# This file was produced by bcftools stats (1.20+htslib-1.20) and can be plotted using plot-vcfstats. # The command line was: bcftools stats --samples HG002 --fasta-ref /mnt/miniwdl_task_container/work/_miniwdl_inputs/0/human_GRCh38_no_alt_analysis_set.fasta - # # Definition of sets: # ID [2]id [3]tab-separated file names ID 0 # SN, Summary numbers: # number of records .. number of data rows in the VCF # number of no-ALTs .. reference-only sites, ALT is either "." or identical to REF # number of SNPs .. number of rows with a SNP # number of MNPs .. number of rows with a MNP, such as CC>TT # number of indels .. number of rows with an indel # number of others .. number of rows with other type, for example a symbolic allele or # a complex substitution, such as ACT>TCGA # number of multiallelic sites .. number of rows with multiple alternate alleles # number of multiallelic SNP sites .. number of rows with multiple alternate alleles, all SNPs # # Note that rows containing multiple types will be counted multiple times, in each # counter. For example, a row with a SNP and an indel increments both the SNP and # the indel counter. # # SN [2]id [3]key [4]value SN 0 number of samples: 1 SN 0 number of records: 4842805 SN 0 number of no-ALTs: 0 SN 0 number of SNPs: 4002271 SN 0 number of MNPs: 0 SN 0 number of indels: 840534 SN 0 number of others: 0 SN 0 number of multiallelic sites: 0 SN 0 number of multiallelic SNP sites: 0 # TSTV, transitions/transversions: # TSTV [2]id [3]ts [4]tv [5]ts/tv [6]ts (1st ALT) [7]tv (1st ALT) [8]ts/tv (1st ALT) TSTV 0 2630435 1371836 1.92 2630435 1371836 1.92 # ICS, Indel context summary: # ICS [2]id [3]repeat-consistent [4]repeat-inconsistent [5]not applicable [6]c/(c+i) ratio ICS 0 208594 19584 612356 0.9142 # ICL, Indel context by length: # ICL [2]id [3]length of repeat element [4]repeat-consistent deletions) [5]repeat-inconsistent deletions [6]consistent insertions [7]inconsistent insertions [8]c/(c+i) ratio ICL 0 2 64633 3226 60056 5131 0.9372 ICL 0 3 13952 1815 8215 2237 0.8455 ICL 0 4 25006 1790 20030 2032 0.9218 ICL 0 5 6288 710 4592 784 0.8793 ICL 0 6 1873 400 1080 422 0.7823 ICL 0 7 702 189 194 201 0.6967 ICL 0 8 788 173 193 160 0.7466 ICL 0 9 464 64 96 63 0.8151 ICL 0 10 356 109 76 78 0.6979 # SiS, Singleton stats: # SiS [2]id [3]allele count [4]number of SNPs [5]number of transitions [6]number of transversions [7]number of indels [8]repeat-consistent [9]repeat-inconsistent [10]not applicable SiS 0 1 2258379 1518071 740308 538484 150654 11923 375907 # AF, Stats by non-reference allele frequency: # AF [2]id [3]allele frequency [4]number of SNPs [5]number of transitions [6]number of transversions [7]number of indels [8]repeat-consistent [9]repeat-inconsistent [10]not applicable AF 0 0.000000 2258379 1518071 740308 538484 150654 11923 375907 AF 0 0.990000 1743892 1112364 631528 302050 57940 7661 236449 # QUAL, Stats by quality # QUAL [2]id [3]Quality [4]number of SNPs [5]number of transitions (1st ALT) [6]number of transversions (1st ALT) [7]number of indels QUAL 0 19.5 25 17 8 47 QUAL 0 19.6 179 95 84 216 QUAL 0 19.7 260 150 110 278 QUAL 0 19.8 329 177 152 323 QUAL 0 19.9 407 222 185 376 QUAL 0 20.0 450 244 206 363 QUAL 0 20.1 530 285 245 373 QUAL 0 20.2 536 276 260 413 QUAL 0 20.3 585 326 259 440 QUAL 0 20.4 597 314 283 439 QUAL 0 20.5 676 357 319 459 QUAL 0 20.6 653 327 326 453 QUAL 0 20.7 705 355 350 486 QUAL 0 20.8 770 392 378 459 QUAL 0 20.9 712 369 343 512 QUAL 0 21.0 811 417 394 502 QUAL 0 21.1 789 395 394 482 QUAL 0 21.2 841 432 409 492 QUAL 0 21.3 851 436 415 537 QUAL 0 21.4 861 426 435 535 QUAL 0 21.5 882 455 427 520 QUAL 0 21.6 859 414 445 532 QUAL 0 21.7 850 446 404 577 QUAL 0 21.8 870 455 415 587 QUAL 0 21.9 950 468 482 543 QUAL 0 22.0 945 505 440 557 QUAL 0 22.1 930 493 437 570 QUAL 0 22.2 1002 511 491 567 QUAL 0 22.3 1032 502 530 579 QUAL 0 22.4 960 512 448 587 QUAL 0 22.5 997 494 503 586 QUAL 0 22.6 1032 499 533 600 QUAL 0 22.7 993 540 453 635 QUAL 0 22.8 996 518 478 592 QUAL 0 22.9 998 528 470 643 QUAL 0 23.0 1024 537 487 610 QUAL 0 23.1 1061 546 515 646 QUAL 0 23.2 1077 526 551 628 QUAL 0 23.3 1068 527 541 616 QUAL 0 23.4 1109 555 554 623 QUAL 0 23.5 1097 552 545 627 QUAL 0 23.6 1066 527 539 628 QUAL 0 23.7 1093 547 546 663 QUAL 0 23.8 1105 571 534 610 QUAL 0 23.9 1099 562 537 683 QUAL 0 24.0 1058 547 511 604 QUAL 0 24.1 1129 565 564 686 QUAL 0 24.2 1156 579 577 643 QUAL 0 24.3 1109 555 554 665 QUAL 0 24.4 1150 564 586 692 QUAL 0 24.5 1139 538 601 682 QUAL 0 24.6 1181 621 560 643 QUAL 0 24.7 1172 611 561 706 QUAL 0 24.8 1166 593 573 694 QUAL 0 24.9 1145 590 555 669 QUAL 0 25.0 1478 743 735 679 QUAL 0 25.1 2794 1599 1195 690 QUAL 0 25.2 3376 1972 1404 661 QUAL 0 25.3 3663 2189 1474 709 QUAL 0 25.4 3884 2246 1638 746 QUAL 0 25.5 3923 2333 1590 670 QUAL 0 25.6 4048 2345 1703 719 QUAL 0 25.7 4069 2366 1703 708 QUAL 0 25.8 4359 2621 1738 723 QUAL 0 25.9 4337 2596 1741 730 QUAL 0 26.0 4574 2734 1840 752 QUAL 0 26.1 4403 2668 1735 756 QUAL 0 26.2 4490 2657 1833 751 QUAL 0 26.3 4682 2826 1856 712 QUAL 0 