ0=2;OQ=1830.83;QD=30.51;SB=-733.06 GT:AD:DP:GL:GQ 1/1:0,60:52:-186.69,-15.66,-0.02:99
chr2 1120106 rs4971473 T G 385.19 PASS AC=2;AF=1.00;AN=2;DB;DP=41;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.13;MQ0=2;OQ=1190.73;QD=29.04;SB=-369.94 GT:AD:DP:GL:GQ 1/1:0,41:37:-122.68,-11.15,-0.02:99
chr2 1120652 rs6743683 G C 581.54 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.24;MQ0=0;OQ=2096.93;QD=36.15;SB=-799.06 GT:AD:DP:GL:GQ 1/1:0,58:55:-213.34,-16.61,-0.06:99
chr2 1121989 rs4274631 C G 160.47 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=3.01;MQ=60.00;MQ0=0;OQ=2976.57;QD=41.92;SB=-1401.41 GT:AD:DP:GL:GQ 1/1:0,71:70:-301.27,-21.10,-0.03:99
chr2 1122233 rs4553853 T C 57.40 PASS AC=2;AF=1.00;AN=2;DB;DP=97;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=59.76;MQ0=0;OQ=2914.09;QD=30.04;SB=-1416.69 GT:AD:DP:GL:GQ 1/1:0,97:92:-295.07,-27.74,-0.08:99
chr2 1124065 rs62107450 C T 209.53 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=3.59;MQ=59.28;MQ0=0;OQ=789.53;QD=13.61;SB=-381.14 GT:AD:DP:GL:GQ 0/1:27,30:53:-100.59,-18.35,-85.22:99
chr2 1124736 . A T 31.70 PASS AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=1;HaplotypeScore=2.20;MQ=58.83;MQ0=0;OQ=762.31;QD=14.66;SB=-281.62 GT:AD:DP:GL:GQ 0/1:27,25:52:-95.18,-15.67,-102.24:99
chr2 1124956 rs6760313 G A 563.55 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.38;MQ0=0;OQ=2496.03;QD=37.25;SB=-792.57 GT:AD:DP:GL:GQ 1/1:0,67:65:-253.22,-19.59,-0.03:99
chr2 1125124 rs6548200 T G 190.19 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.90;MQ=51.72;MQ0=0;OQ=2057.26;QD=32.65;SB=-1045.12 GT:AD:DP:GL:GQ 1/1:0,63:60:-209.34,-18.08,-0.02:99
chr2 1125392 rs6706215 G A 402.94 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.11;MQ0=0;OQ=2345.19;QD=39.75;SB=-614.32 GT:AD:DP:GL:GQ 1/1:0,59:58:-238.12,-17.47,-0.01:99
chr2 1125986 rs28653233 G A 444.30 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.43;MQ0=0;OQ=2600.02;QD=39.39;SB=-855.15 GT:AD:DP:GL:GQ 1/1:0,66:65:-263.60,-19.58,-0.02:99
chr2 1125994 rs28454231 A G 558.41 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.45;MQ0=0;OQ=2321.15;QD=34.13;SB=-691.84 GT:AD:DP:GL:GQ 1/1:0,68:67:-235.73,-20.19,-0.03:99
chr2 1126116 rs28472506 C T 111.58 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=2007.57;QD=37.18;SB=-773.67 GT:AD:DP:GL:GQ 1/1:0,54:53:-204.36,-15.97,-0.02:99
chr2 1126356 rs28433605 A G 5.73 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=2;HaplotypeScore=4.23;MQ=59.70;MQ0=0;OQ=2560.62;QD=32.83;SB=-1251.54 GT:AD:DP:GL:GQ 1/1:0,77:76:-264.08,-26.17,-4.43:99
chr2 1126877 rs6548201 C T 687.92 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.80;MQ0=0;OQ=2540.88;QD=39.70;SB=-1050.41 GT:AD:DP:GL:GQ 1/1:0,64:64:-257.69,-19.28,-0.02:99
chr2 1126921 rs6548202 A G 554.87 PASS AC=2;AF=1.00;AN=2;DB;DP=91;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3375.04;QD=37.09;SB=-1614.68 GT:AD:DP:GL:GQ 1/1:0,91:91:-336.50,-27.41,-0.02:99
chr2 1126922 . T C 335.17 PASS AC=2;AF=1.00;AN=2;DP=92;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2929.55;QD=31.84;SB=-1379.72 GT:AD:DP:GL:GQ 1/1:0,92:90:-296.61,-27.14,-0.07:99
chr2 1127254 rs4273253 T C 207.53 PASS AC=2;AF=1.00;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=1.29;MQ=55.98;MQ0=0;OQ=3294.60;QD=36.61;SB=-1040.76 GT:AD:DP:GL:GQ 1/1:1,89:88:-328.46,-26.50,-0.02:99
chr2 1127286 rs4347864 G T 617.73 PASS AC=2;AF=1.00;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.10;MQ0=0;OQ=2994.02;QD=34.02;SB=-1146.38 GT:AD:DP:GL:GQ 1/1:0,88:86:-303.02,-25.90,-0.03:99
chr2 1127294 rs4471920 T A 10.28 PASS AC=2;AF=1.00;AN=2;DB;DP=88;Dels=0.00;HRun=4;HaplotypeScore=1.15;MQ=55.10;MQ0=0;OQ=3129.49;QD=35.56;SB=-1249.42 GT:AD:DP:GL:GQ 1/1:0,88:87:-316.57,-26.21,-0.03:99
chr2 1127319 rs4621188 T C 162.83 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=2.32;MQ=53.89;MQ0=0;OQ=2867.55;QD=34.14;SB=-1303.18 GT:AD:DP:GL:GQ 1/1:0,83:80:-290.37,-24.10,-0.03:99
chr2 1127481 . T A 1823.98 Indel AC=2;AF=1.00;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=42.78;MQ0=0;QD=32.57;SB=-866.31 GT:AD:DP:GL:GQ 1/1:0,55:50:-186.00,-15.06,-0.02:99
chr2 1127485 rs4426556 A G 502.92 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=42.12;MQ0=0;OQ=1879.83;QD=34.18;SB=-935.72 GT:AD:DP:GL:GQ 1/1:0,55:52:-191.58,-15.66,-0.01:99
chr2 1127497 rs7593052 C T 173.01 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=44.87;MQ0=0;OQ=1924.11;QD=34.36;SB=-984.32 GT:AD:DP:GL:GQ 1/1:0,55:51:-196.02,-15.37,-0.02:99
chr2 1127534 rs4456734 G A 126 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=49.88;MQ0=0;OQ=2637.77;QD=39.37;SB=-1209.60 GT:AD:DP:GL:GQ 1/1:0,67:66:-267.38,-19.88,-0.02:99
chr2 1127570 rs28871746 C G 637.45 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.69;MQ0=0;OQ=2383.32;QD=36.67;SB=-1193.22 GT:AD:DP:GL:GQ 1/1:0,65:61:-241.97,-18.42,-0.06:99
chr2 1127604 rs28788304 G A 636.84 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=50.68;MQ0=0;OQ=2311.00;QD=36.11;SB=-1171.32 GT:AD:DP:GL:GQ 1/1:0,64:61:-234.72,-18.39,-0.04:99
chr2 1127650 rs60515532 T C 2244.22 Indel AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=48.62;MQ0=0;QD=35.07;SB=-1058.42 GT:AD:DP:GL:GQ 1/1:0,64:63:-228.03,-18.98,-0.02:99
chr2 1127669 rs28460632 A T 67.25 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=1.53;MQ=49.64;MQ0=0;OQ=2275.82;QD=36.71;SB=-852.31 GT:AD:DP:GL:GQ 1/1:0,62:61:-231.19,-18.38,-0.02:99
chr2 1127672 rs28459150 T C 174.79 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.85;MQ=50.18;MQ0=0;OQ=1877.72;QD=31.30;SB=-864.37 GT:AD:DP:GL:GQ 1/1:0,60:59:-191.41,-17.80,-0.05:99
chr2 1127886 rs28408262 G A 190.39 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.69;MQ=55.83;MQ0=0;OQ=2768.02;QD=38.44;SB=-1306.35 GT:AD:DP:GL:GQ 1/1:0,72:71:-280.41,-21.39,-0.03:99
chr2 1127899 rs28644290 A G 622.26 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.18;MQ0=0;OQ=2256.78;QD=34.19;SB=-1029.82 GT:AD:DP:GL:GQ 1/1:0,66:66:-229.29,-19.88,-0.03:99
chr2 1128084 rs2068695 C T 560.96 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1860.70;QD=37.21;SB=-783.52 GT:AD:DP:GL:GQ 1/1:0,50:48:-189.68,-14.47,-0.02:99
chr2 1128149 rs2068694 C T 287.25 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.81;MQ0=0;OQ=2514.11;QD=39.28;SB=-1066.91 GT:AD:DP:GL:GQ 1/1:0,64:63:-255.01,-18.98,-0.02:99
chr2 1128158 rs4625942 G C 524.11 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.81;MQ0=0;OQ=2725.41;QD=42.58;SB=-1185.06 GT:AD:DP:GL:GQ 1/1:0,64:63:-276.15,-18.99,-0.02:99
chr2 1128303 rs28569237 G T 221.01 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=60.00;MQ0=0;OQ=3194.96;QD=36.72;SB=-1201.73 GT:AD:DP:GL:GQ 1/1:0,87:87:-323.10,-26.20,-0.02:99
chr2 1128314 rs28392581 A T 202.75 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=60.00;MQ0=0;OQ=3080.88;QD=37.57;SB=-1178.49 GT:AD:DP:GL:GQ 1/1:0,82:82:-311.69,-24.70,-0.02:99
chr2 1128613 rs28691715 A G 359.72 PASS AC=2;AF=1.00;AN=2;DB;DP=102;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3755.96;QD=36.82;SB=-1802.73 GT:AD:DP:GL:GQ 1/1:0,102:102:-374.60,-30.72,-0.03:99
chr2 1128627 rs28566876 A G 427.83 PASS AC=2;AF=1.00;AN=2;DB;DP=102;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3764.68;QD=36.91;SB=-1862.46 GT:AD:DP:GL:GQ 1/1:0,102:102:-375.47,-30.72,-0.02:99
chr2 1129111 rs4971385 T C 284.51 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.00;MQ0=0;OQ=1947.38;QD=34.77;SB=-932.39 GT:AD:DP:GL:GQ 1/1:0,56:55:-198.34,-16.57,-0.02:99
chr2 1129287 rs4971389 A G 104.05 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=59.69;MQ0=0;OQ=2057.84;QD=33.74;SB=-729.25 GT:AD:DP:GL:GQ 1/1:0,61:58:-209.40,-17.48,-0.03:99
chr2 1129807 rs28362094 C A 534.40 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.32;MQ0=0;OQ=2441.80;QD=35.91;SB=-1126.35 GT:AD:DP:GL:GQ 1/1:0,68:67:-247.78,-20.18,-0.02:99
chr2 1129836 rs28665529 G A 32.46 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=2.47;MQ=59.38;MQ0=0;OQ=2977.33;QD=40.23;SB=-1082.44 GT:AD:DP:GL:GQ 1/1:0,74:74:-301.34,-22.29,-0.02:99
chr2 1129973 rs28472577 C T 218.52 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=1.12;MQ=59.30;MQ0=0;OQ=2940.55;QD=36.76;SB=-1182.07 GT:AD:DP:GL:GQ 1/1:0,80:75:-297.67,-22.60,-0.03:99
chr2 1130285 rs28673093 G C 178.21 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.41;MQ=59.25;MQ0=0;OQ=2475.32;QD=36.40;SB=-905.01 GT:AD:DP:GL:GQ 1/1:1,67:62:-251.16,-18.70,-0.04:99
chr2 1130308 rs28417760 A G 271.65 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=2350.76;QD=34.07;SB=-1107.14 GT:AD:DP:GL:GQ 1/1:0,69:66:-238.69,-19.89,-0.03:99
chr2 1130766 rs7598386 A G 628.91 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=2731.39;QD=35.94;SB=-1011.10 GT:AD:DP:GL:GQ 1/1:0,76:74:-276.74,-22.29,-0.02:99
chr2 1131516 rs7560835 G A 504.05 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3283.73;QD=40.54;SB=-1349.81 GT:AD:DP:GL:GQ 1/1:0,81:80:-327.37,-24.10,-0.02:99
chr2 1131523 rs7588189 C A 635.19 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.76;MQ0=0;OQ=2782.78;QD=36.14;SB=-1215.28 GT:AD:DP:GL:GQ 1/1:0,77:77:-281.88,-23.19,-0.02:99
chr2 1132961 rs28701475 A G 72.55 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.46;MQ0=0;OQ=2575.95;QD=33.45;SB=-1135.47 GT:AD:DP:GL:GQ 1/1:0,77:73:-261.21,-21.99,-0.03:99
chr2 1133104 rs28658151 T C 529.27 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.53;MQ0=0;OQ=1774.29;QD=30.07;SB=-863.67 GT:AD:DP:GL:GQ 1/1:0,58:57:-181.06,-17.19,-0.05:99
chr2 1133129 rs28525435 C T 520.89 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.18;MQ0=0;OQ=2442.94;QD=39.40;SB=-1185.07 GT:AD:DP:GL:GQ 1/1:0,62:60:-247.89,-18.07,-0.01:99
chr2 1133277 rs4998212 T C 86.53 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=3.55;MQ=59.22;MQ0=0;OQ=2831.90;QD=34.12;SB=-1305.48 GT:AD:DP:GL:GQ 1/1:0,83:81:-286.81,-24.40,-0.03:99
chr2 1133328 rs4998211 A C 38.60 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=2;HaplotypeScore=1.99;MQ=58.82;MQ0=0;OQ=2597.05;QD=34.63;SB=-950.09 GT:AD:DP:GL:GQ 1/1:1,74:74:-266.25,-22.29,-2.96:99
chr2 1133435 rs4998210 A G 12.63 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=4.94;MQ=58.83;MQ0=0;OQ=1767.04;QD=33.98;SB=-790.14 GT:AD:DP:GL:GQ 1/1:0,52:50:-180.30,-15.06,-0.02:99
chr2 1133585 rs28580010 C A 277.42 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.92;MQ0=0;OQ=3076.81;QD=37.52;SB=-1510.84 GT:AD:DP:GL:GQ 1/1:0,82:82:-311.28,-24.69,-0.02:99
chr2 1133600 rs28430633 G A 436.38 PASS AC=2;AF=1.00;AN=2;DB;DP=88;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.73;MQ0=0;OQ=3575.72;QD=40.63;SB=-1720.99 GT:AD:DP:GL:GQ 1/1:0,88:88:-356.57,-26.51,-0.02:99
chr2 1133661 rs28444602 C A 147.73 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=0.74;MQ=59.06;MQ0=0;OQ=2722.21;QD=36.79;SB=-1127.30 GT:AD:DP:GL:GQ 1/1:0,74:74:-275.83,-22.29,-0.02:99
chr2 1133751 rs7420885 G T 562.42 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.95;MQ0=0;OQ=1534.71;QD=34.88;SB=-710.96 GT:AD:DP:GL:GQ 1/1:0,44:44:-157.07,-13.25,-0.02:99
chr2 1133787 rs28668882 A G 125.80 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.98;MQ=59.53;MQ0=0;OQ=1457.77;QD=29.75;SB=-611.96 GT:AD:DP:GL:GQ 1/1:1,48:46:-149.40,-13.87,-0.04:99
chr2 1133803 rs28468659 T C 13.66 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=3;HaplotypeScore=0.16;MQ=59.59;MQ0=0;OQ=1870.87;QD=33.41;SB=-842.97 GT:AD:DP:GL:GQ 1/1:0,56:54:-190.70,-16.27,-0.03:99
chr2 1133817 rs28534382 A G 624.85 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.61;MQ0=0;OQ=2087.56;QD=35.38;SB=-976.94 GT:AD:DP:GL:GQ 1/1:0,59:59:-212.36,-17.77,-0.02:99
chr2 1133901 rs28653466 G A 0.15 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=4;HaplotypeScore=2.94;MQ=59.65;MQ0=0;OQ=2546.06;QD=39.17;SB=-917.67 GT:AD:DP:GL:GQ 1/1:1,64:64:-258.21,-19.28,-0.02:99
chr2 1134000 rs28380583 T C 70.74 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=2.15;MQ=59.27;MQ0=0;OQ=2178.05;QD=34.57;SB=-1057.82 GT:AD:DP:GL:GQ 1/1:0,62:62:-221.42,-18.68,-0.03:99
chr2 1134007 rs62105978 G T 195.80 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=59.22;MQ0=0;OQ=2146.97;QD=36.39;SB=-905.65 GT:AD:DP:GL:GQ 1/1:0,59:59:-218.30,-17.77,-0.01:99
chr2 1134055 rs62105979 C T 150.01 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=3.00;MQ=59.19;MQ0=0;OQ=2026.37;QD=35.55;SB=-1026.88 GT:AD:DP:GL:GQ 1/1:0,56:53:-206.24,-15.97,-0.02:99
chr2 1134130 rs62105980 C T 156.75 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=2.14;MQ=59.01;MQ0=0;OQ=1703.00;QD=36.23;SB=-841.15 GT:AD:DP:GL:GQ 1/1:0,46:44:-173.90,-13.26,-0.01:99
chr2 1134198 . T A 88.10 PASS AC=2;AF=1.00;AN=2;DP=46;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.50;MQ0=0;OQ=1633.93;QD=35.52;SB=-668.31 GT:AD:DP:GL:GQ 1/1:0,46:46:-167.01,-13.87,-0.03:99
chr2 1134233 . G T 310.03 PASS AC=2;AF=1.00;AN=2;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.84;MQ0=0;OQ=1651.30;QD=34.40;SB=-788.45 GT:AD:DP:GL:GQ 1/1:0,48:46:-168.73,-13.86,-0.02:99
chr2 1134246 . T G 307.49 PASS AC=2;AF=1.00;AN=2;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=58.94;MQ0=0;OQ=1642.90;QD=34.23;SB=-784.08 GT:AD:DP:GL:GQ 1/1:0,48:47:-167.89,-14.15,-0.01:99
chr2 1134280 . C T 389.50 PASS AC=2;AF=1.00;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.19;MQ0=0;OQ=1990.15;QD=38.27;SB=-844.63 GT:AD:DP:GL:GQ 1/1:0,52:50:-202.61,-15.06,-0.01:99
chr2 1134309 . G A 15.24 PASS AC=2;AF=1.00;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=56.37;MQ0=0;OQ=1754.87;QD=37.34;SB=-654.67 GT:AD:DP:GL:GQ 1/1:0,47:45:-179.08,-13.56,-0.01:99
chr2 1134319 . G C 10.05 PASS AC=2;AF=1.00;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=56.37;MQ0=0;OQ=1910.46;QD=40.65;SB=-835.30 GT:AD:DP:GL:GQ 1/1:0,47:45:-194.65,-13.56,-0.02:99
chr2 1134381 . A G 59.87 PASS AC=2;AF=1.00;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=59.03;MQ0=0;OQ=1717.71;QD=35.79;SB=-818.17 GT:AD:DP:GL:GQ 1/1:0,48:48:-175.37,-14.46,-0.01:99
chr2 1134405 . T C 63.80 PASS AC=2;AF=1.00;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=58.14;MQ0=0;OQ=1875.80;QD=32.34;SB=-832.93 GT:AD:DP:GL:GQ 1/1:0,58:55:-191.20,-16.57,-0.03:99
chr2 1134444 . A G 74.48 PASS AC=2;AF=1.00;AN=2;DP=58;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.93;MQ0=0;OQ=1855.14;QD=31.99;SB=-930.94 GT:AD:DP:GL:GQ 1/1:0,58:53:-189.12,-15.97,-0.02:99
chr2 1134455 rs62105981 G A 57.61 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=1.81;MQ=58.95;MQ0=0;OQ=2334.97;QD=39.58;SB=-1144.66 GT:AD:DP:GL:GQ 1/1:0,59:59:-237.10,-17.78,-0.02:99
chr2 1134477 rs62105982 T C 141.44 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=2.33;MQ=58.39;MQ0=0;OQ=1833.12;QD=30.05;SB=-864.57 GT:AD:DP:GL:GQ 1/1:0,61:58:-186.95,-17.49,-0.05:99
chr2 1134528 rs62105983 C G 2116.67 Indel AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=56.06;MQ0=0;QD=42.33;SB=-944.69 GT:AD:DP:GL:GQ 1/1:0,50:50:-215.27,-15.07,-0.02:99
chr2 1134625 . A G 1.09 PASS AC=2;AF=1.00;AN=2;DP=49;Dels=0.00;HRun=2;HaplotypeScore=0.32;MQ=43.91;MQ0=0;OQ=1393.85;QD=28.45;SB=-607.59 GT:AD:DP:GL:GQ 1/1:0,49:39:-142.98,-11.75,-0.01:99
chr2 1134629 . T C 14.40 PASS AC=2;AF=1.00;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=43.52;MQ0=0;OQ=1299.08;QD=27.06;SB=-657.32 GT:AD:DP:GL:GQ 1/1:0,48:37:-133.50,-11.14,-0.01:99
chr2 1134644 . T G 0.33 PASS AC=2;AF=1.00;AN=2;DP=46;Dels=0.00;HRun=1;HaplotypeScore=4.13;MQ=43.41;MQ0=0;OQ=1203.76;QD=26.17;SB=-562.54 GT:AD:DP:GL:GQ 1/1:1,45:35:-123.97,-10.54,-0.01:99
chr2 1134652 . T G 0.58 PASS AC=2;AF=1.00;AN=2;DP=36;Dels=0.00;HRun=1;HaplotypeScore=1.87;MQ=50.57;MQ0=0;OQ=968.48;QD=26.90;SB=-288.97 GT:AD:DP:GL:GQ 1/1:0,36:29:-100.45,-8.74,-0.02:87.22
chr2 1134699 rs4991408 T C 189.72 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=57.17;MQ0=0;OQ=1742.09;QD=34.84;SB=-860.97 GT:AD:DP:GL:GQ 1/1:0,50:50:-177.82,-15.06,-0.02:99
chr2 1134768 . T C 340.43 PASS AC=2;AF=1.00;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.80;MQ0=0;OQ=2217.20;QD=29.96;SB=-1078.24 GT:AD:DP:GL:GQ 1/1:1,73:70:-225.36,-21.11,-0.06:99
chr2 1134792 rs7425111 C A 637.62 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.36;MQ0=0;OQ=2374.73;QD=36.53;SB=-1155.35 GT:AD:DP:GL:GQ 1/1:0,65:65:-241.07,-19.58,-0.02:99
chr2 1134892 rs62105984 T A 15.32 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=6.25;MQ=35.36;MQ0=0;OQ=895.39;QD=18.27;SB=-455.58 GT:AD:DP:GL:GQ 0/1:7,40:33:-102.77,-9.95,-14.65:47.05
chr2 1134894 rs62105985 T A 1030.25 Indel AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=5.41;MQ=34.66;MQ0=0;QD=21.46;SB=-519.68 GT:AD:DP:GL:GQ 0/1:6,42:37:-117.46,-11.16,-14.56:34.02
chr2 1134921 rs60756837 G A 1.70 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.02;HRun=1;HaplotypeScore=8.15;MQ=40.96;MQ0=0;OQ=1847.45;QD=34.21;SB=-839.36 GT:AD:DP:GL:GQ 1/1:0,53:48:-188.34,-14.16,-0.01:99
chr2 1135178 rs5029023 T C 149 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=40.43;MQ0=0;OQ=1729.65;QD=26.61;SB=-552.89 GT:AD:DP:GL:GQ 1/1:0,65:49:-176.57,-14.76,-0.02:99
chr2 1135192 rs56717816 C G 165.36 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=38.77;MQ0=0;OQ=2149.31;QD=32.08;SB=-700.40 GT:AD:DP:GL:GQ 1/1:0,67:54:-218.55,-16.29,-0.04:99
chr2 1135209 rs59989750 A G 465.89 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=38.64;MQ0=0;OQ=1933.80;QD=28.44;SB=-745.17 GT:AD:DP:GL:GQ 1/1:0,68:56:-196.99,-16.87,-0.02:99
chr2 1135219 rs60063549 C G 610.39 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=39.07;MQ0=0;OQ=2209.45;QD=35.07;SB=-888.52 GT:AD:DP:GL:GQ 1/1:0,63:53:-224.55,-15.97,-0.02:99
chr2 1135324 rs58759832 A G 71.47 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=3.28;MQ=52.47;MQ0=0;OQ=1480.49;QD=29.03;SB=-708.24 GT:AD:DP:GL:GQ 1/1:0,51:43:-151.65,-12.95,-0.02:99
chr2 1135358 . G A 0.16 PASS AC=2;AF=1.00;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=6.04;MQ=44.60;MQ0=6;OQ=1560.83;QD=27.87;SB=-499.66 GT:AD:DP:GL:GQ 1/1:6,49:41:-159.69,-12.36,-0.02:99
chr2 1135394 . A G 0.15 PASS AC=2;AF=1.00;AN=2;DP=44;Dels=0.00;HRun=0;HaplotypeScore=9.58;MQ=27.35;MQ0=11;OQ=954.70;QD=21.70;SB=-341.63 GT:AD:DP:GL:GQ 1/1:11,33:28:-99.07,-8.43,-0.01:84.24
chr2 1135416 rs57544353 C T 153.83 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=32.46;MQ0=0;OQ=1566.90;QD=30.72;SB=-681.41 GT:AD:DP:GL:GQ 1/1:0,51:40:-160.29,-12.05,-0.01:99
chr2 1135442 . T C 126.24 PASS AC=2;AF=1.00;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=2.15;MQ=30.89;MQ0=1;OQ=978.19;QD=18.11;SB=-498.20 GT:AD:DP:GL:GQ 1/1:1,53:32:-101.43,-9.65,-0.03:96.21
chr2 1135459 . C T 81.54 PASS AC=2;AF=1.00;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=30.03;MQ0=1;OQ=1175.20;QD=20.99;SB=-542.73 GT:AD:DP:GL:GQ 1/1:1,55:31:-121.12,-9.34,-0.01:93.29
chr2 1135475 . G A 182 PASS AC=2;AF=1.00;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=30.33;MQ0=0;OQ=1352.75;QD=22.18;SB=-620.31 GT:AD:DP:GL:GQ 1/1:0,61:37:-138.89,-11.16,-0.03:99
chr2 1135523 . G A 1266.96 SnpCluster AC=2;AF=1.00;AN=2;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.49;MQ=26.93;MQ0=0;QD=28.15;SB=-591.81 GT:AD:DP:GL:GQ 1/1:0,45:34:-130.30,-10.25,-0.02:99
chr2 1135529 . G A 1168.07 SnpCluster AC=2;AF=1.00;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=2.79;MQ=26.92;MQ0=1;QD=27.16;SB=-593.30 GT:AD:DP:GL:GQ 1/1:1,41:31:-120.41,-9.34,-0.01:93.29
chr2 1135531 . G A 1144.57 SnpCluster AC=2;AF=1.00;AN=2;DP=42;Dels=0.00;HRun=0;HaplotypeScore=2.47;MQ=26.86;MQ0=1;QD=27.25;SB=-553.75 GT:AD:DP:GL:GQ 1/1:1,40:30:-118.05,-9.04,-0.01:90.29
chr2 1135534 . T C 1038.88 SnpCluster AC=2;AF=1.00;AN=2;DP=45;Dels=0.00;HRun=2;HaplotypeScore=2.15;MQ=26.48;MQ0=1;QD=23.09;SB=-496.18 GT:AD:DP:GL:GQ 1/1:1,44:33:-107.50,-9.95,-0.03:99
chr2 1135564 . C T 224.10 PASS AC=2;AF=1.00;AN=2;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=26.42;MQ0=1;OQ=1227.32;QD=27.27;SB=-541.68 GT:AD:DP:GL:GQ 1/1:1,44:32:-126.33,-9.64,-0.01:96.31
chr2 1135596 . A G 18.67 PASS AC=2;AF=1.00;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.85;MQ=32.47;MQ0=2;OQ=1069.85;QD=21.83;SB=-448.83 GT:AD:DP:GL:GQ 1/1:3,46:35:-110.61,-10.56,-0.04:99
chr2 1135664 . G A 79.64 PASS AC=2;AF=1.00;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=50.96;MQ0=0;OQ=2107.84;QD=34.00;SB=-1046.71 GT:AD:DP:GL:GQ 1/1:0,62:54:-214.39,-16.27,-0.02:99
chr2 1135670 . A G 3.87 PASS AC=2;AF=1.00;AN=2;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=53.08;MQ0=0;OQ=1776.33;QD=28.20;SB=-908.70 GT:AD:DP:GL:GQ 1/1:0,63:56:-181.26,-16.89,-0.05:99
chr2 1135697 . G A 460.25 PASS AC=2;AF=1.00;AN=2;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=52.73;MQ0=0;OQ=2462.80;QD=35.18;SB=-1108.97 GT:AD:DP:GL:GQ 1/1:0,70:63:-249.89,-18.99,-0.03:99
chr2 1135829 rs4284866 G A 426.34 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=50.76;MQ0=0;OQ=2158.74;QD=36.59;SB=-652.87 GT:AD:DP:GL:GQ 1/1:0,58:53:-219.47,-15.96,-0.01:99
chr2 1135849 rs28501164 G T 99.40 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=3.03;MQ=49.37;MQ0=0;OQ=1942.11;QD=31.32;SB=-653.94 GT:AD:DP:GL:GQ 1/1:0,62:54:-197.81,-16.27,-0.02:99
chr2 1136039 rs5006487 A C 193.87 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=58.59;MQ0=0;OQ=2244.59;QD=32.07;SB=-956.30 GT:AD:DP:GL:GQ 1/1:0,70:66:-228.07,-19.88,-0.03:99
chr2 1136075 rs5006486 A G 189.63 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=1.58;MQ=58.30;MQ0=0;OQ=2235.58;QD=32.40;SB=-866.01 GT:AD:DP:GL:GQ 1/1:0,69:63:-227.17,-18.98,-0.02:99
chr2 1136163 rs5006485 C T 86.17 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.52;MQ0=0;OQ=1889.01;QD=39.35;SB=-730.49 GT:AD:DP:GL:GQ 1/1:0,48:48:-192.50,-14.46,-0.01:99
chr2 1136201 rs5006484 C T 480.89 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.01;MQ0=0;OQ=1812.37;QD=38.56;SB=-506.19 GT:AD:DP:GL:GQ 1/1:0,47:46:-184.83,-13.86,-0.01:99
chr2 1136236 rs5006483 A G 0.83 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=2;HaplotypeScore=6.97;MQ=58.78;MQ0=0;OQ=1942.27;QD=34.07;SB=-703.29 GT:AD:DP:GL:GQ 1/1:0,57:56:-197.83,-16.87,-0.02:99
chr2 1136244 rs5006482 A G 1.29 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=2;HaplotypeScore=5.60;MQ=58.82;MQ0=0;OQ=1866.60;QD=31.64;SB=-646.92 GT:AD:DP:GL:GQ 1/1:0,59:57:-190.28,-17.18,-0.04:99
chr2 1136302 rs62105989 T C 535.06 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=1791.16;QD=31.42;SB=-679.87 GT:AD:DP:GL:GQ 1/1:0,57:56:-182.74,-16.88,-0.04:99
chr2 1136316 rs62105990 C T 599.10 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.61;MQ0=0;OQ=2262.96;QD=38.36;SB=-979.02 GT:AD:DP:GL:GQ 1/1:0,59:58:-229.90,-17.47,-0.02:99
chr2 1136455 rs62105991 C G 624.44 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=51.96;MQ0=0;OQ=2810.14;QD=36.50;SB=-993.19 GT:AD:DP:GL:GQ 1/1:0,77:72:-284.66,-21.73,-0.06:99
chr2 1136483 rs62105992 A G 114.33 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=51.35;MQ0=0;OQ=2196.43;QD=30.51;SB=-659.93 GT:AD:DP:GL:GQ 1/1:0,72:71:-223.30,-21.42,-0.07:99
chr2 1136535 rs62105993 G T 501.03 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.42;MQ0=0;OQ=1745.92;QD=35.63;SB=-583.50 GT:AD:DP:GL:GQ 1/1:0,49:49:-178.20,-14.76,-0.02:99
chr2 1136552 . T C 18.10 PASS AC=2;AF=1.00;AN=2;DP=43;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=57.07;MQ0=0;OQ=1495.16;QD=34.77;SB=-637.30 GT:AD:DP:GL:GQ 1/1:0,43:43:-153.11,-12.95,-0.01:99
chr2 1136575 rs4292122 G C 14.04 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=2;HaplotypeScore=1.75;MQ=57.56;MQ0=0;OQ=1791.60;QD=39.81;SB=-887.36 GT:AD:DP:GL:GQ 1/1:0,45:44:-182.77,-13.27,-0.03:99
chr2 1136699 . A G 27.82 PASS AC=2;AF=1.00;AN=2;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=50.78;MQ0=0;OQ=2093.29;QD=31.24;SB=-529.15 GT:AD:DP:GL:GQ 1/1:0,67:64:-212.95,-19.29,-0.04:99
chr2 1136756 rs4971390 G A 636.76 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=39.65;MQ0=0;OQ=2806.33;QD=36.45;SB=-1206.00 GT:AD:DP:GL:GQ 1/1:0,77:70:-284.23,-21.09,-0.02:99
chr2 1136765 rs4971477 T C 2492.27 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=38.21;MQ0=0;QD=30.39;SB=-1059.69 GT:AD:DP:GL:GQ 1/1:0,82:71:-252.84,-21.39,-0.03:99
chr2 1136773 rs4971391 A G 2479.35 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=1.97;MQ=37.86;MQ0=0;QD=30.61;SB=-1204.70 GT:AD:DP:GL:GQ 1/1:0,81:71:-251.55,-21.39,-0.03:99
chr2 1136775 rs9798483 G A 1221.69 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=1.99;MQ=38.65;MQ0=0;QD=14.90;SB=-492.00 GT:AD:DP:GL:GQ 1/1:0,82:31:-125.76,-9.34,-0.01:93.31
chr2 1136795 rs4971392 G A 16.74 PASS AC=2;AF=1.00;AN=2;DB;DP=86;Dels=0.00;HRun=3;HaplotypeScore=0.63;MQ=43.66;MQ0=0;OQ=3223.52;QD=37.48;SB=-1589.14 GT:AD:DP:GL:GQ 1/1:0,86:81:-325.97,-24.40,-0.02:99
chr2 1136828 rs4971393 A C 100.11 PASS AC=2;AF=1.00;AN=2;DB;DP=93;Dels=0.00;HRun=1;HaplotypeScore=2.77;MQ=49.13;MQ0=0;OQ=3175.62;QD=34.15;SB=-1251.14 GT:AD:DP:GL:GQ 1/1:1,92:91:-324.01,-27.41,-2.87:99
chr2 1136935 rs28505905 G A 128.57 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=49.75;MQ0=0;OQ=627.75;QD=8.05;SB=-252.69 GT:AD:DP:GL:GQ 0/1:49,29:70:-87.15,-21.09,-172.61:99
chr2 1136957 rs9798095 A G 346.14 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=47.29;MQ0=0;OQ=1263.68;QD=14.87;SB=-538.94 GT:AD:DP:GL:GQ 0/1:43,42:78:-153.15,-23.50,-145.33:99
chr2 1136970 rs9798480 T A 232.89 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=2.14;MQ=45.04;MQ0=0;OQ=950.83;QD=12.04;SB=-344.37 GT:AD:DP:GL:GQ 0/1:47,32:71:-119.75,-21.39,-145.52:99
chr2 1136995 rs9798039 C T 3.02 PASS AC=1;AF=0.50;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=2.83;MQ=44.73;MQ0=0;OQ=329.07;QD=3.74;SB=-161.25 GT:AD:DP:GL:GQ 0/1:70,18:81:-60.60,-24.41,-234.17:99
chr2 1136999 rs9798038 C T 1.71 PASS AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=3.31;MQ=45.13;MQ0=0;OQ=291.74;QD=3.24;SB=-155.49 GT:AD:DP:GL:GQ 0/1:73,17:81:-56.91,-24.45,-204.31:99