26.4 4741 2829 1912 762 QUAL 0 26.5 4837 2904 1933 760 QUAL 0 26.6 4859 2951 1908 753 QUAL 0 26.7 5006 3034 1972 726 QUAL 0 26.8 4981 2969 2012 816 QUAL 0 26.9 5097 3085 2012 780 QUAL 0 27.0 5026 2947 2079 779 QUAL 0 27.1 5272 3119 2153 752 QUAL 0 27.2 5299 3203 2096 800 QUAL 0 27.3 5388 3261 2127 776 QUAL 0 27.4 5396 3247 2149 769 QUAL 0 27.5 5624 3392 2232 829 QUAL 0 27.6 5610 3422 2188 803 QUAL 0 27.7 5723 3489 2234 808 QUAL 0 27.8 5806 3533 2273 799 QUAL 0 27.9 5787 3494 2293 868 QUAL 0 28.0 5955 3600 2355 826 QUAL 0 28.1 5839 3558 2281 855 QUAL 0 28.2 6062 3659 2403 864 QUAL 0 28.3 6156 3776 2380 888 QUAL 0 28.4 6185 3731 2454 881 QUAL 0 28.5 6139 3754 2385 867 QUAL 0 28.6 6130 3733 2397 863 QUAL 0 28.7 6211 3807 2404 855 QUAL 0 28.8 6376 3882 2494 893 QUAL 0 28.9 6512 3961 2551 847 QUAL 0 29.0 6507 3937 2570 889 QUAL 0 29.1 6425 3986 2439 910 QUAL 0 29.2 6640 3978 2662 907 QUAL 0 29.3 6816 4141 2675 887 QUAL 0 29.4 6921 4241 2680 938 QUAL 0 29.5 6943 4245 2698 934 QUAL 0 29.6 7075 4377 2698 876 QUAL 0 29.7 6893 4182 2711 950 QUAL 0 29.8 7018 4321 2697 929 QUAL 0 29.9 7208 4520 2688 910 QUAL 0 30.0 7270 4495 2775 1004 QUAL 0 30.1 7413 4483 2930 1544 QUAL 0 30.2 7216 4458 2758 1791 QUAL 0 30.3 7404 4577 2827 2034 QUAL 0 30.4 7355 4548 2807 2090 QUAL 0 30.5 7508 4665 2843 2209 QUAL 0 30.6 7809 4846 2963 2290 QUAL 0 30.7 7661 4702 2959 2280 QUAL 0 30.8 8022 4994 3028 2416 QUAL 0 30.9 8158 5073 3085 2456 QUAL 0 31.0 8068 5062 3006 2349 QUAL 0 31.1 8136 5107 3029 2546 QUAL 0 31.2 8318 5288 3030 2501 QUAL 0 31.3 8283 5170 3113 2540 QUAL 0 31.4 8514 5333 3181 2611 QUAL 0 31.5 8540 5365 3175 2642 QUAL 0 31.6 8712 5452 3260 2642 QUAL 0 31.7 8856 5612 3244 2731 QUAL 0 31.8 8871 5613 3258 2674 QUAL 0 31.9 9162 5752 3410 2752 QUAL 0 32.0 9237 5882 3355 2754 QUAL 0 32.1 9501 6028 3473 2804 QUAL 0 32.2 9582 5994 3588 2785 QUAL 0 32.3 9683 6145 3538 2904 QUAL 0 32.4 9946 6326 3620 2993 QUAL 0 32.5 10078 6396 3682 3033 QUAL 0 32.6 10230 6495 3735 2992 QUAL 0 32.7 10245 6518 3727 3054 QUAL 0 32.8 10701 6880 3821 3028 QUAL 0 32.9 11065 7148 3917 3063 QUAL 0 33.0 11092 7182 3910 3067 QUAL 0 33.1 11300 7252 4048 3137 QUAL 0 33.2 11666 7492 4174 3110 QUAL 0 33.3 11947 7718 4229 3145 QUAL 0 33.4 12301 7844 4457 3173 QUAL 0 33.5 12774 8337 4437 3337 QUAL 0 33.6 13014 8460 4554 3294 QUAL 0 33.7 13362 8739 4623 3231 QUAL 0 33.8 13874 8908 4966 3300 QUAL 0 33.9 14144 9212 4932 3383 QUAL 0 34.0 14694 9652 5042 3210 QUAL 0 34.1 15364 9906 5458 3299 QUAL 0 34.2 15591 10213 5378 3218 QUAL 0 34.3 15929 10464 5465 3300 QUAL 0 34.4 16730 11021 5709 3272 QUAL 0 34.5 17411 11460 5951 3484 QUAL 0 34.6 18409 12211 6198 3384 QUAL 0 34.7 18867 12287 6580 3420 QUAL 0 34.8 19314 12747 6567 3380 QUAL 0 34.9 20145 13453 6692 3485 QUAL 0 35.0 20965 13904 7061 3518 QUAL 0 35.1 21508 14383 7125 3385 QUAL 0 35.2 22302 14844 7458 3376 QUAL 0 35.3 22983 15300 7683 3459 QUAL 0 35.4 23727 15877 7850 3378 QUAL 0 35.5 24580 16495 8085 3525 QUAL 0 35.6 25372 17083 8289 3535 QUAL 0 35.7 25913 17457 8456 3499 QUAL 0 35.8 26660 17778 8882 3614 QUAL 0 35.9 27137 18300 8837 3570 QUAL 0 36.0 28109 19013 9096 3560 QUAL 0 36.1 28611 19339 9272 3548 QUAL 0 36.2 29444 19890 9554 3643 QUAL 0 36.3 29835 20132 9703 3661 QUAL 0 36.4 30048 20350 9698 3635 QUAL 0 36.5 30569 20588 9981 3566 QUAL 0 36.6 31494 21290 10204 3669 QUAL 0 36.7 31354 21037 10317 3721 QUAL 0 36.8 31612 21489 10123 3639 QUAL 0 36.9 32072 21663 10409 3825 QUAL 0 37.0 32299 21784 10515 3791 QUAL 0 37.1 32183 21809 10374 3789 QUAL 0 37.2 31894 21597 10297 3845 QUAL 0 37.3 31921 21851 10070 3946 QUAL 0 37.4 32114 21725 10389 3805 QUAL 0 37.5 31563 21506 10057 3844 QUAL 0 37.6 31179 21016 10163 3932 QUAL 0 37.7 31305 21126 10179 3942 QUAL 0 37.8 30837 20800 10037 3900 QUAL 0 37.9 30525 20667 9858 3857 QUAL 0 38.0 29527 19962 9565 3864 QUAL 0 38.1 29479 19973 9506 3890 QUAL 0 38.2 28666 19287 9379 3940 QUAL 0 38.3 28124 19073 9051 3962 QUAL 0 38.4 27382 18521 8861 4075 QUAL 0 38.5 26620 17884 8736 4114 QUAL 0 38.6 25853 17380 8473 3978 QUAL 0 38.7 25280 16998 8282 3978 QUAL 0 38.8 24275 16366 7909 4097 QUAL 0 38.9 23546 15633 7913 4172 QUAL 0 39.0 22926 15373 7553 4082 QUAL 0 39.1 21920 14745 7175 4164 QUAL 0 39.2 21511 14413 7098 4044 QUAL 0 39.3 20912 13926 6986 4248 QUAL 0 39.4 19975 13271 6704 4201 QUAL 0 39.5 19322 12812 6510 4242 QUAL 0 39.6 18215 12093 6122 4183 QUAL 0 39.7 17614 11794 5820 4227 QUAL 0 39.8 17182 11379 5803 4135 QUAL 0 39.9 16289 10812 5477 4313 QUAL 0 40.0 15775 10389 5386 4276 QUAL 0 40.1 14668 9571 5097 4344 QUAL 0 40.2 14316 9323 4993 4322 QUAL 0 40.3 13686 8991 4695 4216 QUAL 0 40.4 13070 8462 4608 4189 QUAL 0 40.5 12589 8221 4368 4208 QUAL 0 40.6 11927 7760 4167 4321 QUAL 0 40.7 11395 7401 3994 4200 QUAL 0 40.8 11175 7252 3923 4188 QUAL 0 40.9 10334 6618 3716 4125 QUAL 0 41.0 10224 6560 3664 4135 QUAL 0 41.1 9436 6008 3428 4317 QUAL 0 41.2 9234 5958 3276 4234 QUAL 0 41.3 8903 5725 3178 4098 QUAL 0 41.4 8541 5376 3165 4096 QUAL 0 41.5 8242 5225 3017 4112 QUAL 0 41.6 7659 4850 2809 4140 QUAL 0 41.7 7455 4612 2843 4211 QUAL 0 41.8 7161 4467 2694 4105 QUAL 0 41.9 6755 4164 2591 4248 QUAL 0 42.0 6647 4109 2538 4127 QUAL 0 42.1 6274 3863 2411 4282 QUAL 0 42.2 6116 3790 2326 4115 QUAL 0 42.3 5885 3595 2290 4132 QUAL 0 42.4 5693 3544 2149 4037 QUAL 0 42.5 5263 3269 1994 3967 QUAL 0 42.6 5307 3157 2150 4144 QUAL 0 42.7 5139 3121 2018 3937 QUAL 0 42.8 4940 3021 1919 4136 QUAL 0 42.9 4746 2900 1846 3919 QUAL 0 43.0 4596 2820 1776 4102 QUAL 0 43.1 4488 2724 1764 3979 QUAL 0 43.2 4443 2677 1766 4014 QUAL 0 43.3 4465 2664 1801 3901 QUAL 0 43.4 4236 2522 1714 3953 QUAL 0 43.5 4068 2405 1663 3979 QUAL 0 43.6 4079 2455 1624 3968 QUAL 0 43.7 3900 2268 1632 3899 QUAL 0 43.8 3855 2268 1587 4007 QUAL 0 43.9 3804 2257 1547 3864 QUAL 0 44.0 3679 2168 1511 3803 QUAL 0 44.1 3651 2225 1426 3894 QUAL 0 44.2 3541 2048 1493 3764 QUAL 0 44.3 3412 2070 1342 3930 QUAL 0 44.4 3367 1980 1387 3756 QUAL 0 44.5 3479 2094 1385 3808 QUAL 0 44.6 3499 2054 1445 3827 QUAL 0 44.7 3351 2020 1331 3628 QUAL 0 44.8 3248 1971 1277 3712 QUAL 0 44.9 3298 1955 1343 3714 QUAL 0 45.0 3194 1917 1277 3742 QUAL 0 45.1 3328 2019 1309 3688 QUAL 0 45.2 3287 2000 1287 3596 QUAL 0 45.3 3315 1987 1328 3604 QUAL 0 45.4 3188 1932 1256 3494 QUAL 0 45.5 3166 1913 1253 3383 QUAL 0 45.6 3139 1857 1282 3633 QUAL 0 45.7 3053 1859 1194 3531 QUAL 0 45.8 3118 1890 1228 3443 QUAL 0 45.9 3178 1924 1254 3495 QUAL 0 46.0 3206 1929 1277 3387 QUAL 0 46.1 3220 1929 1291 3581 QUAL 0 46.2 3188 1928 1260 3400 QUAL 0 46.3 3012 1811 1201 3254 QUAL 0 46.4 3139 1935 1204 3338 QUAL 0 46.5 3067 1924 1143 3275 QUAL 0 46.6 3030 1813 1217 3312 QUAL 0 46.7 3020 1861 1159 3346 QUAL 0 46.8 3107 1930 1177 3172 QUAL 0 46.9 2944 1811 1133 3144 QUAL 0 47.0 3273 2022 1251 3042 QUAL 0 47.1 3281 2013 1268 3124 QUAL 0 47.2 3076 1900 1176 2852 QUAL 0 47.3 3217 2004 1213 3038 QUAL 0 47.4 3134 1977 1157 3125 QUAL 0 47.5 2991 1828 1163 3027 QUAL 0 47.6 3103 1951 1152 2859 QUAL 0 47.7 3001 1840 1161 2928 QUAL 0 47.8 3105 1942 1163 2812 QUAL 0 47.9 3059 1897 1162 2833 QUAL 0 48.0 3148 1967 1181 2820 QUAL 0 48.1 3173 2029 1144 2788 QUAL 0 48.2 3326 2104 1222 2667 QUAL 0 48.3 3228 2035 1193 2631 QUAL 0 48.4 3268 2077 1191 2562 QUAL 0 48.5 3312 2162 1150 2537 QUAL 0 48.6 3318 2105 1213 2450 QUAL 0 48.7 3600 2302 1298 2601 QUAL 0 48.8 3556 2291 1265 2356 QUAL 0 48.9 3728 2361 1367 2445 QUAL 0 49.0 3725 2358 1367 2295 QUAL 0 49.1 3556 2234 1322 2285 QUAL 0 49.2 3808 2382 1426 2222 QUAL 0 49.3 3832 2479 1353 2133 QUAL 0 49.4 4034 2569 1465 2118 QUAL 0 49.5 4001 2583 1418 2019 QUAL 0 49.6 4394 2844 1550 1984 QUAL 0 49.7 4293 2767 1526 1989 QUAL 0 49.8 4347 2847 1500 2046 QUAL 0 49.9 4495 2931 1564 1811 QUAL 0 50.0 4570 2988 1582 1827 QUAL 0 50.1 4717 3112 1605 1810 QUAL 0 50.2 4968 3301 1667 1749 QUAL 0 50.3 5033 3298 1735 1719 QUAL 0 50.4 5115 3334 1781 1659 QUAL 0 50.5 5711 3753 1958 1698 QUAL 0 50.6 5445 3605 1840 1634 QUAL 0 50.7 5944 3895 2049 1663 QUAL 0 50.8 6077 4039 2038 1548 QUAL 0 50.9 6249 4167 2082 1501 QUAL 0 51.0 6401 4219 2182 1511 QUAL 0 51.1 6691 4541 2150 1521 QUAL 0 51.2 7166 4770 2396 1430 QUAL 0 51.3 7338 4889 2449 1427 QUAL 0 51.4 7580 5080 2500 1476 QUAL 0 51.5 8000 5394 2606 1433 QUAL 0 51.6 7951 5338 2613 1371 QUAL 0 51.7 8709 5822 2887 1347 QUAL 0 51.8 8615 5830 2785 1279 QUAL 0 51.9 8910 5982 2928 1226 QUAL 0 52.0 9234 6182 3052 1316 QUAL 0 52.1 9468 6382 3086 1261 QUAL 0 52.2 9649 6501 3148 1253 QUAL 0 52.3 10003 6771 3232 1127 QUAL 0 52.4 10095 6870 3225 1074 QUAL 0 52.5 10022 6754 3268 1151 QUAL 0 52.6 10246 6996 3250 1157 QUAL 0 52.7 10320 7010 3310 1085 QUAL 0 52.8 10246 6945 3301 1035 QUAL 0 52.9 10304 6992 3312 1056 QUAL 0 53.0 10354 7146 3208 1019 QUAL 0 53.1 9853 6618 3235 1036 QUAL 0 53.2 10564 7161 3403 916 QUAL 0 53.3 9811 6642 3169 932 QUAL 0 53.4 9390 6286 3104 919 QUAL 0 53.5 9478 6408 3070 868 QUAL 0 53.6 9324 6257 3067 931 QUAL 0 53.7 9307 6302 3005 847 QUAL 0 53.8 8994 5959 3035 826 QUAL 0 53.9 8828 5944 2884 872 QUAL 0 54.0 8687 5936 2751 821 QUAL 0 54.1 8226 5585 2641 828 QUAL 0 54.2 8339 5670 2669 765 QUAL 0 54.3 8096 5461 2635 731 QUAL 0 54.4 8121 5510 2611 707 QUAL 0 54.5 7617 5184 2433 704 QUAL 0 54.6 7884 5337 2547 712 QUAL 0 54.7 7661 5192 2469 645 QUAL 0 54.8 7839 5340 2499 677 QUAL 0 54.9 8009 5418 2591 613 QUAL 0 55.0 8220 5557 2663 662 QUAL 0 55.1 8055 5436 2619 580 QUAL 0 55.2 8380 5700 2680 567 QUAL 0 55.3 8698 5888 2810 610 QUAL 0 55.4 8988 6147 2841 605 QUAL 0 55.5 8958 6136 2822 571 QUAL 0 55.6 9702 6621 3081 514 QUAL 0 55.7 9435 6465 2970 540 QUAL 0 55.8 10089 6842 3247 477 QUAL 0 55.9 10103 6851 3252 500 QUAL 0 56.0 10771 7327 3444 478 QUAL 0 56.1 10894 7434 3460 422 QUAL 0 56.2 11549 7764 3785 461 QUAL 0 56.3 11386 7705 3681 463 QUAL 0 56.4 12537 8493 4044 422 QUAL 0 56.5 12135 8253 3882 433 QUAL 0 56.6 13640 9324 4316 391 QUAL 0 56.7 13395 9166 4229 463 QUAL 0 56.8 14056 9618 4438 395 QUAL 0 56.9 14761 10052 4709 373 QUAL 0 57.0 14321 9773 4548 394 QUAL 0 57.1 15889 10768 5121 382 QUAL 0 57.2 15851 10812 5039 342 QUAL 0 57.3 15769 10795 4974 389 QUAL 0 57.4 17363 11800 5563 335 QUAL 0 57.5 17142 11582 