chr2 1137224 rs4246572 T C 300.76 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=54.82;MQ0=0;OQ=2247.33;QD=34.57;SB=-946.98 GT:AD:DP:GL:GQ 1/1:0,65:65:-228.34,-19.58,-0.02:99
chr2 1137596 rs4077325 T C 631.18 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.48;MQ0=0;OQ=2864.87;QD=35.81;SB=-1240.50 GT:AD:DP:GL:GQ 1/1:0,80:80:-290.10,-24.10,-0.02:99
chr2 1137706 rs4077326 A G 133.95 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=3.80;MQ=55.95;MQ0=0;OQ=2685.52;QD=34.88;SB=-1367.55 GT:AD:DP:GL:GQ 1/1:0,76:77:-274.50,-25.37,-2.36:99
chr2 1138086 rs4281933 T C 654.62 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.97;MQ0=0;OQ=2256.80;QD=30.92;SB=-1017.76 GT:AD:DP:GL:GQ 1/1:0,73:71:-229.32,-21.41,-0.06:99
chr2 1138242 rs4281934 T G 160.77 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=55.70;MQ0=0;OQ=2280.87;QD=32.58;SB=-956.08 GT:AD:DP:GL:GQ 1/1:0,70:68:-231.71,-20.49,-0.03:99
chr2 1138244 rs4502455 C G 569.18 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.28;MQ0=0;OQ=2649.19;QD=41.39;SB=-1210.85 GT:AD:DP:GL:GQ 1/1:0,64:64:-268.53,-19.29,-0.03:99
chr2 1138426 rs4305308 G A 182.41 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=3.30;MQ=59.42;MQ0=0;OQ=2846.90;QD=39.54;SB=-1238.03 GT:AD:DP:GL:GQ 1/1:0,72:71:-288.29,-21.39,-0.02:99
chr2 1138576 rs4411732 A G 1974.90 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=45.58;MQ0=1;QD=30.86;SB=-679.88 GT:AD:DP:GL:GQ 1/1:0,64:60:-201.12,-18.09,-0.04:99
chr2 1138578 rs4306743 G C 2255.34 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.37;MQ=45.80;MQ0=1;QD=35.80;SB=-976.13 GT:AD:DP:GL:GQ 1/1:0,63:58:-229.17,-17.51,-0.05:99
chr2 1138584 rs4387832 C T 2477.31 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=1.45;MQ=45.91;MQ0=1;QD=35.90;SB=-944.77 GT:AD:DP:GL:GQ 1/1:0,69:63:-251.34,-18.98,-0.02:99
chr2 1138689 rs4306744 G A 10.99 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=3.42;MQ=56.21;MQ0=0;OQ=1426.06;QD=31.69;SB=-508.64 GT:AD:DP:GL:GQ 1/1:1,44:37:-146.21,-11.15,-0.01:99
chr2 1139033 rs4443029 A G 617.35 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.42;MQ0=0;OQ=2869.38;QD=35.42;SB=-927.38 GT:AD:DP:GL:GQ 1/1:0,81:80:-290.55,-24.10,-0.02:99
chr2 1139436 rs4246573 C T 490.53 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3214.61;QD=39.69;SB=-1554.12 GT:AD:DP:GL:GQ 1/1:0,81:81:-325.07,-24.40,-0.03:99
chr2 1139803 rs4073641 A G 0.75 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=3;HaplotypeScore=3.19;MQ=59.24;MQ0=0;OQ=1693.01;QD=30.78;SB=-851.34 GT:AD:DP:GL:GQ 1/1:0,55:53:-172.93,-15.98,-0.05:99
chr2 1139884 rs4073642 A G 3.19 PASS AC=2;AF=1.00;AN=2;DB;DP=26;Dels=0.00;HRun=1;HaplotypeScore=2.19;MQ=56.35;MQ0=0;OQ=727.11;QD=27.97;SB=-189.79 GT:AD:DP:GL:GQ 1/1:0,26:23:-76.31,-6.93,-0.02:69.15
chr2 1139913 rs7579326 A G 0.56 PASS AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=3;HaplotypeScore=2.78;MQ=54.56;MQ0=0;OQ=943.78;QD=30.44;SB=-482.45 GT:AD:DP:GL:GQ 1/1:0,31:28:-97.98,-8.44,-0.01:84.23
chr2 1139954 rs7579418 A G 923.70 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=35;Dels=0.00;HRun=1;HaplotypeScore=2.08;MQ=51.52;MQ0=0;QD=26.39;SB=-354.29 GT:AD:DP:GL:GQ 1/1:0,35:30:-95.99,-9.05,-0.03:90.19
chr2 1139955 rs7591395 G T 972.65 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=31;Dels=0.00;HRun=0;HaplotypeScore=1.92;MQ=50.32;MQ0=0;QD=31.38;SB=-430.32 GT:AD:DP:GL:GQ 1/1:0,31:28:-100.86,-8.43,-0.01:84.25
chr2 1139962 rs7565726 C T 1039.82 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=1.45;MQ=51.25;MQ0=0;QD=30.58;SB=-277.33 GT:AD:DP:GL:GQ 1/1:0,32:28:-107.58,-8.44,-0.02:84.25
chr2 1140043 rs7582321 T C 124.32 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=58.84;MQ0=0;OQ=1616.98;QD=28.87;SB=-678.59 GT:AD:DP:GL:GQ 1/1:0,56:53:-165.34,-15.99,-0.06:99
chr2 1140053 rs7579519 A G 148.18 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.30;MQ0=0;OQ=2072.14;QD=34.54;SB=-797.14 GT:AD:DP:GL:GQ 1/1:0,60:59:-210.82,-17.77,-0.02:99
chr2 1140095 rs7579535 A C 735.44 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.72;MQ0=0;OQ=2336.63;QD=35.40;SB=-1132.14 GT:AD:DP:GL:GQ 1/1:0,66:66:-237.27,-19.88,-0.02:99
chr2 1140756 rs56171504 C T 78.99 PASS AC=2;AF=1.00;AN=2;DB;DP=94;Dels=0.00;HRun=0;HaplotypeScore=2.03;MQ=59.24;MQ0=1;OQ=3532.62;QD=37.58;SB=-1767.95 GT:AD:DP:GL:GQ 1/1:0,94:89:-352.26,-26.82,-0.03:99
chr2 1140860 . C A 268.38 Indel;SnpCluster AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=16.05;MQ=32.24;MQ0=0;QD=4.40;SB=-57.69 GT:AD:DP:GL:GQ 0/1:45,16:54:-46.39,-16.27,-142.50:99
chr2 1140862 . C A 1846.16 Indel;SnpCluster AC=2;AF=1.00;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=8.83;MQ=32.81;MQ0=0;QD=30.26;SB=-666.88 GT:AD:DP:GL:GQ 1/1:0,61:53:-188.22,-15.97,-0.02:99
chr2 1140864 . C A 1939.88 Indel;SnpCluster AC=2;AF=1.00;AN=2;DP=62;Dels=0.00;HRun=0;HaplotypeScore=4.59;MQ=33.42;MQ0=0;QD=31.29;SB=-705.83 GT:AD:DP:GL:GQ 1/1:0,62:56:-197.59,-16.87,-0.02:99
chr2 1140873 . T C 40.91 PASS AC=2;AF=1.00;AN=2;DP=63;Dels=0.00;HRun=0;HaplotypeScore=1.98;MQ=31.46;MQ0=0;OQ=1873.57;QD=29.74;SB=-826.02 GT:AD:DP:GL:GQ 1/1:0,63:56:-190.97,-16.87,-0.03:99
chr2 1141022 rs13408520 T G 52.05 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=1.42;MQ=55.15;MQ0=0;OQ=2662.03;QD=32.07;SB=-1212.09 GT:AD:DP:GL:GQ 1/1:0,83:77:-269.82,-23.20,-0.04:99
chr2 1141044 rs13392711 C T 6.48 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=5.40;MQ=57.20;MQ0=0;OQ=2765.17;QD=37.37;SB=-1172.07 GT:AD:DP:GL:GQ 1/1:0,73:71:-280.13,-21.39,-0.02:99
chr2 1141188 rs12714389 T A 297.39 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=48.12;MQ0=0;OQ=2249.15;QD=35.14;SB=-1113.55 GT:AD:DP:GL:GQ 1/1:0,64:60:-228.51,-18.07,-0.01:99
chr2 1141205 rs12714390 A G 306 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=49.31;MQ0=0;OQ=1970.75;QD=28.98;SB=-925.49 GT:AD:DP:GL:GQ 1/1:0,68:61:-200.71,-18.39,-0.05:99
chr2 1141282 rs12714391 C G 30.93 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=55.21;MQ0=0;OQ=2043.12;QD=40.86;SB=-723.33 GT:AD:DP:GL:GQ 1/1:0,50:48:-207.92,-14.47,-0.02:99
chr2 1141300 rs12714392 T C 30.85 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=3;HaplotypeScore=0.79;MQ=56.04;MQ0=0;OQ=1840.48;QD=34.08;SB=-860.94 GT:AD:DP:GL:GQ 1/1:0,54:54:-187.66,-16.27,-0.03:99
chr2 1141301 rs12714393 G A 183.64 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=56.11;MQ0=0;OQ=2020.31;QD=36.73;SB=-867.17 GT:AD:DP:GL:GQ 1/1:0,55:52:-205.63,-15.67,-0.02:99
chr2 1141325 rs12714394 G C 45.04 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=55.21;MQ0=0;OQ=1786.84;QD=39.71;SB=-604.97 GT:AD:DP:GL:GQ 1/1:0,45:43:-182.29,-12.97,-0.02:99
chr2 1141520 rs13033665 A G 46.69 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=2;HaplotypeScore=0.92;MQ=58.07;MQ0=0;OQ=1591.00;QD=34.59;SB=-734.15 GT:AD:DP:GL:GQ 1/1:0,46:46:-162.70,-13.86,-0.02:99
chr2 1141683 rs12714395 C A 38.10 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=4.13;MQ=56.99;MQ0=0;OQ=1371.70;QD=31.18;SB=-711.86 GT:AD:DP:GL:GQ 1/1:0,44:40:-140.77,-12.05,-0.02:99
chr2 1141869 rs4971395 A G 108.20 PASS AC=2;AF=1.00;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.13;MQ=56.60;MQ0=0;OQ=1511.89;QD=32.87;SB=-541.84 GT:AD:DP:GL:GQ 1/1:0,46:43:-154.79,-12.95,-0.02:99
chr2 1142071 rs28742101 T C 629.68 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2108.65;QD=35.74;SB=-1016.73 GT:AD:DP:GL:GQ 1/1:0,59:59:-214.47,-17.77,-0.02:99
chr2 1142179 rs4971359 C T 59.81 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=3.65;MQ=55.90;MQ0=0;OQ=1707.33;QD=35.57;SB=-737.50 GT:AD:DP:GL:GQ 1/1:0,47:44:-174.33,-13.26,-0.01:99
chr2 1142194 rs4971360 G A 580.50 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.94;MQ0=0;OQ=1604.23;QD=35.65;SB=-781.05 GT:AD:DP:GL:GQ 1/1:0,45:41:-164.02,-12.35,-0.01:99
chr2 1142206 rs4971361 A G 371.12 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=54.34;MQ0=0;OQ=1471.64;QD=30.66;SB=-662.91 GT:AD:DP:GL:GQ 1/1:0,48:47:-150.79,-14.18,-0.05:99
chr2 1142217 rs4971362 C A 129.05 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=55.81;MQ0=0;OQ=1582.89;QD=33.68;SB=-574.19 GT:AD:DP:GL:GQ 1/1:0,47:45:-161.89,-13.55,-0.01:99
chr2 1142434 rs4246561 C T 205.21 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=59.56;MQ0=0;OQ=1998.02;QD=37.70;SB=-924.21 GT:AD:DP:GL:GQ 1/1:0,53:52:-203.41,-15.67,-0.02:99
chr2 1142589 rs4971363 A G 36.17 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=2;HaplotypeScore=0.33;MQ=58.47;MQ0=0;OQ=2547.63;QD=33.52;SB=-1181.62 GT:AD:DP:GL:GQ 1/1:0,76:73:-258.38,-22.00,-0.04:99
chr2 1142590 rs4971364 T A 102.49 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.33;MQ=58.47;MQ0=0;OQ=2567.92;QD=33.79;SB=-1076.49 GT:AD:DP:GL:GQ 1/1:0,76:70:-260.40,-21.09,-0.03:99
chr2 1142696 rs4246562 C A 505.36 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=1889.89;QD=35.66;SB=-870.25 GT:AD:DP:GL:GQ 1/1:0,53:52:-192.59,-15.66,-0.01:99
chr2 1142707 rs4246563 A G 649.67 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1780.45;QD=31.79;SB=-710.84 GT:AD:DP:GL:GQ 1/1:0,56:56:-181.67,-16.88,-0.04:99
chr2 1142921 rs4246564 A G 105.24 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=1.15;MQ=59.56;MQ0=0;OQ=1821.93;QD=34.38;SB=-869.00 GT:AD:DP:GL:GQ 1/1:0,53:53:-185.80,-15.97,-0.03:99
chr2 1142946 rs4246565 T G 567.55 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.53;MQ0=0;OQ=1578.10;QD=32.21;SB=-771.93 GT:AD:DP:GL:GQ 1/1:0,49:47:-161.42,-14.16,-0.02:99
chr2 1143153 rs4246566 C A 89.62 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=2352.01;QD=36.75;SB=-1007.79 GT:AD:DP:GL:GQ 1/1:0,64:64:-238.80,-19.27,-0.02:99
chr2 1143307 rs4971365 T C 205.60 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=59.37;MQ0=0;OQ=2358.59;QD=35.74;SB=-972.04 GT:AD:DP:GL:GQ 1/1:0,66:66:-239.47,-19.88,-0.03:99
chr2 1143552 rs4971396 T G 724.16 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=2469.20;QD=34.78;SB=-1215.13 GT:AD:DP:GL:GQ 1/1:0,71:70:-250.52,-21.08,-0.02:99
chr2 1143698 rs4246567 G C 200.37 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.49;MQ=59.70;MQ0=0;OQ=2371.85;QD=37.65;SB=-1148.27 GT:AD:DP:GL:GQ 1/1:0,63:61:-240.83,-18.42,-0.06:99
chr2 1143853 rs28688281 C A 32.69 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=1;HaplotypeScore=3.38;MQ=59.69;MQ0=0;OQ=2459.95;QD=33.24;SB=-1052.85 GT:AD:DP:GL:GQ 1/1:0,74:72:-249.62,-21.70,-0.04:99
chr2 1143873 rs28710881 A G 179.14 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=59.48;MQ0=0;OQ=2805.57;QD=35.07;SB=-1416.52 GT:AD:DP:GL:GQ 1/1:0,80:78:-284.16,-23.49,-0.02:99
chr2 1144032 rs6724202 A G 79.51 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=1.58;MQ=58.49;MQ0=0;OQ=2072.75;QD=34.55;SB=-892.04 GT:AD:DP:GL:GQ 1/1:0,60:58:-210.89,-17.48,-0.03:99
chr2 1144100 rs28492884 T C 88.29 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.48;MQ0=0;OQ=1287.90;QD=29.27;SB=-568.77 GT:AD:DP:GL:GQ 1/1:0,44:42:-132.43,-12.68,-0.05:99
chr2 1144206 rs6724355 A G 624.99 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.28;MQ0=0;OQ=2013.36;QD=34.71;SB=-1001.35 GT:AD:DP:GL:GQ 1/1:0,58:58:-204.95,-17.47,-0.03:99
chr2 1144652 rs4276058 G A 559.41 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.75;MQ0=0;OQ=2954.80;QD=39.93;SB=-970.29 GT:AD:DP:GL:GQ 1/1:0,74:74:-299.08,-22.29,-0.02:99
chr2 1144664 rs4467306 G A 701.32 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2959.48;QD=39.46;SB=-1089.96 GT:AD:DP:GL:GQ 1/1:0,75:74:-299.55,-22.29,-0.02:99
chr2 1144684 rs4455190 T A 615.50 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2572.55;QD=36.75;SB=-953.11 GT:AD:DP:GL:GQ 1/1:0,70:69:-260.86,-20.78,-0.02:99
chr2 1144790 rs62106022 A G 2151.75 Indel AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=12.15;MQ=44.36;MQ0=0;QD=33.10;SB=-1089.82 GT:AD:DP:GL:GQ 1/1:1,64:61:-218.78,-18.37,-0.02:99
chr2 1144920 . A T 12.18 DPFilter;Indel;LowQual AC=1;AF=0.50;AN=2;DP=66;Dels=0.02;HRun=0;HaplotypeScore=9.99;MQ=58.79;MQ0=1;QD=0.18;SB=25.80 GT:AD:DP:GL:GQ 0/1:59,6:64:-23.46,-18.99,-208.90:44.75
chr2 1145190 rs28607138 T C 596.56 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.27;MQ0=0;OQ=2852.57;QD=35.22;SB=-1395.50 GT:AD:DP:GL:GQ 1/1:0,81:81:-288.87,-24.40,-0.03:99
chr2 1145349 rs28397001 A G 461.53 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.78;MQ0=0;OQ=2949.22;QD=35.53;SB=-1501.44 GT:AD:DP:GL:GQ 1/1:0,83:81:-298.53,-24.39,-0.02:99
chr2 1145442 rs28756030 T C 633.49 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.19;MQ0=0;OQ=2452.89;QD=35.55;SB=-1181.16 GT:AD:DP:GL:GQ 1/1:0,69:69:-248.89,-20.78,-0.02:99
chr2 1145670 rs28690645 G A 605.55 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.75;MQ0=0;OQ=3003.36;QD=40.04;SB=-1377.85 GT:AD:DP:GL:GQ 1/1:0,75:75:-303.94,-22.59,-0.02:99
chr2 1146084 rs28702399 A G 631.39 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.74;MQ0=0;OQ=2504.78;QD=35.28;SB=-1179.16 GT:AD:DP:GL:GQ 1/1:0,71:71:-254.09,-21.39,-0.02:99
chr2 1146149 rs28459887 T C 494.20 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.11;MQ0=0;OQ=2305.65;QD=33.91;SB=-1173.70 GT:AD:DP:GL:GQ 1/1:0,68:66:-234.18,-19.88,-0.03:99
chr2 1146244 rs28698039 G A 460.02 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.52;MQ0=0;OQ=1532.25;QD=39.29;SB=-683.42 GT:AD:DP:GL:GQ 1/1:0,39:39:-156.82,-11.75,-0.01:99
chr2 1146377 rs28689776 G T 206.68 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.84;MQ=59.63;MQ0=0;OQ=2181.23;QD=35.18;SB=-1080.40 GT:AD:DP:GL:GQ 1/1:0,62:62:-221.73,-18.68,-0.02:99
chr2 1146473 rs28405115 C T 605.38 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=2212.21;QD=39.50;SB=-1130.04 GT:AD:DP:GL:GQ 1/1:0,56:56:-224.82,-16.87,-0.02:99
chr2 1146484 rs28736442 G C 579.56 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.19;MQ0=0;OQ=1982.11;QD=38.12;SB=-889.93 GT:AD:DP:GL:GQ 1/1:0,52:51:-201.84,-15.39,-0.04:99
chr2 1146516 rs28666794 C G 53.48 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=59.15;MQ0=0;OQ=1991.45;QD=40.64;SB=-847.33 GT:AD:DP:GL:GQ 1/1:0,49:46:-202.74,-13.86,-0.01:99
chr2 1146747 rs28655082 C T 212.12 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=56.87;MQ0=0;OQ=2763.51;QD=37.34;SB=-1299.35 GT:AD:DP:GL:GQ 1/1:0,74:72:-279.97,-21.70,-0.03:99
chr2 1146771 rs28756295 C T 536.56 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=57.03;MQ0=0;OQ=2670.79;QD=38.15;SB=-1279.70 GT:AD:DP:GL:GQ 1/1:0,70:67:-270.68,-20.18,-0.02:99
chr2 1146815 rs28736579 A G 188.59 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.98;MQ=58.27;MQ0=0;OQ=1832.51;QD=33.94;SB=-881.00 GT:AD:DP:GL:GQ 1/1:0,54:54:-186.86,-16.27,-0.03:99
chr2 1146902 rs28709327 A G 533.42 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2057.95;QD=31.18;SB=-689.89 GT:AD:DP:GL:GQ 1/1:0,66:63:-209.42,-18.99,-0.04:99
chr2 1146946 rs28550075 A G 264.28 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=2660.49;QD=34.11;SB=-1187.74 GT:AD:DP:GL:GQ 1/1:0,78:76:-269.66,-22.89,-0.03:99
chr2 1147376 rs4971366 G A 674.63 PASS AC=2;AF=1.00;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.87;MQ0=0;OQ=3563.78;QD=40.04;SB=-1031.68 GT:AD:DP:GL:GQ 1/1:0,89:88:-355.38,-26.51,-0.02:99
chr2 1147465 rs4971399 A G 608.48 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.91;MQ0=0;OQ=2420.38;QD=35.08;SB=-879.03 GT:AD:DP:GL:GQ 1/1:0,69:68:-245.65,-20.48,-0.02:99
chr2 1147470 rs4971400 T C 482.82 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.35;MQ0=0;OQ=1977.14;QD=30.89;SB=-535.15 GT:AD:DP:GL:GQ 1/1:0,64:61:-201.35,-18.39,-0.05:99
chr2 1147531 rs4971401 C T 92.78 PASS AC=2;AF=1.00;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=2.26;MQ=42.48;MQ0=2;OQ=1137.47;QD=28.44;SB=-542.68 GT:AD:DP:GL:GQ 1/1:2,36:32:-117.36,-9.66,-0.03:96.27
chr2 1147588 rs4971367 G A 63.06 PASS AC=2;AF=1.00;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=36.77;MQ0=3;OQ=1105.20;QD=33.49;SB=-383.02 GT:AD:DP:GL:GQ 1/1:3,30:29:-114.12,-8.74,-0.01:87.28
chr2 1147684 rs28465470 C T 609.39 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.02;MQ0=0;OQ=2070.54;QD=38.34;SB=-1025.38 GT:AD:DP:GL:GQ 1/1:0,54:53:-210.65,-15.97,-0.02:99
chr2 1147705 rs28631907 G A 156.43 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=55.57;MQ0=0;OQ=1882.81;QD=38.42;SB=-901.30 GT:AD:DP:GL:GQ 1/1:0,49:49:-191.89,-14.77,-0.02:99
chr2 1148213 rs12988033 T C 62.06 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=60.00;MQ0=0;OQ=1838.37;QD=31.16;SB=-591.02 GT:AD:DP:GL:GQ 1/1:0,59:56:-187.46,-16.88,-0.04:99
chr2 1149260 . G A 25.09 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=1;HaplotypeScore=2.20;MQ=60.00;MQ0=0;OQ=887.50;QD=16.75;SB=-352.89 GT:AD:DP:GL:GQ 0/1:26,27:52:-107.71,-15.67,-78.65:99
chr2 1153524 . A G 38.37 LowQual AC=1;AF=0.50;AN=2;DP=20;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=39.20;MQ0=3;QD=1.92;SB=-33.92 GT:AD:DP:GL:GQ 0/1:12,8:13:-11.04,-3.92,-38.30:71.20
chr2 1153639 rs28658395 C G 21.71 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=8.80;MQ=26.05;MQ0=12;QD=0.48;SB=5.05 GT:AD:DP:GL:GQ 0/1:37,7:24:-12.69,-7.24,-83.71:54.52
chr2 1153776 rs34639305 C T 2.33 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=7.02;MQ=34.59;MQ0=6;OQ=467.70;QD=11.99;SB=-66.05 GT:AD:DP:GL:GQ 0/1:18,20:26:-57.90,-7.84,-33.80:99
chr2 1153792 rs35564730 T A 15.76 LowQual AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=43.69;MQ0=2;QD=0.46;SB=-14.61 GT:AD:DP:GL:GQ 0/1:25,9:24:-12.08,-7.23,-74.22:48.48
chr2 1154548 rs58800470 A G 248.30 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=0.99;MQ=59.62;MQ0=0;OQ=957.75;QD=15.96;SB=-395.29 GT:AD:DP:GL:GQ 0/1:28,32:60:-117.14,-18.08,-110.29:99
chr2 1154595 rs4453719 G A 64.48 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=3;HaplotypeScore=1.37;MQ=59.60;MQ0=0;OQ=984.84;QD=16.98;SB=-355.47 GT:AD:DP:GL:GQ 0/1:29,29:57:-118.94,-17.17,-100.43:99
chr2 1155274 rs5024304 T C 20.24 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=2;HaplotypeScore=1.86;MQ=58.23;MQ0=0;OQ=580.92;QD=8.80;SB=-251.16 GT:AD:DP:GL:GQ 0/1:37,29:59:-79.16,-17.78,-143.02:99
chr2 1155466 rs7585498 C G 206.53 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=2.58;MQ=59.56;MQ0=0;OQ=595.51;QD=14.18;SB=-281.54 GT:AD:DP:GL:GQ 0/1:23,19:41:-75.20,-12.37,-95.05:99
chr2 1157583 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=2;HaplotypeScore=4.92;MQ=59.47;MQ0=0;OQ=53.60;QD=1.53;SB=56.21 GT:AD:DP:GL:GQ 0/1:27,8:30:-17.68,-9.04,-93.16:86.44
chr2 1158781 rs28505970 C A 163.16 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=3.30;MQ=59.60;MQ0=0;OQ=1082.05;QD=18.98;SB=-546.85 GT:AD:DP:GL:GQ 0/1:19,38:54:-127.75,-16.27,-65.56:99
chr2 1160480 rs6705048 G C 445.36 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.75;MQ0=0;OQ=1336.95;QD=18.07;SB=-676.28 GT:AD:DP:GL:GQ 0/1:37,37:73:-158.98,-22.00,-159.22:99
chr2 1161848 rs34229442 A G 209.19 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=2.67;MQ=59.51;MQ0=0;OQ=1046.12;QD=12.31;SB=-468.22 GT:AD:DP:GL:GQ 0/1:47,37:84:-133.20,-25.30,-192.22:99
chr2 1163151 rs4971404 G C 142.09 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.86;MQ=59.58;MQ0=0;OQ=1010.83;QD=18.38;SB=-350.45 GT:AD:DP:GL:GQ 0/1:27,28:53:-120.34,-15.97,-106.41:99
chr2 1163285 rs6714337 G A 325.61 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=1.83;MQ=59.74;MQ0=0;OQ=959.79;QD=13.33;SB=-492.97 GT:AD:DP:GL:GQ 0/1:42,30:72:-120.95,-21.69,-153.89:99
chr2 1163710 rs4464311 T C 325.40 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=1.91;MQ=55.16;MQ0=0;OQ=1049.19;QD=15.43;SB=-399.23 GT:AD:DP:GL:GQ 0/1:33,35:67:-128.38,-20.18,-132.64:99
chr2 1164602 rs12616660 T G 0.66 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=6.57;MQ=41.20;MQ0=3;OQ=299.16;QD=4.83;SB=-147.19 GT:AD:DP:GL:GQ 0/1:37,25:50:-48.26,-15.06,-134.54:99
chr2 1168046 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=19;HaplotypeScore=13.60;MQ=59.64;MQ0=0;OQ=140.10;QD=2.19;SB=107.37 GT:AD:DP:GL:GQ 0/1:50,13:55:-33.86,-16.57,-164.24:99
chr2 1168066 . C A 39.75 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=81;Dels=0.01;HRun=19;HaplotypeScore=16.05;MQ=58.23;MQ0=0;QD=0.49;SB=83.26 GT:AD:DP:GL:GQ 0/1:63,17:58:-24.43,-17.17,-167.36:72.59
chr2 1168149 rs6721422 A G 214.28 PASS AC=2;AF=1.00;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.52;MQ0=0;OQ=3154.29;QD=36.26;SB=-1499.43 GT:AD:DP:GL:GQ 1/1:0,87:87:-319.04,-26.20,-0.02:99
chr2 1168422 rs28594422 A G 420.70 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.14;MQ0=0;OQ=1196.82;QD=15.75;SB=-307.34 GT:AD:DP:GL:GQ 0/1:34,42:76:-145.86,-22.90,-137.59:99
chr2 1171367 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=3;HaplotypeScore=3.17;MQ=57.75;MQ0=0;OQ=100.43;QD=2.09;SB=59.22 GT:AD:DP:GL:GQ 0/1:34,14:35:-23.88,-10.56,-105.66:99
chr2 1171965 rs28762470 G A 506.27 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3323.14;QD=40.04;SB=-1445.36 GT:AD:DP:GL:GQ 1/1:0,83:83:-331.31,-25.00,-0.02:99
chr2 1174107 rs4971408 G A 208.67 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.13;MQ0=0;OQ=1481.82;QD=21.17;SB=-673.71 GT:AD:DP:GL:GQ 0/1:28,42:70:-172.55,-21.08,-102.84:99
chr2 1176413 rs7571264 C T 3.09 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=60.00;MQ0=0;OQ=665.93;QD=20.18;SB=-10.00 GT:AD:DP:GL:GQ 0/1:13,20:33:-79.82,-9.94,-44.29:99
chr2 1180062 rs34895780 A G 243.91 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=2.39;MQ=60.00;MQ0=0;OQ=1201.72;QD=15.81;SB=-575.91 GT:AD:DP:GL:GQ 0/1:36,40:76:-146.35,-22.90,-141.14:99
chr2 1180587 rs6715732 C T 318.87 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=59.71;MQ0=0;OQ=1000.88;QD=15.40;SB=-524.02 GT:AD:DP:GL:GQ 0/1:35,30:64:-122.65,-19.28,-125.46:99
chr2 1180733 rs62107165 A G 142.86 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=2.82;MQ=59.37;MQ0=0;OQ=1071.33;QD=16.23;SB=-501.28 GT:AD:DP:GL:GQ 0/1:30,36:66:-130.30,-19.88,-123.86:99
chr2 1181042 rs7592964 G A 269.64 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=58.40;MQ0=1;OQ=1048.98;QD=17.48;SB=-412.43 GT:AD:DP:GL:GQ 0/1:29,31:59:-125.96,-17.78,-90.00:99
chr2 1182183 rs28696005 A G 457.60 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.48;MQ0=0;OQ=1177.68;QD=14.72;SB=-591.92 GT:AD:DP:GL:GQ 0/1:40,40:79:-144.85,-23.79,-157.90:99
chr2 1183231 rs34029327 G A 1054.44 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=6.43;MQ=56.12;MQ0=0;QD=15.06;SB=-437.92 GT:AD:DP:GL:GQ 0/1:35,35:64:-128.01,-19.28,-113.39:99
chr2 1183233 . G A 1121.75 SnpCluster AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=6.81;MQ=56.00;MQ0=0;QD=16.50;SB=-430.93 GT:AD:DP:GL:GQ 0/1:34,34:65:-135.04,-19.58,-109.62:99
chr2 1183235 . G A 1179.42 SnpCluster AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=0;HaplotypeScore=6.97;MQ=56.30;MQ0=0;QD=17.60;SB=-439.94 GT:AD:DP:GL:GQ 0/1:32,35:63:-140.21,-18.98,-97.16:99
chr2 1183852 rs28570396 G A 99.16 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.41;MQ0=1;OQ=3367.06;QD=40.57;SB=-1500.51 GT:AD:DP:GL:GQ 1/1:1,82:81:-335.71,-24.39,-0.01:99
chr2 1184056 rs62107166 T A 209.82 PASS AC=1;AF=0.50;AN=2;DB;DP=98;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=59.81;MQ0=0;OQ=1776.04;QD=18.12;SB=-697.91 GT:AD:DP:GL:GQ 0/1:43,54:96:-212.12,-31.24,-156.75:99
chr2 1184083 rs6743070 A C 100.47 PASS AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.00;HRun=1;HaplotypeScore=2.66;MQ=59.47;MQ0=1;OQ=1419.67;QD=15.43;SB=-663.70 GT:AD:DP:GL:GQ 0/1:43,49:89:-172.05,-26.80,-157.02:99
chr2 1186202 rs4266053 A G 269.34 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=59.12;MQ0=0;OQ=940.38;QD=11.90;SB=-486.94 GT:AD:DP:GL:GQ 0/1:46,33:78:-120.82,-23.50,-176.73:99
chr2 1186344 rs28846805 C G 188.78 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.98;MQ=59.38;MQ0=0;OQ=1326.11;QD=19.79;SB=-632.58 GT:AD:DP:GL:GQ 0/1:31,36:67:-156.08,-20.19,-136.97:99
chr2 1187399 rs6714307 G A 236.58 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.61;MQ0=0;OQ=2378.92;QD=40.32;SB=-1133.04 GT:AD:DP:GL:GQ 1/1:0,59:59:-241.49,-17.77,-0.01:99
chr2 1187602 rs6761813 T G 486.11 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1058.43;QD=13.57;SB=-480.73 GT:AD:DP:GL:GQ 0/1:40,38:78:-132.62,-23.49,-151.09:99
chr2 1187690 . A C 256.16 PASS AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.47;MQ0=0;OQ=917.30;QD=12.92;SB=-265.36 GT:AD:DP:GL:GQ 0/1:38,33:70:-116.09,-21.08,-139.02:99
chr2 1189359 . A T 454.19 Indel AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=88.87;MQ=53.93;MQ0=1;QD=12.28;SB=-114.43 GT:AD:DP:GL:GQ 0/1:18,19:32:-58.34,-9.64,-61.37:99
chr2 1189378 rs57992942 G A 1.52 PASS AC=1;AF=0.50;AN=2;DB;DP=40;Dels=0.00;HRun=0;HaplotypeScore=6.00;MQ=55.10;MQ0=1;OQ=849.25;QD=21.23;SB=-398.96 GT:AD:DP:GL:GQ 0/1:14,26:37:-99.36,-11.15,-42.58:99
chr2 1189380 . G A 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=6.00;MQ=55.10;MQ0=1;OQ=91.28;QD=2.28;SB=23.55 GT:AD:DP:GL:GQ 0/1:34,6:38:-23.86,-11.45,-114.13:99
chr2 1189718 . C T 190.43 PASS AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=57.36;MQ0=0;OQ=1058.99;QD=16.05;SB=-533.74 GT:AD:DP:GL:GQ 0/1:33,33:64:-128.46,-19.28,-113.71:99
chr2 1189831 rs28607514 A G 468.54 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.64;MQ0=0;OQ=1142.35;QD=17.85;SB=-519.29 GT:AD:DP:GL:GQ 0/1:27,37:63:-136.49,-18.98,-104.57:99
chr2 1190496 rs6704935 G A 344.55 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.69;MQ0=0;OQ=1299.02;QD=17.55;SB=-565.61 GT:AD:DP:GL:GQ 0/1:36,38:74:-155.47,-22.29,-133.01:99
chr2 1193337 rs4446093 A G 721.45 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=2182.15;QD=35.20;SB=-943.37 GT:AD:DP:GL:GQ 1/1:0,62:61:-221.82,-18.37,-0.02:99
chr2 1193542 rs6707191 T C 220.85 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=2.31;MQ=59.25;MQ0=0;OQ=905.77;QD=16.17;SB=-367.62 GT:AD:DP:GL:GQ 0/1:23,33:54:-110.13,-16.27,-89.59:99
chr2 1193922 rs62107169 G C 742.54 Indel AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=7.61;MQ=58.14;MQ0=0;QD=14.56;SB=-320.18 GT:AD:DP:GL:GQ 0/1:29,22:50:-92.62,-15.08,-116.41:99