5560 387 QUAL 0 57.6 17400 11817 5583 332 QUAL 0 57.7 18641 12698 5943 318 QUAL 0 57.8 18140 12385 5755 345 QUAL 0 57.9 17958 12201 5757 335 QUAL 0 58.0 19158 13108 6050 304 QUAL 0 58.1 18941 12962 5979 312 QUAL 0 58.2 18039 12329 5710 279 QUAL 0 58.3 18832 12815 6017 309 QUAL 0 58.4 18683 12754 5929 292 QUAL 0 58.5 18080 12258 5822 291 QUAL 0 58.6 17759 12048 5711 275 QUAL 0 58.7 17580 11956 5624 278 QUAL 0 58.8 16991 11563 5428 298 QUAL 0 58.9 16769 11428 5341 305 QUAL 0 59.0 16024 10863 5161 261 QUAL 0 59.1 14807 10138 4669 241 QUAL 0 59.2 14421 9711 4710 227 QUAL 0 59.3 13954 9458 4496 271 QUAL 0 59.4 13552 9205 4347 242 QUAL 0 59.5 11768 8007 3761 246 QUAL 0 59.6 11179 7682 3497 238 QUAL 0 59.7 11156 7622 3534 262 QUAL 0 59.8 10672 7234 3438 239 QUAL 0 59.9 10354 7047 3307 210 QUAL 0 60.0 8454 5733 2721 211 QUAL 0 60.1 8156 5509 2647 213 QUAL 0 60.2 8090 5440 2650 210 QUAL 0 60.3 7934 5379 2555 212 QUAL 0 60.4 7645 5102 2543 164 QUAL 0 60.5 6678 4500 2178 203 QUAL 0 60.6 5996 4086 1910 187 QUAL 0 60.7 5821 3991 1830 198 QUAL 0 60.8 6078 4103 1975 203 QUAL 0 60.9 5894 4001 1893 192 QUAL 0 61.0 5671 3805 1866 212 QUAL 0 61.1 5225 3565 1660 171 QUAL 0 61.2 4863 3376 1487 194 QUAL 0 61.3 4579 3058 1521 185 QUAL 0 61.4 4443 3026 1417 173 QUAL 0 61.5 4839 3289 1550 161 QUAL 0 61.6 4518 3017 1501 172 QUAL 0 61.7 4336 2928 1408 170 QUAL 0 61.8 4082 2775 1307 173 QUAL 0 61.9 3514 2391 1123 128 QUAL 0 62.0 3396 2298 1098 153 QUAL 0 62.1 3484 2394 1090 166 QUAL 0 62.2 3468 2278 1190 154 QUAL 0 62.3 3332 2251 1081 163 QUAL 0 62.4 3178 2146 1032 137 QUAL 0 62.5 3028 2058 970 138 QUAL 0 62.6 3001 2082 919 130 QUAL 0 62.7 2648 1821 827 140 QUAL 0 62.8 2147 1446 701 136 QUAL 0 62.9 2113 1439 674 142 QUAL 0 63.0 2008 1394 614 130 QUAL 0 63.1 1895 1273 622 134 QUAL 0 63.2 2032 1299 733 152 QUAL 0 63.3 1793 1199 594 127 QUAL 0 63.4 1795 1209 586 145 QUAL 0 63.5 1797 1232 565 123 QUAL 0 63.6 1669 1151 518 114 QUAL 0 63.7 1768 1203 565 99 QUAL 0 63.8 1221 802 419 108 QUAL 0 63.9 806 544 262 108 QUAL 0 64.0 768 500 268 108 QUAL 0 64.1 718 501 217 111 QUAL 0 64.2 761 512 249 104 QUAL 0 64.3 685 481 204 106 QUAL 0 64.4 693 474 219 82 QUAL 0 64.5 945 595 350 116 QUAL 0 64.6 758 527 231 103 QUAL 0 64.7 743 520 223 88 QUAL 0 64.8 695 497 198 79 QUAL 0 64.9 708 472 236 76 QUAL 0 65.0 685 470 215 74 QUAL 0 65.1 663 465 198 76 QUAL 0 65.2 585 400 185 70 QUAL 0 65.3 189 128 61 80 QUAL 0 65.4 122 76 46 64 QUAL 0 65.5 120 75 45 80 QUAL 0 65.6 99 61 38 75 QUAL 0 65.7 106 63 43 49 QUAL 0 65.8 94 63 31 69 QUAL 0 65.9 104 67 37 77 QUAL 0 66.0 93 62 31 65 QUAL 0 66.1 96 57 39 63 QUAL 0 66.2 459 231 228 94 QUAL 0 66.3 225 141 84 88 QUAL 0 66.4 235 148 87 77 QUAL 0 66.5 261 155 106 63 QUAL 0 66.6 255 163 92 79 QUAL 0 66.7 205 130 75 60 QUAL 0 66.8 131 92 39 71 QUAL 0 66.9 165 111 54 59 QUAL 0 67.0 123 72 51 59 QUAL 0 67.1 110 58 52 46 QUAL 0 67.2 109 77 32 56 QUAL 0 67.3 105 72 33 55 QUAL 0 67.4 84 51 33 64 QUAL 0 67.5 45 22 23 45 QUAL 0 67.6 38 27 11 38 QUAL 0 67.7 42 29 13 40 QUAL 0 67.8 41 24 17 56 QUAL 0 67.9 21 10 11 40 QUAL 0 68.0 38 24 14 44 QUAL 0 68.1 37 23 14 39 QUAL 0 68.2 22 10 12 50 QUAL 0 68.3 25 13 12 27 QUAL 0 68.4 17 12 5 44 QUAL 0 68.5 19 13 6 42 QUAL 0 68.6 26 10 16 43 QUAL 0 68.7 15 7 8 32 QUAL 0 68.8 22 9 13 35 QUAL 0 68.9 16 11 5 37 QUAL 0 69.0 8 7 1 25 QUAL 0 69.1 18 9 9 45 QUAL 0 69.2 703 329 374 69 QUAL 0 69.3 258 165 93 82 QUAL 0 69.4 234 152 82 60 QUAL 0 69.5 195 115 80 44 QUAL 0 69.6 150 95 55 47 QUAL 0 69.7 148 94 54 36 QUAL 0 69.8 118 71 47 32 QUAL 0 69.9 83 56 27 33 QUAL 0 70.0 90 56 34 40 QUAL 0 70.1 76 51 25 32 QUAL 0 70.2 61 40 21 31 QUAL 0 70.3 68 44 24 27 QUAL 0 70.4 45 27 18 26 QUAL 0 70.5 52 42 10 21 QUAL 0 70.6 46 30 16 32 QUAL 0 70.7 47 30 17 30 QUAL 0 70.8 34 17 17 29 QUAL 0 70.9 37 21 16 24 QUAL 0 71.0 23 15 8 24 QUAL 0 71.1 28 14 14 36 QUAL 0 71.2 29 17 12 25 QUAL 0 71.3 31 20 11 22 QUAL 0 71.4 27 15 12 19 QUAL 0 71.5 22 12 10 28 QUAL 0 71.6 18 15 3 24 QUAL 0 71.7 25 15 10 13 QUAL 0 71.8 19 12 7 21 QUAL 0 71.9 13 6 7 21 QUAL 0 72.0 15 10 5 18 QUAL 0 72.1 14 8 6 29 QUAL 0 72.2 19 12 7 16 QUAL 0 72.3 6 5 1 16 QUAL 0 72.4 5 3 2 11 QUAL 0 72.5 11 5 6 13 QUAL 0 72.6 5 5 0 11 QUAL 0 72.7 9 4 5 17 QUAL 0 72.8 7 3 4 8 QUAL 0 72.9 8 5 3 13 QUAL 0 73.0 9 7 2 9 QUAL 0 73.1 5 4 1 11 QUAL 0 73.2 6 1 5 9 QUAL 0 73.3 9 4 5 9 QUAL 0 73.4 6 2 4 9 QUAL 0 73.5 4 2 2 17 QUAL 0 73.6 6 5 1 6 QUAL 0 73.7 4 1 3 10 QUAL 0 73.8 5 3 2 5 QUAL 0 73.9 5 1 4 9 QUAL 0 74.0 6 3 3 10 QUAL 0 74.1 5 4 1 4 QUAL 0 74.2 4 2 2 9 QUAL 0 74.3 3 3 0 6 QUAL 0 74.4 0 0 0 4 QUAL 0 74.5 2 1 1 8 QUAL 0 74.6 4 2 2 5 QUAL 0 74.7 2 2 0 5 QUAL 0 74.8 3 3 0 4 QUAL 0 74.9 2 2 0 3 QUAL 0 75.0 2 1 1 6 QUAL 0 75.1 4 0 4 2 QUAL 0 75.2 3 2 1 7 QUAL 0 75.3 4 4 0 6 QUAL 0 75.4 3 3 0 2 QUAL 0 75.5 4 2 2 3 QUAL 0 75.6 1 1 0 2 QUAL 0 75.7 6 4 2 7 QUAL 0 75.8 2 2 0 5 QUAL 0 75.9 3 3 0 5 QUAL 0 76.0 4 2 2 0 QUAL 0 76.1 3 3 0 2 QUAL 0 76.2 0 0 0 2 QUAL 0 76.3 2 1 1 5 QUAL 0 76.4 4 2 2 4 QUAL 0 76.5 1 0 1 4 QUAL 0 76.6 1 1 0 1 QUAL 0 76.7 2 2 0 5 QUAL 0 76.8 3 0 3 4 QUAL 0 76.9 1 0 1 4 QUAL 0 77.0 1 0 1 2 QUAL 0 77.1 3 3 0 4 QUAL 0 77.2 0 0 0 1 QUAL 0 77.3 3 1 2 7 QUAL 0 77.4 0 0 0 1 QUAL 0 77.5 1 1 0 1 QUAL 0 77.6 2 2 0 1 QUAL 0 77.7 5 1 4 2 QUAL 0 77.8 1 0 1 0 QUAL 0 77.9 0 0 0 2 QUAL 0 78.1 3 1 2 1 QUAL 0 78.2 2 1 1 0 QUAL 0 78.3 0 0 0 1 QUAL 0 78.4 1 1 0 0 QUAL 0 78.5 1 1 0 5 QUAL 0 78.6 0 0 0 1 QUAL 0 78.7 0 0 0 1 QUAL 0 78.8 1 1 0 0 QUAL 0 78.9 2 1 1 1 QUAL 0 79.1 1 0 1 0 QUAL 0 79.2 1 0 1 0 QUAL 0 79.3 0 0 0 1 QUAL 0 79.4 0 0 0 2 QUAL 0 79.5 2 1 1 0 QUAL 0 79.6 1 0 1 2 QUAL 0 79.9 1 1 0 1 QUAL 0 80.0 0 0 0 3 QUAL 0 80.1 0 0 0 1 QUAL 0 80.2 1 1 0 0 QUAL 0 80.3 1 1 0 0 QUAL 0 80.4 0 0 0 1 QUAL 0 80.5 1 0 1 0 QUAL 0 80.6 0 0 0 1 QUAL 0 80.7 1 0 1 0 QUAL 0 80.8 0 0 0 2 QUAL 0 80.9 2 1 1 0 QUAL 0 81.0 0 0 0 2 QUAL 0 81.2 1 1 0 0 QUAL 0 81.3 0 0 0 1 QUAL 0 81.6 0 0 0 2 QUAL 0 81.7 0 0 0 1 QUAL 0 81.8 0 0 0 1 QUAL 0 81.9 2 0 2 0 QUAL 0 82.1 1 1 0 0 QUAL 0 82.2 0 0 0 1 QUAL 0 82.5 0 0 0 1 QUAL 0 82.8 2 0 2 0 QUAL 0 82.9 0 0 0 1 QUAL 0 83.0 1 0 1 0 QUAL 0 83.3 1 1 0 1 QUAL 0 83.4 1 0 1 0 QUAL 0 83.5 2 2 0 0 QUAL 0 84.0 1 1 0 0 QUAL 0 84.1 1 0 1 0 QUAL 0 84.4 0 0 0 3 QUAL 0 84.6 1 1 0 0 QUAL 0 84.9 1 0 1 0 QUAL 0 85.2 0 0 0 1 QUAL 0 85.5 1 0 1 2 QUAL 0 86.2 0 0 0 1 QUAL 0 86.4 0 0 0 1 QUAL 0 86.7 0 0 0 1 QUAL 0 88.5 0 0 0 1 QUAL 0 89.1 0 0 0 1 QUAL 0 89.5 1 0 1 0 QUAL 0 91.3 1 1 0 0 QUAL 0 93.4 1 1 0 0 QUAL 0 93.7 0 0 0 1 QUAL 0 93.8 1 0 1 1 QUAL 0 97.1 0 0 0 1 QUAL 0 97.8 1 1 0 0 QUAL 0 98.5 0 0 0 1 QUAL 0 99.0 8334 4153 4181 917 # IDD, InDel distribution: # IDD [2]id [3]length (deletions negative) [4]number of sites [5]number of genotypes [6]mean VAF IDD 0 -60 58 58 0.81 IDD 0 -59 2 2 0.53 IDD 0 -58 1 1 0.50 IDD 0 -57 3 3 0.54 IDD 0 -56 13 13 0.51 IDD 0 -55 14 14 0.60 IDD 0 -54 31 31 0.67 IDD 0 -53 42 42 0.59 IDD 0 -52 84 84 0.65 IDD 0 -51 47 47 0.71 IDD 0 -50 109 109 0.62 IDD 0 -49 111 111 0.61 IDD 0 -48 150 150 0.59 IDD 0 -47 65 65 0.61 IDD 0 -46 107 107 0.63 IDD 0 -45 82 82 0.66 IDD 0 -44 136 136 0.64 IDD 0 -43 83 83 0.61 IDD 0 -42 161 161 0.62 IDD 0 -41 107 107 0.66 IDD 0 -40 278 278 0.63 IDD 0 -39 134 134 0.63 IDD 0 -38 221 221 0.63 IDD 0 -37 147 147 0.65 IDD 0 -36 312 312 0.63 IDD 0 -35 163 163 0.59 IDD 0 -34 266 266 0.62 IDD 0 -33 172 172 0.62 IDD 0 -32 431 431 0.59 IDD 0 -31 203 203 0.66 IDD 0 -30 532 532 0.59 IDD 0 -29 241 241 0.63 IDD 0 -28 689 689 0.60 IDD 0 -27 316 316 0.61 IDD 0 -26 600 600 0.61 IDD 0 -25 445 445 0.61 IDD 0 -24 1135 1135 0.60 IDD 0 -23 383 383 0.62 IDD 0 -22 910 910 0.58 IDD 0 -21 490 490 0.61 IDD 0 -20 1959 1959 0.56 IDD 0 -19 598 598 0.60 IDD 0 -18 1672 1672 0.58 IDD 0 -17 737 737 0.61 IDD 0 -16 3014 3014 0.57 IDD 0 -15 1631 1631 0.59 IDD 0 -14 2737 2737 0.56 IDD 0 -13 1428 1428 0.59 IDD 0 -12 6449 6449 0.56 IDD 0 -11 1786 1786 0.58 IDD 0 -10 5972 5972 0.55 IDD 0 -9 3093 3093 0.58 IDD 0 -8 11190 11190 0.56 IDD 0 -7 3827 3827 0.58 IDD 0 -6 13038 13038 0.56 IDD 0 -5 11517 11517 0.60 IDD 0 -4 43341 43341 0.59 IDD 0 -3 26937 26937 0.58 IDD 0 -2 74092 74092 0.58 IDD 0 -1 201799 201799 0.62 IDD 0 1 203741 4206012 0.71 IDD 0 2 72685 72685 0.57 IDD 0 3 24344 24344 0.61 IDD 0 4 40679 40679 0.60 IDD 0 5 10072 10072 0.62 IDD 0 6 12022 12022 0.53 IDD 0 7 2995 2995 0.58 IDD 0 8 10539 10539 0.52 IDD 0 9 2500 2500 0.59 IDD 0 10 5130 5130 0.51 IDD 0 11 1321 1321 0.60 IDD 0 12 5659 5659 0.51 IDD 0 13 1006 1006 0.61 IDD 0 14 2139 2139 0.51 IDD 0 15 1347 1347 0.58 IDD 0 16 2670 2670 0.52 IDD 0 17 604 604 0.63 IDD 0 18 1352 1352 0.50 IDD 0 19 471 471 0.64 IDD 0 20 1723 1723 0.49 IDD 0 21 477 477 0.61 IDD 0 22 663 663 0.50 IDD 0 23 327 327 0.63 IDD 0 24 1041 1041 0.51 IDD 0 25 383 383 0.56 IDD 0 26 477 477 0.52 IDD 0 27 276 276 0.62 IDD 0 28 556 556 0.51 IDD 0 29 198 198 0.60 IDD 0 30 449 449 0.52 IDD 0 31 171 171 0.62 IDD 0 32 355 355 0.51 IDD 0 33 149 149 0.56 IDD 0 34 207 207 0.55 IDD 0 35 147 147 0.56 IDD 0 36 267 267 0.51 IDD 0 37 134 134 0.62 IDD 0 38 163 163 0.56 IDD 0 39 106 106 0.60 IDD 0 40 234 234 0.54 IDD 0 41 94 94 0.61 IDD 0 42 141 141 0.57 IDD 0 43 68 68 0.61 IDD 0 44 103 103 0.54 IDD 0 45 79 79 0.53 IDD 0 46 108 108 0.55 IDD 0 47 61 61 0.60 IDD 0 48 147 147 0.54 IDD 0 49 114 114 0.59 IDD 0 50 109 109 0.54 IDD 0 51 63 63 0.53 IDD 0 52 91 91 0.57 IDD 0 53 53 53 0.55 IDD 0 54 71 71 0.56 IDD 0 55 43 43 0.55 IDD 0 56 68 68 0.56 IDD 0 57 57 57 0.53 IDD 0 58 59 59 0.60 IDD 0 59 48 48 0.63 IDD 0 60 2887 2887 0.55 # ST, Substitution types: # ST [2]id [3]type [4]count ST 0 A>C 172536 ST 0 A>G 642715 ST 0 A>T 154663 ST 0 C>A 175251 ST 0 C>G 181614 ST 0 C>T 673427 ST 0 G>A 670769 ST 0 G>C 179643 ST 0 G>T 178016 ST 0 T>A 154158 ST 0 T>C 643524 ST 0 T>G 175955 # DP, Depth distribution # DP [2]id [3]bin [4]number of genotypes [5]fraction of genotypes (%) [6]number of sites [7]fraction of sites (%) DP 0 2 27 0.000558 0 0.000000 DP 0 3 208 0.004295 0 0.000000 DP 0 4 1242 0.025646 0 0.000000 DP 0 5 4819 0.099508 0 0.000000 DP 0 6 5335 0.110163 0 0.000000 DP 0 7 5906 0.121954 0 0.000000 DP 0 8 6531 0.134860 0 0.000000 DP 0 9 6887 0.142211 0 0.000000 DP 0 10 8098 0.167217 0 0.000000 DP 0 11 8441 0.174300 0 0.000000 DP 0 12 10058 0.207690 