chr2 1198845 rs7575324 G A 151.09 PASS AC=2;AF=1.00;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=3.64;MQ=58.93;MQ0=0;OQ=3468.53;QD=39.42;SB=-1216.62 GT:AD:DP:GL:GQ 1/1:0,88:85:-345.85,-25.60,-0.02:99
chr2 1202179 rs28420100 A C 241.06 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=32.96;MQ0=1;OQ=1591.55;QD=29.47;SB=-365.04 GT:AD:DP:GL:GQ 1/1:0,54:44:-162.75,-13.25,-0.01:99
chr2 1203295 rs4971417 T C 567.58 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.35;MQ0=0;OQ=2482.56;QD=34.97;SB=-727.30 GT:AD:DP:GL:GQ 1/1:0,71:68:-251.86,-20.48,-0.02:99
chr2 1203322 rs28411226 C T 598.48 PASS AC=2;AF=1.00;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=3442.08;QD=40.50;SB=-1366.84 GT:AD:DP:GL:GQ 1/1:0,85:85:-343.21,-25.60,-0.02:99
chr2 1204195 rs28478841 T C 121.74 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.63;MQ=58.76;MQ0=0;OQ=1913.89;QD=34.18;SB=-845.97 GT:AD:DP:GL:GQ 1/1:0,56:55:-195.00,-16.57,-0.02:99
chr2 1204653 rs28539795 C T 79.03 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=60.00;MQ0=0;OQ=3368.50;QD=40.58;SB=-1574.61 GT:AD:DP:GL:GQ 1/1:0,83:82:-335.85,-24.70,-0.02:99
chr2 1207359 rs28971161 T C 0.06 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=1.58;MQ=42.40;MQ0=5;OQ=60.69;QD=1.10;SB=-50.65 GT:AD:DP:GL:GQ 0/1:44,11:42:-22.01,-12.66,-139.34:93.53
chr2 1207365 . T C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=56;Dels=0.02;HRun=1;HaplotypeScore=11.14;MQ=42.02;MQ0=6;OQ=161.28;QD=2.88;SB=-96.56 GT:AD:DP:GL:GQ 0/1:42,13:42:-32.06,-12.65,-131.55:99
chr2 1207404 . G C 71.50 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=58;Dels=0.03;HRun=0;HaplotypeScore=93.51;MQ=35.46;MQ0=6;QD=1.23;SB=56.22 GT:AD:DP:GL:GQ 0/1:47,9:44:-23.69,-13.26,-162.91:99
chr2 1207405 . T C 230.36 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=58;Dels=0.02;HRun=1;HaplotypeScore=91.48;MQ=35.46;MQ0=6;QD=3.97;SB=-99.63 GT:AD:DP:GL:GQ 0/1:44,13:42:-38.97,-12.65,-125.83:99
chr2 1207411 . T C 37.05 HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=1;HaplotypeScore=71.47;MQ=33.21;MQ0=7;QD=0.67;SB=-21.20 GT:AD:DP:GL:GQ 0/1:45,10:36:-17.84,-10.85,-124.61:69.89
chr2 1207416 . G C 84.08 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=46.15;MQ=32.03;MQ0=7;QD=1.65;SB=-50.68 GT:AD:DP:GL:GQ 0/1:44,7:33:-21.64,-9.95,-118.01:99
chr2 1207418 . C G 42.07 HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=39.84;MQ=32.09;MQ0=7;QD=0.84;SB=-3.31 GT:AD:DP:GL:GQ 0/1:46,4:32:-17.13,-9.64,-124.50:74.90
chr2 1207448 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=1;HaplotypeScore=21.20;MQ=29.82;MQ0=13;OQ=359.56;QD=10.58;SB=-150.60 GT:AD:DP:GL:GQ 0/1:15,19:15:-43.76,-4.52,-15.59:99
chr2 1207453 . T C 0.05 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=33;Dels=0.00;HRun=1;HaplotypeScore=11.05;MQ=29.84;MQ0=13;OQ=283.96;QD=8.60;SB=-133.76 GT:AD:DP:GL:GQ 0/1:15,18:14:-35.90,-4.22,-16.97:99
chr2 1207476 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=21;Dels=0.10;HRun=0;HaplotypeScore=17.62;MQ=20.69;MQ0=12;OQ=122.33;QD=5.83;SB=-49.46 GT:AD:DP:GL:GQ 0/1:6,13:5:-17.02,-1.51,-4.05:25.42
chr2 1207482 . C G 43.96 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=0;HaplotypeScore=12.98;MQ=17.47;MQ0=10;QD=2.59;SB=-6.99 GT:AD:DP:GL:GQ 0/1:3,14:4:-8.89,-1.21,-8.84:76.35
chr2 1207503 . A T 44.88 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=14;Dels=0.00;HRun=0;HaplotypeScore=4.99;MQ=10.96;MQ0=12;QD=3.21;SB=-10.00 GT:AD:DP:GL:GQ 1/1:11,3:2:-7.90,-0.60,-0.00:6.02
chr2 1207577 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=1;HaplotypeScore=52.41;MQ=22.26;MQ0=13;OQ=51.54;QD=1.20;SB=-36.66 GT:AD:DP:GL:GQ 0/1:38,5:18:-13.86,-5.42,-57.02:84.38
chr2 1207582 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=58.02;MQ=23.41;MQ0=15;OQ=461.57;QD=9.82;SB=-35.41 GT:AD:DP:GL:GQ 0/1:33,14:21:-55.77,-6.33,-36.65:99
chr2 1207593 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=1;HaplotypeScore=52.10;MQ=27.11;MQ0=15;OQ=289.16;QD=4.82;SB=-2.57 GT:AD:DP:GL:GQ 0/1:47,13:28:-40.64,-8.44,-66.94:99
chr2 1207601 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=1;HaplotypeScore=29.17;MQ=28.97;MQ0=14;OQ=339.32;QD=5.66;SB=-173.51 GT:AD:DP:GL:GQ 0/1:36,24:26:-45.05,-7.84,-49.15:99
chr2 1207628 . C G 49.75 DPFilter;HARD_TO_VALIDATE;Indel;LowQual AC=1;AF=0.50;AN=2;DP=60;Dels=0.00;HRun=0;HaplotypeScore=168.12;MQ=30.00;MQ0=13;QD=0.83;SB=38.16 GT:AD:DP:GL:GQ 0/1:44,16:28:-16.69,-8.44,-103.59:82.58
chr2 1207634 . C A 78.67 DPFilter;HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=54.09;MQ=30.17;MQ0=9;QD=1.40;SB=4.87 GT:AD:DP:GL:GQ 0/1:34,7:27:-28.58,-17.43,-78.97:99
chr2 1207644 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=0;HaplotypeScore=26.97;MQ=30.37;MQ0=8;OQ=187.85;QD=3.24;SB=-22.38 GT:AD:DP:GL:GQ 0/1:44,14:31:-31.41,-9.34,-103.59:99
chr2 1207670 . A C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=80;Dels=0.03;HRun=0;HaplotypeScore=18.56;MQ=35.07;MQ0=6;OQ=1088.90;QD=13.61;SB=-341.68 GT:AD:DP:GL:GQ 0/1:31,44:53:-134.86,-22.69,-58.03:99
chr2 1207752 . C G 41.41 PASS AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=41.36;MQ0=4;OQ=875.27;QD=10.18;SB=-460.31 GT:AD:DP:GL:GQ 0/1:56,30:79:-114.62,-23.81,-224.10:99
chr2 1207874 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=66;Dels=0.02;HRun=0;HaplotypeScore=33.72;MQ=34.68;MQ0=7;OQ=1413.83;QD=21.42;SB=-483.87 GT:AD:DP:GL:GQ 0/1:14,51:48:-158.83,-14.16,-44.06:99
chr2 1207878 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=30.34;MQ=34.40;MQ0=7;OQ=1427.82;QD=21.00;SB=-506.87 GT:AD:DP:GL:GQ 0/1:20,48:50:-161.13,-15.07,-49.46:99
chr2 1207894 . G C 14.35 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=31.51;MQ=32.33;MQ0=8;QD=0.25;SB=-7.32 GT:AD:DP:GL:GQ 0/1:52,5:29:-13.45,-8.74,-108.56:47.02
chr2 1207900 . G C 23.24 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=38.24;MQ=30.39;MQ0=8;QD=0.46;SB=-6.32 GT:AD:DP:GL:GQ 0/1:46,4:25:-13.15,-7.54,-92.27:56.06
chr2 1207906 . G C 372.32 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=45;Dels=0.02;HRun=0;HaplotypeScore=60.85;MQ=32.44;MQ0=6;QD=8.27;SB=-208.50 GT:AD:DP:GL:GQ 0/1:28,15:25:-47.75,-7.24,-53.89:99
chr2 1207912 . C G 200.03 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=0;HaplotypeScore=51.04;MQ=29.93;MQ0=8;QD=4.76;SB=-80.25 GT:AD:DP:GL:GQ 0/1:34,8:19:-29.01,-5.73,-54.58:99
chr2 1207914 . C G 88.76 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=0;HaplotypeScore=48.20;MQ=28.55;MQ0=8;QD=2.11;SB=-63.84 GT:AD:DP:GL:GQ 0/1:38,4:18:-17.58,-5.42,-62.52:99
chr2 1207916 . C G 175.72 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=50.20;MQ=27.29;MQ0=8;QD=4.39;SB=-83.79 GT:AD:DP:GL:GQ 0/1:23,17:15:-25.37,-4.52,-40.15:99
chr2 1207933 . T C 206.55 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=58;Dels=0.00;HRun=1;HaplotypeScore=35.21;MQ=32.93;MQ0=8;QD=3.56;SB=-55.86 GT:AD:DP:GL:GQ 0/1:42,16:37:-35.09,-11.15,-107.93:99
chr2 1207936 . C A 184.84 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=33.10;MQ=33.78;MQ0=7;QD=3.13;SB=-63.57 GT:AD:DP:GL:GQ 0/1:46,9:37:-39.33,-17.56,-102.15:99
chr2 1207940 . C T 259.48 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=64;Dels=0.00;HRun=1;HaplotypeScore=50.72;MQ=33.23;MQ0=8;QD=4.05;SB=-77.72 GT:AD:DP:GL:GQ 0/1:50,12:41:-48.38,-19.15,-112.85:99
chr2 1207953 . T C 49.23 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=83;Dels=0.01;HRun=1;HaplotypeScore=65.57;MQ=34.23;MQ0=5;QD=0.59;SB=-44.39 GT:AD:DP:GL:GQ 0/1:75,7:55:-24.78,-16.57,-191.27:82.07
chr2 1207956 . C A 53.39 SnpCluster AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=0;HaplotypeScore=71.93;MQ=33.82;MQ0=5;QD=0.62;SB=-51.41 GT:AD:DP:GL:GQ 0/1:72,9:61:-41.03,-32.41,-197.22:86.23
chr2 1207960 . C T 142.11 SnpCluster AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=1;HaplotypeScore=70.56;MQ=34.32;MQ0=5;QD=1.54;SB=-51.86 GT:AD:DP:GL:GQ 0/1:83,9:66:-37.37,-19.88,-206.88:99
chr2 1207970 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=112;Dels=0.00;HRun=0;HaplotypeScore=103.79;MQ=33.50;MQ0=6;OQ=192.08;QD=1.72;SB=-17.03 GT:AD:DP:GL:GQ 0/1:98,12:84:-47.80,-25.31,-316.93:99
chr2 1207973 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=113;Dels=0.00;HRun=1;HaplotypeScore=49.43;MQ=33.65;MQ0=5;OQ=252.53;QD=2.23;SB=-149.35 GT:AD:DP:GL:GQ 0/1:98,15:81:-52.94,-24.40,-263.51:99
chr2 1208024 . C G 1103.77 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=161;Dels=0.01;HRun=0;HaplotypeScore=194.12;MQ=30.90;MQ0=6;QD=6.86;SB=-364.44 GT:AD:DP:GL:GQ 0/1:122,38:118:-148.91,-35.25,-354.11:99
chr2 1208026 . G C 80.04 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=159;Dels=0.01;HRun=0;HaplotypeScore=188.06;MQ=30.93;MQ0=6;QD=0.50;SB=58.69 GT:AD:DP:GL:GQ 0/1:142,15:118:-46.24,-34.95,-450.34:99
chr2 1208027 . T C 729.15 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=160;Dels=0.01;HRun=1;HaplotypeScore=194.46;MQ=30.92;MQ0=6;QD=4.56;SB=-134.52 GT:AD:DP:GL:GQ 0/1:114,44:128:-114.15,-37.96,-384.15:99
chr2 1208030 . C G 168.83 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=160;Dels=0.01;HRun=0;HaplotypeScore=183.98;MQ=30.95;MQ0=6;QD=1.06;SB=37.27 GT:AD:DP:GL:GQ 0/1:121,19:129:-93.57,-73.41,-498.89:99
chr2 1208034 . C T 40.32 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=159;Dels=0.00;HRun=1;HaplotypeScore=185.36;MQ=31.11;MQ0=6;QD=0.25;SB=-2.16 GT:AD:DP:GL:GQ 0/1:146,13:139:-49.18,-41.86,-466.32:73.15
chr2 1208042 . C G 214.61 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=147;Dels=0.00;HRun=0;HaplotypeScore=99.93;MQ=31.85;MQ0=6;QD=1.46;SB=-67.85 GT:AD:DP:GL:GQ 0/1:132,15:125:-62.40,-37.66,-483.30:99
chr2 1208044 . C G 694.02 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=145;Dels=0.00;HRun=0;HaplotypeScore=99.93;MQ=31.95;MQ0=6;QD=4.79;SB=-303.46 GT:AD:DP:GL:GQ 0/1:114,31:125:-110.35,-37.66,-433.01:99
chr2 1208046 . G C 170.85 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=143;Dels=0.00;HRun=0;HaplotypeScore=75.97;MQ=31.99;MQ0=6;QD=1.19;SB=-45.74 GT:AD:DP:GL:GQ 0/1:131,12:110:-53.52,-33.15,-418.36:99
chr2 1208070 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=101;Dels=0.00;HRun=1;HaplotypeScore=112.16;MQ=31.62;MQ0=1;OQ=133.07;QD=1.32;SB=116.36 GT:AD:DP:GL:GQ 0/1:88,12:85:-42.19,-25.60,-273.45:99
chr2 1208088 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=0;HaplotypeScore=107.09;MQ=32.20;MQ0=1;OQ=275.68;QD=3.40;SB=4.53 GT:AD:DP:GL:GQ 0/1:64,13:72:-62.91,-32.06,-257.49:99
chr2 1208094 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=79;Dels=0.04;HRun=0;HaplotypeScore=75.91;MQ=32.28;MQ0=1;OQ=363.25;QD=4.60;SB=-161.88 GT:AD:DP:GL:GQ 0/1:55,19:67:-65.82,-26.22,-178.63:99
chr2 1208100 rs59057519 G C 10.66 LowQual AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=26.41;MQ=32.73;MQ0=1;QD=0.15;SB=-14.66 GT:AD:DP:GL:GQ 0/1:62,6:56:-24.65,-20.34,-221.43:43.11
chr2 1208134 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=31.92;MQ=33.13;MQ0=1;OQ=133.47;QD=3.81;SB=-62.86 GT:AD:DP:GL:GQ 0/1:29,6:29:-25.37,-8.74,-96.66:99
chr2 1208146 . G C 161.54 SnpCluster AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=54.55;MQ=27.08;MQ0=1;QD=5.21;SB=-42.77 GT:AD:DP:GL:GQ 0/1:25,6:25:-26.97,-7.54,-81.88:99
chr2 1208147 . T C 144.73 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=33;Dels=0.03;HRun=1;HaplotypeScore=36.24;MQ=27.20;MQ0=1;QD=4.39;SB=8.05 GT:AD:DP:GL:GQ 0/1:24,8:22:-24.38,-6.63,-58.80:99
chr2 1208150 rs58941944 C G 73.06 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=46.76;MQ=27.20;MQ0=1;QD=1.87;SB=-41.65 GT:AD:DP:GL:GQ 0/1:33,6:30:-19.63,-9.04,-108.40:99
chr2 1208158 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=1;HaplotypeScore=42.89;MQ=27.24;MQ0=1;OQ=238.31;QD=5.54;SB=-145.57 GT:AD:DP:GL:GQ 0/1:32,11:31:-36.45,-9.34,-79.35:99
chr2 1208166 . C G 31.59 LowQual AC=1;AF=0.50;AN=2;DP=49;Dels=0.02;HRun=0;HaplotypeScore=94.67;MQ=28.45;MQ0=2;QD=0.64;SB=-32.62 GT:AD:DP:GL:GQ 0/1:43,5:36:-16.99,-10.55,-133.61:64.42
chr2 1208178 . G A 282.69 SnpCluster AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=52.08;MQ=31.17;MQ0=2;QD=5.05;SB=-124.11 GT:AD:DP:GL:GQ 0/1:40,14:38:-43.00,-11.45,-97.08:99
chr2 1208186 . C T 37.52 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=66;Dels=0.02;HRun=1;HaplotypeScore=53.41;MQ=29.71;MQ0=4;QD=0.57;SB=44.16 GT:AD:DP:GL:GQ 0/1:59,6:45:-20.59,-13.55,-144.84:70.36
chr2 1208188 . C G 35.49 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=0;HaplotypeScore=61.64;MQ=29.72;MQ0=4;QD=0.55;SB=26.35 GT:AD:DP:GL:GQ 0/1:60,5:45:-20.39,-13.56,-173.92:68.33
chr2 1208210 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=77;Dels=0.01;HRun=0;HaplotypeScore=32.13;MQ=31.66;MQ0=5;OQ=110.16;QD=1.43;SB=-21.71 GT:AD:DP:GL:GQ 0/1:63,13:53:-29.97,-15.67,-196.94:99
chr2 1208246 . G C 20.23 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=0;HaplotypeScore=35.10;MQ=36.32;MQ0=2;QD=0.28;SB=89.33 GT:AD:DP:GL:GQ 0/1:67,5:58:-22.78,-17.48,-230.89:53.02
chr2 1208599 . G C 97.56 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=211;Dels=0.00;HRun=1;HaplotypeScore=54.35;MQ=38.65;MQ0=17;QD=0.46;SB=101.35 GT:AD:DP:GL:GQ 0/1:196,15:160:-61.26,-48.22,-638.32:99
chr2 1208600 rs4971419 C T 865.25 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=212;Dels=0.00;HRun=0;HaplotypeScore=55.60;MQ=38.59;MQ0=17;QD=4.08;SB=-299.35 GT:AD:DP:GL:GQ 0/1:162,48:162:-138.64,-48.83,-422.35:99
chr2 1208603 rs4971420 C T 1012.64 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=223;Dels=0.00;HRun=0;HaplotypeScore=55.24;MQ=37.98;MQ0=23;QD=4.54;SB=-336.38 GT:AD:DP:GL:GQ 0/1:153,68:154:-150.95,-46.41,-390.77:99
chr2 1208640 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=441;Dels=0.03;HRun=1;HaplotypeScore=152.37;MQ=26.29;MQ0=146;OQ=67.13;QD=0.15;SB=89.36 GT:AD:DP:GL:GQ 0/1:396,31:210:-70.57,-60.57,-773.07:99
chr2 1208670 rs4971421 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=573;Dels=0.00;HRun=0;HaplotypeScore=68.57;MQ=20.03;MQ0=237;OQ=263.66;QD=0.46;SB=-103.15 GT:AD:DP:GL:GQ 0/1:475,88:192:-87.55,-57.90,-603.74:99
chr2 1208686 . G T 30.72 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=545;Dels=0.00;HRun=0;HaplotypeScore=79.53;MQ=19.50;MQ0=231;QD=0.06;SB=97.49 GT:AD:DP:GL:GQ 0/1:512,33:183:-61.49,-55.13,-562.34:63.55
chr2 1208726 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=362;Dels=0.00;HRun=0;HaplotypeScore=37.00;MQ=26.36;MQ0=110;OQ=161.09;QD=0.44;SB=17.53 GT:AD:DP:GL:GQ 0/1:332,30:177:-72.78,-53.39,-509.75:99
chr2 1208741 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=268;Dels=0.00;HRun=0;HaplotypeScore=61.66;MQ=32.56;MQ0=39;OQ=2737.74;QD=10.22;SB=-1253.94 GT:AD:DP:GL:GQ 0/1:148,120:175:-329.85,-52.79,-277.13:99
chr2 1208809 rs13020609 C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=198;Dels=0.00;HRun=0;HaplotypeScore=36.79;MQ=32.20;MQ0=29;OQ=636.53;QD=3.21;SB=-300.50 GT:AD:DP:GL:GQ 0/1:150,47:125:-104.64,-37.70,-414.57:99
chr2 1208896 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=332;Dels=0.00;HRun=0;HaplotypeScore=28.84;MQ=13.72;MQ0=158;OQ=187.51;QD=0.56;SB=-51.66 GT:AD:DP:GL:GQ 0/1:290,41:80:-46.14,-24.11,-236.74:99
chr2 1208920 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=286;Dels=0.00;HRun=0;HaplotypeScore=69.65;MQ=13.85;MQ0=136;OQ=596.09;QD=2.08;SB=26.12 GT:AD:DP:GL:GQ 0/1:100,185:69:-83.70,-20.81,-203.94:99
chr2 1208925 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=290;Dels=0.00;HRun=1;HaplotypeScore=72.89;MQ=13.13;MQ0=153;OQ=119.55;QD=0.41;SB=17.08 GT:AD:DP:GL:GQ 0/1:257,33:68:-35.72,-20.48,-209.29:99
chr2 1208966 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=203;Dels=0.00;HRun=0;HaplotypeScore=21.79;MQ=11.35;MQ0=130;OQ=76.87;QD=0.38;SB=-40.95 GT:AD:DP:GL:GQ 0/1:181,22:30:-20.01,-9.04,-87.45:99
chr2 1209039 . G A 43.19 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=226;Dels=0.00;HRun=0;HaplotypeScore=36.26;MQ=11.80;MQ0=131;QD=0.19;SB=-10.00 GT:AD:DP:GL:GQ 0/1:207,18:24:-14.83,-7.23,-65.97:76.02
chr2 1209065 . G A 45.13 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=272;Dels=0.00;HRun=1;HaplotypeScore=32.72;MQ=10.83;MQ0=156;QD=0.17;SB=-10.00 GT:AD:DP:GL:GQ 0/1:253,19:28:-16.23,-8.43,-83.94:77.97
chr2 1209067 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=274;Dels=0.00;HRun=2;HaplotypeScore=33.72;MQ=10.40;MQ0=159;OQ=67.76;QD=0.25;SB=-10.00 GT:AD:DP:GL:GQ 0/1:244,29:28:-18.49,-8.43,-80.79:99
chr2 1209090 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=240;Dels=0.00;HRun=0;HaplotypeScore=62.82;MQ=6.55;MQ0=144;OQ=196.60;QD=0.82;SB=-10.00 GT:AD:DP:GL:GQ 0/1:174,66:12:-26.57,-3.62,-11.82:81.93
chr2 1209093 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=233;Dels=0.00;HRun=0;HaplotypeScore=62.82;MQ=6.60;MQ0=139;OQ=137.69;QD=0.59;SB=-10.00 GT:AD:DP:GL:GQ 0/1:186,47:10:-20.07,-3.02,-11.72:86.94
chr2 1209200 . C G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=199;Dels=0.00;HRun=1;HaplotypeScore=29.83;MQ=4.13;MQ0=162;OQ=140.33;QD=0.71;SB=-10.00 GT:AD:DP:GL:GQ 1/1:130,69:4:-17.57,-1.21,-0.00:12.04
chr2 1209205 . G A 30.46 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=197;Dels=0.00;HRun=1;HaplotypeScore=32.41;MQ=4.15;MQ0=160;QD=0.15;SB=-10.00 GT:AD:DP:GL:GQ 0/1:174,23:4:-7.53,-1.21,-7.79:63.29
chr2 1209299 . G C 25.06 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=88;Dels=0.00;HRun=0;HaplotypeScore=16.77;MQ=15.35;MQ0=40;QD=0.28;SB=-13.35 GT:AD:DP:GL:GQ 0/1:80,8:29:-14.54,-8.75,-105.94:57.88
chr2 1209300 . T C 49.30 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=0;HaplotypeScore=18.76;MQ=15.45;MQ0=40;QD=0.55;SB=35.14 GT:AD:DP:GL:GQ 0/1:73,15:27:-16.35,-8.14,-88.20:82.14
chr2 1209370 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=235;Dels=0.00;HRun=0;HaplotypeScore=63.28;MQ=6.60;MQ0=160;OQ=69.41;QD=0.30;SB=-3.98 GT:AD:DP:GL:GQ 0/1:159,70:15:-14.75,-4.52,-37.49:99
chr2 1209458 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=12.20;MQ=16.52;MQ0=38;OQ=52.72;QD=0.71;SB=5.04 GT:AD:DP:GL:GQ 0/1:34,40:18:-13.98,-5.43,-52.24:85.56
chr2 1209492 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=204;Dels=0.00;HRun=1;HaplotypeScore=19.05;MQ=13.40;MQ0=110;OQ=162.09;QD=0.79;SB=20.08 GT:AD:DP:GL:GQ 0/1:194,10:45:-33.05,-13.55,-137.88:99
chr2 1209509 . G C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=245;Dels=0.00;HRun=0;HaplotypeScore=54.92;MQ=13.36;MQ0=124;OQ=191.10;QD=0.78;SB=-60.73 GT:AD:DP:GL:GQ 0/1:219,26:56:-39.28,-16.88,-203.81:99
chr2 1209530 rs28540910 T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=299;Dels=0.00;HRun=1;HaplotypeScore=55.91;MQ=11.15;MQ0=176;OQ=68.13;QD=0.23;SB=8.06 GT:AD:DP:GL:GQ 0/1:287,12:49:-24.86,-14.77,-160.36:99
chr2 1209580 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=272;Dels=0.00;HRun=0;HaplotypeScore=63.73;MQ=12.36;MQ0=157;OQ=133.73;QD=0.49;SB=-38.66 GT:AD:DP:GL:GQ 0/1:206,65:41:-29.03,-12.37,-118.57:99
chr2 1209583 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=265;Dels=0.00;HRun=0;HaplotypeScore=64.06;MQ=12.52;MQ0=152;OQ=121.81;QD=0.46;SB=-9.71 GT:AD:DP:GL:GQ 0/1:226,35:36:-26.32,-10.85,-108.56:99
chr2 1209596 rs13004130 G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=244;Dels=0.00;HRun=0;HaplotypeScore=38.71;MQ=14.55;MQ0=128;OQ=515.71;QD=2.11;SB=-139.44 GT:AD:DP:GL:GQ 0/1:190,54:46:-68.72,-13.86,-92.53:99
chr2 1209648 rs62107211 G A 914.90 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=118;Dels=0.00;HRun=2;HaplotypeScore=52.24;MQ=32.28;MQ0=13;QD=7.75;SB=-41.74 GT:AD:DP:GL:GQ 0/1:75,43:74:-117.06,-22.29,-164.08:99
chr2 1209649 . G C 208.64 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=115;Dels=0.00;HRun=1;HaplotypeScore=60.39;MQ=33.17;MQ0=10;QD=1.81;SB=74.28 GT:AD:DP:GL:GQ 0/1:105,10:74:-46.44,-22.29,-279.78:99
chr2 1209653 rs62107212 C T 25.10 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=112;Dels=0.00;HRun=0;HaplotypeScore=81.53;MQ=35.44;MQ0=7;QD=0.22;SB=9.11 GT:AD:DP:GL:GQ 0/1:86,26:71:-27.20,-21.41,-204.34:57.92
chr2 1209668 rs62107213 C T 20.21 DPFilter;LowQual AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.17;MQ=45.72;MQ0=1;QD=0.32;SB=71.19 GT:AD:DP:GL:GQ 0/1:59,5:51:-20.68,-15.38,-145.48:53.01
chr2 1209684 rs62107214 C T 0.08 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=12.80;MQ=48.58;MQ0=1;OQ=74.74;QD=1.38;SB=33.67 GT:AD:DP:GL:GQ 0/1:47,6:45:-24.33,-13.57,-127.20:99
chr2 1210181 rs28689479 T G 78.16 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=1.47;MQ=52.73;MQ0=0;OQ=2109.94;QD=32.97;SB=-948.02 GT:AD:DP:GL:GQ 1/1:0,63:61:-214.61,-18.38,-0.03:99
chr2 1210212 rs62107215 T C 0.36 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=5.40;MQ=53.08;MQ0=0;OQ=176.57;QD=2.64;SB=-83.13 GT:AD:DP:GL:GQ 0/1:53,14:65:-40.53,-19.59,-203.02:99
chr2 1210219 rs62107216 G C 3.61 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=52.14;MQ0=0;OQ=222.96;QD=3.60;SB=-89.59 GT:AD:DP:GL:GQ 0/1:52,10:60:-43.66,-18.08,-215.60:99
chr2 1210968 rs7564282 T C 183.78 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=3.99;MQ=59.65;MQ0=0;OQ=876.78;QD=13.28;SB=-373.99 GT:AD:DP:GL:GQ 0/1:30,36:64:-110.25,-19.29,-121.77:99
chr2 1211038 rs6548209 T G 580.70 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.72;MQ0=0;OQ=1323.73;QD=16.14;SB=-599.76 GT:AD:DP:GL:GQ 0/1:36,46:80:-159.75,-24.10,-127.27:99
chr2 1212823 rs4542885 A C 89.19 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=2;HaplotypeScore=1.20;MQ=59.43;MQ0=0;OQ=811.58;QD=12.49;SB=-425.71 GT:AD:DP:GL:GQ 0/1:34,31:64:-103.72,-19.28,-124.11:99
chr2 1213248 rs4544477 A C 474.20 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.73;MQ0=0;OQ=1043.54;QD=14.91;SB=-446.79 GT:AD:DP:GL:GQ 0/1:33,37:68:-128.12,-20.48,-118.94:99
chr2 1213726 rs55924971 G C 435.96 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=640.39;QD=12.81;SB=-257.86 GT:AD:DP:GL:GQ 0/1:28,22:49:-82.11,-14.78,-117.39:99
chr2 1213866 rs10192365 A G 452.66 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.45;MQ0=0;OQ=404.03;QD=9.62;SB=-188.62 GT:AD:DP:GL:GQ 0/1:22,20:40:-55.75,-12.06,-86.11:99
chr2 1214202 rs10192671 A T 226.47 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=2.88;MQ=59.38;MQ0=0;OQ=1134.88;QD=16.94;SB=-473.52 GT:AD:DP:GL:GQ 0/1:30,36:66:-136.65,-19.88,-110.59:99
chr2 1214354 rs28703286 C G 112.06 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=783.05;QD=17.02;SB=-363.11 GT:AD:DP:GL:GQ 0/1:24,22:46:-95.46,-13.87,-96.87:99
chr2 1214399 rs10192859 A G 53.91 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=2;HaplotypeScore=0.98;MQ=60.00;MQ0=0;OQ=815.80;QD=15.39;SB=-152.64 GT:AD:DP:GL:GQ 0/1:24,29:53:-100.83,-15.97,-96.78:99
chr2 1214414 rs7573179 A G 59.62 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.68;MQ0=0;OQ=860.78;QD=14.59;SB=-112.61 GT:AD:DP:GL:GQ 0/1:25,34:57:-106.53,-17.17,-101.94:99
chr2 1216102 rs28766338 T C 217.69 PASS AC=1;AF=0.50;AN=2;DB;DP=27;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=50.20;MQ0=2;OQ=219.83;QD=8.14;SB=-50.29 GT:AD:DP:GL:GQ 0/1:13,14:23:-32.21,-6.94,-45.18:99
chr2 1216187 rs28503583 A G 22.43 PASS AC=1;AF=0.50;AN=2;DB;DP=31;Dels=0.00;HRun=2;HaplotypeScore=1.13;MQ=47.17;MQ0=3;OQ=309.20;QD=9.97;SB=-121.71 GT:AD:DP:GL:GQ 0/1:14,16:26:-42.04,-7.83,-56.30:99
chr2 1216402 rs6733898 T C 15.73 PASS AC=1;AF=0.50;AN=2;DB;DP=23;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=58.16;MQ0=0;OQ=282.73;QD=12.29;SB=-28.92 GT:AD:DP:GL:GQ 0/1:12,11:22:-38.18,-6.63,-43.65:99
chr2 1216984 rs28493773 C T 255.85 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=60.00;MQ0=0;OQ=725.50;QD=14.81;SB=-316.87 GT:AD:DP:GL:GQ 0/1:26,23:49:-90.61,-14.77,-83.29:99
chr2 1217170 rs4971423 A G 6.65 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=4;HaplotypeScore=2.76;MQ=59.07;MQ0=0;OQ=658.03;QD=12.65;SB=-263.94 GT:AD:DP:GL:GQ 0/1:23,29:49:-83.86,-14.77,-93.43:99
chr2 1218030 rs28678499 A C 236.94 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.62;MQ0=0;OQ=676.05;QD=11.27;SB=-334.74 GT:AD:DP:GL:GQ 0/1:31,29:57:-88.06,-17.17,-105.49:99
chr2 1219812 rs28392662 G A 255.75 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.21;MQ=59.41;MQ0=0;OQ=502.33;QD=12.88;SB=-222.73 GT:AD:DP:GL:GQ 0/1:22,17:38:-64.97,-11.45,-74.25:99
chr2 1219909 rs28617388 C G 2.83 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=58.91;MQ0=0;OQ=1616.87;QD=25.26;SB=-728.43 GT:AD:DP:GL:GQ 0/1:22,42:62:-183.66,-18.69,-78.50:99
chr2 1219931 rs62107219 C T 1.01 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=3.21;MQ=58.68;MQ0=0;OQ=1007.10;QD=19.00;SB=-171.70 GT:AD:DP:GL:GQ 0/1:22,31:51:-119.36,-15.37,-79.48:99
chr2 1219995 rs28568870 A G 243.21 PASS AC=1;AF=0.50;AN=2;DB;DP=96;Dels=0.00;HRun=0;HaplotypeScore=1.79;MQ=59.52;MQ0=0;OQ=1158.43;QD=12.07;SB=-300.04 GT:AD:DP:GL:GQ 0/1:50,46:95:-147.75,-28.62,-202.96:99
chr2 1220097 rs34169310 T C 289.95 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.59;MQ0=0;OQ=845.19;QD=15.09;SB=-334.39 GT:AD:DP:GL:GQ 0/1:27,29:56:-104.67,-16.87,-107.65:99
chr2 1220118 rs28727515 C T 123.89 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.49;MQ=59.54;MQ0=0;OQ=1000.06;QD=20.00;SB=-412.21 GT:AD:DP:GL:GQ 0/1:21,29:48:-117.75,-14.46,-61.40:99
chr2 1220226 rs28662463 T G 34.31 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=2;HaplotypeScore=0.95;MQ=58.63;MQ0=0;OQ=962.69;QD=18.88;SB=-343.90 GT:AD:DP:GL:GQ 0/1:17,34:48:-114.02,-14.46,-56.17:99
chr2 1220395 rs28455874 A G 80.83 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=2;HaplotypeScore=2.20;MQ=59.69;MQ0=0;OQ=1096.80;QD=14.62;SB=-439.94 GT:AD:DP:GL:GQ 0/1:36,39:73:-134.96,-21.99,-145.44:99
chr2 1220413 rs28548900 T C 468.48 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.66;MQ0=0;OQ=963.24;QD=14.38;SB=-330.15 GT:AD:DP:GL:GQ 0/1:29,38:66:-119.50,-19.89,-115.76:99
chr2 1220561 rs35075639 G A 369.63 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=60.00;MQ0=0;OQ=955.20;QD=15.41;SB=-460.46 GT:AD:DP:GL:GQ 0/1:33,29:58:-116.28,-17.48,-94.01:99
chr2 1220732 rs34824005 C T 45.46 PASS AC=1;AF=0.50;AN=2;DB;DP=95;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.76;MQ0=0;OQ=1551.65;QD=16.33;SB=-764.27 GT:AD:DP:GL:GQ 0/1:47,48:95:-187.07,-28.62,-168.82:99
chr2 1221211 rs28718216 A G 87.72 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=2;HaplotypeScore=0.67;MQ=55.09;MQ0=0;OQ=771.24;QD=12.44;SB=-387.14 GT:AD:DP:GL:GQ 0/1:33,29:60:-98.49,-18.08,-127.51:99
chr2 1221365 rs28719577 T C 372.68 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=51.95;MQ0=0;OQ=851.98;QD=14.20;SB=-442.98 GT:AD:DP:GL:GQ 0/1:25,35:58:-105.96,-17.48,-100.88:99
chr2 1221507 rs28546867 T G 110.06 PASS AC=1;AF=0.50;AN=2;DB;DP=34;Dels=0.00;HRun=0;HaplotypeScore=2.37;MQ=48.17;MQ0=0;OQ=367.56;QD=10.81;SB=-104.88 GT:AD:DP:GL:GQ 0/1:17,17:31:-49.38,-9.34,-58.33:99
chr2 1221574 rs28505461 A G 0.25 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=10.65;MQ=26.57;MQ0=6;OQ=272.90;QD=5.35;SB=-73.77 GT:AD:DP:GL:GQ 0/1:26,25:28:-39.02,-8.44,-59.87:99
chr2 1221643 rs58508603 C T 0.45 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=7.56;MQ=21.40;MQ0=8;OQ=251.90;QD=5.86;SB=-15.48 GT:AD:DP:GL:GQ 0/1:23,19:21:-34.81,-6.33,-37.01:99
chr2 1221665 rs28712383 G T 0.10 PASS AC=1;AF=0.50;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=8.75;MQ=22.72;MQ0=10;OQ=99.49;QD=2.26;SB=-50.85 GT:AD:DP:GL:GQ 0/1:27,17:18:-18.66,-5.43,-36.40:99
chr2 1221748 rs59885517 C A 0.25 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=4.04;MQ=46.14;MQ0=1;OQ=70.18;QD=1.53;SB=32.09 GT:AD:DP:GL:GQ 0/1:39,7:37:-21.45,-11.15,-108.48:99
chr2 1221752 rs61400587 G T 1.72 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=4.71;MQ=46.21;MQ0=1;OQ=175.38;QD=3.81;SB=-27.66 GT:AD:DP:GL:GQ 0/1:35,11:35:-31.38,-10.56,-78.60:99
chr2 1221780 rs28422489 A G 0.22 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=6.96;MQ=41.30;MQ0=1;OQ=223.18;QD=4.46;SB=30.27 GT:AD:DP:GL:GQ 0/1:37,13:42:-38.26,-12.66,-116.92:99
chr2 1221871 . G T 0.54 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=4.02;MQ=24.76;MQ0=8;OQ=224.14;QD=4.39;SB=-40.69 GT:AD:DP:GL:GQ 0/1:34,17:29:-34.44,-8.74,-61.18:99
chr2 1221918 rs34888233 C T 13.26 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.96;MQ=39.47;MQ0=3;OQ=275.38;QD=4.92;SB=-123.57 GT:AD:DP:GL:GQ 0/1:41,15:39:-42.58,-11.76,-90.80:99
chr2 1222025 rs60350535 T C 170.39 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=53.84;MQ0=0;OQ=720.44;QD=13.59;SB=-252.33 GT:AD:DP:GL:GQ 0/1:23,30:49:-90.10,-14.77,-84.38:99
chr2 1222035 rs34380925 A C 273.37 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=53.68;MQ0=0;OQ=993.04;QD=17.12;SB=-414.82 GT:AD:DP:GL:GQ 0/1:23,35:58:-120.06,-17.47,-82.87:99
chr2 1222067 rs35784786 C T 368.06 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.90;MQ=51.09;MQ0=0;OQ=1088.24;QD=15.77;SB=-559.08 GT:AD:DP:GL:GQ 0/1:32,37:65:-131.70,-19.59,-111.08:99
chr2 1222626 rs34394533 A T 327.16 PASS AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=59.74;MQ0=0;OQ=1179.56;QD=13.11;SB=-507.22 GT:AD:DP:GL:GQ 0/1:51,39:89:-148.04,-26.80,-194.15:99
chr2 1222628 rs28679711 A G 283.72 PASS AC=1;AF=0.50;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=59.74;MQ0=0;OQ=1119.60;QD=12.44;SB=-527.89 GT:AD:DP:GL:GQ 0/1:51,39:89:-142.05,-26.81,-206.08:99
chr2 1222866 rs28645300 C T 273.93 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.63;MQ=59.73;MQ0=0;OQ=922.75;QD=13.18;SB=-324.41 GT:AD:DP:GL:GQ 0/1:41,29:69:-116.35,-20.79,-138.97:99
chr2 1222973 rs28660430 A C 323.63 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.22;MQ0=0;OQ=798.39;QD=9.62;SB=-406.62 GT:AD:DP:GL:GQ 0/1:48,35:82:-107.83,-24.70,-179.15:99
chr2 1223075 rs28375060 T C 464.89 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.43;MQ0=0;OQ=885.01;QD=13.62;SB=-332.90 GT:AD:DP:GL:GQ 0/1:33,32:63:-110.76,-18.98,-131.73:99
chr2 1223143 rs28550085 T C 456.38 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=765.42;QD=12.15;SB=-311.26 GT:AD:DP:GL:GQ 0/1:36,27:63:-98.80,-18.98,-145.55:99
chr2 1223398 rs35562104 T A 466.95 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=745.63;QD=16.21;SB=-392.67 GT:AD:DP:GL:GQ 0/1:22,24:45:-91.40,-13.55,-79.56:99
chr2 1223660 rs35525686 A G 284.85 PASS AC=1;AF=0.50;AN=2;DB;DP=93;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.30;MQ0=0;OQ=1460.91;QD=15.71;SB=-690.34 GT:AD:DP:GL:GQ 0/1:44,49:92:-177.09,-27.71,-170.64:99
chr2 1223689 rs35967632 T A 331.15 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=60.00;MQ0=0;OQ=981.37;QD=16.36;SB=-429.87 GT:AD:DP:GL:GQ 0/1:29,31:60:-119.49,-18.07,-108.56:99
chr2 1223754 rs28716824 G A 12.63 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.96;MQ=59.19;MQ0=0;OQ=1079.04;QD=23.46;SB=-434.49 GT:AD:DP:GL:GQ 0/1:15,31:46:-125.04,-13.86,-56.44:99
chr2 1224434 rs35402865 G A 100.76 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=866.38;QD=12.74;SB=-362.84 GT:AD:DP:GL:GQ 0/1:41,27:67:-110.12,-20.19,-129.33:99
chr2 1224495 rs28502413 G C 188.03 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.45;MQ=59.70;MQ0=0;OQ=1593.20;QD=20.96;SB=-689.39 GT:AD:DP:GL:GQ 0/1:33,43:76:-185.51,-22.90,-144.16:99
chr2 1224831 rs57807768 G T 13.38 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=5.77;MQ=59.44;MQ0=0;OQ=872.71;QD=10.64;SB=-388.98 GT:AD:DP:GL:GQ 0/1:50,32:79:-114.35,-23.80,-170.41:99
chr2 1225120 rs56900365 G A 198.26 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=3.64;MQ=55.97;MQ0=0;OQ=911.04;QD=14.02;SB=-348.84 GT:AD:DP:GL:GQ 0/1:36,29:63:-113.37,-18.98,-122.58:99
chr2 1225121 rs57423707 C A 189.47 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=3.64;MQ=55.97;MQ0=0;OQ=818.90;QD=12.60;SB=-320.12 GT:AD:DP:GL:GQ 0/1:36,29:65:-104.75,-19.58,-128.90:99
chr2 1225446 rs62108680 T C 844.25 Indel AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.96;MQ=48.97;MQ0=0;QD=13.62;SB=-443.92 GT:AD:DP:GL:GQ 0/1:33,29:61:-106.08,-18.38,-128.05:99
chr2 1225476 rs28582082 C T 241.59 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=2.40;MQ=51.02;MQ0=0;OQ=777.74;QD=12.75;SB=-397.18 GT:AD:DP:GL:GQ 0/1:35,25:59:-98.84,-17.78,-112.77:99
chr2 1225624 rs28367531 T C 30.98 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=2;HaplotypeScore=1.82;MQ=59.69;MQ0=0;OQ=780.55;QD=13.01;SB=-198.58 GT:AD:DP:GL:GQ 0/1:33,27:58:-98.81,-17.47,-125.13:99
chr2 1225863 rs28760535 T C 22.57 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=6.78;MQ=58.57;MQ0=0;OQ=779.64;QD=11.99;SB=-358.28 GT:AD:DP:GL:GQ 0/1:33,32:62:-99.93,-18.68,-131.36:99
chr2 1225869 rs28436921 C T 25.14 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=7.00;MQ=58.59;MQ0=0;OQ=987.18;QD=14.96;SB=-441.45 GT:AD:DP:GL:GQ 0/1:34,31:64:-121.29,-19.28,-116.62:99
chr2 1226159 rs28570180 A C 210.68 PASS AC=1;AF=0.50;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=3.20;MQ=59.74;MQ0=0;OQ=1252.09;QD=14.23;SB=-550.70 GT:AD:DP:GL:GQ 0/1:44,44:87:-154.69,-26.20,-163.55:99
chr2 1226196 rs28411047 T G 108.07 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=2;HaplotypeScore=0.92;MQ=59.67;MQ0=0;OQ=945.98;QD=13.51;SB=-387.10 GT:AD:DP:GL:GQ 0/1:35,35:69:-118.67,-20.78,-129.43:99
chr2 1226611 rs35847752 C T 443.69 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=756.64;QD=15.76;SB=-336.47 GT:AD:DP:GL:GQ 0/1:25,23:46:-92.82,-13.87,-72.20:99
chr2 1226846 rs28738907 C T 234.25 PASS AC=1;AF=0.50;AN=2;DB;DP=106;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.13;MQ0=0;OQ=1866.48;QD=17.61;SB=-889.25 GT:AD:DP:GL:GQ 0/1:51,55:105:-221.56,-31.63,-176.79:99
chr2 1226914 rs28669900 G A 116.58 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=-0.06;MQ=58.82;MQ0=0;OQ=1453.07;QD=19.37;SB=-439.94 GT:AD:DP:GL:GQ 0/1:33,42:75:-171.19,-22.60,-108.37:99
chr2 1227435 . A C 79.22 PASS AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=1;HaplotypeScore=1.95;MQ=57.41;MQ0=0;OQ=1118.71;QD=13.98;SB=-367.75 GT:AD:DP:GL:GQ 0/1:42,38:79:-138.95,-23.79,-153.72:99
chr2 1227749 rs28601897 A G 363.69 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=52.36;MQ0=0;OQ=1082.43;QD=13.53;SB=-382.02 GT:AD:DP:GL:GQ 0/1:36,44:76:-134.43,-22.90,-141.01:99
chr2 1227872 rs34295200 A G 562.99 Indel AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=2.49;MQ=50.07;MQ0=0;QD=8.16;SB=-266.53 GT:AD:DP:GL:GQ 0/1:39,29:59:-77.36,-17.78,-148.40:99
chr2 1227940 rs28500546 A C 51.94 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=3;HaplotypeScore=0.73;MQ=56.67;MQ0=0;OQ=781.40;QD=12.02;SB=-289.84 GT:AD:DP:GL:GQ 0/1:30,35:57:-98.59,-17.17,-103.70:99
chr2 1228570 rs57442587 T C 150.30 PASS AC=1;AF=0.50;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=3.74;MQ=59.31;MQ0=0;OQ=1274.84;QD=14.49;SB=-630.92 GT:AD:DP:GL:GQ 0/1:44,44:84:-156.07,-25.30,-168.47:99
chr2 1229058 rs62108682 T C 455.05 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=687.61;QD=12.73;SB=-322.25 GT:AD:DP:GL:GQ 0/1:30,24:54:-88.31,-16.26,-121.83:99
chr2 1229210 rs56131450 C T 45.65 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=2;HaplotypeScore=2.78;MQ=60.00;MQ0=0;OQ=1471.47;QD=16.53;SB=-445.18 GT:AD:DP:GL:GQ 0/1:45,43:89:-180.34,-29.91,-171.46:99
chr2 1229633 rs35183827 A G 267.12 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=679.67;QD=10.14;SB=-363.96 GT:AD:DP:GL:GQ 0/1:38,29:66:-91.14,-19.89,-152.44:99
chr2 1230029 . C T 190.73 PASS AC=1;AF=0.50;AN=2;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=59.76;MQ0=0;OQ=1085.49;QD=13.92;SB=-474.97 GT:AD:DP:GL:GQ 0/1:44,34:78:-135.34,-23.51,-144.33:99
chr2 1230368 rs28606392 G A 140.12 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=3.54;MQ=59.28;MQ0=0;OQ=978.43;QD=16.87;SB=-343.06 GT:AD:DP:GL:GQ 0/1:28,30:57:-118.31,-17.18,-96.37:99
chr2 1230385 rs28576536 G A 127.64 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=0.67;MQ=59.67;MQ0=0;OQ=976.74;QD=17.14;SB=-309.84 GT:AD:DP:GL:GQ 0/1:26,31:54:-117.23,-16.27,-87.47:99
chr2 1230473 rs28549763 G T 104.82 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=3.41;MQ=58.17;MQ0=0;OQ=997.32;QD=16.09;SB=-517.83 GT:AD:DP:GL:GQ 0/1:27,34:59:-120.78,-17.77,-91.28:99
chr2 1230578 . G C 58.95 PASS AC=1;AF=0.50;AN=2;DP=44;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=57.20;MQ0=0;OQ=728.63;QD=16.56;SB=-361.44 GT:AD:DP:GL:GQ 0/1:22,22:42:-88.81,-12.66,-89.03:99
chr2 1230621 rs62108685 C G 242.25 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=54.00;MQ0=0;OQ=725.68;QD=15.44;SB=-271.27 GT:AD:DP:GL:GQ 0/1:26,21:46:-89.71,-13.86,-108.37:99
chr2 1230806 rs34962657 G T 132.18 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.10;MQ=52.51;MQ0=0;OQ=573.58;QD=12.20;SB=-86.78 GT:AD:DP:GL:GQ 0/1:24,23:42:-73.30,-12.66,-73.48:99
chr2 1230911 . C T 0.06 PASS AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=1;HaplotypeScore=7.94;MQ=50.40;MQ0=1;OQ=532.27;QD=17.17;SB=-144.61 GT:AD:DP:GL:GQ 0/1:12,19:23:-63.44,-6.93,-21.87:99
chr2 1230968 rs28479251 G A 434.60 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=26;Dels=0.00;HRun=1;HaplotypeScore=2.60;MQ=32.21;MQ0=1;QD=16.72;SB=-122.97 GT:AD:DP:GL:GQ 0/1:12,14:15:-51.26,-4.52,-6.27:17.49
chr2 1230973 . T C 147.57 SnpCluster AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=0;HaplotypeScore=3.36;MQ=31.65;MQ0=1;QD=5.27;SB=-87.77 GT:AD:DP:GL:GQ 0/1:17,11:20:-24.07,-6.03,-51.93:99
chr2 1230974 . G C 205.58 SnpCluster AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=1;HaplotypeScore=3.36;MQ=31.65;MQ0=1;QD=7.34;SB=-109.64 GT:AD:DP:GL:GQ 0/1:17,11:21:-30.17,-6.33,-59.54:99
chr2 1230976 . A G 97.87 SnpCluster AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=0;HaplotypeScore=4.20;MQ=31.65;MQ0=1;QD=3.50;SB=-73.77 GT:AD:DP:GL:GQ 0/1:17,11:19:-18.80,-5.73,-49.68:99
chr2 1230997 . T C 0.67 PASS AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=28.46;MQ0=0;OQ=100.37;QD=3.86;SB=-59.31 GT:AD:DP:GL:GQ 0/1:14,11:19:-21.68,-8.36,-51.61:99
chr2 1231491 rs28652617 G A 253.71 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=2.72;MQ=46.91;MQ0=1;QD=5.52;SB=-86.87 GT:AD:DP:GL:GQ 0/1:28,18:37:-39.80,-11.15,-97.06:99
chr2 1231497 rs28538796 A G 194.45 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=2.72;MQ=46.19;MQ0=1;QD=4.05;SB=-64.74 GT:AD:DP:GL:GQ 0/1:28,20:36:-33.57,-10.85,-104.45:99
chr2 1231498 . T A 223.48 SnpCluster AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=46.98;MQ0=0;QD=4.86;SB=-80.82 GT:AD:DP:GL:GQ 0/1:27,18:37:-36.78,-11.15,-101.57:99
chr2 1231503 rs28636002 G A 411.25 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=46.22;MQ0=0;QD=7.91;SB=-210.86 GT:AD:DP:GL:GQ 0/1:27,25:40:-56.46,-12.05,-90.81:99
chr2 1232497 rs62108687 G A 33.91 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=2.15;MQ=59.73;MQ0=0;OQ=1692.43;QD=24.89;SB=-670.25 GT:AD:DP:GL:GQ 0/1:20,48:68:-193.02,-20.49,-64.16:99
chr2 1232692 rs28537296 T A 149.68 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=1.79;MQ=59.25;MQ0=0;OQ=1017.19;QD=18.16;SB=-429.53 GT:AD:DP:GL:GQ 0/1:23,33:55:-121.57,-16.57,-84.31:99
chr2 1232711 rs28694550 A G 160.31 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=4.02;MQ=58.58;MQ0=0;OQ=587.32;QD=12.77;SB=-295.17 GT:AD:DP:GL:GQ 0/1:20,26:42:-74.68,-12.66,-72.27:99
chr2 1233429 rs28622255 C T 301.45 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=57.57;MQ0=0;OQ=982.93;QD=16.95;SB=-512.05 GT:AD:DP:GL:GQ 0/1:28,30:58:-119.05,-17.47,-99.97:99
chr2 1233639 rs55953201 C T 642.53 Indel AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.26;MQ=50.92;MQ0=0;QD=10.89;SB=-319.30 GT:AD:DP:GL:GQ 0/1:37,22:57:-84.71,-17.17,-128.37:99
chr2 1233895 rs28694128 G A 487.76 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.47;MQ0=0;OQ=1298.64;QD=17.09;SB=-520.50 GT:AD:DP:GL:GQ 0/1:36,40:75:-155.74,-22.59,-132.39:99
chr2 1234837 rs28594355 T C 354.42 PASS AC=1;AF=0.50;AN=2;DB;DP=94;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.56;MQ0=0;OQ=1462.06;QD=15.55;SB=-745.61 GT:AD:DP:GL:GQ 0/1:45,49:92:-177.20,-27.71,-178.27:99
chr2 1236417 rs10190065 G A 470.33 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.65;MQ0=0;OQ=900.62;QD=16.99;SB=-450.40 GT:AD:DP:GL:GQ 0/1:25,28:53:-109.32,-15.97,-90.57:99
chr2 1236686 rs10171436 C A 248.34 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.40;MQ=59.67;MQ0=0;OQ=576.32;QD=10.29;SB=-299.98 GT:AD:DP:GL:GQ 0/1:33,23:54:-77.18,-16.27,-110.35:99
chr2 1236782 rs62108689 C A 444.65 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1362.58;QD=18.92;SB=-598.76 GT:AD:DP:GL:GQ 0/1:28,44:71:-160.93,-21.38,-97.18:99
chr2 1237539 rs10172292 C T 285.45 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=1.71;MQ=59.10;MQ0=0;OQ=974.03;QD=13.53;SB=-462.47 GT:AD:DP:GL:GQ 0/1:40,32:65:-120.28,-19.59,-113.08:99
chr2 1238158 rs13024565 T C 115.75 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=2.90;MQ=58.28;MQ0=0;OQ=648.35;QD=9.00;SB=-326.00 GT:AD:DP:GL:GQ 0/1:40,32:66:-88.02,-19.90,-148.92:99
chr2 1239774 . C G 286.95 PASS AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.88;MQ0=0;OQ=1168.28;QD=17.70;SB=-604.56 GT:AD:DP:GL:GQ 0/1:32,34:62:-138.80,-18.69,-132.04:99
chr2 1239909 rs62108690 T C 265.86 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=1.53;MQ=59.69;MQ0=0;OQ=830.78;QD=13.85;SB=-373.57 GT:AD:DP:GL:GQ 0/1:30,29:59:-104.14,-17.78,-120.61:99
chr2 1240186 rs10189428 T C 245.41 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.58;MQ0=0;OQ=513.18;QD=9.33;SB=-260.96 GT:AD:DP:GL:GQ 0/1:33,22:54:-70.88,-16.28,-125.95:99
chr2 1240320 rs28479774 A G 387.55 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.95;MQ0=1;OQ=655.81;QD=12.86;SB=-196.58 GT:AD:DP:GL:GQ 0/1:27,24:50:-83.93,-15.07,-106.66:99
chr2 1240626 rs28554056 G A 406.97 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.58;MQ0=0;OQ=896.68;QD=16.30;SB=-314.85 GT:AD:DP:GL:GQ 0/1:28,27:53:-108.93,-15.98,-84.30:99
chr2 1241393 rs62108691 G A 289.33 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=60.00;MQ0=0;OQ=1391.35;QD=19.32;SB=-606.15 GT:AD:DP:GL:GQ 0/1:31,41:71:-163.82,-21.40,-98.56:99
chr2 1241526 rs62108692 C T 264.21 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=2.13;MQ=59.68;MQ0=0;OQ=1140.22;QD=15.84;SB=-489.01 GT:AD:DP:GL:GQ 0/1:36,35:68:-137.81,-20.50,-106.97:99
chr2 1241678 rs9677372 C G 207.09 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=2.57;MQ=59.38;MQ0=0;OQ=1374.52;QD=18.57;SB=-560.64 GT:AD:DP:GL:GQ 0/1:35,38:73:-162.73,-21.99,-153.90:99
chr2 1241731 rs9678600 G A 25.27 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=58.82;MQ0=0;OQ=891.81;QD=15.12;SB=-424.95 GT:AD:DP:GL:GQ 0/1:30,29:58:-109.94,-17.47,-109.23:99
chr2 1241757 . T G 38.96 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=33;Dels=0.00;HRun=2;HaplotypeScore=3.54;MQ=58.01;MQ0=0;QD=1.18;SB=47.16 GT:AD:DP:GL:GQ 0/1:21,12:25:-14.71,-7.53,-72.04:71.79
chr2 1241797 rs9710859 C T 12.80 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=57.02;MQ0=0;OQ=993.49;QD=21.60;SB=-187.69 GT:AD:DP:GL:GQ 0/1:17,29:46:-116.49,-13.86,-63.53:99
chr2 1241823 rs28694754 T A 116.12 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=54.44;MQ0=0;OQ=901.93;QD=19.61;SB=-348.68 GT:AD:DP:GL:GQ 0/1:17,29:46:-107.33,-13.86,-65.45:99
chr2 1241914 rs13015138 T G 140.19 PASS AC=1;AF=0.50;AN=2;DB;DP=21;Dels=0.00;HRun=0;HaplotypeScore=0.89;MQ=56.62;MQ0=0;OQ=240.98;QD=11.48;SB=-74.96 GT:AD:DP:GL:GQ 0/1:11,10:20:-33.41,-6.03,-32.71:99
chr2 1242115 . G A 304.50 Indel AC=1;AF=0.50;AN=2;DP=22;Dels=0.00;HRun=0;HaplotypeScore=3.00;MQ=43.22;MQ0=0;QD=13.84;SB=-10.00 GT:AD:DP:GL:GQ 0/1:12,10:22:-40.36,-6.63,-41.12:99
chr2 1242135 . T C 0.62 PASS AC=1;AF=0.50;AN=2;DP=17;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=41.03;MQ0=0;OQ=326.55;QD=19.21;SB=-10.00 GT:AD:DP:GL:GQ 0/1:6,11:17:-41.06,-5.12,-25.60:99
chr2 1242188 . T A 30.91 LowQual AC=1;AF=0.50;AN=2;DP=4;Dels=0.00;HRun=1;HaplotypeScore=4.99;MQ=39.12;MQ0=0;QD=7.73;SB=-10.00 GT:AD:DP:GL:GQ 0/1:2,2:4:-7.58,-1.21,-6.90:56.91
chr2 1242254 . A T 24.10 LowQual AC=1;AF=0.50;AN=2;DP=4;Dels=0.00;HRun=0;HaplotypeScore=1.99;MQ=47.12;MQ0=0;QD=6.02;SB=-6.99 GT:AD:DP:GL:GQ 0/1:2,2:4:-6.90,-1.21,-7.04:56.92
chr2 1242280 . T A 28.90 LowQual AC=1;AF=0.50;AN=2;DP=5;Dels=0.00;HRun=3;HaplotypeScore=1.00;MQ=44.10;MQ0=0;QD=5.78;SB=-3.99 GT:AD:DP:GL:GQ 0/1:3,2:5:-7.68,-1.51,-10.88:61.73
chr2 1242358 rs10171152 C T 170.33 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.87;MQ0=0;OQ=456.27;QD=13.83;SB=-47.66 GT:AD:DP:GL:GQ 0/1:18,15:33:-58.85,-9.94,-61.94:99
chr2 1242467 rs10178656 T G 42.93 PASS AC=1;AF=0.50;AN=2;DB;DP=33;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=60.00;MQ0=0;OQ=432.94;QD=13.12;SB=-10.00 GT:AD:DP:GL:GQ 0/1:16,16:32:-56.21,-9.64,-62.82:99
chr2 1242506 rs10178669 T C 40.60 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=805.77;QD=15.80;SB=-10.00 GT:AD:DP:GL:GQ 0/1:23,28:51:-99.22,-15.36,-93.39:99
chr2 1242521 rs10171277 C A 8.56 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=862.86;QD=15.69;SB=-3.99 GT:AD:DP:GL:GQ 0/1:26,29:55:-106.13,-16.56,-96.38:99
chr2 1242899 rs9330329 G A 206.20 PASS AC=1;AF=0.50;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=3.38;MQ=58.81;MQ0=0;OQ=1189.26;QD=14.87;SB=-568.43 GT:AD:DP:GL:GQ 0/1:44,36:76:-145.11,-22.90,-134.22:99
chr2 1243167 rs62108693 G A 156.99 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=58.37;MQ0=0;OQ=684.17;QD=15.91;SB=-212.23 GT:AD:DP:GL:GQ 0/1:22,21:42:-84.37,-12.67,-64.33:99
chr2 1243246 rs9330332 A G 162.40 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=2.56;MQ=60.14;MQ0=0;OQ=1044.86;QD=13.23;SB=-378.17 GT:AD:DP:GL:GQ 0/1:40,39:78:-131.27,-23.50,-161.87:99
chr2 1243426 rs9330333 T C 34.31 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=1;HaplotypeScore=2.83;MQ=60.93;MQ0=0;OQ=391.96;QD=8.52;SB=-152.59 GT:AD:DP:GL:GQ 0/1:27,19:44:-55.75,-13.27,-102.31:99
chr2 1243457 rs9330334 A G 170 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=2.79;MQ=59.52;MQ0=0;OQ=526.50;QD=10.97;SB=-220.27 GT:AD:DP:GL:GQ 0/1:26,22:46:-69.80,-13.87,-94.79:99
chr2 1243507 rs9286349 C T 7.70 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=6.46;MQ=59.16;MQ0=0;OQ=951.87;QD=17.31;SB=-315.35 GT:AD:DP:GL:GQ 0/1:26,29:53:-114.44,-15.97,-85.64:99
chr2 1243628 rs62108694 A G 191.69 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=-0.06;MQ=58.96;MQ0=0;OQ=948.73;QD=14.16;SB=-445.57 GT:AD:DP:GL:GQ 0/1:33,34:66:-118.04,-19.89,-130.72:99
chr2 1243727 rs9678155 T G 22.02 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=3;HaplotypeScore=0.82;MQ=59.03;MQ0=0;OQ=692.88;QD=9.62;SB=-316.00 GT:AD:DP:GL:GQ 0/1:45,27:71:-93.96,-21.39,-160.10:99
chr2 1243937 rs62108695 C G 446.66 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.72;MQ0=0;OQ=1261.05;QD=18.82;SB=-623.38 GT:AD:DP:GL:GQ 0/1:31,36:66:-149.28,-19.89,-134.51:99
chr2 1243966 rs9330335 T G 263.28 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=1.53;MQ=59.73;MQ0=0;OQ=919.39;QD=13.13;SB=-375.78 GT:AD:DP:GL:GQ 0/1:38,32:70:-116.31,-21.08,-140.14:99
chr2 1244046 rs9330336 T C 278.50 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=1.03;MQ=59.78;MQ0=0;OQ=854.22;QD=10.17;SB=-317.20 GT:AD:DP:GL:GQ 0/1:52,32:84:-114.01,-25.30,-210.19:99
chr2 1244073 rs62106565 C T 365.56 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=1.07;MQ=60.00;MQ0=0;OQ=1048.63;QD=14.36;SB=-421.81 GT:AD:DP:GL:GQ 0/1:41,32:71:-129.54,-21.39,-128.86:99
chr2 1244326 rs13029737 T G 106.41 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=855.05;QD=13.15;SB=-364.12 GT:AD:DP:GL:GQ 0/1:31,34:62:-107.46,-18.67,-112.06:99
chr2 1244703 rs62106566 G A 447.93 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1316.72;QD=18.04;SB=-671.20 GT:AD:DP:GL:GQ 0/1:35,38:72:-156.64,-21.69,-121.68:99
chr2 1244891 rs9330337 T C 167.45 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.97;MQ=60.00;MQ0=0;OQ=658.88;QD=9.69;SB=-253.19 GT:AD:DP:GL:GQ 0/1:41,27:67:-89.36,-20.19,-163.63:99
chr2 1244928 rs9330338 C A 272.95 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.76;MQ=60.00;MQ0=0;OQ=833.47;QD=12.82;SB=-407.06 GT:AD:DP:GL:GQ 0/1:32,33:62:-105.31,-18.68,-110.29:99
chr2 1245199 rs9330339 C G 209.89 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=2.05;MQ=59.46;MQ0=0;OQ=1201.72;QD=17.42;SB=-616.55 GT:AD:DP:GL:GQ 0/1:35,34:66:-143.34,-19.88,-146.71:99
chr2 1245230 rs62106567 T C 490.29 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.47;MQ0=0;OQ=944.69;QD=13.50;SB=-453.60 GT:AD:DP:GL:GQ 0/1:37,33:70:-118.84,-21.09,-151.23:99
chr2 1245267 rs62106568 C A 103.34 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=2;HaplotypeScore=0.58;MQ=59.72;MQ0=0;OQ=1154.04;QD=17.22;SB=-529.27 GT:AD:DP:GL:GQ 0/1:30,37:67:-138.87,-20.18,-107.43:99
chr2 1245360 rs62106569 A G 373.79 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.79;MQ0=0;OQ=1260.66;QD=14.16;SB=-443.54 GT:AD:DP:GL:GQ 0/1:40,49:89:-156.18,-26.83,-162.26:99
chr2 1245605 rs9330340 A G 307.42 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=1387.60;QD=17.56;SB=-699.80 GT:AD:DP:GL:GQ 0/1:33,46:79:-165.84,-23.79,-135.62:99
chr2 1245956 rs62106570 T C 286.81 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=0.97;MQ=59.64;MQ0=0;OQ=898.21;QD=14.03;SB=-446.94 GT:AD:DP:GL:GQ 0/1:34,30:62:-111.78,-18.68,-128.36:99
chr2 1246046 . T A 0.27 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=1;HaplotypeScore=3.75;MQ=58.36;MQ0=0;OQ=875.69;QD=15.36;SB=-83.85 GT:AD:DP:GL:GQ 0/1:28,29:57:-108.02,-17.17,-107.49:99
chr2 1246072 . T G 16.52 PASS AC=1;AF=0.50;AN=2;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=58.57;MQ0=0;OQ=951.04;QD=14.63;SB=-105.87 GT:AD:DP:GL:GQ 0/1:31,34:65:-117.97,-19.58,-115.43:99
chr2 1246096 . C T 77.60 PASS AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=0;HaplotypeScore=2.62;MQ=58.67;MQ0=0;OQ=1057.26;QD=15.10;SB=-347.85 GT:AD:DP:GL:GQ 0/1:37,33:68:-129.50,-20.49,-125.68:99
chr2 1246097 rs13005669 A G 242.21 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=2.04;MQ=58.65;MQ0=0;OQ=880.02;QD=12.75;SB=-327.31 GT:AD:DP:GL:GQ 0/1:36,33:69:-112.07,-20.79,-144.17:99
chr2 1246155 . T C 187.32 PASS AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.06;MQ0=0;OQ=1125.75;QD=15.21;SB=-548.97 GT:AD:DP:GL:GQ 0/1:34,40:73:-137.85,-21.99,-139.11:99
chr2 1246245 rs62106571 C T 283.33 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.30;MQ0=0;OQ=856.46;QD=13.81;SB=-259.11 GT:AD:DP:GL:GQ 0/1:34,28:60:-107.00,-18.07,-119.21:99
chr2 1246283 rs56341802 C T 453.96 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.14;MQ0=0;OQ=720.47;QD=14.13;SB=-300.83 GT:AD:DP:GL:GQ 0/1:27,24:49:-90.10,-14.77,-86.35:99
chr2 1246322 rs13028273 C T 187.32 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=2.77;MQ=59.46;MQ0=0;OQ=617.62;QD=13.43;SB=-242.55 GT:AD:DP:GL:GQ 0/1:24,22:43:-78.00,-12.96,-78.28:99
chr2 1246535 rs28612419 A T 336.83 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.72;MQ0=0;OQ=1459.75;QD=17.80;SB=-616.45 GT:AD:DP:GL:GQ 0/1:35,47:81:-173.65,-24.40,-134.41:99
chr2 1246701 rs9798383 A G 88.04 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=3;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=1107.84;QD=14.58;SB=-473.02 GT:AD:DP:GL:GQ 0/1:39,37:75:-136.65,-22.59,-158.19:99
chr2 1246954 rs9798321 T A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=4;HaplotypeScore=11.16;MQ=59.10;MQ0=0;OQ=1113.15;QD=14.46;SB=-521.60 GT:AD:DP:GL:GQ 0/1:40,36:76:-137.49,-22.89,-154.80:99
chr2 1247226 rs10187695 C G 212.62 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=2.31;MQ=56.40;MQ0=0;OQ=1265.97;QD=18.62;SB=-597.58 GT:AD:DP:GL:GQ 0/1:33,35:68:-150.37,-20.49,-141.29:99
chr2 1247334 rs62108061 G C 485.23 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1135.14;QD=16.22;SB=-444.73 GT:AD:DP:GL:GQ 0/1:37,33:68:-137.28,-20.49,-163.75:99
chr2 1247402 rs62108062 T G 464.31 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.39;MQ0=0;OQ=991.06;QD=13.04;SB=-340.70 GT:AD:DP:GL:GQ 0/1:41,35:75:-124.98,-22.59,-146.67:99
chr2 1247487 rs10209040 G A 481.82 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.14;MQ0=0;OQ=1192.82;QD=16.80;SB=-603.00 GT:AD:DP:GL:GQ 0/1:36,35:71:-143.95,-21.38,-132.33:99