0 0.000000 DP 0 13 11866 0.245023 0 0.000000 DP 0 14 13958 0.288221 0 0.000000 DP 0 15 16718 0.345213 0 0.000000 DP 0 16 20333 0.419860 0 0.000000 DP 0 17 24171 0.499112 0 0.000000 DP 0 18 28244 0.583216 0 0.000000 DP 0 19 32886 0.679069 0 0.000000 DP 0 20 38121 0.787168 0 0.000000 DP 0 21 43253 0.893139 0 0.000000 DP 0 22 49065 1.013153 0 0.000000 DP 0 23 56758 1.172007 0 0.000000 DP 0 24 63924 1.319979 0 0.000000 DP 0 25 72940 1.506152 0 0.000000 DP 0 26 81821 1.689537 0 0.000000 DP 0 27 91932 1.898321 0 0.000000 DP 0 28 102417 2.114828 0 0.000000 DP 0 29 115376 2.382421 0 0.000000 DP 0 30 127255 2.627713 0 0.000000 DP 0 31 140097 2.892890 0 0.000000 DP 0 32 152354 3.145987 0 0.000000 DP 0 33 164782 3.402615 0 0.000000 DP 0 34 176976 3.654411 0 0.000000 DP 0 35 187060 3.862637 0 0.000000 DP 0 36 195948 4.046167 0 0.000000 DP 0 37 203660 4.205414 0 0.000000 DP 0 38 206639 4.266928 0 0.000000 DP 0 39 207929 4.293565 0 0.000000 DP 0 40 205461 4.242603 0 0.000000 DP 0 41 201788 4.166759 0 0.000000 DP 0 42 194653 4.019427 0 0.000000 DP 0 43 185263 3.825531 0 0.000000 DP 0 44 173184 3.576109 0 0.000000 DP 0 45 159220 3.287764 0 0.000000 DP 0 46 144988 2.993885 0 0.000000 DP 0 47 130576 2.696289 0 0.000000 DP 0 48 116629 2.408294 0 0.000000 DP 0 49 101784 2.101757 0 0.000000 DP 0 50 87342 1.803542 0 0.000000 DP 0 51 73132 1.510117 0 0.000000 DP 0 52 60986 1.259311 0 0.000000 DP 0 53 50013 1.032728 0 0.000000 DP 0 54 40843 0.843375 0 0.000000 DP 0 55 33185 0.685243 0 0.000000 DP 0 56 26106 0.539068 0 0.000000 DP 0 57 20621 0.425807 0 0.000000 DP 0 58 16378 0.338192 0 0.000000 DP 0 59 12870 0.265755 0 0.000000 DP 0 60 9712 0.200545 0 0.000000 DP 0 61 7798 0.161022 0 0.000000 DP 0 62 6033 0.124577 0 0.000000 DP 0 63 4536 0.093665 0 0.000000 DP 0 64 3646 0.075287 0 0.000000 DP 0 65 3077 0.063538 0 0.000000 DP 0 66 2355 0.048629 0 0.000000 DP 0 67 2073 0.042806 0 0.000000 DP 0 68 1787 0.036900 0 0.000000 DP 0 69 1526 0.031511 0 0.000000 DP 0 70 1340 0.027670 0 0.000000 DP 0 71 1301 0.026865 0 0.000000 DP 0 72 1273 0.026286 0 0.000000 DP 0 73 1203 0.024841 0 0.000000 DP 0 74 1260 0.026018 0 0.000000 DP 0 75 1152 0.023788 0 0.000000 DP 0 76 1031 0.021289 0 0.000000 DP 0 77 983 0.020298 0 0.000000 DP 0 78 1116 0.023044 0 0.000000 DP 0 79 1176 0.024283 0 0.000000 DP 0 80 1343 0.027732 0 0.000000 DP 0 81 1030 0.021269 0 0.000000 DP 0 82 994 0.020525 0 0.000000 DP 0 83 905 0.018688 0 0.000000 DP 0 84 863 0.017820 0 0.000000 DP 0 85 1063 0.021950 0 0.000000 DP 0 86 896 0.018502 0 0.000000 DP 0 87 1004 0.020732 0 0.000000 DP 0 88 832 0.017180 0 0.000000 DP 0 89 853 0.017614 0 0.000000 DP 0 90 802 0.016561 0 0.000000 DP 0 91 736 0.015198 0 0.000000 DP 0 92 794 0.016395 0 0.000000 DP 0 93 761 0.015714 0 0.000000 DP 0 94 892 0.018419 0 0.000000 DP 0 95 662 0.013670 0 0.000000 DP 0 96 662 0.013670 0 0.000000 DP 0 97 665 0.013732 0 0.000000 DP 0 98 633 0.013071 0 0.000000 DP 0 99 560 0.011564 0 0.000000 DP 0 100 684 0.014124 0 0.000000 DP 0 101 558 0.011522 0 0.000000 DP 0 102 520 0.010738 0 0.000000 DP 0 103 562 0.011605 0 0.000000 DP 0 104 546 0.011274 0 0.000000 DP 0 105 503 0.010387 0 0.000000 DP 0 106 579 0.011956 0 0.000000 DP 0 107 813 0.016788 0 0.000000 DP 0 108 545 0.011254 0 0.000000 DP 0 109 483 0.009974 0 0.000000 DP 0 110 513 0.010593 0 0.000000 DP 0 111 572 0.011811 0 0.000000 DP 0 112 567 0.011708 0 0.000000 DP 0 113 703 0.014516 0 0.000000 DP 0 114 457 0.009437 0 0.000000 DP 0 115 442 0.009127 0 0.000000 DP 0 116 438 0.009044 0 0.000000 DP 0 117 440 0.009086 0 0.000000 DP 0 118 448 0.009251 0 0.000000 DP 0 119 456 0.009416 0 0.000000 DP 0 120 545 0.011254 0 0.000000 DP 0 121 468 0.009664 0 0.000000 DP 0 122 432 0.008920 0 0.000000 DP 0 123 405 0.008363 0 0.000000 DP 0 124 450 0.009292 0 0.000000 DP 0 125 423 0.008735 0 0.000000 DP 0 126 383 0.007909 0 0.000000 DP 0 127 365 0.007537 0 0.000000 DP 0 128 421 0.008693 0 0.000000 DP 0 129 407 0.008404 0 0.000000 DP 0 130 375 0.007743 0 0.000000 DP 0 131 384 0.007929 0 0.000000 DP 0 132 338 0.006979 0 0.000000 DP 0 133 382 0.007888 0 0.000000 DP 0 134 376 0.007764 0 0.000000 DP 0 135 371 0.007661 0 0.000000 DP 0 136 384 0.007929 0 0.000000 DP 0 137 343 0.007083 0 0.000000 DP 0 138 379 0.007826 0 0.000000 DP 0 139 423 0.008735 0 0.000000 DP 0 140 293 0.006050 0 0.000000 DP 0 141 394 0.008136 0 0.000000 DP 0 142 510 0.010531 0 0.000000 DP 0 143 531 0.010965 0 0.000000 DP 0 144 448 0.009251 0 0.000000 DP 0 145 417 0.008611 0 0.000000 DP 0 146 297 0.006133 0 0.000000 DP 0 147 269 0.005555 0 0.000000 DP 0 148 231 0.004770 0 0.000000 DP 0 149 226 0.004667 0 0.000000 DP 0 150 253 0.005224 0 0.000000 DP 0 151 254 0.005245 0 0.000000 DP 0 152 279 0.005761 0 0.000000 DP 0 153 280 0.005782 0 0.000000 DP 0 154 300 0.006195 0 0.000000 DP 0 155 426 0.008797 0 0.000000 DP 0 156 312 0.006443 0 0.000000 DP 0 157 310 0.006401 0 0.000000 DP 0 158 272 0.005617 0 0.000000 DP 0 159 389 0.008033 0 0.000000 DP 0 160 240 0.004956 0 0.000000 DP 0 161 246 0.005080 0 0.000000 DP 0 162 218 0.004502 0 0.000000 DP 0 163 213 0.004398 0 0.000000 DP 0 164 233 0.004811 0 0.000000 DP 0 165 251 0.005183 0 0.000000 DP 0 166 218 0.004502 0 0.000000 DP 0 167 176 0.003634 0 0.000000 DP 0 168 226 0.004667 0 0.000000 DP 0 169 190 0.003923 0 0.000000 DP 0 170 179 0.003696 0 0.000000 DP 0 171 187 0.003861 0 0.000000 DP 0 172 177 0.003655 0 0.000000 DP 0 173 174 0.003593 0 0.000000 DP 0 174 193 0.003985 0 0.000000 DP 0 175 204 0.004212 0 0.000000 DP 0 176 200 0.004130 0 0.000000 DP 0 177 218 0.004502 0 0.000000 DP 0 178 188 0.003882 0 0.000000 DP 0 179 170 0.003510 0 0.000000 DP 0 180 202 0.004171 0 0.000000 DP 0 181 211 0.004357 0 0.000000 DP 0 182 222 0.004584 0 0.000000 DP 0 183 172 0.003552 0 0.000000 DP 0 184 166 0.003428 0 0.000000 DP 0 185 183 0.003779 0 0.000000 DP 0 186 169 0.003490 0 0.000000 DP 0 187 183 0.003779 0 0.000000 DP 0 188 154 0.003180 0 0.000000 DP 0 189 142 0.002932 0 0.000000 DP 0 190 133 0.002746 0 0.000000 DP 0 191 161 0.003325 0 0.000000 DP 0 192 177 0.003655 0 0.000000 DP 0 193 228 0.004708 0 0.000000 DP 0 194 184 0.003799 0 0.000000 DP 0 195 137 0.002829 0 0.000000 DP 0 196 217 0.004481 0 0.000000 DP 0 197 352 0.007269 0 0.000000 DP 0 198 387 0.007991 0 0.000000 DP 0 199 230 0.004749 0 0.000000 DP 0 200 269 0.005555 0 0.000000 DP 0 201 162 0.003345 0 0.000000 DP 0 202 147 0.003035 0 0.000000 DP 0 203 181 0.003738 0 0.000000 DP 0 204 173 0.003572 0 0.000000 DP 0 205 163 0.003366 0 0.000000 DP 0 206 175 0.003614 0 0.000000 DP 0 207 166 0.003428 0 0.000000 DP 0 208 187 0.003861 0 0.000000 DP 0 209 232 0.004791 0 0.000000 DP 0 210 156 0.003221 0 0.000000 DP 0 211 175 0.003614 0 0.000000 DP 0 212 206 0.004254 0 0.000000 DP 0 213 241 0.004976 0 0.000000 DP 0 214 152 0.003139 0 0.000000 DP 0 215 187 0.003861 0 0.000000 DP 0 216 139 0.002870 0 0.000000 DP 0 217 113 0.002333 0 0.000000 DP 0 218 179 0.003696 0 0.000000 DP 0 219 313 0.006463 0 0.000000 DP 0 220 197 0.004068 0 0.000000 DP 0 221 189 0.003903 0 0.000000 DP 0 222 128 0.002643 0 0.000000 DP 0 223 114 0.002354 0 0.000000 DP 0 224 162 0.003345 0 0.000000 DP 0 225 117 0.002416 0 0.000000 DP 0 226 122 0.002519 0 0.000000 DP 0 227 130 0.002684 0 0.000000 DP 0 228 108 0.002230 0 0.000000 DP 0 229 99 0.002044 0 0.000000 DP 0 230 97 0.002003 0 0.000000 DP 0 231 96 0.001982 0 0.000000 DP 0 232 118 0.002437 0 0.000000 DP 0 233 121 0.002499 0 0.000000 DP 0 234 116 0.002395 0 0.000000 DP 0 235 158 0.003263 0 0.000000 DP 0 236 178 0.003676 0 0.000000 DP 0 237 92 0.001900 0 0.000000 DP 0 238 90 0.001858 0 0.000000 DP 0 239 97 0.002003 0 0.000000 DP 0 240 133 0.002746 0 0.000000 DP 0 241 121 0.002499 0 0.000000 DP 0 242 127 0.002622 0 0.000000 DP 0 243 95 0.001962 0 0.000000 DP 0 244 94 0.001941 0 0.000000 DP 0 245 104 0.002148 0 0.000000 DP 0 246 104 0.002148 0 0.000000 DP 0 247 128 0.002643 0 0.000000 DP 0 248 227 0.004687 0 0.000000 DP 0 249 257 0.005307 0 0.000000 DP 0 250 91 0.001879 0 0.000000 DP 0 251 105 0.002168 0 0.000000 DP 0 252 105 0.002168 0 0.000000 DP 0 253 100 0.002065 0 0.000000 DP 0 254 91 0.001879 0 0.000000 DP 0 255 97 0.002003 0 0.000000 DP 0 256 122 0.002519 0 0.000000 DP 0 257 153 0.003159 0 0.000000 DP 0 258 89 0.001838 0 0.000000 DP 0 259 80 0.001652 0 0.000000 DP 0 260 68 0.001404 0 0.000000 DP 0 261 78 0.001611 0 0.000000 DP 0 262 85 0.001755 0 0.000000 DP 0 263 62 0.001280 0 0.000000 DP 0 264 54 0.001115 0 0.000000 DP 0 265 67 0.001383 0 0.000000 DP 0 266 67 0.001383 0 0.000000 DP 0 267 57 0.001177 0 0.000000 DP 0 268 55 0.001136 0 0.000000 DP 0 269 61 0.001260 0 0.000000 DP 0 270 57 0.001177 0 0.000000 DP 0 271 68 0.001404 0 0.000000 DP 0 272 71 0.001466 0 0.000000 DP 0 273 54 0.001115 0 0.000000 DP 0 274 74 0.001528 0 0.000000 DP 0 275 90 0.001858 0 0.000000 DP 0 276 82 0.001693 0 0.000000 DP 0 277 109 0.002251 0 0.000000 DP 0 278 180 0.003717 0 0.000000 DP 0 279 312 0.006443 0 0.000000 DP 0 280 65 0.001342 0 0.000000 DP 0 281 92 0.001900 0 0.000000 DP 0 282 59 0.001218 0 0.000000 DP 0 283 86 0.001776 0 0.000000 DP 0 284 77 0.001590 0 0.000000 DP 0 285 96 0.001982 0 0.000000 DP 0 286 68 0.001404 0 0.000000 DP 0 287 50 0.001032 0 0.000000 DP 0 288 49 0.001012 0 0.000000 DP 0 289 46 0.000950 0 0.000000 DP 0 290 44 0.000909 0 0.000000 DP 0 291 56 0.001156 0 0.000000 DP 0 292 49 0.001012 0 0.000000 DP 0 293 48 0.000991 0 0.000000 DP 0 294 43 0.000888 0 0.000000 DP 0 295 47 0.000971 0 0.000000 DP 0 296 50 0.001032 0 0.000000 DP 0 297 61 0.001260 0 0.000000 DP 0 298 47 0.000971 0 0.000000 DP 0 299 56 0.001156 0 0.000000 DP 0 300 48 0.000991 0 0.000000 DP 0 301 60 0.001239 0 0.000000 DP 0 302 69 0.001425 0 0.000000 DP 0 303 76 0.001569 0 0.000000 DP 0 304 76 0.001569 0 0.000000 DP 0 305 61 0.001260 0 0.000000 DP 0 306 60 0.001239 0 0.000000 DP 0 307 58 0.001198 0 0.000000 DP 0 308 61 0.001260 0 0.000000 DP 0 309 67 0.001383 0 0.000000 DP 0 310 63 0.001301 0 0.000000 DP 0 311 41 0.000847 0 0.000000 DP 0 312 57 0.001177 0 0.000000 DP 0 313 42 0.000867 0 0.000000 DP 0 314 37 0.000764 0 0.000000 DP 0 315 41 0.000847 0 0.000000 DP 0 316 45 0.000929 0 0.000000 DP 0 317 47 0.000971 0 0.000000 DP 0 318 37 0.000764 