chr2 1247592 rs10209144 G A 349.84 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.41;MQ0=0;OQ=932.23;QD=13.13;SB=-478.06 GT:AD:DP:GL:GQ 0/1:41,30:70:-117.60,-21.10,-134.48:99
chr2 1247654 rs62108063 C T 331.71 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.77;MQ0=0;OQ=1091.82;QD=13.48;SB=-480.01 GT:AD:DP:GL:GQ 0/1:47,34:81:-136.86,-24.40,-170.54:99
chr2 1247750 rs9330344 G A 219.41 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=2.79;MQ=59.72;MQ0=0;OQ=1345.14;QD=16.21;SB=-617.64 GT:AD:DP:GL:GQ 0/1:43,40:82:-162.52,-24.72,-134.88:99
chr2 1247915 rs62108064 G T 253.34 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.58;MQ=59.56;MQ0=0;OQ=775.44;QD=14.63;SB=-399.16 GT:AD:DP:GL:GQ 0/1:27,26:53:-96.79,-15.96,-96.64:99
chr2 1248080 rs62108065 T G 189.85 PASS AC=1;AF=0.50;AN=2;DB;DP=102;Dels=0.00;HRun=0;HaplotypeScore=1.49;MQ=59.36;MQ0=0;OQ=1319.77;QD=12.94;SB=-619.99 GT:AD:DP:GL:GQ 0/1:56,46:100:-165.38,-30.12,-198.92:99
chr2 1248158 rs62108066 C G 115.30 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=4.42;MQ=59.39;MQ0=0;OQ=1373.65;QD=18.07;SB=-611.62 GT:AD:DP:GL:GQ 0/1:38,38:76:-163.55,-22.90,-164.24:99
chr2 1248322 rs62108067 G A 228.32 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=1.78;MQ=60.00;MQ0=0;OQ=531.30;QD=13.62;SB=-272.33 GT:AD:DP:GL:GQ 0/1:19,20:35:-66.96,-10.55,-61.94:99
chr2 1248630 . C A 51.87 PASS AC=1;AF=0.50;AN=2;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=58.42;MQ0=0;OQ=479.00;QD=8.12;SB=-257.57 GT:AD:DP:GL:GQ 0/1:39,20:58:-68.66,-17.47,-140.02:99
chr2 1248746 rs62108068 C T 123.83 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.98;MQ=57.66;MQ0=0;OQ=1007.80;QD=17.08;SB=-262.27 GT:AD:DP:GL:GQ 0/1:29,30:57:-121.24,-17.18,-84.53:99
chr2 1248904 rs62108069 T C 137.86 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=1.97;MQ=57.43;MQ0=0;OQ=1096.15;QD=15.66;SB=-296.32 GT:AD:DP:GL:GQ 0/1:32,38:70:-133.98,-21.09,-131.00:99
chr2 1249066 . C G 1.96 PASS AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=7.16;MQ=55.68;MQ0=0;OQ=601.99;QD=14.00;SB=-298.01 GT:AD:DP:GL:GQ 0/1:22,21:41:-75.86,-12.37,-91.05:99
chr2 1249083 rs36182083 G C 4.03 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=2;HaplotypeScore=2.91;MQ=55.35;MQ0=0;OQ=357.43;QD=7.45;SB=-156.18 GT:AD:DP:GL:GQ 0/1:32,16:43:-52.00,-12.97,-123.12:99
chr2 1249095 . G C 0.76 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=1;HaplotypeScore=3.82;MQ=53.23;MQ0=0;OQ=341.89;QD=7.12;SB=-126.69 GT:AD:DP:GL:GQ 0/1:35,13:45:-51.04,-13.57,-141.80:99
chr2 1249110 . C G 0.11 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=1;HaplotypeScore=9.23;MQ=52.59;MQ0=0;OQ=414.86;QD=7.68;SB=-135.34 GT:AD:DP:GL:GQ 0/1:39,15:52:-60.47,-15.70,-147.40:99
chr2 1249122 rs34054237 G C 21.27 PASS AC=1;AF=0.50;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=5.98;MQ=53.58;MQ0=0;OQ=620.00;QD=11.70;SB=-312.96 GT:AD:DP:GL:GQ 0/1:34,19:53:-81.26,-15.97,-148.09:99
chr2 1249132 . T C 5.77 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=6.14;MQ=53.83;MQ0=0;OQ=738.64;QD=13.43;SB=-375.18 GT:AD:DP:GL:GQ 0/1:28,27:55:-93.73,-16.58,-105.74:99
chr2 1249173 rs28568920 G A 162.23 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=55.58;MQ0=0;OQ=995.61;QD=18.44;SB=-358.41 GT:AD:DP:GL:GQ 0/1:24,30:51:-118.22,-15.38,-64.02:99
chr2 1249184 . G C 10.92 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=2.66;MQ=54.71;MQ0=0;OQ=814.55;QD=16.29;SB=-172.47 GT:AD:DP:GL:GQ 0/1:20,30:44:-98.01,-13.27,-84.75:99
chr2 1249197 . C T 7.18 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=4.26;MQ=56.69;MQ0=0;OQ=830.40;QD=16.61;SB=-245.55 GT:AD:DP:GL:GQ 0/1:20,30:44:-99.59,-13.27,-59.32:99
chr2 1249295 rs13015473 T G 43.90 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=2;HaplotypeScore=2.97;MQ=57.80;MQ0=0;OQ=883.47;QD=13.80;SB=-348.80 GT:AD:DP:GL:GQ 0/1:33,31:62:-110.31,-18.68,-110.71:99
chr2 1249371 rs9752720 T A 286.18 PASS AC=1;AF=0.50;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=56.81;MQ0=0;OQ=573.41;QD=11.03;SB=-299.66 GT:AD:DP:GL:GQ 0/1:31,21:51:-75.98,-15.36,-119.15:99
chr2 1249539 rs13015928 T G 335.75 PASS AC=1;AF=0.50;AN=2;DB;DP=86;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=58.46;MQ0=0;OQ=1063.46;QD=12.37;SB=-423.65 GT:AD:DP:GL:GQ 0/1:41,45:83:-134.63,-25.00,-157.60:99
chr2 1249618 rs13000319 C G 464.35 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1018.90;QD=16.70;SB=-414.30 GT:AD:DP:GL:GQ 0/1:33,28:60:-123.25,-18.08,-141.08:99
chr2 1250107 rs34542909 A G 421.84 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.24;MQ0=0;OQ=679.97;QD=11.15;SB=-263.21 GT:AD:DP:GL:GQ 0/1:34,27:61:-89.66,-18.38,-134.91:99
chr2 1250836 rs9283286 T A 345.38 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.41;MQ0=0;OQ=1057.84;QD=13.56;SB=-518.24 GT:AD:DP:GL:GQ 0/1:43,35:75:-131.66,-22.59,-152.48:99
chr2 1251105 rs13020756 G A 322.73 PASS AC=1;AF=0.50;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=56.09;MQ0=0;OQ=1213.41;QD=15.36;SB=-499.01 GT:AD:DP:GL:GQ 0/1:41,38:78:-148.12,-23.49,-149.28:99
chr2 1251919 rs12998317 T G 265.27 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=1.66;MQ=59.73;MQ0=0;OQ=1083.58;QD=15.94;SB=-471.79 GT:AD:DP:GL:GQ 0/1:29,39:65:-131.22,-19.58,-100.74:99
chr2 1252774 rs13034174 G A 358.31 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.37;MQ0=0;OQ=805.56;QD=11.04;SB=-158.21 GT:AD:DP:GL:GQ 0/1:47,26:68:-104.33,-20.49,-138.07:99
chr2 1253095 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=69;Dels=0.01;HRun=20;HaplotypeScore=23.30;MQ=50.83;MQ0=0;OQ=56.31;QD=0.82;SB=122.39 GT:AD:DP:GL:GQ 0/1:55,13:57:-25.78,-16.87,-172.60:89.15
chr2 1253119 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=79;Dels=0.03;HRun=20;HaplotypeScore=43.23;MQ=51.21;MQ0=0;OQ=644.47;QD=8.16;SB=-9.08 GT:AD:DP:GL:GQ 0/1:41,36:66:-87.02,-19.29,-144.29:99
chr2 1253549 rs35492456 G A 169.65 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.16;MQ=58.70;MQ0=0;OQ=1200.95;QD=17.66;SB=-306.81 GT:AD:DP:GL:GQ 0/1:33,35:66:-143.27,-19.89,-99.61:99
chr2 1253811 rs13023962 A G 309.28 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=48.48;MQ0=0;OQ=875.57;QD=13.68;SB=-433.61 GT:AD:DP:GL:GQ 0/1:25,39:60:-108.93,-18.09,-98.87:99
chr2 1254007 rs58086323 C T 47.31 PASS AC=1;AF=0.50;AN=2;DB;DP=43;Dels=0.00;HRun=1;HaplotypeScore=1.96;MQ=47.16;MQ0=0;OQ=802.22;QD=18.66;SB=-339.49 GT:AD:DP:GL:GQ 0/1:19,24:42:-96.17,-12.66,-57.30:99
chr2 1255201 . T C 251.99 PASS AC=1;AF=0.50;AN=2;DP=40;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=50.40;MQ0=0;OQ=490.14;QD=12.25;SB=-260.36 GT:AD:DP:GL:GQ 0/1:20,20:40:-64.36,-12.06,-74.32:99
chr2 1255349 . A G 0.06 PASS AC=1;AF=0.50;AN=2;DP=56;Dels=0.00;HRun=0;HaplotypeScore=2.99;MQ=50.02;MQ0=0;OQ=116.62;QD=2.08;SB=-50.66 GT:AD:DP:GL:GQ 0/1:43,13:51:-30.31,-15.37,-166.66:99
chr2 1255350 . C T 0.60 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=50.22;MQ0=0;OQ=171.36;QD=3.01;SB=-49.46 GT:AD:DP:GL:GQ 0/1:43,14:52:-36.09,-15.67,-152.49:99
chr2 1255371 . C T 3.56 PASS AC=1;AF=0.50;AN=2;DP=69;Dels=0.00;HRun=0;HaplotypeScore=4.31;MQ=51.28;MQ0=0;OQ=464.89;QD=6.74;SB=-233.00 GT:AD:DP:GL:GQ 0/1:52,17:65:-69.35,-19.58,-173.87:99
chr2 1255641 rs35010399 A C 241.85 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.21;MQ=55.20;MQ0=0;OQ=527.00;QD=9.76;SB=-230.76 GT:AD:DP:GL:GQ 0/1:34,20:50:-71.04,-15.06,-111.65:99
chr2 1255660 rs36088353 C G 249.33 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=1.77;MQ=55.38;MQ0=0;OQ=739.89;QD=13.21;SB=-301.90 GT:AD:DP:GL:GQ 0/1:35,21:54:-93.55,-16.28,-139.61:99
chr2 1255754 rs35537498 A G 488.47 PASS AC=1;AF=0.50;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.63;MQ0=0;OQ=997.52;QD=14.67;SB=-379.65 GT:AD:DP:GL:GQ 0/1:34,34:68:-123.52,-20.49,-138.39:99
chr2 1255762 rs62108073 A G 48.63 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=2;HaplotypeScore=0.58;MQ=59.31;MQ0=0;OQ=993.98;QD=14.84;SB=-232.27 GT:AD:DP:GL:GQ 0/1:34,33:66:-122.57,-19.88,-130.28:99
chr2 1255827 rs34552377 G A 120.29 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=3.20;MQ=58.55;MQ0=0;OQ=914.84;QD=15.00;SB=-445.97 GT:AD:DP:GL:GQ 0/1:31,30:56:-111.64,-16.87,-100.10:99
chr2 1256083 rs12718448 G T 89.21 PASS AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.00;HRun=0;HaplotypeScore=4.43;MQ=59.50;MQ0=0;OQ=1418.87;QD=15.42;SB=-698.49 GT:AD:DP:GL:GQ 0/1:44,47:89:-171.97,-26.80,-156.88:99
chr2 1256092 rs63284860 C T 0.06 PASS AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=5;HaplotypeScore=2.77;MQ=59.29;MQ0=0;OQ=1509.31;QD=16.59;SB=-735.25 GT:AD:DP:GL:GQ 0/1:45,46:89:-181.02,-26.81,-165.96:99
chr2 1256595 rs10211208 C A 4.81 PASS AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=2;HaplotypeScore=3.47;MQ=58.97;MQ0=0;OQ=1113.44;QD=17.67;SB=-242.52 GT:AD:DP:GL:GQ 0/1:25,38:59:-132.40,-17.77,-84.70:99
chr2 1256689 rs7584460 C T 485.70 PASS AC=1;AF=0.50;AN=2;DB;DP=72;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1039.91;QD=14.44;SB=-537.72 GT:AD:DP:GL:GQ 0/1:40,32:72:-128.96,-21.68,-146.39:99
chr2 1256790 rs7575645 G C 241.67 PASS AC=1;AF=0.50;AN=2;DB;DP=92;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1967.80;QD=21.39;SB=-901.18 GT:AD:DP:GL:GQ 0/1:38,54:90:-227.18,-27.11,-170.74:99
chr2 1256814 rs7575636 G A 233.51 PASS AC=1;AF=0.50;AN=2;DB;DP=91;Dels=0.00;HRun=0;HaplotypeScore=1.79;MQ=59.80;MQ0=0;OQ=1700.52;QD=18.69;SB=-633.63 GT:AD:DP:GL:GQ 0/1:41,50:89:-200.14,-26.81,-147.21:99
chr2 1257043 rs11887044 G A 503.07 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.27;MQ0=0;OQ=1193.03;QD=15.49;SB=-510.13 GT:AD:DP:GL:GQ 0/1:41,36:76:-145.49,-22.90,-131.61:99
chr2 1257125 rs7568265 T C 447.97 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.78;MQ0=0;OQ=1029.69;QD=12.41;SB=-353.94 GT:AD:DP:GL:GQ 0/1:42,41:82:-130.97,-24.72,-168.79:99
chr2 1257333 rs7581189 C T 354.02 PASS AC=1;AF=0.50;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.74;MQ0=0;OQ=1520.12;QD=17.08;SB=-580.37 GT:AD:DP:GL:GQ 0/1:42,47:87:-181.50,-26.21,-148.76:99
chr2 1257344 rs7556710 A G 372.94 PASS AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.74;MQ0=0;OQ=1285.43;QD=14.78;SB=-449.95 GT:AD:DP:GL:GQ 0/1:44,43:85:-157.43,-25.61,-166.66:99
chr2 1257358 rs7572353 G A 273.04 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=0.98;MQ=59.72;MQ0=0;OQ=1373.62;QD=16.55;SB=-486.47 GT:AD:DP:GL:GQ 0/1:42,41:81:-165.06,-24.42,-132.25:99
chr2 1257413 rs7609491 A G 477.08 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.41;MQ0=0;OQ=982.75;QD=13.84;SB=-500.02 GT:AD:DP:GL:GQ 0/1:35,36:70:-122.65,-21.09,-141.73:99
chr2 1257571 rs7572104 G T 180.93 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=3.99;MQ=59.73;MQ0=0;OQ=1264.26;QD=15.05;SB=-397.15 GT:AD:DP:GL:GQ 0/1:40,43:84:-157.19,-27.48,-134.04:99
chr2 1257800 rs7571771 G A 47.31 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=3;HaplotypeScore=-0.06;MQ=59.00;MQ0=0;OQ=1146.63;QD=16.15;SB=-466.46 GT:AD:DP:GL:GQ 0/1:36,35:70:-139.03,-21.08,-130.61:99
chr2 1258021 rs7606172 A G 327.84 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=59.67;MQ0=0;OQ=942.95;QD=13.47;SB=-213.51 GT:AD:DP:GL:GQ 0/1:37,33:69:-118.37,-20.79,-143.08:99
chr2 1258156 rs12998581 C A 433.55 PASS AC=1;AF=0.50;AN=2;DB;DP=99;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.15;MQ0=0;OQ=1449.82;QD=14.64;SB=-633.66 GT:AD:DP:GL:GQ 0/1:48,51:97:-177.48,-29.22,-175.45:99
chr2 1258611 rs60092530 G C 415.96 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.46;MQ0=0;OQ=1360.95;QD=19.72;SB=-647.65 GT:AD:DP:GL:GQ 0/1:32,37:67:-159.57,-20.19,-131.31:99
chr2 1258693 rs7369772 C T 394.69 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.60;MQ=60.05;MQ0=0;OQ=1149.55;QD=16.42;SB=-474.10 GT:AD:DP:GL:GQ 0/1:35,35:69:-139.04,-20.80,-107.58:99
chr2 1260715 rs60840925 G C 260.46 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=913.94;QD=14.74;SB=-358.44 GT:AD:DP:GL:GQ 0/1:36,26:59:-112.46,-17.78,-141.51:99
chr2 1263027 rs7424980 T C 301 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=59.73;MQ0=0;OQ=2499.76;QD=36.23;SB=-1077.12 GT:AD:DP:GL:GQ 1/1:0,69:69:-253.58,-20.78,-0.02:99
chr2 1263708 rs62108098 G C 302.54 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=44.43;MQ0=0;OQ=2377.45;QD=42.45;SB=-840.60 GT:AD:DP:GL:GQ 1/1:0,56:56:-241.35,-16.87,-0.02:99
chr2 1263868 rs62108099 T C 449.72 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=44.36;MQ0=0;OQ=2286.34;QD=32.20;SB=-858.58 GT:AD:DP:GL:GQ 1/1:0,71:70:-232.27,-21.10,-0.05:99
chr2 1263953 . C G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=0;HaplotypeScore=58.65;MQ=40.44;MQ0=0;OQ=185.44;QD=2.81;SB=68.26 GT:AD:DP:GL:GQ 0/1:52,9:65:-57.54,-35.72,-241.61:99
chr2 1264017 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=61;Dels=0.03;HRun=0;HaplotypeScore=101.88;MQ=31.49;MQ0=1;OQ=586.20;QD=9.61;SB=-111.53 GT:AD:DP:GL:GQ 0/1:34,25:50:-76.36,-14.46,-100.02:99
chr2 1264041 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=84;Dels=0.01;HRun=0;HaplotypeScore=117.87;MQ=39.01;MQ0=2;OQ=218.38;QD=2.60;SB=33.99 GT:AD:DP:GL:GQ 0/1:65,17:72:-46.82,-21.69,-229.85:99
chr2 1264055 . G A 36.29 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=0;HaplotypeScore=3.63;MQ=43.42;MQ0=2;QD=0.33;SB=149.49 GT:AD:DP:GL:GQ 0/1:100,10:96:-35.83,-28.92,-311.93:69.13
chr2 1264112 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=142;Dels=0.00;HRun=0;HaplotypeScore=233.39;MQ=41.00;MQ0=1;OQ=599.28;QD=4.22;SB=41.46 GT:AD:DP:GL:GQ 0/1:116,25:121:-99.67,-36.45,-332.16:99
chr2 1264116 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=129;Dels=0.01;HRun=1;HaplotypeScore=254.43;MQ=41.01;MQ0=0;OQ=107.58;QD=0.83;SB=125.27 GT:AD:DP:GL:GQ 0/1:113,15:123:-50.79,-36.75,-376.83:99
chr2 1264136 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=133;Dels=0.00;HRun=0;HaplotypeScore=6.85;MQ=39.25;MQ0=0;OQ=410.67;QD=3.09;SB=128.36 GT:AD:DP:GL:GQ 0/1:109,24:125:-82.02,-37.67,-361.20:99
chr2 1264152 . G C 0.03 FDRtranche0.10to1.00 AC=1;AF=0.50;AN=2;DP=116;Dels=0.00;HRun=0;HaplotypeScore=7.66;MQ=35.12;MQ0=0;OQ=973.85;QD=8.40;SB=95.35 GT:AD:DP:GL:GQ 0/1:85,31:103:-131.71,-31.04,-314.07:99
chr2 1264169 . T A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=94;Dels=0.00;HRun=0;HaplotypeScore=108.14;MQ=31.29;MQ0=0;OQ=842.08;QD=8.96;SB=62.18 GT:AD:DP:GL:GQ 0/1:62,32:85:-113.10,-25.60,-202.10:99
chr2 1264178 . A G 291.07 SnpCluster AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=0;HaplotypeScore=85.10;MQ=30.25;MQ0=0;QD=3.16;SB=-50.55 GT:AD:DP:GL:GQ 0/1:74,18:79:-56.19,-23.80,-250.46:99
chr2 1264182 rs62108100 G T 82.97 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=93;Dels=0.00;HRun=1;HaplotypeScore=102.87;MQ=29.73;MQ0=0;QD=0.89;SB=-45.64 GT:AD:DP:GL:GQ 0/1:81,12:80:-35.67,-24.09,-255.62:99
chr2 1264187 . G A 405.87 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=97;Dels=0.00;HRun=0;HaplotypeScore=220.61;MQ=32.51;MQ0=0;QD=4.18;SB=74.25 GT:AD:DP:GL:GQ 0/1:79,18:80:-67.97,-24.10,-221.69:99
chr2 1264189 . T G 603.56 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=101;Dels=0.04;HRun=1;HaplotypeScore=298.44;MQ=33.61;MQ0=0;QD=5.98;SB=77.25 GT:AD:DP:GL:GQ 0/1:68,29:82:-87.14,-23.50,-197.86:99
chr2 1264198 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=117;Dels=0.00;HRun=1;HaplotypeScore=275.31;MQ=38.52;MQ0=0;OQ=74.48;QD=0.64;SB=38.98 GT:AD:DP:GL:GQ 0/1:100,17:97:-39.95,-29.22,-300.77:99
chr2 1264200 rs62108102 G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=116;Dels=0.00;HRun=0;HaplotypeScore=248.94;MQ=39.20;MQ0=0;OQ=315.35;QD=2.72;SB=-152.68 GT:AD:DP:GL:GQ 0/1:94,22:102:-65.55,-30.73,-295.93:99
chr2 1264225 . T C 46.44 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=135;Dels=0.02;HRun=0;HaplotypeScore=206.31;MQ=43.54;MQ0=3;QD=0.34;SB=101.29 GT:AD:DP:GL:GQ 0/1:118,14:117:-42.30,-34.37,-386.50:79.27
chr2 1264226 rs62108103 A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DB;DP=136;Dels=0.02;HRun=0;HaplotypeScore=199.56;MQ=43.69;MQ0=3;OQ=1490.21;QD=10.96;SB=-477.90 GT:AD:DP:GL:GQ 0/1:69,63:120:-187.56,-35.26,-238.54:99
chr2 1264262 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=156;Dels=0.00;HRun=0;HaplotypeScore=39.90;MQ=48.48;MQ0=4;OQ=1892.25;QD=12.13;SB=-849.31 GT:AD:DP:GL:GQ 0/1:81,75:140:-234.69,-42.18,-285.60:99
chr2 1264291 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=136;Dels=0.00;HRun=0;HaplotypeScore=26.33;MQ=50.79;MQ0=1;OQ=134.33;QD=0.99;SB=140.46 GT:AD:DP:GL:GQ 0/1:119,16:128:-58.65,-41.94,-405.02:99
chr2 1264325 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=93;Dels=0.00;HRun=0;HaplotypeScore=97.40;MQ=51.22;MQ0=0;OQ=138.50;QD=1.49;SB=80.27 GT:AD:DP:GL:GQ 0/1:82,11:89:-43.95,-26.81,-269.17:99
chr2 1264346 rs62108104 A G 135.48 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=57.98;MQ0=0;OQ=1964.20;QD=30.22;SB=-783.58 GT:AD:DP:GL:GQ 1/1:0,65:62:-200.06,-18.70,-0.06:99
chr2 1264604 rs55705401 A T 128.61 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=58.55;MQ0=0;OQ=1719.70;QD=35.83;SB=-761.70 GT:AD:DP:GL:GQ 1/1:0,48:47:-175.57,-14.16,-0.01:99
chr2 1264961 rs55652502 C T 8.17 PASS AC=1;AF=0.50;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=5.65;MQ=59.66;MQ0=0;OQ=1431.81;QD=21.37;SB=-641.72 GT:AD:DP:GL:GQ 0/1:23,44:65:-166.05,-19.58,-80.74:99
chr2 1265684 rs57954910 C A 39.79 PASS AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=58.26;MQ0=0;OQ=559.31;QD=15.98;SB=-71.85 GT:AD:DP:GL:GQ 0/1:16,19:35:-69.76,-10.54,-56.55:99
chr2 1265943 rs62108108 A C 63.60 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=1;HaplotypeScore=1.85;MQ=58.87;MQ0=0;OQ=296.96;QD=8.03;SB=-115.91 GT:AD:DP:GL:GQ 0/1:20,17:33:-42.93,-9.95,-71.04:99
chr2 1266335 rs11211638 C T 301.35 PASS AC=1;AF=0.50;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=2.93;MQ=58.44;MQ0=0;OQ=1015.14;QD=17.81;SB=-483.52 GT:AD:DP:GL:GQ 0/1:27,30:56:-121.68,-16.88,-82.99:99
chr2 1266343 rs12992841 T C 52.87 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=2;HaplotypeScore=2.65;MQ=58.39;MQ0=0;OQ=825.12;QD=15.00;SB=-382.63 GT:AD:DP:GL:GQ 0/1:24,30:53:-104.30,-18.50,-96.82:99
chr2 1266398 rs11211639 T C 0.03 FDRtranche0.10to1.00 AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=3;HaplotypeScore=15.30;MQ=58.51;MQ0=0;OQ=1382.08;QD=29.41;SB=-409.51 GT:AD:DP:GL:GQ 1/1:1,46:41:-141.81,-12.35,-0.02:99
chr2 1266879 rs13411595 T C 473.90 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.97;MQ=59.62;MQ0=0;OQ=887.82;QD=14.55;SB=-431.94 GT:AD:DP:GL:GQ 0/1:28,33:60:-110.16,-18.09,-104.55:99
chr2 1266929 rs11211641 T G 442.39 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=58.91;MQ0=0;OQ=806.57;QD=12.60;SB=-402.65 GT:AD:DP:GL:GQ 0/1:29,35:62:-102.62,-18.68,-106.66:99
chr2 1267113 rs6754505 A G 459.56 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.57;MQ0=0;OQ=2013.26;QD=30.05;SB=-738.28 GT:AD:DP:GL:GQ 1/1:0,67:64:-204.97,-19.31,-0.06:99
chr2 1267304 rs6738955 C T 400.50 PASS AC=1;AF=0.50;AN=2;DB;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.83;MQ=57.90;MQ0=0;OQ=1591.48;QD=18.72;SB=-699.72 GT:AD:DP:GL:GQ 0/1:38,47:84:-187.74,-25.31,-129.12:99
chr2 1267681 rs62108109 C G 1400.12 Indel AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=62.23;MQ0=0;QD=23.73;SB=-178.63 GT:AD:DP:GL:GQ 0/1:21,38:59:-161.07,-17.78,-94.66:99
chr2 1270103 rs7421044 G A 269.48 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.33;MQ=59.76;MQ0=0;OQ=2936.92;QD=38.14;SB=-1096.45 GT:AD:DP:GL:GQ 1/1:0,77:75:-297.31,-22.60,-0.03:99
chr2 1270697 rs62108110 G A 235.17 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=55.73;MQ0=0;OQ=853.59;QD=17.42;SB=-440.97 GT:AD:DP:GL:GQ 0/1:23,26:49:-103.41,-14.77,-75.07:99
chr2 1270971 rs55648800 C T 214.32 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=1.41;MQ=56.79;MQ0=0;OQ=1195.54;QD=20.26;SB=-612.65 GT:AD:DP:GL:GQ 0/1:22,37:57:-140.02,-17.18,-69.76:99
chr2 1272267 rs12467819 G A 414.96 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.59;MQ0=0;OQ=726.08;QD=15.78;SB=-366.49 GT:AD:DP:GL:GQ 0/1:24,22:46:-89.75,-13.86,-85.72:99
chr2 1272835 rs62108111 T C 264.86 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=1.72;MQ=59.65;MQ0=0;OQ=979.04;QD=14.83;SB=-433.90 GT:AD:DP:GL:GQ 0/1:32,34:65:-120.77,-19.58,-129.64:99
chr2 1273093 rs6605276 A G 1.68 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=11.13;MQ=56.76;MQ0=0;OQ=1557.30;QD=22.90;SB=-660.75 GT:AD:DP:GL:GQ 1/1:0,66:53:-163.02,-19.47,-3.70:99
chr2 1275956 . C T 16.63 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=4;HaplotypeScore=12.05;MQ=56.83;MQ0=0;QD=0.32;SB=92.31 GT:AD:DP:GL:GQ 0/1:43,8:45:-18.50,-13.56,-142.69:49.37
chr2 1275980 rs9678902 C A 122.92 PASS AC=1;AF=0.50;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.73;MQ=60.15;MQ0=0;OQ=564.43;QD=12.01;SB=-112.44 GT:AD:DP:GL:GQ 0/1:27,20:47:-73.89,-14.16,-93.79:99
chr2 1276622 rs9753172 T C 573.81 PASS AC=1;AF=0.50;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=806.64;QD=16.13;SB=-396.27 GT:AD:DP:GL:GQ 0/1:22,28:50:-99.01,-15.06,-88.34:99
chr2 1276981 rs4575767 C T 6.63 PASS AC=1;AF=0.50;AN=2;DB;DP=65;Dels=0.00;HRun=1;HaplotypeScore=3.72;MQ=59.29;MQ0=0;OQ=1406.44;QD=21.64;SB=-560.77 GT:AD:DP:GL:GQ 0/1:24,41:63:-162.90,-18.98,-81.89:99
chr2 1277617 rs9677285 A T 152.90 PASS AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=1;HaplotypeScore=3.25;MQ=59.20;MQ0=0;OQ=1358.13;QD=15.61;SB=-652.78 GT:AD:DP:GL:GQ 0/1:42,45:85:-164.70,-25.61,-154.03:99
chr2 1277832 rs56308241 C T 341.53 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=60.00;MQ0=0;OQ=1158.88;QD=15.25;SB=-603.65 GT:AD:DP:GL:GQ 0/1:40,36:73:-141.17,-22.00,-121.81:99
chr2 1277922 rs9677798 G A 392.61 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=1.10;MQ=59.02;MQ0=0;OQ=1024.22;QD=14.43;SB=-452.41 GT:AD:DP:GL:GQ 0/1:39,32:65:-125.29,-19.58,-120.95:99
chr2 1279044 rs9753154 C T 302.85 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=1.66;MQ=59.28;MQ0=0;OQ=1381.83;QD=18.93;SB=-588.17 GT:AD:DP:GL:GQ 0/1:31,42:71:-162.86,-21.40,-111.97:99
chr2 1279817 rs3922642 G A 351.31 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=60.00;MQ0=0;OQ=1070.32;QD=16.72;SB=-485.50 GT:AD:DP:GL:GQ 0/1:32,32:63:-129.29,-18.98,-113.55:99
chr2 1280016 . T C 183.90 PASS AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=457.86;QD=9.74;SB=-207.65 GT:AD:DP:GL:GQ 0/1:26,21:46:-62.94,-13.87,-106.29:99
chr2 1282547 rs12718451 G A 79.70 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=4.85;MQ=58.62;MQ0=0;OQ=1005.46;QD=16.48;SB=-375.90 GT:AD:DP:GL:GQ 0/1:30,30:60:-121.92,-18.09,-94.96:99
chr2 1282627 . G A 80.98 PASS AC=1;AF=0.50;AN=2;DP=82;Dels=0.00;HRun=0;HaplotypeScore=1.97;MQ=59.77;MQ0=0;OQ=1414.77;QD=17.25;SB=-652.74 GT:AD:DP:GL:GQ 0/1:38,44:80:-168.87,-24.11,-122.68:99
chr2 1284834 rs10048754 A G 35.17 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=2;HaplotypeScore=1.31;MQ=57.90;MQ0=0;OQ=519.19;QD=9.61;SB=-245.89 GT:AD:DP:GL:GQ 0/1:31,23:50:-70.28,-15.07,-110.70:99
chr2 1287377 . C T 9.27 PASS AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=5.00;MQ=58.85;MQ0=0;OQ=994.03;QD=18.41;SB=-503.08 GT:AD:DP:GL:GQ 0/1:23,31:52:-118.36,-15.67,-69.82:99
chr2 1288963 rs4293594 T C 495.53 PASS AC=1;AF=0.50;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=478.64;QD=10.64;SB=-221.26 GT:AD:DP:GL:GQ 0/1:23,22:43:-64.11,-12.96,-90.21:99
chr2 1289048 rs4293595 T C 11.42 PASS AC=1;AF=0.50;AN=2;DB;DP=41;Dels=0.00;HRun=4;HaplotypeScore=0.73;MQ=59.44;MQ0=0;OQ=502.49;QD=12.26;SB=-233.94 GT:AD:DP:GL:GQ 0/1:20,21:39:-65.29,-11.76,-76.23:99
chr2 1289125 rs4287807 A G 174.16 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=2.38;MQ=57.83;MQ0=0;OQ=602.21;QD=11.15;SB=-208.48 GT:AD:DP:GL:GQ 0/1:29,25:51:-78.88,-15.37,-103.61:99
chr2 1289562 rs9751877 A G 193.48 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.12;MQ=59.81;MQ0=0;OQ=2116.95;QD=32.57;SB=-851.95 GT:AD:DP:GL:GQ 1/1:0,65:62:-215.31,-18.68,-0.03:99
chr2 1289623 rs62637984 G A 220.10 PASS AC=1;AF=0.50;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=2.79;MQ=59.64;MQ0=0;OQ=1137.26;QD=17.77;SB=-564.42 GT:AD:DP:GL:GQ 0/1:30,34:64:-136.30,-19.29,-95.63:99
chr2 1290164 rs13021490 C T 382.30 PASS AC=1;AF=0.50;AN=2;DB;DP=76;Dels=0.00;HRun=0;HaplotypeScore=1.81;MQ=59.23;MQ0=0;OQ=1219.92;QD=16.05;SB=-528.05 GT:AD:DP:GL:GQ 0/1:38,38:75:-147.89,-22.61,-117.95:99
chr2 1290348 rs9679244 G A 224.63 PASS AC=1;AF=0.50;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.55;MQ0=0;OQ=771.98;QD=15.14;SB=-324.84 GT:AD:DP:GL:GQ 0/1:27,24:51:-95.85,-15.37,-94.92:99
chr2 1290679 rs9679273 G A 352.59 PASS AC=1;AF=0.50;AN=2;DB;DP=42;Dels=0.00;HRun=0;HaplotypeScore=1.21;MQ=60.00;MQ0=0;OQ=589.63;QD=14.04;SB=-247.55 GT:AD:DP:GL:GQ 0/1:21,21:36:-73.10,-10.85,-57.04:99
chr2 1292227 rs59675517 T G 8.26 PASS AC=1;AF=0.50;AN=2;DB;DP=81;Dels=0.00;HRun=3;HaplotypeScore=3.48;MQ=60.00;MQ0=0;OQ=1219.53;QD=15.06;SB=-620.81 GT:AD:DP:GL:GQ 0/1:36,42:75:-147.83,-22.59,-121.40:99
chr2 1292333 rs9678377 C G 10.96 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=1;HaplotypeScore=2.90;MQ=58.03;MQ0=0;OQ=2442.54;QD=42.85;SB=-1196.94 GT:AD:DP:GL:GQ 1/1:0,57:57:-247.86,-17.18,-0.02:99
chr2 1292343 . C T 79.27 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.63;MQ=58.39;MQ0=0;OQ=873.24;QD=15.88;SB=-327.39 GT:AD:DP:GL:GQ 0/1:26,29:54:-106.88,-16.27,-96.35:99
chr2 1292835 rs34775793 A C 232.36 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=1.44;MQ=59.78;MQ0=0;OQ=1541.61;QD=18.57;SB=-753.77 GT:AD:DP:GL:GQ 0/1:31,52:82:-182.14,-24.70,-115.34:99
chr2 1293264 rs13425061 A G 225.64 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.08;MQ0=0;OQ=548.30;QD=8.99;SB=-208.24 GT:AD:DP:GL:GQ 0/1:36,25:59:-75.90,-17.78,-141.81:99
chr2 1293835 rs56274588 G A 149.01 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.18;MQ=60.00;MQ0=0;OQ=778.47;QD=15.89;SB=-209.21 GT:AD:DP:GL:GQ 0/1:26,23:46:-95.00,-13.87,-72.77:99
chr2 1294814 rs12476353 T C 332.74 PASS AC=1;AF=0.50;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.98;MQ=59.75;MQ0=0;OQ=868.58;QD=11.74;SB=-376.62 GT:AD:DP:GL:GQ 0/1:43,31:74:-112.43,-22.29,-174.44:99
chr2 1295027 rs9678814 C A 93.07 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=2;HaplotypeScore=2.80;MQ=59.87;MQ0=0;OQ=719.20;QD=12.84;SB=-295.98 GT:AD:DP:GL:GQ 0/1:30,26:53:-91.17,-15.97,-95.05:99
chr2 1295054 rs9678815 C T 70.05 PASS AC=1;AF=0.50;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=2.14;MQ=59.46;MQ0=0;OQ=414.09;QD=7.39;SB=-139.05 GT:AD:DP:GL:GQ 0/1:34,20:46:-58.56,-13.87,-102.65:99
chr2 1295074 rs12475936 G T 46.20 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.84;MQ=59.85;MQ0=0;OQ=973.53;QD=20.28;SB=-317.71 GT:AD:DP:GL:GQ 0/1:16,32:46:-114.50,-13.86,-46.11:99
chr2 1295095 rs9677935 C T 263.53 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=1.42;MQ=58.93;MQ0=0;OQ=458.92;QD=9.37;SB=-142.60 GT:AD:DP:GL:GQ 0/1:30,18:44:-62.44,-13.27,-89.38:99
chr2 1295380 rs9677943 C T 392.83 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=58.99;MQ0=0;OQ=962.53;QD=16.04;SB=-352.13 GT:AD:DP:GL:GQ 0/1:29,31:58:-117.02,-17.49,-88.74:99
chr2 1295511 rs4927623 T C 219.80 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.52;MQ=59.10;MQ0=2;OQ=2077.39;QD=31.01;SB=-611.96 GT:AD:DP:GL:GQ 1/1:0,67:63:-211.37,-18.99,-0.04:99
chr2 1296249 rs12477102 G A 372.52 PASS AC=1;AF=0.50;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=0.73;MQ=59.44;MQ0=0;OQ=1144.32;QD=13.96;SB=-477.49 GT:AD:DP:GL:GQ 0/1:47,35:80:-141.82,-24.10,-153.19:99
chr2 1296349 rs10196789 A G 212.84 PASS AC=1;AF=0.50;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=4.17;MQ=58.88;MQ0=0;OQ=961.09;QD=11.58;SB=-483.76 GT:AD:DP:GL:GQ 0/1:44,39:83:-124.41,-25.02,-175.79:99
chr2 1296479 rs10183835 C T 151.84 PASS AC=1;AF=0.50;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=2.14;MQ=59.22;MQ0=0;OQ=999.81;QD=16.95;SB=-294.83 GT:AD:DP:GL:GQ 0/1:28,31:59:-121.05,-17.79,-90.92:99
chr2 1296745 rs10191546 T A 369.70 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2914.34;QD=37.36;SB=-1375.46 GT:AD:DP:GL:GQ 1/1:0,78:77:-295.04,-23.19,-0.02:99
chr2 1296967 rs34801124 A G 360.86 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.73;MQ0=0;OQ=952.33;QD=13.60;SB=-380.24 GT:AD:DP:GL:GQ 0/1:37,33:70:-119.60,-21.09,-148.25:99
chr2 1297138 rs13420301 A G 260.41 PASS AC=1;AF=0.50;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=2.59;MQ=59.39;MQ0=0;OQ=1010.07;QD=14.64;SB=-514.90 GT:AD:DP:GL:GQ 0/1:32,37:67:-124.48,-20.19,-128.63:99
chr2 1297297 . G C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=38;Dels=0.00;HRun=1;HaplotypeScore=6.41;MQ=58.16;MQ0=0;OQ=76.61;QD=2.02;SB=56.21 GT:AD:DP:GL:GQ 0/1:23,14:28:-22.21,-11.27,-93.27:99
chr2 1297729 . A T 87.66 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=0;HaplotypeScore=1.60;MQ=59.63;MQ0=0;OQ=559.41;QD=10.97;SB=-290.56 GT:AD:DP:GL:GQ 0/1:30,20:49:-73.99,-14.76,-106.10:99
chr2 1297974 rs9326175 A T 352.06 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=59.58;MQ0=0;OQ=2074.79;QD=37.72;SB=-953.10 GT:AD:DP:GL:GQ 1/1:0,55:55:-211.08,-16.56,-0.01:99
chr2 1298579 rs62105562 A C 425.95 PASS AC=1;AF=0.50;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.46;MQ0=0;OQ=850.81;QD=10.91;SB=-307.94 GT:AD:DP:GL:GQ 0/1:46,32:77:-111.55,-23.19,-168.47:99
chr2 1298608 rs11898786 T C 268.77 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=59.75;MQ0=0;OQ=2305.90;QD=31.16;SB=-981.06 GT:AD:DP:GL:GQ 1/1:0,74:73:-234.24,-22.02,-0.07:99
chr2 1298761 rs4927633 G A 479.63 PASS AC=1;AF=0.50;AN=2;DB;DP=46;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.59;MQ0=0;OQ=843.21;QD=18.33;SB=-390.91 GT:AD:DP:GL:GQ 0/1:21,25:46:-101.47,-13.87,-67.10:99
chr2 1298899 rs4927634 A T 697.12 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.67;MQ0=0;OQ=1790.67;QD=36.54;SB=-860.95 GT:AD:DP:GL:GQ 1/1:0,49:48:-182.67,-14.46,-0.01:99
chr2 1299150 rs4927635 C T 137.34 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.48;MQ=53.95;MQ0=0;OQ=2083.99;QD=37.21;SB=-542.69 GT:AD:DP:GL:GQ 1/1:0,56:53:-212.00,-15.96,-0.01:99
chr2 1299307 rs35466197 A G 1967.75 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=43.61;MQ0=0;QD=31.74;SB=-613.35 GT:AD:DP:GL:GQ 1/1:0,62:56:-200.38,-16.87,-0.02:99
chr2 1299311 . C A 1858.86 SnpCluster AC=2;AF=1.00;AN=2;DP=58;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=43.80;MQ0=0;QD=32.05;SB=-547.79 GT:AD:DP:GL:GQ 1/1:0,58:52:-189.49,-15.67,-0.02:99
chr2 1299312 . G C 2194.86 SnpCluster AC=2;AF=1.00;AN=2;DP=57;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=43.91;MQ0=0;QD=38.51;SB=-567.50 GT:AD:DP:GL:GQ 1/1:0,57:50:-223.08,-15.06,-0.01:99
chr2 1299431 rs35838657 G A 0.02 FDRtranche1.00to2.00 AC=2;AF=1.00;AN=2;DB;DP=91;Dels=0.01;HRun=4;HaplotypeScore=6.99;MQ=49.60;MQ0=3;OQ=3227.04;QD=35.46;SB=-1541.05 GT:AD:DP:GL:GQ 1/1:0,90:80:-326.33,-24.10,-0.02:99
chr2 1299490 rs35574555 C G 96.59 PASS AC=2;AF=1.00;AN=2;DB;DP=77;Dels=0.00;HRun=1;HaplotypeScore=0.83;MQ=38.95;MQ0=5;OQ=2560.89;QD=33.26;SB=-1284.01 GT:AD:DP:GL:GQ 1/1:0,77:59:-259.69,-17.77,-0.01:99
chr2 1299514 rs61451409 C T 1325 HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=2;HaplotypeScore=15.98;MQ=26.37;MQ0=15;QD=20.70;SB=-632.85 GT:AD:DP:GL:GQ 1/1:0,64:34:-136.10,-10.24,-0.01:99
chr2 1299515 rs57644105 T A 670.45 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=15.98;MQ=25.48;MQ0=15;QD=10.64;SB=-356.16 GT:AD:DP:GL:GQ 0/1:27,33:33:-86.92,-16.59,-42.41:99
chr2 1299522 rs12999300 C G 704.27 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=21.57;MQ=24.67;MQ0=18;QD=10.67;SB=-341.04 GT:AD:DP:GL:GQ 0/1:36,30:31:-83.05,-9.34,-51.43:99
chr2 1299526 rs34758539 G C 0.16 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=1;HaplotypeScore=19.57;MQ=24.67;MQ0=17;OQ=914.17;QD=14.28;SB=-381.17 GT:AD:DP:GL:GQ 1/1:1,35:31:-129.15,-38.98,-34.15:48.24
chr2 1299555 rs35953488 A G 0.21 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=4.99;MQ=22.01;MQ0=17;OQ=85.67;QD=1.75;SB=-30.91 GT:AD:DP:GL:GQ 0/1:37,12:21:-18.18,-6.33,-59.25:99
chr2 1299603 . T G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=0;HaplotypeScore=9.90;MQ=23.34;MQ0=7;OQ=71.06;QD=2.73;SB=-25.92 GT:AD:DP:GL:GQ 0/1:9,13:11:-20.64,-10.25,-26.51:99
chr2 1299610 rs34450647 G C 0.12 PASS AC=1;AF=0.50;AN=2;DB;DP=24;Dels=0.00;HRun=0;HaplotypeScore=11.89;MQ=21.18;MQ0=6;OQ=73.83;QD=3.08;SB=-0.98 GT:AD:DP:GL:GQ 0/1:17,7:10:-13.68,-3.02,-28.37:99
chr2 1299614 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=6.89;MQ=21.55;MQ0=6;OQ=65.08;QD=2.60;SB=-3.99 GT:AD:DP:GL:GQ 0/1:21,4:9:-12.50,-2.71,-22.82:97.92
chr2 1299630 . C T 14.28 PASS AC=2;AF=1.00;AN=2;DP=16;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=22.64;MQ0=1;OQ=269.37;QD=16.84;SB=-50.56 GT:AD:DP:GL:GQ 1/1:0,16:8:-30.52,-2.41,-0.01:24.07
chr2 1299645 rs35993482 G A 401.48 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=21;Dels=0.00;HRun=0;HaplotypeScore=20.94;MQ=25.09;MQ0=1;QD=19.12;SB=-94.34 GT:AD:DP:GL:GQ 1/1:0,21:11:-43.73,-3.31,-0.00:33.11
chr2 1299647 . T A 111.87 SnpCluster AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=0;HaplotypeScore=29.93;MQ=29.44;MQ0=1;QD=4.14;SB=-5.76 GT:AD:DP:GL:GQ 0/1:11,9:13:-28.21,-13.74,-30.17:99
chr2 1299648 rs34666162 T G 103.87 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=29;Dels=0.00;HRun=0;HaplotypeScore=34.92;MQ=30.81;MQ0=1;QD=3.58;SB=-3.98 GT:AD:DP:GL:GQ 0/1:21,8:14:-17.89,-4.22,-31.86:99
chr2 1299654 rs34170040 G C 293.77 SnpCluster AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=15.98;MQ=30.24;MQ0=2;QD=8.39;SB=-43.44 GT:AD:DP:GL:GQ 0/1:19,16:20:-38.69,-6.03,-46.41:99
chr2 1299702 rs62105563 C T 0.12 PASS AC=1;AF=0.50;AN=2;DB;DP=108;Dels=0.00;HRun=0;HaplotypeScore=15.89;MQ=33.92;MQ0=8;OQ=752.27;QD=6.97;SB=-88.56 GT:AD:DP:GL:GQ 0/1:70,38:61:-96.89,-18.38,-136.19:99
chr2 1299746 . C T 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=91;Dels=0.00;HRun=0;HaplotypeScore=10.45;MQ=34.20;MQ0=10;OQ=339.26;QD=3.73;SB=-17.48 GT:AD:DP:GL:GQ 0/1:75,16:51:-52.57,-15.36,-141.08:99
chr2 1299774 . A G 0.17 PASS AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=24.97;MQ0=6;OQ=80.80;QD=2.89;SB=-7.00 GT:AD:DP:GL:GQ 0/1:17,11:10:-14.38,-3.01,-23.15:99
chr2 1299779 rs62105565 G T 63.59 PASS AC=2;AF=1.00;AN=2;DB;DP=17;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=21.77;MQ0=6;OQ=73.28;QD=4.31;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,17:3:-10.82,-0.90,-0.00:9.03
chr2 1299824 rs62105566 T G 72.65 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=35;Dels=0.00;HRun=0;HaplotypeScore=43.86;MQ=16.76;MQ0=9;QD=2.08;SB=-21.51 GT:AD:DP:GL:GQ 0/1:26,9:11:-13.86,-3.31,-23.63:99
chr2 1299828 . A C 59.06 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=1;HaplotypeScore=45.82;MQ=16.41;MQ0=11;QD=1.41;SB=2.03 GT:AD:DP:GL:GQ 0/1:33,9:13:-13.10,-3.92,-33.03:91.90
chr2 1299834 . G C 380.64 HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DP=46;Dels=0.00;HRun=1;HaplotypeScore=23.12;MQ=16.41;MQ0=11;QD=8.27;SB=-135.80 GT:AD:DP:GL:GQ 1/1:0,27:14:-58.10,-18.36,-16.46:19.03
chr2 1299863 . G A 103.75 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=1;HaplotypeScore=39.30;MQ=15.58;MQ0=20;QD=1.55;SB=11.06 GT:AD:DP:GL:GQ 0/1:57,10:19:-19.38,-5.72,-51.95:99
chr2 1299868 . T G 220.83 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=67;Dels=0.00;HRun=0;HaplotypeScore=88.35;MQ=15.58;MQ0=20;QD=3.30;SB=-128.96 GT:AD:DP:GL:GQ 0/1:45,22:19:-31.09,-5.72,-37.16:99
chr2 1299872 . A C 19.18 HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=1;HaplotypeScore=56.38;MQ=15.88;MQ0=20;QD=0.29;SB=-9.91 GT:AD:DP:GL:GQ 0/1:55,11:20:-11.22,-6.03,-62.18:51.97
chr2 1299878 . C T 261.75 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=43.54;MQ=16.04;MQ0=21;QD=3.85;SB=-65.04 GT:AD:DP:GL:GQ 0/1:41,27:21:-35.79,-6.33,-43.29:99
chr2 1299922 . C T 0.14 PASS AC=1;AF=0.50;AN=2;DP=37;Dels=0.00;HRun=0;HaplotypeScore=3.00;MQ=14.40;MQ0=14;OQ=101.52;QD=2.74;SB=-74.28 GT:AD:DP:GL:GQ 0/1:19,18:9:-16.15,-2.71,-19.15:99
chr2 1299938 . C T 1.93 PASS AC=2;AF=1.00;AN=2;DP=10;Dels=0.00;HRun=1;HaplotypeScore=0.33;MQ=13.07;MQ0=7;OQ=51.25;QD=5.13;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,9:2:-8.53,-0.60,-0.00:6.02
chr2 1299950 . A G 37.28 LowQual AC=2;AF=1.00;AN=2;DP=6;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=16.87;MQ0=3;QD=6.21;SB=-10.00 GT:AD:DP:GL:GQ 1/1:3,3:2:-7.14,-0.60,-0.00:6.02
chr2 1299951 . A G 37.28 LowQual AC=2;AF=1.00;AN=2;DP=6;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=16.87;MQ0=3;QD=6.21;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,6:2:-7.14,-0.60,-0.00:6.02
chr2 1300048 . A C 0.19 PASS AC=2;AF=1.00;AN=2;DP=15;Dels=0.00;HRun=1;HaplotypeScore=3.71;MQ=13.45;MQ0=7;OQ=67.25;QD=4.48;SB=-35.99 GT:AD:DP:GL:GQ 1/1:7,8:3:-10.22,-0.90,-0.00:9.02
chr2 1300054 . G C 3.22 PASS AC=2;AF=1.00;AN=2;DP=17;Dels=0.00;HRun=1;HaplotypeScore=3.71;MQ=14.28;MQ0=7;OQ=140.44;QD=8.26;SB=-94.94 GT:AD:DP:GL:GQ 1/1:1,10:4:-17.58,-1.20,-0.00:12.04
chr2 1300092 . A C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=34;Dels=0.00;HRun=1;HaplotypeScore=24.97;MQ=16.06;MQ0=14;OQ=218.48;QD=6.43;SB=-58.98 GT:AD:DP:GL:GQ 0/1:21,13:11:-28.44,-3.31,-10.98:76.62
chr2 1300127 . A G 11.06 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=0;HaplotypeScore=14.95;MQ=17.69;MQ0=8;QD=0.40;SB=-26.90 GT:AD:DP:GL:GQ 0/1:12,16:10:-7.37,-3.01,-31.31:43.55
chr2 1300131 . T A 14.20 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=29;Dels=0.00;HRun=0;HaplotypeScore=18.10;MQ=18.20;MQ0=9;QD=0.49;SB=-3.98 GT:AD:DP:GL:GQ 0/1:21,8:11:-8.00,-3.31,-33.37:46.87
chr2 1300138 . G C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=27;Dels=0.00;HRun=0;HaplotypeScore=11.99;MQ=18.65;MQ0=8;OQ=143.39;QD=5.31;SB=-3.98 GT:AD:DP:GL:GQ 0/1:18,9:10:-20.64,-3.01,-21.87:99
chr2 1300142 . C T 0.07 PASS AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=0;HaplotypeScore=8.31;MQ=19.11;MQ0=9;OQ=170.61;QD=6.09;SB=-88.32 GT:AD:DP:GL:GQ 0/1:15,13:10:-23.36,-3.01,-14.18:99
chr2 1300175 . G A 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=13.98;MQ=27.13;MQ0=9;OQ=84.39;QD=2.72;SB=-0.98 GT:AD:DP:GL:GQ 0/1:17,6:17:-23.86,-12.14,-46.85:99
chr2 1300219 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=49;Dels=0.00;HRun=0;HaplotypeScore=21.96;MQ=23.45;MQ0=20;OQ=66.65;QD=1.36;SB=8.05 GT:AD:DP:GL:GQ 0/1:32,9:22:-16.58,-6.63,-61.47:99
chr2 1300226 . G C 37.19 HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=0;HaplotypeScore=28.97;MQ=23.61;MQ0=20;QD=0.69;SB=-27.85 GT:AD:DP:GL:GQ 0/1:42,12:26:-14.85,-7.85,-93.07:70.03
chr2 1300243 . A T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=0;HaplotypeScore=5.16;MQ=22.14;MQ0=22;OQ=66.32;QD=0.82;SB=-38.85 GT:AD:DP:GL:GQ 0/1:72,8:36:-20.76,-10.85,-113.29:99
chr2 1300264 . T G 672.63 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=0;HaplotypeScore=51.02;MQ=19.48;MQ0=24;QD=7.56;SB=-72.60 GT:AD:DP:GL:GQ 0/1:38,51:36:-81.39,-10.84,-42.50:99
chr2 1300268 . A C 31.44 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=89;Dels=0.00;HRun=1;HaplotypeScore=65.75;MQ=20.78;MQ0=23;QD=0.35;SB=29.64 GT:AD:DP:GL:GQ 0/1:73,16:36:-17.27,-10.84,-110.74:64.28
chr2 1300274 . T C 98.94 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=94;Dels=0.00;HRun=1;HaplotypeScore=53.77;MQ=23.57;MQ0=23;QD=1.05;SB=5.90 GT:AD:DP:GL:GQ 0/1:61,33:41:-25.54,-12.36,-128.77:99
chr2 1300303 . G A 19.67 DPFilter;HARD_TO_VALIDATE;LowQual AC=1;AF=0.50;AN=2;DP=88;Dels=0.00;HRun=1;HaplotypeScore=37.83;MQ=25.51;MQ0=14;QD=0.22;SB=48.64 GT:AD:DP:GL:GQ 0/1:80,8:45:-18.80,-13.56,-148.83:52.46
chr2 1300308 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=0;HaplotypeScore=75.67;MQ=25.72;MQ0=14;OQ=1055.27;QD=11.47;SB=-189.29 GT:AD:DP:GL:GQ 0/1:27,65:46:-122.67,-13.86,-35.12:99
chr2 1300318 . C T 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=87;Dels=0.00;HRun=0;HaplotypeScore=14.05;MQ=26.73;MQ0=14;OQ=90.30;QD=1.04;SB=48.72 GT:AD:DP:GL:GQ 0/1:71,16:47:-26.47,-14.16,-139.66:99
chr2 1300346 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=2;HaplotypeScore=25.28;MQ=26.18;MQ0=21;OQ=607.94;QD=8.68;SB=-106.60 GT:AD:DP:GL:GQ 0/1:44,26:31:-73.42,-9.34,-44.54:99
chr2 1300351 . G T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=1;HaplotypeScore=32.10;MQ=27.46;MQ0=18;OQ=748.27;QD=11.88;SB=-185.19 GT:AD:DP:GL:GQ 0/1:25,36:32:-87.75,-9.64,-32.32:99
chr2 1300390 . A G 143.08 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=2;HaplotypeScore=49.15;MQ=19.57;MQ0=23;QD=1.88;SB=-36.24 GT:AD:DP:GL:GQ 0/1:62,14:23:-24.52,-6.93,-65.85:99
chr2 1300396 . T G 41.56 HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=76;Dels=0.00;HRun=0;HaplotypeScore=92.47;MQ=18.50;MQ0=23;QD=0.55;SB=-3.46 GT:AD:DP:GL:GQ 0/1:50,26:22:-14.07,-6.63,-64.98:74.39
chr2 1300400 . A C 72 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=1;HaplotypeScore=91.31;MQ=17.05;MQ0=22;QD=1.00;SB=14.07 GT:AD:DP:GL:GQ 0/1:56,16:19:-16.21,-5.72,-51.78:99
chr2 1300402 . C G 134.67 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=72.23;MQ=17.17;MQ0=21;QD=1.90;SB=-61.83 GT:AD:DP:GL:GQ 0/1:59,12:19:-22.47,-5.72,-62.17:99
chr2 1300406 . T C 311.16 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=1;HaplotypeScore=71.23;MQ=16.82;MQ0=20;QD=4.71;SB=-167.35 GT:AD:DP:GL:GQ 0/1:31,35:18:-39.82,-5.42,-28.05:99
chr2 1300434 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=54;Dels=0.00;HRun=2;HaplotypeScore=12.99;MQ=16.89;MQ0=15;OQ=68.85;QD=1.27;SB=14.08 GT:AD:DP:GL:GQ 0/1:49,5:15:-14.69,-4.52,-45.25:99
chr2 1300440 . T G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=26.30;MQ=18.39;MQ0=9;OQ=92.73;QD=1.97;SB=-41.92 GT:AD:DP:GL:GQ 0/1:21,26:14:-16.77,-4.22,-34.09:99
chr2 1300446 . C G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=7.99;MQ=19.00;MQ0=9;OQ=106.70;QD=2.48;SB=11.07 GT:AD:DP:GL:GQ 0/1:38,5:15:-18.47,-4.52,-48.74:99
chr2 1300479 . A G 134.36 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=24;Dels=0.00;HRun=0;HaplotypeScore=9.46;MQ=18.06;MQ0=8;QD=5.60;SB=-71.34 GT:AD:DP:GL:GQ 0/1:10,13:6:-18.53,-1.81,-4.06:22.50
chr2 1300484 . T G 42.10 HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=28;Dels=0.00;HRun=0;HaplotypeScore=16.41;MQ=19.80;MQ0=6;QD=1.50;SB=-3.99 GT:AD:DP:GL:GQ 0/1:16,12:9:-10.20,-2.71,-21.56:74.93
chr2 1300487 . T C 290.14 HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DP=25;Dels=0.00;HRun=0;HaplotypeScore=12.41;MQ=19.25;MQ0=6;QD=11.61;SB=-126.88 GT:AD:DP:GL:GQ 1/1:0,25:9:-32.60,-2.71,-0.00:27.08
chr2 1300490 . C G 71.83 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=26;Dels=0.00;HRun=0;HaplotypeScore=12.93;MQ=19.71;MQ0=6;QD=2.76;SB=-0.97 GT:AD:DP:GL:GQ 0/1:23,3:10:-13.48,-3.01,-30.27:99
chr2 1300522 . A G 0.58 PASS AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=2;HaplotypeScore=1.16;MQ=21.96;MQ0=6;OQ=274.67;QD=8.86;SB=-0.97 GT:AD:DP:GL:GQ 0/1:20,11:14:-34.97,-4.22,-19.60:99
chr2 1300528 . G T 306.49 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=30;Dels=0.00;HRun=2;HaplotypeScore=5.89;MQ=22.33;MQ0=5;QD=10.22;SB=-0.97 GT:AD:DP:GL:GQ 0/1:19,11:14:-38.15,-4.22,-14.68:99
chr2 1300534 . C G 468.06 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=33;Dels=0.00;HRun=0;HaplotypeScore=6.52;MQ=22.97;MQ0=5;QD=14.18;SB=-0.97 GT:AD:DP:GL:GQ 0/1:17,16:16:-54.91,-4.82,-18.03:99
chr2 1300538 . C T 422.19 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=31;Dels=0.00;HRun=0;HaplotypeScore=7.16;MQ=22.53;MQ0=5;QD=13.62;SB=-3.98 GT:AD:DP:GL:GQ 0/1:12,19:16:-50.32,-4.82,-11.47:66.45
chr2 1300581 . G C 1152.41 SnpCluster AC=2;AF=1.00;AN=2;DP=30;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=34.05;MQ0=0;QD=38.41;SB=-156.61 GT:AD:DP:GL:GQ 1/1:0,30:29:-118.84,-8.75,-0.02:87.29
chr2 1300590 . T G 1128.55 SnpCluster AC=2;AF=1.00;AN=2;DP=34;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=33.50;MQ0=0;QD=33.19;SB=-156.28 GT:AD:DP:GL:GQ 1/1:0,34:33:-116.45,-9.94,-0.01:99
chr2 1300591 . T A 1253.24 SnpCluster AC=2;AF=1.00;AN=2;DP=35;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=33.14;MQ0=0;QD=35.81;SB=-158.56 GT:AD:DP:GL:GQ 1/1:0,35:33:-128.92,-9.94,-0.01:99
chr2 1300606 . T G 158.06 PASS AC=2;AF=1.00;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=35.85;MQ0=0;OQ=1395.28;QD=27.91;SB=-275.99 GT:AD:DP:GL:GQ 1/1:0,50:40:-143.12,-12.05,-0.01:99
chr2 1300623 . C G 257.16 PASS AC=2;AF=1.00;AN=2;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=37.45;MQ0=0;OQ=1750.68;QD=28.70;SB=-499.59 GT:AD:DP:GL:GQ 1/1:0,61:46:-178.71,-13.90,-0.05:99
chr2 1300660 rs13021457 T C 563 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=36.79;MQ0=0;OQ=1510.71;QD=19.37;SB=-504.48 GT:AD:DP:GL:GQ 1/1:0,78:44:-154.67,-13.25,-0.02:99
chr2 1300670 rs12718454 G A 29.95 PASS AC=2;AF=1.00;AN=2;DB;DP=86;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=39.18;MQ0=0;OQ=2004.25;QD=23.31;SB=-687.41 GT:AD:DP:GL:GQ 1/1:0,86:51:-204.02,-15.36,-0.01:99
chr2 1300802 rs13033766 A G 331.98 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=0.47;MQ=52.15;MQ0=0;OQ=935.88;QD=13.37;SB=-353.95 GT:AD:DP:GL:GQ 0/1:36,34:67:-117.05,-20.18,-145.32:99
chr2 1301177 rs4927636 C A 51.73 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=1.81;MQ=60.00;MQ0=0;OQ=1630.72;QD=22.34;SB=-566.76 GT:AD:DP:GL:GQ 1/1:0,43:73:-282.61,-131.82,-115.95:99
chr2 1301200 rs4927637 A G 280.27 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=3.64;MQ=60.00;MQ0=0;OQ=660.76;QD=12.01;SB=-326.40 GT:AD:DP:GL:GQ 0/1:31,24:55:-85.93,-16.57,-123.56:99
chr2 1301478 . G C 20.43 PASS AC=1;AF=0.50;AN=2;DP=46;Dels=0.00;HRun=0;HaplotypeScore=3.37;MQ=58.48;MQ0=0;OQ=666.96;QD=14.50;SB=-183.23 GT:AD:DP:GL:GQ 0/1:23,22:42:-82.64,-12.66,-95.47:99
chr2 1304490 rs35480191 C T 82.70 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=59.35;MQ0=0;OQ=2827.27;QD=39.82;SB=-933.74 GT:AD:DP:GL:GQ 1/1:0,71:70:-286.33,-21.09,-0.02:99
chr2 1304647 rs56312310 T C 28.91 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=2;HaplotypeScore=1.52;MQ=39.04;MQ0=0;OQ=2503.32;QD=31.29;SB=-728.11 GT:AD:DP:GL:GQ 1/1:0,80:73:-253.95,-21.99,-0.03:99
chr2 1304663 . C G 10.79 DPFilter;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=0;HaplotypeScore=50.50;MQ=37.22;MQ0=0;QD=0.14;SB=32.14 GT:AD:DP:GL:GQ 0/1:38,37:40:-16.38,-12.05,-156.73:43.25
chr2 1304666 . T C 20.77 LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=2;HaplotypeScore=45.61;MQ=37.99;MQ0=0;QD=0.27;SB=-34.76 GT:AD:DP:GL:GQ 0/1:72,5:40:-17.40,-12.05,-143.31:53.57
chr2 1304669 . T C 52.46 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=78;Dels=0.00;HRun=2;HaplotypeScore=36.83;MQ=38.81;MQ0=0;QD=0.67;SB=41.17 GT:AD:DP:GL:GQ 0/1:43,35:48:-22.99,-14.46,-163.78:85.30
chr2 1304699 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=70;Dels=0.00;HRun=2;HaplotypeScore=25.92;MQ=45.85;MQ0=0;OQ=130.03;QD=1.86;SB=-82.38 GT:AD:DP:GL:GQ 0/1:59,9:66:-36.17,-19.88,-203.98:99
chr2 1304708 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=1;HaplotypeScore=15.55;MQ=46.50;MQ0=0;OQ=114.43;QD=1.61;SB=-65.54 GT:AD:DP:GL:GQ 0/1:60,11:68:-35.21,-20.49,-231.64:99
chr2 1305034 rs36087081 C G 268.95 PASS AC=1;AF=0.50;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=57.87;MQ0=0;OQ=1012.20;QD=15.34;SB=-293.92 GT:AD:DP:GL:GQ 0/1:38,28:66:-124.39,-19.89,-165.51:99
chr2 1305150 rs12465180 G C 603.11 PASS AC=1;AF=0.50;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=825.94;QD=14.24;SB=-428.33 GT:AD:DP:GL:GQ 0/1:31,27:56:-102.77,-16.89,-129.43:99
chr2 1306705 rs12718455 A G 253.27 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=2.44;MQ=59.38;MQ0=0;OQ=2039.43;QD=33.99;SB=-816.68 GT:AD:DP:GL:GQ 1/1:0,60:57:-207.54,-17.17,-0.02:99
chr2 1308912 rs11890895 G T 565.14 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.37;MQ0=0;OQ=2384.27;QD=36.13;SB=-749.98 GT:AD:DP:GL:GQ 1/1:0,66:66:-242.03,-19.88,-0.01:99
chr2 1309770 rs9677346 T G 590.12 PASS AC=1;AF=0.50;AN=2;DB;DP=77;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.52;MQ0=0;OQ=1181.80;QD=15.35;SB=-569.90 GT:AD:DP:GL:GQ 0/1:37,40:76:-144.35,-22.89,-134.86:99
chr2 1311039 rs34709240 C T 192.52 PASS AC=1;AF=0.50;AN=2;DB;DP=93;Dels=0.00;HRun=1;HaplotypeScore=2.10;MQ=59.55;MQ0=0;OQ=1661.03;QD=17.86;SB=-539.99 GT:AD:DP:GL:GQ 0/1:44,49:93:-197.40,-28.02,-157.36:99
chr2 1313421 rs12474377 G A 165.60 PASS AC=1;AF=0.50;AN=2;DB;DP=93;Dels=0.00;HRun=0;HaplotypeScore=1.99;MQ=59.55;MQ0=0;OQ=1770.54;QD=19.04;SB=-870.37 GT:AD:DP:GL:GQ 0/1:42,51:91:-207.76,-27.42,-135.84:99
chr2 1313590 . G A 54.18 PASS AC=1;AF=0.50;AN=2;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=59.67;MQ0=0;OQ=966.63;QD=16.96;SB=-285.21 GT:AD:DP:GL:GQ 0/1:28,29:56:-116.82,-16.88,-91.13:99
chr2 1313824 . T C 98.49 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=60.00;MQ0=0;OQ=699.68;QD=13.99;SB=-331.32 GT:AD:DP:GL:GQ 0/1:25,25:48:-87.71,-14.46,-98.32:99
chr2 1314865 rs55949772 C T 95 PASS AC=1;AF=0.50;AN=2;DB;DP=62;Dels=0.00;HRun=2;HaplotypeScore=1.77;MQ=59.24;MQ0=0;OQ=968.24;QD=15.62;SB=-491.03 GT:AD:DP:GL:GQ 0/1:32,30:60:-118.18,-18.07,-115.56:99
chr2 1315668 rs9973424 T C 222.37 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.37;MQ0=0;OQ=2361.58;QD=35.78;SB=-1114.80 GT:AD:DP:GL:GQ 1/1:0,66:66:-239.76,-19.88,-0.02:99
chr2 1315685 rs9973318 C T 318.31 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.41;MQ0=0;OQ=1133.15;QD=15.96;SB=-500.99 GT:AD:DP:GL:GQ 0/1:35,35:68:-137.10,-20.50,-108.01:99
chr2 1315710 rs9973319 C T 603.28 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.75;MQ0=0;OQ=2947.43;QD=39.30;SB=-1465.96 GT:AD:DP:GL:GQ 1/1:0,75:74:-298.35,-22.29,-0.02:99
chr2 1316079 rs4377371 C A 220.89 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=59.44;MQ0=0;OQ=2712.76;QD=36.17;SB=-1215.75 GT:AD:DP:GL:GQ 1/1:0,74:73:-274.88,-21.98,-0.01:99
chr2 1317111 rs13397139 T C 198.32 PASS AC=1;AF=0.50;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=3.81;MQ=58.69;MQ0=0;OQ=1167.49;QD=15.57;SB=-527.08 GT:AD:DP:GL:GQ 0/1:35,40:74:-142.32,-22.29,-142.99:99
chr2 1317335 rs55950968 C T 242.40 PASS AC=1;AF=0.50;AN=2;DB;DP=84;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=59.50;MQ0=0;OQ=1552.81;QD=18.49;SB=-790.28 GT:AD:DP:GL:GQ 0/1:38,46:83:-183.57,-25.00,-136.02:99
chr2 1318668 rs13401346 T C 240.98 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=1.42;MQ=59.39;MQ0=0;OQ=2526.24;QD=36.61;SB=-789.00 GT:AD:DP:GL:GQ 1/1:0,69:69:-256.23,-20.78,-0.02:99
chr2 1319988 rs4927639 G A 376.08 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.43;MQ0=0;OQ=2639.45;QD=40.61;SB=-1226.36 GT:AD:DP:GL:GQ 1/1:0,65:65:-267.54,-19.58,-0.01:99
chr2 1321327 . C T 29.93 PASS AC=1;AF=0.50;AN=2;DP=72;Dels=0.00;HRun=0;HaplotypeScore=3.42;MQ=59.16;MQ0=0;OQ=1409.61;QD=19.58;SB=-698.73 GT:AD:DP:GL:GQ 0/1:29,43:70:-165.34,-21.09,-97.86:99
chr2 1321471 rs62105573 A G 141.52 PASS AC=1;AF=0.50;AN=2;DB;DP=88;Dels=0.00;HRun=0;HaplotypeScore=4.29;MQ=59.53;MQ0=0;OQ=1365.99;QD=15.52;SB=-613.84 GT:AD:DP:GL:GQ 0/1:40,48:85:-165.49,-25.60,-160.34:99
chr2 1324225 rs59942061 A G 544.84 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.39;MQ0=0;OQ=1863.49;QD=30.55;SB=-950.05 GT:AD:DP:GL:GQ 1/1:0,61:60:-189.99,-18.10,-0.06:99
chr2 1324340 rs12476153 T C 270.06 PASS AC=1;AF=0.50;AN=2;DB;DP=49;Dels=0.00;HRun=1;HaplotypeScore=1.37;MQ=57.70;MQ0=0;OQ=513.44;QD=10.48;SB=-200.30 GT:AD:DP:GL:GQ 0/1:27,22:48:-69.09,-14.47,-108.12:99
chr2 1325070 rs4971478 A G 40.82 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=1;HaplotypeScore=2.73;MQ=47.05;MQ0=1;OQ=1796.92;QD=28.98;SB=-909.41 GT:AD:DP:GL:GQ 1/1:1,61:57:-183.33,-17.19,-0.06:99
chr2 1325133 rs4971479 G C 12.95 PASS AC=1;AF=0.50;AN=2;DB;DP=48;Dels=0.00;HRun=0;HaplotypeScore=1.05;MQ=26.34;MQ0=21;OQ=188.16;QD=3.92;SB=-0.97 GT:AD:DP:GL:GQ 0/1:28,20:23:-29.05,-6.95,-62.76:99
chr2 1325159 . G C 0.35 PASS AC=1;AF=0.50;AN=2;DP=51;Dels=0.00;HRun=2;HaplotypeScore=0.63;MQ=19.21;MQ0=23;OQ=371.03;QD=7.28;SB=-10.00 GT:AD:DP:GL:GQ 0/1:35,16:24:-47.62,-7.24,-52.12:99
chr2 1325184 . G A 17.02 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=20.53;MQ0=18;OQ=460.19;QD=9.20;SB=-10.00 GT:AD:DP:GL:GQ 0/1:27,23:28:-57.74,-8.43,-46.10:99
chr2 1325297 . G A 10.17 PASS AC=1;AF=0.50;AN=2;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.76;MQ=17.27;MQ0=26;OQ=349.07;QD=6.35;SB=-10.00 GT:AD:DP:GL:GQ 0/1:39,16:19:-43.91,-5.72,-28.75:99
chr2 1325360 . G C 149.47 HARD_TO_VALIDATE;Indel AC=1;AF=0.50;AN=2;DP=41;Dels=0.00;HRun=0;HaplotypeScore=12.26;MQ=19.71;MQ0=19;QD=3.65;SB=-10.00 GT:AD:DP:GL:GQ 0/1:29,12:13:-22.16,-3.93,-25.64:99
chr2 1328448 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.75;MQ=14.45;MQ0=40;OQ=54.43;QD=0.80;SB=-21.61 GT:AD:DP:GL:GQ 0/1:58,9:22:-15.36,-6.63,-67.57:87.26
chr2 1328659 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=42;Dels=0.00;HRun=3;HaplotypeScore=4.94;MQ=20.49;MQ0=14;OQ=766.17;QD=18.24;SB=-10.00 GT:AD:DP:GL:GQ 0/1:18,24:24:-86.92,-7.23,-7.14:2.60
chr2 1328815 . G A 0.43 PASS AC=1;AF=0.50;AN=2;DP=48;Dels=0.00;HRun=0;HaplotypeScore=4.10;MQ=16.38;MQ0=17;OQ=207.73;QD=4.33;SB=-10.00 GT:AD:DP:GL:GQ 0/1:35,13:15:-28.58,-4.53,-23.87:99
chr2 1329016 rs12476849 A G 255.43 PASS AC=1;AF=0.50;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=50.78;MQ0=2;OQ=392.52;QD=10.61;SB=-56.31 GT:AD:DP:GL:GQ 0/1:20,17:32:-52.19,-9.65,-57.37:99
chr2 1329055 . A G 15.33 PASS AC=1;AF=0.50;AN=2;DP=66;Dels=0.00;HRun=0;HaplotypeScore=4.36;MQ=47.92;MQ0=0;OQ=614.94;QD=9.32;SB=-304.20 GT:AD:DP:GL:GQ 0/1:33,31:56:-81.66,-16.89,-117.09:99
chr2 1329067 rs10890519 G A 127.18 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=0;HaplotypeScore=3.28;MQ=48.73;MQ0=0;OQ=2461.63;QD=36.20;SB=-1251.29 GT:AD:DP:GL:GQ 1/1:0,68:65:-249.78,-19.59,-0.03:99
chr2 1329214 rs9677202 G A 306.78 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=0.79;MQ=50.06;MQ0=0;OQ=936.77;QD=17.35;SB=-327.84 GT:AD:DP:GL:GQ 0/1:21,33:47:-111.12,-14.16,-64.23:99
chr2 1330509 rs9750172 G A 627.62 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2064.54;QD=36.87;SB=-1031.39 GT:AD:DP:GL:GQ 1/1:0,56:53:-210.05,-15.97,-0.02:99
chr2 1330919 . A C 45.68 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=1;HaplotypeScore=5.65;MQ=59.74;MQ0=0;QD=0.64;SB=92.30 GT:AD:DP:GL:GQ 0/1:47,24:51:-23.22,-15.37,-152.20:78.52
chr2 1332306 rs4927597 G A 187.86 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.94;MQ=59.65;MQ0=0;OQ=2525.30;QD=38.26;SB=-1227.16 GT:AD:DP:GL:GQ 1/1:0,66:64:-256.13,-19.28,-0.02:99
chr2 1334403 rs1106214 G C 172.45 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=2.65;MQ=59.24;MQ0=0;OQ=2170.26;QD=39.46;SB=-926.31 GT:AD:DP:GL:GQ 1/1:0,55:53:-220.64,-15.98,-0.03:99
chr2 1334630 rs61333681 G T 200.93 PASS AC=1;AF=0.50;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=3.77;MQ=59.40;MQ0=0;OQ=959.92;QD=13.71;SB=-464.87 GT:AD:DP:GL:GQ 0/1:36,34:67:-119.47,-20.19,-109.41:99
chr2 1334785 rs4315573 C T 575.13 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.21;MQ0=0;OQ=2060.55;QD=38.88;SB=-930.33 GT:AD:DP:GL:GQ 1/1:0,53:52:-209.65,-15.67,-0.01:99
chr2 1337036 rs9750370 G C 11.52 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=39.13;MQ0=10;OQ=831.66;QD=18.48;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,45:19:-86.76,-5.73,-0.01:57.19
chr2 1337044 rs9753188 T A 151.98 PASS AC=2;AF=1.00;AN=2;DB;DP=43;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=38.06;MQ0=5;OQ=606.78;QD=14.11;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,43:17:-64.27,-5.12,-0.00:51.16
chr2 1337249 . G C 1.63 PASS AC=2;AF=1.00;AN=2;DP=8;Dels=0.00;HRun=0;HaplotypeScore=0.47;MQ=45.17;MQ0=0;OQ=234.36;QD=29.29;SB=-53.47 GT:AD:DP:GL:GQ 1/1:0,8:6:-27.01,-1.81,-0.00:18.06
chr2 1337257 . T A 1.71 PASS AC=2;AF=1.00;AN=2;DP=8;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=44.16;MQ0=0;OQ=147.36;QD=18.42;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,8:5:-18.30,-1.51,-0.00:15.05
chr2 1337344 . C G 56.76 HARD_TO_VALIDATE;Indel AC=2;AF=1.00;AN=2;DP=16;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=12.63;MQ0=7;QD=3.55;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,16:2:-9.08,-0.60,-0.00:6.02
chr2 1337455 . C G 38.45 PASS AC=2;AF=1.00;AN=2;DP=3;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=29.00;MQ0=0;OQ=78.85;QD=26.28;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,3:3:-11.38,-0.91,-0.00:9.03
chr2 1337459 rs4927640 C G 19.48 PASS AC=2;AF=1.00;AN=2;DB;DP=4;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=27.62;MQ0=0;OQ=152.35;QD=38.09;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,4:4:-18.77,-1.20,-0.00:12.04
chr2 1337501 rs4927598 A C 41.05 LowQual AC=2;AF=1.00;AN=2;DB;DP=4;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=46.29;MQ0=0;QD=10.26;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,3:2:-7.51,-0.60,-0.00:6.02
chr2 1337523 rs4927641 G T 12.79 PASS AC=2;AF=1.00;AN=2;DB;DP=11;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=55.04;MQ0=0;OQ=356.63;QD=32.42;SB=-10.00 GT:AD:DP:GL:GQ 1/1:0,11:10:-39.25,-3.01,-0.00:30.10
chr2 1337715 rs4927599 T A 449.05 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=48.18;MQ0=5;OQ=1871.99;QD=29.71;SB=-497.38 GT:AD:DP:GL:GQ 1/1:1,62:49:-190.80,-14.76,-0.02:99
chr2 1338024 rs12479101 T C 560.24 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=2214.90;QD=31.20;SB=-857.52 GT:AD:DP:GL:GQ 1/1:0,71:68:-225.13,-20.51,-0.06:99
chr2 1338397 rs4444587 G T 118.71 PASS AC=2;AF=1.00;AN=2;DB;DP=72;Dels=0.00;HRun=1;HaplotypeScore=1.11;MQ=59.68;MQ0=0;OQ=2613.18;QD=36.29;SB=-957.40 GT:AD:DP:GL:GQ 1/1:0,72:71:-264.92,-21.38,-0.02:99
chr2 1338407 rs4450657 A C 555.52 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2185.91;QD=33.12;SB=-688.90 GT:AD:DP:GL:GQ 1/1:0,66:66:-222.22,-19.89,-0.04:99
chr2 1338628 rs9749785 T C 728.93 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.07;MQ0=0;OQ=2449.11;QD=34.99;SB=-1192.74 GT:AD:DP:GL:GQ 1/1:0,70:68:-248.51,-20.48,-0.02:99
chr2 1338725 rs4558630 T A 529.27 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.32;MQ0=0;OQ=3143.31;QD=38.33;SB=-1362.45 GT:AD:DP:GL:GQ 1/1:0,82:82:-317.93,-24.69,-0.02:99
chr2 1338923 rs9750256 A T 281.14 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2560.24;QD=37.10;SB=-1123.68 GT:AD:DP:GL:GQ 1/1:0,69:67:-259.62,-20.18,-0.01:99
chr2 1338975 rs9750263 A T 732.53 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2160.18;QD=36.61;SB=-1047.59 GT:AD:DP:GL:GQ 1/1:0,59:58:-219.62,-17.47,-0.01:99
chr2 1339025 rs9749816 T C 408.09 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.58;MQ0=0;OQ=2191.25;QD=31.30;SB=-1089.28 GT:AD:DP:GL:GQ 1/1:0,70:67:-222.76,-20.20,-0.05:99
chr2 1339352 rs12465073 T C 468.22 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.40;MQ0=0;OQ=2284.42;QD=32.63;SB=-988.37 GT:AD:DP:GL:GQ 1/1:0,70:70:-232.08,-21.10,-0.05:99
chr2 1339477 rs11211662 C T 473.33 PASS AC=2;AF=1.00;AN=2;DB;DP=84;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=3438.37;QD=40.93;SB=-1570.73 GT:AD:DP:GL:GQ 1/1:0,84:83:-342.84,-25.00,-0.01:99
chr2 1339536 rs11211663 G A 606.19 PASS AC=2;AF=1.00;AN=2;DB;DP=90;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.54;MQ0=0;OQ=3535.19;QD=39.28;SB=-1448.94 GT:AD:DP:GL:GQ 1/1:0,90:87:-352.52,-26.21,-0.02:99
chr2 1339538 rs11211664 A G 508.27 PASS AC=2;AF=1.00;AN=2;DB;DP=88;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.53;MQ0=0;OQ=3102.38;QD=35.25;SB=-1300.21 GT:AD:DP:GL:GQ 1/1:0,88:86:-313.85,-25.90,-0.02:99
chr2 1339726 rs10789522 T A 616.01 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.37;MQ0=0;OQ=2225.25;QD=33.72;SB=-1090.29 GT:AD:DP:GL:GQ 1/1:0,66:64:-226.15,-19.29,-0.04:99
chr2 1339778 rs10789523 A T 28.97 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=3;HaplotypeScore=0.47;MQ=59.21;MQ0=0;OQ=2721.98;QD=38.34;SB=-1199.46 GT:AD:DP:GL:GQ 1/1:0,71:71:-275.80,-21.38,-0.01:99
chr2 1339971 rs11211665 G A 175.37 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=1.56;MQ=60.00;MQ0=0;OQ=2769.75;QD=39.57;SB=-1399.69 GT:AD:DP:GL:GQ 1/1:0,70:70:-280.58,-21.09,-0.02:99
chr2 1340120 rs9749689 C T 111.35 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=59.20;MQ0=0;OQ=2264.65;QD=39.05;SB=-1127.51 GT:AD:DP:GL:GQ 1/1:0,58:58:-230.07,-17.47,-0.02:99
chr2 1340139 rs11211667 C T 64.72 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.01;MQ0=0;OQ=2657.69;QD=40.27;SB=-1241.17 GT:AD:DP:GL:GQ 1/1:0,66:66:-269.37,-19.88,-0.02:99
chr2 1340393 rs4613330 G C 135.03 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.46;MQ0=0;OQ=3092.00;QD=39.64;SB=-1131.47 GT:AD:DP:GL:GQ 1/1:0,78:77:-312.83,-23.22,-0.05:99
chr2 1340700 rs4479468 T C 477.19 PASS AC=2;AF=1.00;AN=2;DB;DP=100;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.77;MQ0=0;OQ=3614.03;QD=36.14;SB=-1744.71 GT:AD:DP:GL:GQ 1/1:0,100:100:-360.40,-30.12,-0.03:99
chr2 1340929 rs9677878 A C 24.13 PASS AC=2;AF=1.00;AN=2;DB;DP=95;Dels=0.00;HRun=2;HaplotypeScore=2.89;MQ=59.56;MQ0=0;OQ=3423.93;QD=36.04;SB=-1609.45 GT:AD:DP:GL:GQ 1/1:0,95:95:-341.39,-28.61,-0.03:99
chr2 1340963 rs4927644 C T 542.04 PASS AC=2;AF=1.00;AN=2;DB;DP=92;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3805.09;QD=41.36;SB=-1653.18 GT:AD:DP:GL:GQ 1/1:0,92:92:-379.51,-27.71,-0.02:99
chr2 1340999 rs4927600 T C 700.22 PASS AC=2;AF=1.00;AN=2;DB;DP=100;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3689.85;QD=36.90;SB=-1472.96 GT:AD:DP:GL:GQ 1/1:0,100:99:-367.99,-29.82,-0.02:99
chr2 1341070 rs4927645 C T 481.31 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.13;MQ0=0;OQ=3367.76;QD=40.58;SB=-1112.50 GT:AD:DP:GL:GQ 1/1:1,82:83:-335.78,-25.00,-3.41:99
chr2 1341149 rs4927646 T C 2912.84 Indel AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=60.65;MQ0=0;QD=35.09;SB=-1179.62 GT:AD:DP:GL:GQ 1/1:0,83:82:-294.90,-24.70,-0.03:99
chr2 1341250 rs4927601 T C 428.21 PASS AC=2;AF=1.00;AN=2;DB;DP=102;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.14;MQ0=0;OQ=3589.44;QD=35.19;SB=-1784.06 GT:AD:DP:GL:GQ 1/1:0,102:101:-357.94,-30.42,-0.03:99
chr2 1341391 rs4927647 C G 354.55 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3002.02;QD=43.51;SB=-1115.14 GT:AD:DP:GL:GQ 1/1:0,68:68:-303.80,-20.48,-0.02:99
chr2 1341488 rs9751777 G A 21.77 PASS AC=2;AF=1.00;AN=2;DB;DP=116;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.64;MQ0=0;OQ=4743.22;QD=40.89;SB=-2302.74 GT:AD:DP:GL:GQ 1/1:0,116:115:-473.32,-34.64,-0.02:99
chr2 1341624 rs4927648 A T 437.39 PASS AC=2;AF=1.00;AN=2;DB;DP=89;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=3388.41;QD=38.07;SB=-1697.88 GT:AD:DP:GL:GQ 1/1:0,89:88:-337.84,-26.50,-0.02:99
chr2 1341910 rs4927649 A C 630.09 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2794.86;QD=34.94;SB=-1063.50 GT:AD:DP:GL:GQ 1/1:0,80:80:-283.09,-24.09,-0.02:99
chr2 1342533 rs9326177 C T 570.56 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.50;MQ0=0;OQ=3290.04;QD=39.64;SB=-1603.01 GT:AD:DP:GL:GQ 1/1:0,83:82:-328.00,-24.70,-0.02:99
chr2 1342537 rs9326178 T C 583.50 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.49;MQ0=0;OQ=2905.19;QD=35.43;SB=-1455.61 GT:AD:DP:GL:GQ 1/1:0,81:81:-294.13,-24.40,-0.02:99
chr2 1342574 rs4368375 C T 597.05 PASS AC=2;AF=1.00;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.53;MQ0=0;OQ=3586.86;QD=40.30;SB=-1433.93 GT:AD:DP:GL:GQ 1/1:0,89:88:-357.69,-26.51,-0.02:99
chr2 1342799 rs4438528 A T 635.70 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.00;MQ0=0;OQ=2586.23;QD=36.95;SB=-1121.68 GT:AD:DP:GL:GQ 1/1:0,70:68:-262.22,-20.48,-0.01:99
chr2 1342848 rs4362602 T C 630.26 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=57.22;MQ0=0;OQ=3004.78;QD=36.20;SB=-1276.52 GT:AD:DP:GL:GQ 1/1:0,83:83:-304.08,-25.00,-0.02:99
chr2 1343240 rs55752182 G A 295.43 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=54.16;MQ0=0;OQ=2529.31;QD=37.75;SB=-973.00 GT:AD:DP:GL:GQ 1/1:0,67:64:-256.53,-19.28,-0.02:99
chr2 1343241 rs55795701 G A 605.57 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=54.16;MQ0=0;OQ=2551.30;QD=38.08;SB=-985.99 GT:AD:DP:GL:GQ 1/1:0,67:64:-258.73,-19.28,-0.02:99
chr2 1343253 rs55734035 A G 80.12 PASS AC=2;AF=1.00;AN=2;DB;DP=61;Dels=0.00;HRun=1;HaplotypeScore=1.58;MQ=54.39;MQ0=0;OQ=2057.61;QD=33.73;SB=-953.99 GT:AD:DP:GL:GQ 1/1:1,60:58:-209.36,-17.47,-0.02:99
chr2 1343304 rs4411755 G A 65.37 PASS AC=2;AF=1.00;AN=2;DB;DP=56;Dels=0.00;HRun=0;HaplotypeScore=0.99;MQ=55.12;MQ0=0;OQ=1986.77;QD=35.48;SB=-447.60 GT:AD:DP:GL:GQ 1/1:0,56:51:-202.28,-15.37,-0.02:99
chr2 1343321 rs4527248 A G 96.14 PASS AC=2;AF=1.00;AN=2;DB;DP=78;Dels=0.00;HRun=0;HaplotypeScore=2.42;MQ=51.03;MQ0=0;OQ=2332.32;QD=29.90;SB=-1183.13 GT:AD:DP:GL:GQ 1/1:0,77:73:-236.88,-22.01,-0.06:99
chr2 1343609 rs4267548 A G 202.18 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=1.09;MQ=57.97;MQ0=0;OQ=2286.92;QD=33.14;SB=-1117.06 GT:AD:DP:GL:GQ 1/1:0,69:66:-232.30,-19.88,-0.03:99
chr2 1343668 rs4281947 G A 211.98 PASS AC=2;AF=1.00;AN=2;DB;DP=76;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=58.16;MQ0=0;OQ=3012.09;QD=39.63;SB=-1260.04 GT:AD:DP:GL:GQ 1/1:0,76:75:-304.81,-22.59,-0.02:99
chr2 1343688 . G T 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=66;Dels=0.00;HRun=6;HaplotypeScore=0.00;MQ=58.23;MQ0=0;OQ=2271.00;QD=34.41;SB=-892.69 GT:AD:DP:GL:GQ 1/1:0,66:66:-230.71,-19.88,-0.02:99
chr2 1343693 rs4458254 T C 577.48 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.55;MQ0=0;OQ=2321.17;QD=36.27;SB=-790.65 GT:AD:DP:GL:GQ 1/1:0,64:64:-235.72,-19.28,-0.02:99
chr2 1343801 rs4267549 A G 636.67 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.69;MQ0=0;OQ=1819.23;QD=30.32;SB=-834.65 GT:AD:DP:GL:GQ 1/1:0,60:57:-185.55,-17.19,-0.04:99
chr2 1343884 rs4408763 T C 486.59 PASS AC=2;AF=1.00;AN=2;DB;DP=45;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1586.61;QD=35.26;SB=-795.11 GT:AD:DP:GL:GQ 1/1:0,45:45:-162.26,-13.56,-0.02:99
chr2 1343904 rs4624432 T C 122.78 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=2.45;MQ=60.00;MQ0=0;OQ=1827.49;QD=33.84;SB=-936.98 GT:AD:DP:GL:GQ 1/1:0,54:52:-186.35,-15.66,-0.02:99
chr2 1343968 rs4496367 C T 626.61 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.30;MQ0=0;OQ=2795.17;QD=38.29;SB=-1144.69 GT:AD:DP:GL:GQ 1/1:0,73:72:-283.12,-21.69,-0.02:99
chr2 1343969 rs4267550 A G 210.18 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.93;MQ=59.31;MQ0=0;OQ=2577.30;QD=34.83;SB=-927.97 GT:AD:DP:GL:GQ 1/1:0,74:73:-261.34,-21.99,-0.03:99
chr2 1344012 rs4268962 A G 564.43 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.97;MQ0=0;OQ=2224.13;QD=35.30;SB=-724.64 GT:AD:DP:GL:GQ 1/1:0,63:61:-226.01,-18.37,-0.01:99
chr2 1344157 rs4496368 C A 499.79 PASS AC=2;AF=1.00;AN=2;DB;DP=53;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.20;MQ0=0;OQ=1956.95;QD=36.92;SB=-869.83 GT:AD:DP:GL:GQ 1/1:0,53:53:-199.29,-15.96,-0.01:99
chr2 1344411 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=85;Dels=0.00;HRun=0;HaplotypeScore=35.50;MQ=40.74;MQ0=10;OQ=77.43;QD=0.91;SB=-33.22 GT:AD:DP:GL:GQ 0/1:53,32:45:-24.60,-13.57,-122.17:99
chr2 1344422 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=82;Dels=0.00;HRun=1;HaplotypeScore=24.53;MQ=40.89;MQ0=7;OQ=60.76;QD=0.74;SB=53.18 GT:AD:DP:GL:GQ 0/1:71,11:51:-24.73,-15.37,-148.55:93.60
chr2 1344487 rs34529182 T C 191.36 PASS AC=2;AF=1.00;AN=2;DB;DP=42;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=49.15;MQ0=0;OQ=1145.61;QD=27.28;SB=-513.55 GT:AD:DP:GL:GQ 1/1:0,42:36:-118.17,-10.86,-0.03:99
chr2 1344502 . T C 39.25 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=47;Dels=0.00;HRun=0;HaplotypeScore=9.99;MQ=41.50;MQ0=3;QD=0.84;SB=35.14 GT:AD:DP:GL:GQ 0/1:40,7:33:-17.15,-9.94,-112.83:72.09
chr2 1344517 . T C 0.02 FDRtranche1.00to2.00 AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=0;HaplotypeScore=4.98;MQ=31.80;MQ0=14;OQ=84.96;QD=1.35;SB=26.12 GT:AD:DP:GL:GQ 0/1:54,9:31:-21.12,-9.34,-99.53:99
chr2 1344531 . A G 217.31 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=2;HaplotypeScore=57.74;MQ=29.71;MQ0=19;QD=2.53;SB=44.18 GT:AD:DP:GL:GQ 0/1:73,13:46:-38.87,-13.86,-147.51:99
chr2 1344532 . G A 408.97 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=86;Dels=0.00;HRun=2;HaplotypeScore=57.74;MQ=29.71;MQ0=19;QD=4.76;SB=4.60 GT:AD:DP:GL:GQ 0/1:58,28:46:-58.04,-13.85,-116.11:99
chr2 1344539 . G A 308.76 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=98;Dels=0.00;HRun=1;HaplotypeScore=55.75;MQ=28.81;MQ0=20;QD=3.15;SB=53.18 GT:AD:DP:GL:GQ 0/1:78,20:53:-50.14,-15.98,-135.96:99
chr2 1344541 . T C 31.38 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=104;Dels=0.00;HRun=0;HaplotypeScore=56.41;MQ=28.69;MQ0=20;QD=0.30;SB=56.21 GT:AD:DP:GL:GQ 0/1:84,20:57:-23.59,-17.17,-202.13:64.21
chr2 1344571 rs34360699 G A 643.23 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=151;Dels=0.00;HRun=2;HaplotypeScore=138.42;MQ=29.29;MQ0=23;QD=4.26;SB=-285.30 GT:AD:DP:GL:GQ 0/1:102,48:87:-96.69,-29.09,-236.54:99
chr2 1344576 . C T 241.51 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=161;Dels=0.00;HRun=0;HaplotypeScore=146.49;MQ=29.82;MQ0=25;QD=1.50;SB=-38.28 GT:AD:DP:GL:GQ 0/1:140,21:87:-53.64,-26.20,-260.15:99
chr2 1344577 rs10200213 C G 273.03 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=161;Dels=0.00;HRun=1;HaplotypeScore=146.49;MQ=29.82;MQ0=25;QD=1.70;SB=-56.01 GT:AD:DP:GL:GQ 0/1:133,17:90:-61.25,-30.67,-315.22:99
chr2 1344580 rs35853783 T C 598.50 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=161;Dels=0.00;HRun=0;HaplotypeScore=146.23;MQ=29.82;MQ0=25;QD=3.72;SB=-11.57 GT:AD:DP:GL:GQ 0/1:110,45:91:-90.55,-27.41,-255.28:99
chr2 1344595 . T C 0.13 PASS AC=1;AF=0.50;AN=2;DP=170;Dels=0.00;HRun=0;HaplotypeScore=2.04;MQ=29.32;MQ0=25;OQ=446.07;QD=2.62;SB=-18.54 GT:AD:DP:GL:GQ 0/1:127,43:95:-76.51,-28.62,-289.03:99
chr2 1344609 . A G 545.46 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=165;Dels=0.00;HRun=0;HaplotypeScore=145.08;MQ=29.57;MQ0=20;QD=3.31;SB=-6.70 GT:AD:DP:GL:GQ 0/1:110,55:94:-86.14,-28.31,-291.49:99
chr2 1344615 rs10179106 C T 1399.92 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=155;Dels=0.00;HRun=0;HaplotypeScore=145.35;MQ=30.44;MQ0=15;QD=9.03;SB=-537.03 GT:AD:DP:GL:GQ 0/1:104,51:72:-164.96,-21.69,-106.73:99
chr2 1344616 rs34916405 G C 1104.28 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=148;Dels=0.00;HRun=1;HaplotypeScore=145.82;MQ=30.66;MQ0=14;QD=7.46;SB=-162.65 GT:AD:DP:GL:GQ 0/1:55,61:89:-199.79,-86.08,-229.88:99
chr2 1344617 . G A 383.42 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=153;Dels=0.00;HRun=1;HaplotypeScore=153.51;MQ=30.46;MQ0=14;QD=2.51;SB=-24.35 GT:AD:DP:GL:GQ 0/1:116,37:90:-68.75,-27.13,-252.01:99
chr2 1344619 . T C 217.26 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=153;Dels=0.00;HRun=0;HaplotypeScore=151.73;MQ=30.45;MQ0=15;QD=1.42;SB=-19.45 GT:AD:DP:GL:GQ 0/1:121,28:91:-52.43,-27.42,-296.34:99
chr2 1344634 . T C 0.13 PASS AC=1;AF=0.50;AN=2;DP=158;Dels=0.00;HRun=0;HaplotypeScore=1.93;MQ=29.62;MQ0=21;OQ=508.91;QD=3.22;SB=-183.46 GT:AD:DP:GL:GQ 0/1:119,39:91:-81.59,-27.41,-268.80:99
chr2 1344648 . A G 969.86 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=146;Dels=0.00;HRun=0;HaplotypeScore=31.54;MQ=28.68;MQ0=21;QD=6.64;SB=-292.28 GT:AD:DP:GL:GQ 0/1:89,57:83:-125.27,-25.01,-196.82:99
chr2 1344656 rs34636883 A G 661.75 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=130;Dels=0.00;HRun=0;HaplotypeScore=30.43;MQ=26.55;MQ0=19;QD=5.09;SB=-137.25 GT:AD:DP:GL:GQ 0/1:68,62:69:-90.26,-20.80,-161.68:99
chr2 1344658 . C T 1196.87 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=131;Dels=0.00;HRun=0;HaplotypeScore=29.43;MQ=26.41;MQ0=19;QD=9.14;SB=-431.85 GT:AD:DP:GL:GQ 0/1:71,60:68:-143.46,-20.49,-104.54:99
chr2 1344673 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=129;Dels=0.00;HRun=0;HaplotypeScore=4.51;MQ=25.74;MQ0=21;OQ=86.04;QD=0.67;SB=8.75 GT:AD:DP:GL:GQ 0/1:117,12:65:-31.47,-19.58,-220.66:99
chr2 1344688 rs35747708 G A 549.57 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DB;DP=120;Dels=0.00;HRun=2;HaplotypeScore=37.95;MQ=24.55;MQ0=21;QD=4.58;SB=-212.20 GT:AD:DP:GL:GQ 0/1:65,54:58:-75.72,-17.48,-142.44:99
chr2 1344695 . A G 1343.74 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=120;Dels=0.00;HRun=0;HaplotypeScore=45.57;MQ=23.84;MQ0=19;QD=11.20;SB=-427.73 GT:AD:DP:GL:GQ 0/1:20,100:55:-154.25,-16.60,-23.74:71.40
chr2 1344697 . C T 191.48 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=125;Dels=0.00;HRun=0;HaplotypeScore=45.57;MQ=23.48;MQ0=19;QD=1.53;SB=-55.25 GT:AD:DP:GL:GQ 0/1:104,21:53:-38.40,-15.97,-141.75:99
chr2 1344712 . T C 1.09 PASS AC=1;AF=0.50;AN=2;DP=143;Dels=0.00;HRun=0;HaplotypeScore=4.10;MQ=22.75;MQ0=23;OQ=817.77;QD=5.72;SB=-317.40 GT:AD:DP:GL:GQ 0/1:96,47:62:-103.74,-18.68,-125.61:99
chr2 1344726 . A G 316.94 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=118;Dels=0.00;HRun=2;HaplotypeScore=72.14;MQ=19.42;MQ0=17;QD=2.69;SB=-167.54 GT:AD:DP:GL:GQ 0/1:90,28:43:-47.93,-12.95,-117.90:99
chr2 1344727 . G A 560.75 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=116;Dels=0.00;HRun=2;HaplotypeScore=72.14;MQ=19.58;MQ0=15;QD=4.83;SB=-297.80 GT:AD:DP:GL:GQ 0/1:67,49:43:-72.31,-12.95,-90.90:99
chr2 1344734 . A G 741.18 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=116;Dels=0.00;HRun=0;HaplotypeScore=65.21;MQ=20.67;MQ0=14;QD=6.39;SB=-297.33 GT:AD:DP:GL:GQ 0/1:33,83:39:-89.16,-11.75,-47.64:99
chr2 1344736 . C T 897.24 HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=114;Dels=0.00;HRun=0;HaplotypeScore=64.21;MQ=20.58;MQ0=14;QD=7.87;SB=-460.50 GT:AD:DP:GL:GQ 0/1:41,73:39:-104.77,-11.77,-34.51:99
chr2 1344751 . T C 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=115;Dels=0.00;HRun=0;HaplotypeScore=5.36;MQ=21.41;MQ0=21;OQ=175.42;QD=1.53;SB=32.13 GT:AD:DP:GL:GQ 0/1:95,20:38:-32.27,-11.45,-114.59:99
chr2 1344765 . A G 159.74 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=119;Dels=0.00;HRun=0;HaplotypeScore=135.43;MQ=26.36;MQ0=19;QD=1.34;SB=2.20 GT:AD:DP:GL:GQ 0/1:94,25:53:-35.22,-15.96,-172.96:99
chr2 1344771 . C T 720.64 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=131;Dels=0.00;HRun=1;HaplotypeScore=161.78;MQ=27.75;MQ0=20;QD=5.50;SB=-355.06 GT:AD:DP:GL:GQ 0/1:100,31:54:-91.62,-16.28,-105.06:99
chr2 1344772 . T G 1210.55 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=2;AF=1.00;AN=2;DP=131;Dels=0.00;HRun=1;HaplotypeScore=158.26;MQ=28.13;MQ0=20;QD=9.24;SB=-561.09 GT:AD:DP:GL:GQ 1/1:11,66:62:-212.91,-89.41,-88.34:10.77
chr2 1344773 . G A 131.59 DPFilter;HARD_TO_VALIDATE;SnpCluster AC=1;AF=0.50;AN=2;DP=132;Dels=0.00;HRun=1;HaplotypeScore=152.43;MQ=28.25;MQ0=19;QD=1.00;SB=65.22 GT:AD:DP:GL:GQ 0/1:116,16:67:-36.63,-20.18,-204.36:99
chr2 1344775 . T C 13.76 DPFilter;HARD_TO_VALIDATE;LowQual;SnpCluster AC=1;AF=0.50;AN=2;DP=134;Dels=0.00;HRun=0;HaplotypeScore=147.45;MQ=28.91;MQ0=19;QD=0.10;SB=-1.11 GT:AD:DP:GL:GQ 0/1:109,19:68:-25.13,-20.49,-241.46:46.41
chr2 1344883 rs34902207 A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DB;DP=125;Dels=0.00;HRun=1;HaplotypeScore=21.76;MQ=36.62;MQ0=7;OQ=171.03;QD=1.37;SB=18.38 GT:AD:DP:GL:GQ 0/1:104,21:83:-45.39,-25.00,-291.89:99
chr2 1344889 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=121;Dels=0.00;HRun=1;HaplotypeScore=18.77;MQ=37.22;MQ0=7;OQ=394.44;QD=3.26;SB=-153.13 GT:AD:DP:GL:GQ 0/1:87,33:81:-67.13,-24.40,-248.02:99
chr2 1344918 rs36044272 C T 2860.77 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=101;Dels=0.00;HRun=0;HaplotypeScore=2.00;MQ=37.32;MQ0=5;QD=28.32;SB=-1212.62 GT:AD:DP:GL:GQ 1/1:0,101:72:-289.68,-21.69,-0.02:99
chr2 1344921 . A G 962.11 SnpCluster AC=1;AF=0.50;AN=2;DP=98;Dels=0.00;HRun=2;HaplotypeScore=6.92;MQ=36.98;MQ0=6;QD=9.82;SB=-479.86 GT:AD:DP:GL:GQ 0/1:57,41:68:-119.98,-20.48,-138.14:99
chr2 1344922 . G A 1144.19 SnpCluster AC=1;AF=0.50;AN=2;DP=96;Dels=0.00;HRun=2;HaplotypeScore=6.92;MQ=37.22;MQ0=6;QD=11.92;SB=-595.60 GT:AD:DP:GL:GQ 0/1:52,44:66:-137.58,-19.88,-115.28:99
chr2 1344932 . C G 0.53 PASS AC=1;AF=0.50;AN=2;DP=90;Dels=0.00;HRun=0;HaplotypeScore=6.24;MQ=38.80;MQ0=4;OQ=633.91;QD=7.04;SB=-234.02 GT:AD:DP:GL:GQ 0/1:50,40:63:-85.66,-18.99,-182.74:99
chr2 1344946 . T C 0.14 PASS AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=0;HaplotypeScore=1.50;MQ=39.70;MQ0=3;OQ=189.31;QD=2.34;SB=-25.78 GT:AD:DP:GL:GQ 0/1:61,20:60:-40.29,-18.08,-194.10:99
chr2 1345007 rs35224933 A G 81.84 PASS AC=2;AF=1.00;AN=2;DB;DP=75;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=41.57;MQ0=2;OQ=2006.89;QD=26.76;SB=-867.58 GT:AD:DP:GL:GQ 1/1:1,74:62:-204.32,-18.69,-0.05:99
chr2 1345010 . A G 26.32 PASS AC=2;AF=1.00;AN=2;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.95;MQ=42.44;MQ0=2;OQ=1973.76;QD=28.20;SB=-919.47 GT:AD:DP:GL:GQ 1/1:0,70:61:-201.01,-18.39,-0.05:99
chr2 1345034 . G A 26.50 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=88;Dels=0.00;HRun=0;HaplotypeScore=4.09;MQ=38.57;MQ0=2;QD=0.30;SB=86.20 GT:AD:DP:GL:GQ 0/1:77,11:73:-27.94,-22.01,-213.41:59.32
chr2 1345052 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=98;Dels=0.00;HRun=0;HaplotypeScore=8.40;MQ=39.09;MQ0=1;OQ=145.61;QD=1.49;SB=95.31 GT:AD:DP:GL:GQ 0/1:77,21:79:-41.66,-23.81,-262.43:99
chr2 1345062 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=92;Dels=0.00;HRun=0;HaplotypeScore=3.66;MQ=38.97;MQ0=1;OQ=86.26;QD=0.94;SB=86.31 GT:AD:DP:GL:GQ 0/1:72,20:74:-34.20,-22.29,-257.53:99
chr2 1345078 . G A 213.14 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=91;Dels=0.00;HRun=2;HaplotypeScore=19.70;MQ=38.69;MQ0=1;QD=2.34;SB=80.26 GT:AD:DP:GL:GQ 0/1:72,19:73:-46.59,-22.00,-217.21:99
chr2 1345085 . G A 2405.44 SnpCluster AC=1;AF=0.50;AN=2;DP=100;Dels=0.00;HRun=1;HaplotypeScore=22.30;MQ=39.00;MQ0=1;QD=24.05;SB=-1168.33 GT:AD:DP:GL:GQ 0/1:20,80:81:-268.24,-24.41,-41.55:99
chr2 1345088 . A G 161.28 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=98;Dels=0.00;HRun=0;HaplotypeScore=18.09;MQ=39.08;MQ0=1;QD=1.65;SB=92.31 GT:AD:DP:GL:GQ 0/1:72,26:78:-42.92,-23.51,-251.21:99
chr2 1345102 . T C 15.18 DPFilter;LowQual AC=1;AF=0.50;AN=2;DP=102;Dels=0.00;HRun=0;HaplotypeScore=11.69;MQ=38.41;MQ0=2;QD=0.15;SB=86.31 GT:AD:DP:GL:GQ 0/1:92,10:79:-28.59,-23.80,-282.10:47.88
chr2 1345112 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=105;Dels=0.00;HRun=0;HaplotypeScore=23.95;MQ=39.60;MQ0=2;OQ=331.91;QD=3.16;SB=74.17 GT:AD:DP:GL:GQ 0/1:77,28:78:-59.99,-23.52,-199.19:99
chr2 1345229 . A G 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=127;Dels=0.00;HRun=0;HaplotypeScore=57.70;MQ=40.50;MQ0=9;OQ=1519.50;QD=11.96;SB=-523.56 GT:AD:DP:GL:GQ 0/1:62,65:79:-179.06,-23.83,-86.20:99
chr2 1345234 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=127;Dels=0.00;HRun=2;HaplotypeScore=102.16;MQ=40.83;MQ0=8;OQ=206.60;QD=1.63;SB=107.36 GT:AD:DP:GL:GQ 0/1:97,30:80:-48.05,-24.10,-240.48:99
chr2 1345269 . C T 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=136;Dels=0.00;HRun=0;HaplotypeScore=46.74;MQ=38.97;MQ0=7;OQ=780.44;QD=5.74;SB=-46.91 GT:AD:DP:GL:GQ 0/1:67,68:82:-106.05,-24.72,-178.14:99
chr2 1345273 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=130;Dels=0.00;HRun=2;HaplotypeScore=85.86;MQ=38.54;MQ0=8;OQ=368.41;QD=2.83;SB=71.70 GT:AD:DP:GL:GQ 0/1:98,32:80:-64.22,-24.10,-233.54:99
chr2 1345297 . T C 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=110;Dels=0.00;HRun=0;HaplotypeScore=20.97;MQ=40.81;MQ0=3;OQ=87.16;QD=0.79;SB=12.34 GT:AD:DP:GL:GQ 0/1:89,21:78:-35.50,-23.50,-266.33:99
chr2 1345307 . G A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=101;Dels=0.00;HRun=0;HaplotypeScore=25.60;MQ=42.06;MQ0=2;OQ=655.78;QD=6.49;SB=-59.43 GT:AD:DP:GL:GQ 0/1:60,40:73:-90.87,-22.01,-157.99:99
chr2 1345311 . A G 96.08 DPFilter;SnpCluster AC=1;AF=0.50;AN=2;DP=96;Dels=0.00;HRun=0;HaplotypeScore=32.48;MQ=42.07;MQ0=2;QD=1.00;SB=4.51 GT:AD:DP:GL:GQ 0/1:76,20:75:-35.49,-22.60,-263.04:99
chr2 1345319 . A G 1367.50 SnpCluster AC=1;AF=0.50;AN=2;DP=81;Dels=0.00;HRun=0;HaplotypeScore=16.67;MQ=42.44;MQ0=1;QD=16.88;SB=-499.34 GT:AD:DP:GL:GQ 0/1:22,59:62:-158.74,-18.70,-43.99:99
chr2 1345321 . T C 1486.98 SnpCluster AC=1;AF=0.50;AN=2;DP=78;Dels=0.00;HRun=0;HaplotypeScore=16.67;MQ=42.09;MQ0=1;QD=19.06;SB=-541.05 GT:AD:DP:GL:GQ 0/1:20,58:60:-170.06,-18.08,-36.60:99
chr2 1345322 . G A 1470.57 SnpCluster AC=1;AF=0.50;AN=2;DP=77;Dels=0.00;HRun=0;HaplotypeScore=10.67;MQ=41.80;MQ0=1;QD=19.10;SB=-514.07 GT:AD:DP:GL:GQ 0/1:24,52:55:-166.91,-16.57,-43.22:99
chr2 1345335 . A G 0.46 PASS AC=1;AF=0.50;AN=2;DP=80;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=44.52;MQ0=1;OQ=141.25;QD=1.77;SB=-49.81 GT:AD:DP:GL:GQ 0/1:65,15:25:-24.94,-7.53,-70.92:99
chr2 1345338 . G C 83.42 PASS AC=1;AF=0.50;AN=2;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=45.16;MQ0=1;OQ=1995.48;QD=25.26;SB=-957.75 GT:AD:DP:GL:GQ 0/1:15,64:61:-221.23,-18.40,-30.25:99
chr2 1345399 . C T 27.81 PASS AC=2;AF=1.00;AN=2;DP=70;Dels=0.00;HRun=0;HaplotypeScore=2.05;MQ=48.09;MQ0=3;OQ=1998.18;QD=28.55;SB=-914.99 GT:AD:DP:GL:GQ 1/1:12,58:54:-207.32,-16.27,-3.92:99
chr2 1345400 . A G 23.81 PASS AC=2;AF=1.00;AN=2;DP=72;Dels=0.00;HRun=0;HaplotypeScore=2.05;MQ=48.13;MQ0=3;OQ=2021.73;QD=28.08;SB=-908.84 GT:AD:DP:GL:GQ 1/1:1,71:59:-209.63,-17.77,-3.87:99
chr2 1345542 . C T 40.35 PASS AC=2;AF=1.00;AN=2;DP=83;Dels=0.00;HRun=0;HaplotypeScore=1.97;MQ=58.31;MQ0=0;OQ=3290.93;QD=39.65;SB=-1553.35 GT:AD:DP:GL:GQ 1/1:0,83:82:-328.09,-24.71,-0.03:99
chr2 1345552 . C T 45.91 PASS AC=2;AF=1.00;AN=2;DP=85;Dels=0.00;HRun=0;HaplotypeScore=0.63;MQ=57.85;MQ0=0;OQ=3313.04;QD=38.98;SB=-1586.03 GT:AD:DP:GL:GQ 1/1:0,85:82:-330.30,-24.70,-0.02:99
chr2 1345600 rs13405279 G A 124.02 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=54.14;MQ0=1;OQ=2977.67;QD=36.76;SB=-1389.84 GT:AD:DP:GL:GQ 1/1:4,77:76:-301.38,-22.90,-0.03:99
chr2 1345618 . C G 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DP=82;Dels=0.00;HRun=0;HaplotypeScore=30.81;MQ=53.18;MQ0=1;OQ=2745.55;QD=33.48;SB=-1311.95 GT:AD:DP:GL:GQ 1/1:7,75:75:-287.00,-22.65,-8.86:99
chr2 1345628 rs13396482 A G 1.61 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=0;HaplotypeScore=11.57;MQ=49.62;MQ0=3;OQ=1966.46;QD=26.94;SB=-871.29 GT:AD:DP:GL:GQ 1/1:13,60:62:-211.43,-18.68,-11.20:74.80
chr2 1345709 rs11683794 G A 2.58 PASS AC=2;AF=1.00;AN=2;DB;DP=94;Dels=0.00;HRun=1;HaplotypeScore=3.86;MQ=52.27;MQ0=4;OQ=2948.51;QD=31.37;SB=-1496.76 GT:AD:DP:GL:GQ 1/1:14,80:82:-312.16,-24.70,-13.73:99
chr2 1345790 rs11211668 G A 0.46 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=0;HaplotypeScore=14.13;MQ=56.95;MQ0=1;OQ=2416.46;QD=36.07;SB=-985.30 GT:AD:DP:GL:GQ 1/1:5,62:62:-245.26,-18.69,-0.03:99
chr2 1345866 rs11211669 G A 109.82 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=0;HaplotypeScore=3.99;MQ=59.55;MQ0=0;OQ=3061.36;QD=38.27;SB=-1485.01 GT:AD:DP:GL:GQ 1/1:0,80:78:-309.75,-23.50,-0.03:99
chr2 1346321 rs56032600 T C 40.66 PASS AC=2;AF=1.00;AN=2;DB;DP=59;Dels=0.00;HRun=3;HaplotypeScore=0.92;MQ=60.00;MQ0=0;OQ=2112.57;QD=35.81;SB=-1016.97 GT:AD:DP:GL:GQ 1/1:0,59:59:-214.86,-17.77,-0.02:99
chr2 1346480 rs4284872 A C 714.31 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.28;MQ0=0;OQ=2378.05;QD=33.97;SB=-933.75 GT:AD:DP:GL:GQ 1/1:0,70:69:-241.41,-20.78,-0.03:99
chr2 1346602 rs4456742 T C 620.51 PASS AC=2;AF=1.00;AN=2;DB;DP=68;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=54.98;MQ0=0;OQ=2384.73;QD=35.07;SB=-1195.75 GT:AD:DP:GL:GQ 1/1:0,68:66:-242.08,-19.88,-0.02:99
chr2 1346637 rs4629199 T C 728.63 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=55.45;MQ0=0;OQ=2142.45;QD=34.56;SB=-1084.88 GT:AD:DP:GL:GQ 1/1:0,62:61:-217.85,-18.37,-0.02:99
chr2 1346702 rs4308156 G A 713.02 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.43;MQ0=0;OQ=2770.99;QD=39.59;SB=-1377.84 GT:AD:DP:GL:GQ 1/1:0,70:70:-280.70,-21.09,-0.02:99
chr2 1346818 . C T 7.47 PASS AC=2;AF=1.00;AN=2;DP=82;Dels=0.01;HRun=1;HaplotypeScore=2.95;MQ=58.43;MQ0=0;OQ=3155.56;QD=38.48;SB=-1123.64 GT:AD:DP:GL:GQ 1/1:0,81:81:-319.17,-24.10,-0.03:99
chr2 1346842 . C T 0.01 FDRtranche2.00to10.00 AC=2;AF=1.00;AN=2;DP=75;Dels=0.03;HRun=0;HaplotypeScore=18.15;MQ=57.65;MQ0=0;OQ=2777.68;QD=37.04;SB=-1141.28 GT:AD:DP:GL:GQ 1/1:0,73:73:-281.38,-21.39,-0.03:99
chr2 1346906 . T C 316 PASS AC=2;AF=1.00;AN=2;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=48.68;MQ0=0;OQ=1517.00;QD=29.17;SB=-705.83 GT:AD:DP:GL:GQ 1/1:0,52:48:-155.32,-14.47,-0.04:99
chr2 1346922 . A T 1602.95 Indel AC=2;AF=1.00;AN=2;DP=46;Dels=0.00;HRun=5;HaplotypeScore=0.00;MQ=39.92;MQ0=0;QD=34.85;SB=-686.68 GT:AD:DP:GL:GQ 1/1:0,46:44:-163.89,-13.25,-0.01:99
chr2 1346950 . A G 29 PASS AC=2;AF=1.00;AN=2;DP=42;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=39.87;MQ0=0;OQ=1088.16;QD=25.91;SB=-486.13 GT:AD:DP:GL:GQ 1/1:0,42:35:-112.44,-10.56,-0.04:99
chr2 1346957 . C T 78.86 PASS AC=2;AF=1.00;AN=2;DP=41;Dels=0.00;HRun=3;HaplotypeScore=0.00;MQ=40.93;MQ0=0;OQ=1471.32;QD=35.89;SB=-749.49 GT:AD:DP:GL:GQ 1/1:0,41:38:-150.73,-11.45,-0.01:99
chr2 1346989 . A G 291.66 PASS AC=2;AF=1.00;AN=2;DP=42;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=49.81;MQ0=0;OQ=1290.60;QD=30.73;SB=-485.46 GT:AD:DP:GL:GQ 1/1:0,42:38:-132.66,-11.45,-0.02:99
chr2 1347279 . T A 1.87 PASS AC=2;AF=1.00;AN=2;DP=34;Dels=0.00;HRun=2;HaplotypeScore=0.73;MQ=50.48;MQ0=0;OQ=1162.45;QD=34.19;SB=-433.65 GT:AD:DP:GL:GQ 1/1:0,34:32:-119.84,-9.64,-0.01:96.29
chr2 1347299 . G T 32.47 PASS AC=2;AF=1.00;AN=2;DP=43;Dels=0.00;HRun=0;HaplotypeScore=1.30;MQ=45.19;MQ0=0;OQ=1293.14;QD=30.07;SB=-570.15 GT:AD:DP:GL:GQ 1/1:0,43:37:-132.91,-11.15,-0.01:99
chr2 1347311 rs13403358 A G 8.26 PASS AC=2;AF=1.00;AN=2;DB;DP=48;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=46.38;MQ0=0;OQ=1280.50;QD=26.68;SB=-601.58 GT:AD:DP:GL:GQ 1/1:0,48:41:-131.67,-12.37,-0.04:99
chr2 1347318 rs13412196 G A 0.37 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.04;HRun=1;HaplotypeScore=14.99;MQ=46.20;MQ0=0;OQ=1670.87;QD=32.76;SB=-694.42 GT:AD:DP:GL:GQ 1/1:0,49:45:-170.69,-12.96,-0.02:99
chr2 1347361 rs13397274 T C 3.44 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.02;HRun=3;HaplotypeScore=0.48;MQ=50.76;MQ0=0;OQ=1461.05;QD=28.65;SB=-493.17 GT:AD:DP:GL:GQ 1/1:0,50:46:-149.72,-13.57,-0.03:99
chr2 1347467 rs13397359 T C 131.82 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=0;HaplotypeScore=1.49;MQ=59.41;MQ0=0;OQ=1895.27;QD=28.72;SB=-807.69 GT:AD:DP:GL:GQ 1/1:0,66:59:-193.16,-17.79,-0.05:99
chr2 1347636 rs13397572 T C 518.51 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=52.29;MQ0=0;OQ=1648.45;QD=32.97;SB=-584.54 GT:AD:DP:GL:GQ 1/1:0,50:47:-168.45,-14.16,-0.02:99
chr2 1347637 rs13412533 G A 527.60 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=52.12;MQ0=0;OQ=1768.87;QD=36.10;SB=-655.67 GT:AD:DP:GL:GQ 1/1:0,49:45:-180.48,-13.56,-0.01:99
chr2 1348186 rs55825556 T A 502.82 PASS AC=2;AF=1.00;AN=2;DB;DP=80;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.19;MQ0=0;OQ=2996.07;QD=37.45;SB=-1484.55 GT:AD:DP:GL:GQ 1/1:0,80:79:-303.21,-23.79,-0.02:99
chr2 1348206 rs28368212 A C 181.29 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.82;MQ=58.96;MQ0=0;OQ=2707.59;QD=33.43;SB=-1282.16 GT:AD:DP:GL:GQ 1/1:0,81:77:-274.37,-23.19,-0.02:99
chr2 1348223 rs55648004 A G 112.79 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=1;HaplotypeScore=0.32;MQ=58.58;MQ0=0;OQ=2758.34;QD=34.92;SB=-1039.06 GT:AD:DP:GL:GQ 1/1:0,79:77:-279.45,-23.19,-0.03:99
chr2 1348307 rs56151934 A G 1760.33 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=53.82;MQ0=0;QD=34.52;SB=-584.57 GT:AD:DP:GL:GQ 1/1:0,51:50:-179.64,-15.06,-0.02:99
chr2 1348312 . T C 1554.01 SnpCluster AC=2;AF=1.00;AN=2;DP=52;Dels=0.00;HRun=3;HaplotypeScore=5.34;MQ=51.94;MQ0=0;QD=29.88;SB=-564.09 GT:AD:DP:GL:GQ 1/1:1,51:47:-159.02,-14.17,-0.03:99
chr2 1348315 rs56024496 A G 1453.35 SnpCluster AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=0;HaplotypeScore=5.50;MQ=52.13;MQ0=0;QD=29.07;SB=-685.61 GT:AD:DP:GL:GQ 1/1:0,49:47:-148.97,-14.18,-0.05:99
chr2 1348338 rs56166938 G T 0.89 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=1;HaplotypeScore=9.48;MQ=51.77;MQ0=0;OQ=1307.38;QD=33.52;SB=-622.15 GT:AD:DP:GL:GQ 1/1:1,38:37:-134.33,-11.14,-0.01:99
chr2 1348345 rs56113903 T C 0.39 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=2;HaplotypeScore=7.82;MQ=53.61;MQ0=0;OQ=1308.54;QD=34.44;SB=-544.23 GT:AD:DP:GL:GQ 1/1:1,36:36:-134.45,-10.84,-0.01:99
chr2 1348397 rs11684551 A C 200.22 PASS AC=2;AF=1.00;AN=2;DB;DP=44;Dels=0.00;HRun=0;HaplotypeScore=1.52;MQ=56.78;MQ0=0;OQ=1260.57;QD=28.65;SB=-598.62 GT:AD:DP:GL:GQ 1/1:0,44:43:-129.69,-12.96,-0.05:99
chr2 1348502 rs4321408 G C 454.46 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.14;MQ0=0;OQ=3530.13;QD=43.58;SB=-1126.00 GT:AD:DP:GL:GQ 1/1:0,81:81:-352.01,-24.42,-0.03:99
chr2 1348609 rs4321409 G A 353.12 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=58.91;MQ0=0;OQ=2557.39;QD=39.96;SB=-1004.84 GT:AD:DP:GL:GQ 1/1:0,64:63:-259.34,-18.98,-0.01:99
chr2 1348739 rs4630805 T C 252 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.20;MQ0=0;OQ=1935.16;QD=33.36;SB=-896.89 GT:AD:DP:GL:GQ 1/1:0,58:56:-197.13,-16.87,-0.03:99
chr2 1348749 rs4516475 C G 218.13 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=0;HaplotypeScore=1.11;MQ=59.81;MQ0=0;OQ=2756.57;QD=42.41;SB=-1352.93 GT:AD:DP:GL:GQ 1/1:0,65:64:-279.26,-19.28,-0.02:99
chr2 1348920 rs3923533 A C 618.59 PASS AC=2;AF=1.00;AN=2;DB;DP=92;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.87;MQ0=0;OQ=3294.47;QD=35.81;SB=-1649.05 GT:AD:DP:GL:GQ 1/1:0,92:91:-328.45,-27.40,-0.02:99
chr2 1348957 rs3923532 T G 219.94 PASS AC=2;AF=1.00;AN=2;DB;DP=96;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=60.00;MQ0=0;OQ=3471.89;QD=36.17;SB=-1624.20 GT:AD:DP:GL:GQ 1/1:0,96:96:-346.19,-28.91,-0.03:99
chr2 1349050 rs3923531 A G 248.85 PASS AC=2;AF=1.00;AN=2;DB;DP=83;Dels=0.00;HRun=0;HaplotypeScore=1.07;MQ=59.16;MQ0=0;OQ=2680.93;QD=32.30;SB=-1279.83 GT:AD:DP:GL:GQ 1/1:0,83:83:-271.75,-25.03,-0.07:99
chr2 1349462 . A C 54.45 PASS AC=1;AF=0.50;AN=2;DP=53;Dels=0.00;HRun=1;HaplotypeScore=1.84;MQ=59.56;MQ0=0;OQ=583.45;QD=11.01;SB=-303.47 GT:AD:DP:GL:GQ 0/1:30,23:51:-76.99,-15.37,-101.77:99
chr2 1351548 . C T 23.22 PASS AC=1;AF=0.50;AN=2;DP=68;Dels=0.00;HRun=0;HaplotypeScore=1.79;MQ=59.66;MQ0=0;OQ=1177.88;QD=17.32;SB=-255.14 GT:AD:DP:GL:GQ 0/1:33,35:66:-140.96,-19.89,-99.79:99
chr2 1351972 rs12477603 G A 149.49 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=1.00;MQ=59.66;MQ0=0;OQ=328.72;QD=5.98;SB=-139.02 GT:AD:DP:GL:GQ 0/1:42,13:53:-52.13,-15.97,-134.15:99
chr2 1352534 rs9326180 T C 413.43 PASS AC=1;AF=0.50;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=0.52;MQ=59.25;MQ0=1;OQ=826.60;QD=11.64;SB=-362.00 GT:AD:DP:GL:GQ 0/1:36,35:69:-106.75,-20.81,-139.10:99
chr2 1352767 rs10209321 G A 328.88 PASS AC=1;AF=0.50;AN=2;DB;DP=54;Dels=0.00;HRun=0;HaplotypeScore=1.76;MQ=60.00;MQ0=0;OQ=809.58;QD=14.99;SB=-307.84 GT:AD:DP:GL:GQ 0/1:29,25:51:-99.61,-15.37,-85.75:99
chr2 1353321 rs9326186 C T 0 FDRtranche2.00to10.00+ AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=7;HaplotypeScore=1.00;MQ=59.57;MQ0=0;OQ=1959.25;QD=36.28;SB=-1003.37 GT:AD:DP:GL:GQ 1/1:1,53:52:-202.52,-15.67,-3.01:99
chr2 1354397 rs4471928 A C 203.69 PASS AC=1;AF=0.50;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=59.66;MQ0=0;OQ=691.74;QD=12.58;SB=-212.83 GT:AD:DP:GL:GQ 0/1:29,26:52:-88.12,-15.66,-99.81:99
chr2 1355028 rs13387242 G A 190.99 PASS AC=1;AF=0.50;AN=2;DB;DP=61;Dels=0.00;HRun=2;HaplotypeScore=0.99;MQ=56.90;MQ0=0;OQ=1056.37;QD=17.32;SB=-507.09 GT:AD:DP:GL:GQ 0/1:29,32:60:-126.99,-18.07,-103.62:99
chr2 1355292 . G A 0.12 PASS AC=1;AF=0.50;AN=2;DP=63;Dels=0.00;HRun=0;HaplotypeScore=5.43;MQ=52.61;MQ0=0;OQ=254.60;QD=4.04;SB=-43.74 GT:AD:DP:GL:GQ 0/1:51,12:61:-47.12,-18.38,-173.93:99
chr2 1355309 . A G 0.45 PASS AC=1;AF=0.50;AN=2;DP=61;Dels=0.00;HRun=2;HaplotypeScore=5.21;MQ=52.78;MQ0=0;OQ=533.26;QD=8.74;SB=-239.52 GT:AD:DP:GL:GQ 0/1:39,21:58:-76.70,-20.09,-141.92:99
chr2 1355354 . C G 3.85 PASS AC=1;AF=0.50;AN=2;DP=71;Dels=0.00;HRun=0;HaplotypeScore=2.06;MQ=53.56;MQ0=0;OQ=420.61;QD=5.92;SB=-170.20 GT:AD:DP:GL:GQ 0/1:54,16:70:-66.44,-21.10,-233.85:99
chr2 1355360 . A G 0.01 FDRtranche2.00to10.00 AC=1;AF=0.50;AN=2;DP=74;Dels=0.00;HRun=2;HaplotypeScore=2.73;MQ=53.84;MQ0=0;OQ=240.02;QD=3.24;SB=-63.44 GT:AD:DP:GL:GQ 0/1:58,16:73:-49.29,-22.00,-228.33:99
chr2 1355371 . G C 0.08 PASS AC=1;AF=0.50;AN=2;DP=75;Dels=0.00;HRun=1;HaplotypeScore=1.76;MQ=54.94;MQ0=0;OQ=224.72;QD=3.00;SB=-57.50 GT:AD:DP:GL:GQ 0/1:64,11:73:-47.75,-22.00,-270.98:99
chr2 1355712 rs4490233 G A 499.12 PASS AC=1;AF=0.50;AN=2;DB;DP=87;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1454.19;QD=16.71;SB=-735.79 GT:AD:DP:GL:GQ 0/1:43,44:87:-174.91,-26.21,-158.22:99
chr2 1356942 . A G 1.63 PASS AC=2;AF=1.00;AN=2;DP=63;Dels=0.00;HRun=1;HaplotypeScore=4.02;MQ=58.97;MQ0=0;OQ=2117.32;QD=33.61;SB=-695.28 GT:AD:DP:GL:GQ 1/1:0,63:62:-215.34,-18.68,-0.02:99
chr2 1357067 rs4927602 G A 63.56 PASS AC=2;AF=1.00;AN=2;DB;DP=49;Dels=0.00;HRun=0;HaplotypeScore=2.80;MQ=59.62;MQ0=0;OQ=1910.49;QD=38.99;SB=-608.31 GT:AD:DP:GL:GQ 1/1:0,49:48:-194.65,-14.46,-0.01:99
chr2 1357976 rs4076290 G A 704.33 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.77;MQ0=0;OQ=2309.51;QD=38.49;SB=-1006.33 GT:AD:DP:GL:GQ 1/1:0,60:59:-234.56,-17.78,-0.02:99
chr2 1361418 rs11683117 C T 236.42 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.60;MQ0=0;OQ=2175.61;QD=37.51;SB=-951.76 GT:AD:DP:GL:GQ 1/1:0,58:56:-221.17,-16.87,-0.02:99
chr2 1362244 rs4927650 T G 123.82 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=1;HaplotypeScore=1.37;MQ=59.55;MQ0=0;OQ=1682.97;QD=33.00;SB=-672.75 GT:AD:DP:GL:GQ 1/1:0,51:50:-171.91,-15.06,-0.03:99
chr2 1363029 . A C 49.36 PASS AC=1;AF=0.50;AN=2;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.89;MQ=40.88;MQ0=1;OQ=623.29;QD=11.99;SB=-195.87 GT:AD:DP:GL:GQ 0/1:28,24:49:-80.37,-14.76,-98.63:99
chr2 1363030 . G A 16.44 PASS AC=1;AF=0.50;AN=2;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=40.61;MQ0=1;OQ=690.08;QD=13.80;SB=-204.19 GT:AD:DP:GL:GQ 0/1:27,23:47:-86.45,-14.16,-95.20:99
chr2 1371936 rs56003829 G A 511.24 PASS AC=2;AF=1.00;AN=2;DB;DP=38;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.51;MQ0=0;OQ=1467.81;QD=38.63;SB=-743.98 GT:AD:DP:GL:GQ 1/1:0,38:37:-150.37,-11.15,-0.01:99
chr2 1378648 rs55884821 C A 168.25 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=1.82;MQ=57.62;MQ0=0;OQ=2594.48;QD=32.84;SB=-1243.97 GT:AD:DP:GL:GQ 1/1:0,79:75:-263.07,-22.60,-0.04:99
chr2 1379077 rs56217611 T C 144.43 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=1;HaplotypeScore=0.79;MQ=59.72;MQ0=0;OQ=2376.02;QD=35.46;SB=-1057.42 GT:AD:DP:GL:GQ 1/1:0,67:67:-241.21,-20.18,-0.03:99
chr2 1379326 rs9798466 C T 197.51 PASS AC=2;AF=1.00;AN=2;DB;DP=62;Dels=0.00;HRun=0;HaplotypeScore=1.36;MQ=58.64;MQ0=0;OQ=2329.28;QD=37.57;SB=-1065.35 GT:AD:DP:GL:GQ 1/1:1,61:60:-236.53,-18.08,-0.02:99
chr2 1379574 rs12328062 T C 203.39 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.67;MQ=58.55;MQ0=0;OQ=1654.55;QD=28.53;SB=-837.96 GT:AD:DP:GL:GQ 1/1:0,58:54:-169.10,-16.29,-0.06:99
chr2 1379615 rs12329058 G C 280.41 PASS AC=2;AF=1.00;AN=2;DB;DP=74;Dels=0.00;HRun=0;HaplotypeScore=0.32;MQ=59.12;MQ0=0;OQ=2751.16;QD=37.18;SB=-1274.43 GT:AD:DP:GL:GQ 1/1:1,73:70:-278.76,-21.13,-0.06:99
chr2 1379693 rs12329063 G A 1.32 PASS AC=2;AF=1.00;AN=2;DB;DP=90;Dels=0.00;HRun=2;HaplotypeScore=11.36;MQ=59.28;MQ0=0;OQ=3635.99;QD=40.40;SB=-1260.68 GT:AD:DP:GL:GQ 1/1:0,89:89:-362.60,-26.81,-0.02:99
chr2 1380454 rs938325 T C 157.19 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=0;HaplotypeScore=0.16;MQ=59.56;MQ0=0;OQ=1471.43;QD=28.30;SB=-619.94 GT:AD:DP:GL:GQ 1/1:0,52:47:-150.77,-14.18,-0.04:99
chr2 1380788 rs938326 C T 233.62 PASS AC=2;AF=1.00;AN=2;DB;DP=64;Dels=0.00;HRun=0;HaplotypeScore=2.82;MQ=58.39;MQ0=0;OQ=2453.23;QD=38.33;SB=-1134.03 GT:AD:DP:GL:GQ 1/1:0,63:62:-248.92,-18.68,-0.02:99
chr2 1381595 rs11211643 A G 71.38 PASS AC=2;AF=1.00;AN=2;DB;DP=50;Dels=0.00;HRun=1;HaplotypeScore=0.10;MQ=60.00;MQ0=0;OQ=1546.01;QD=30.92;SB=-476.08 GT:AD:DP:GL:GQ 1/1:0,50:48:-158.23,-14.48,-0.04:99
chr2 1383092 rs11682231 T C 541.10 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=56.26;MQ0=0;OQ=1675.11;QD=30.46;SB=-864.37 GT:AD:DP:GL:GQ 1/1:0,55:52:-171.14,-15.68,-0.04:99
chr2 1383415 . C A 0 FDRtranche2.00to10.00+ AC=1;AF=0.50;AN=2;DP=83;Dels=0.00;HRun=14;HaplotypeScore=18.55;MQ=53.67;MQ0=0;OQ=393.98;QD=4.75;SB=68.20 GT:AD:DP:GL:GQ 0/1:56,26:59:-60.46,-17.78,-130.93:99
chr2 1383502 rs11211644 C T 199.52 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=58.68;MQ0=0;OQ=2130.89;QD=37.38;SB=-1033.40 GT:AD:DP:GL:GQ 1/1:0,57:55:-216.69,-16.57,-0.02:99
chr2 1383763 rs10183226 T G 147.56 PASS AC=2;AF=1.00;AN=2;DB;DP=54;Dels=0.00;HRun=1;HaplotypeScore=1.00;MQ=59.14;MQ0=0;OQ=1928.14;QD=35.71;SB=-662.07 GT:AD:DP:GL:GQ 1/1:0,54:54:-196.41,-16.26,-0.01:99
chr2 1383857 rs10180405 A G 467.80 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1259.00;QD=26.79;SB=-518.18 GT:AD:DP:GL:GQ 1/1:0,47:41:-129.53,-12.37,-0.04:99
chr2 1383892 rs10183390 T C 675.67 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1994.61;QD=34.99;SB=-747.94 GT:AD:DP:GL:GQ 1/1:0,57:57:-203.07,-17.17,-0.03:99
chr2 1384816 rs56283137 C A 533.28 PASS AC=2;AF=1.00;AN=2;DB;DP=51;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=1763.00;QD=34.57;SB=-629.53 GT:AD:DP:GL:GQ 1/1:0,50:49:-182.59,-17.39,-2.71:99
chr2 1385019 rs9711204 C T 296.66 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=59.70;MQ0=0;OQ=2332.92;QD=37.03;SB=-977.82 GT:AD:DP:GL:GQ 1/1:0,63:61:-236.90,-18.38,-0.03:99
chr2 1385066 rs13403150 A G 175.26 PASS AC=2;AF=1.00;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=0.95;MQ=58.85;MQ0=0;OQ=2406.33;QD=32.96;SB=-1217.70 GT:AD:DP:GL:GQ 1/1:0,73:68:-244.24,-20.48,-0.02:99
chr2 1385350 rs55781504 T A 312.20 PASS AC=2;AF=1.00;AN=2;DB;DP=65;Dels=0.00;HRun=2;HaplotypeScore=0.00;MQ=59.65;MQ0=0;OQ=2375.47;QD=36.55;SB=-1055.91 GT:AD:DP:GL:GQ 1/1:0,65:63:-241.15,-18.98,-0.02:99
chr2 1385514 rs55896290 G A 21.17 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=4;HaplotypeScore=0.00;MQ=59.68;MQ0=0;OQ=2329.92;QD=40.17;SB=-699.42 GT:AD:DP:GL:GQ 1/1:0,58:58:-236.59,-17.47,-0.02:99
chr2 1385545 rs11900674 G A 463.19 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.67;MQ0=0;OQ=2212.56;QD=38.82;SB=-659.38 GT:AD:DP:GL:GQ 1/1:0,57:56:-224.86,-16.87,-0.02:99
chr2 1386053 rs1972113 T C 67.14 PASS AC=2;AF=1.00;AN=2;DB;DP=52;Dels=0.00;HRun=1;HaplotypeScore=0.92;MQ=60.00;MQ0=0;OQ=1459.15;QD=28.06;SB=-738.30 GT:AD:DP:GL:GQ 1/1:0,52:46:-149.54,-13.87,-0.04:99
chr2 1386635 rs11675342 C T 683.10 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.60;MQ0=0;OQ=1719.28;QD=36.58;SB=-815.34 GT:AD:DP:GL:GQ 1/1:0,47:45:-175.53,-13.56,-0.02:99
chr2 1386822 rs11675434 C T 724.80 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=2402.52;QD=38.14;SB=-1095.01 GT:AD:DP:GL:GQ 1/1:0,63:62:-243.86,-18.68,-0.02:99
chr2 1387108 rs11678852 A T 737 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.73;MQ0=0;OQ=2570.43;QD=37.25;SB=-1243.50 GT:AD:DP:GL:GQ 1/1:0,69:69:-260.64,-20.78,-0.02:99
chr2 1387357 rs11694732 G C 250.47 PASS AC=2;AF=1.00;AN=2;DB;DP=69;Dels=0.00;HRun=0;HaplotypeScore=1.47;MQ=59.67;MQ0=0;OQ=2798.07;QD=40.55;SB=-1250.77 GT:AD:DP:GL:GQ 1/1:0,69:67:-283.42,-20.19,-0.03:99
chr2 1387450 rs10890517 T C 264.37 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=0;HaplotypeScore=0.73;MQ=60.00;MQ0=0;OQ=1855.89;QD=30.93;SB=-925.35 GT:AD:DP:GL:GQ 1/1:0,60:59:-189.23,-17.79,-0.05:99
chr2 1388006 rs55980998 T A 115.85 PASS AC=2;AF=1.00;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.81;MQ0=0;OQ=1407.95;QD=36.10;SB=-47.39 GT:AD:DP:GL:GQ 1/1:0,39:37:-144.39,-11.15,-0.01:99
chr2 1388063 rs56302939 C T 0.59 PASS AC=2;AF=1.00;AN=2;DB;DP=37;Dels=0.00;HRun=0;HaplotypeScore=2.81;MQ=58.11;MQ0=0;OQ=1385.40;QD=37.44;SB=-116.97 GT:AD:DP:GL:GQ 1/1:0,37:36:-142.14,-10.85,-0.01:99
chr2 1388105 rs55750095 C A 166.55 PASS AC=2;AF=1.00;AN=2;DB;DP=28;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=60.00;MQ0=0;OQ=955.51;QD=34.13;SB=-48.95 GT:AD:DP:GL:GQ 1/1:0,28:28:-99.14,-8.43,-0.01:84.25
chr2 1388360 rs9677074 G C 49.19 PASS AC=2;AF=1.00;AN=2;DB;DP=67;Dels=0.00;HRun=2;HaplotypeScore=1.78;MQ=58.75;MQ0=0;OQ=2786.23;QD=41.59;SB=-1196.08 GT:AD:DP:GL:GQ 1/1:0,67:65:-282.23,-19.59,-0.03:99
chr2 1389936 rs17786733 T A 304.31 PASS AC=2;AF=1.00;AN=2;DB;DP=79;Dels=0.00;HRun=0;HaplotypeScore=0.87;MQ=59.15;MQ0=0;OQ=2880.26;QD=36.46;SB=-1342.39 GT:AD:DP:GL:GQ 1/1:0,79:78:-291.63,-23.50,-0.02:99
chr2 1390890 rs13400534 C T 638.09 PASS AC=2;AF=1.00;AN=2;DB;DP=70;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.40;MQ0=0;OQ=2678.53;QD=38.26;SB=-1262.71 GT:AD:DP:GL:GQ 1/1:0,70:69:-271.46,-20.79,-0.02:99
chr2 1391237 rs11682968 C T 93.62 PASS AC=2;AF=1.00;AN=2;DB;DP=55;Dels=0.00;HRun=1;HaplotypeScore=0.16;MQ=58.39;MQ0=0;OQ=2115.34;QD=38.46;SB=-744.49 GT:AD:DP:GL:GQ 1/1:0,54:53:-215.13,-15.97,-0.02:99
chr2 1391251 rs11686524 T G 86.54 PASS AC=2;AF=1.00;AN=2;DB;DP=60;Dels=0.00;HRun=2;HaplotypeScore=1.79;MQ=58.13;MQ0=0;OQ=2002.52;QD=33.38;SB=-832.06 GT:AD:DP:GL:GQ 1/1:0,60:58:-203.86,-17.47,-0.02:99
chr2 1391289 rs11685159 A C 653.91 PASS AC=2;AF=1.00;AN=2;DB;DP=58;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.88;MQ0=0;OQ=1787.21;QD=30.81;SB=-900.82 GT:AD:DP:GL:GQ 1/1:0,58:57:-182.35,-17.18,-0.05:99
chr2 1391588 rs11211645 A G 545.24 PASS AC=2;AF=1.00;AN=2;DB;DP=66;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.08;MQ0=0;OQ=2106.99;QD=31.92;SB=-975.34 GT:AD:DP:GL:GQ 1/1:0,66:65:-214.34,-19.60,-0.05:99
chr2 1391809 rs12471910 A G 614.58 PASS AC=2;AF=1.00;AN=2;DB;DP=89;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=58.58;MQ0=0;OQ=2782.95;QD=31.27;SB=-1292.84 GT:AD:DP:GL:GQ 1/1:0,89:86:-281.95,-25.93,-0.07:99
chr2 1392233 rs1567920 A G 738.76 PASS AC=2;AF=1.00;AN=2;DB;DP=81;Dels=0.00;HRun=0;HaplotypeScore=0.00;MQ=59.72;MQ0=0;OQ=2959.99;QD=36.54;SB=-1136.81 GT:AD:DP:GL:GQ 1/1:0,81:81:-299.60,-24.40,-0.02:99
chr2 1395044 rs2298876 G A 611.68 PASS AC=2;AF=1.00;AN=2;DB;DP=63;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.70;MQ0=0;OQ=2531.48;QD=40.18;SB=-1261.05 GT:AD:DP:GL:GQ 1/1:0,63:63:-256.75,-18.97,-0.01:99
chr2 1395442 rs4927604 A G 77.03 PASS AC=2;AF=1.00;AN=2;DB;DP=82;Dels=0.00;HRun=3;HaplotypeScore=1.34;MQ=59.54;MQ0=0;OQ=2906.61;QD=35.45;SB=-1308.19 GT:AD:DP:GL:GQ 1/1:1,81:80:-294.27,-24.10,-0.02:99
chr2 1395535 rs2071399 A G 58.75 PASS AC=2;AF=1.00;AN=2;DB;DP=57;Dels=0.00;HRun=2;HaplotypeScore=0.16;MQ=58.44;MQ0=0;OQ=1809.80;QD=31.75;SB=-863.56 GT:AD:DP:GL:GQ 1/1:0,57:56:-184.61,-16.89,-0.04:99
chr2 1396206 rs2071402 G A 191.12 PASS AC=2;AF=1.00;AN=2;DB;DP=47;Dels=0.00;HRun=0;HaplotypeScore=1.57;MQ=59.11;MQ0=0;OQ=1814.57;QD=38.61;SB=-805.08 GT:AD:DP:GL:GQ 1/1:0,47:46:-185.05,-13.86,-0.01:99
chr2 1396251 rs2071403 A G 286.19 PASS AC=2;AF=1.00;AN=2;DB;DP=71;Dels=0.00;HRun=0;HaplotypeScore=1.72;MQ=59.25;MQ0=0;OQ=2402.31;QD=33.84;SB=-1213.71 GT:AD:DP:GL:GQ 1/1:0,70:68:-243.84,-20.48,-0.03:99
chr2 1396988 rs9326166 G A 319.13 PASS AC=1;AF=0.50;AN=2;DB;DP=60;Dels=0.00;HRun=1;HaplotypeScore=0.00;MQ=59.69;MQ0=0;OQ=1195.46;QD=19.92;SB=-432.95 GT:AD:DP:GL:GQ 0/1:25,35:59:-140.60,-17.77,-88.31:99
chr2 1397199 rs9678281 C G 144.19 PASS AC=1;AF=0.50;AN=2;DB;DP=73;Dels=0.00;HRun=1;HaplotypeScore=2.34;MQ=59.74;MQ0=0;OQ=1380.86;QD=18.92;SB=-657.26 GT:AD:DP:GL:GQ 0/1:35,38:73:-163.38,-22.01,-140.66:99
chr2 1398383 rs9678767 A G 26.93 PASS AC=1;AF=0.50;AN=2;DB;DP=39;Dels=0.00;HRun=0;HaplotypeScore=0.58;MQ=49.86;MQ0=4;OQ=183.59;QD=4.71;SB=-45.83 GT:AD:DP:GL:GQ 0/1:21,18:27:-29.78,-8.14,-69.18:99
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