0 0.000000 DP 0 319 43 0.000888 0 0.000000 DP 0 320 49 0.001012 0 0.000000 DP 0 321 38 0.000785 0 0.000000 DP 0 322 28 0.000578 0 0.000000 DP 0 323 41 0.000847 0 0.000000 DP 0 324 44 0.000909 0 0.000000 DP 0 325 57 0.001177 0 0.000000 DP 0 326 39 0.000805 0 0.000000 DP 0 327 53 0.001094 0 0.000000 DP 0 328 41 0.000847 0 0.000000 DP 0 329 35 0.000723 0 0.000000 DP 0 330 41 0.000847 0 0.000000 DP 0 331 42 0.000867 0 0.000000 DP 0 332 36 0.000743 0 0.000000 DP 0 333 41 0.000847 0 0.000000 DP 0 334 38 0.000785 0 0.000000 DP 0 335 50 0.001032 0 0.000000 DP 0 336 38 0.000785 0 0.000000 DP 0 337 36 0.000743 0 0.000000 DP 0 338 42 0.000867 0 0.000000 DP 0 339 40 0.000826 0 0.000000 DP 0 340 45 0.000929 0 0.000000 DP 0 341 48 0.000991 0 0.000000 DP 0 342 62 0.001280 0 0.000000 DP 0 343 62 0.001280 0 0.000000 DP 0 344 119 0.002457 0 0.000000 DP 0 345 63 0.001301 0 0.000000 DP 0 346 48 0.000991 0 0.000000 DP 0 347 65 0.001342 0 0.000000 DP 0 348 44 0.000909 0 0.000000 DP 0 349 28 0.000578 0 0.000000 DP 0 350 33 0.000681 0 0.000000 DP 0 351 33 0.000681 0 0.000000 DP 0 352 46 0.000950 0 0.000000 DP 0 353 66 0.001363 0 0.000000 DP 0 354 73 0.001507 0 0.000000 DP 0 355 36 0.000743 0 0.000000 DP 0 356 30 0.000619 0 0.000000 DP 0 357 33 0.000681 0 0.000000 DP 0 358 40 0.000826 0 0.000000 DP 0 359 22 0.000454 0 0.000000 DP 0 360 32 0.000661 0 0.000000 DP 0 361 27 0.000558 0 0.000000 DP 0 362 28 0.000578 0 0.000000 DP 0 363 31 0.000640 0 0.000000 DP 0 364 32 0.000661 0 0.000000 DP 0 365 43 0.000888 0 0.000000 DP 0 366 50 0.001032 0 0.000000 DP 0 367 44 0.000909 0 0.000000 DP 0 368 40 0.000826 0 0.000000 DP 0 369 45 0.000929 0 0.000000 DP 0 370 48 0.000991 0 0.000000 DP 0 371 38 0.000785 0 0.000000 DP 0 372 39 0.000805 0 0.000000 DP 0 373 40 0.000826 0 0.000000 DP 0 374 39 0.000805 0 0.000000 DP 0 375 26 0.000537 0 0.000000 DP 0 376 38 0.000785 0 0.000000 DP 0 377 30 0.000619 0 0.000000 DP 0 378 33 0.000681 0 0.000000 DP 0 379 37 0.000764 0 0.000000 DP 0 380 39 0.000805 0 0.000000 DP 0 381 35 0.000723 0 0.000000 DP 0 382 36 0.000743 0 0.000000 DP 0 383 31 0.000640 0 0.000000 DP 0 384 42 0.000867 0 0.000000 DP 0 385 29 0.000599 0 0.000000 DP 0 386 32 0.000661 0 0.000000 DP 0 387 19 0.000392 0 0.000000 DP 0 388 23 0.000475 0 0.000000 DP 0 389 18 0.000372 0 0.000000 DP 0 390 32 0.000661 0 0.000000 DP 0 391 27 0.000558 0 0.000000 DP 0 392 27 0.000558 0 0.000000 DP 0 393 30 0.000619 0 0.000000 DP 0 394 27 0.000558 0 0.000000 DP 0 395 17 0.000351 0 0.000000 DP 0 396 28 0.000578 0 0.000000 DP 0 397 19 0.000392 0 0.000000 DP 0 398 24 0.000496 0 0.000000 DP 0 399 22 0.000454 0 0.000000 DP 0 400 26 0.000537 0 0.000000 DP 0 401 19 0.000392 0 0.000000 DP 0 402 22 0.000454 0 0.000000 DP 0 403 23 0.000475 0 0.000000 DP 0 404 26 0.000537 0 0.000000 DP 0 405 23 0.000475 0 0.000000 DP 0 406 37 0.000764 0 0.000000 DP 0 407 33 0.000681 0 0.000000 DP 0 408 23 0.000475 0 0.000000 DP 0 409 21 0.000434 0 0.000000 DP 0 410 18 0.000372 0 0.000000 DP 0 411 23 0.000475 0 0.000000 DP 0 412 26 0.000537 0 0.000000 DP 0 413 22 0.000454 0 0.000000 DP 0 414 25 0.000516 0 0.000000 DP 0 415 25 0.000516 0 0.000000 DP 0 416 26 0.000537 0 0.000000 DP 0 417 18 0.000372 0 0.000000 DP 0 418 23 0.000475 0 0.000000 DP 0 419 27 0.000558 0 0.000000 DP 0 420 38 0.000785 0 0.000000 DP 0 421 21 0.000434 0 0.000000 DP 0 422 23 0.000475 0 0.000000 DP 0 423 35 0.000723 0 0.000000 DP 0 424 29 0.000599 0 0.000000 DP 0 425 25 0.000516 0 0.000000 DP 0 426 40 0.000826 0 0.000000 DP 0 427 22 0.000454 0 0.000000 DP 0 428 26 0.000537 0 0.000000 DP 0 429 26 0.000537 0 0.000000 DP 0 430 22 0.000454 0 0.000000 DP 0 431 32 0.000661 0 0.000000 DP 0 432 21 0.000434 0 0.000000 DP 0 433 23 0.000475 0 0.000000 DP 0 434 27 0.000558 0 0.000000 DP 0 435 26 0.000537 0 0.000000 DP 0 436 19 0.000392 0 0.000000 DP 0 437 19 0.000392 0 0.000000 DP 0 438 25 0.000516 0 0.000000 DP 0 439 15 0.000310 0 0.000000 DP 0 440 12 0.000248 0 0.000000 DP 0 441 26 0.000537 0 0.000000 DP 0 442 26 0.000537 0 0.000000 DP 0 443 23 0.000475 0 0.000000 DP 0 444 19 0.000392 0 0.000000 DP 0 445 25 0.000516 0 0.000000 DP 0 446 16 0.000330 0 0.000000 DP 0 447 16 0.000330 0 0.000000 DP 0 448 21 0.000434 0 0.000000 DP 0 449 24 0.000496 0 0.000000 DP 0 450 15 0.000310 0 0.000000 DP 0 451 13 0.000268 0 0.000000 DP 0 452 17 0.000351 0 0.000000 DP 0 453 15 0.000310 0 0.000000 DP 0 454 13 0.000268 0 0.000000 DP 0 455 18 0.000372 0 0.000000 DP 0 456 15 0.000310 0 0.000000 DP 0 457 21 0.000434 0 0.000000 DP 0 458 17 0.000351 0 0.000000 DP 0 459 23 0.000475 0 0.000000 DP 0 460 25 0.000516 0 0.000000 DP 0 461 23 0.000475 0 0.000000 DP 0 462 19 0.000392 0 0.000000 DP 0 463 25 0.000516 0 0.000000 DP 0 464 20 0.000413 0 0.000000 DP 0 465 32 0.000661 0 0.000000 DP 0 466 26 0.000537 0 0.000000 DP 0 467 19 0.000392 0 0.000000 DP 0 468 19 0.000392 0 0.000000 DP 0 469 13 0.000268 0 0.000000 DP 0 470 14 0.000289 0 0.000000 DP 0 471 11 0.000227 0 0.000000 DP 0 472 13 0.000268 0 0.000000 DP 0 473 14 0.000289 0 0.000000 DP 0 474 9 0.000186 0 0.000000 DP 0 475 19 0.000392 0 0.000000 DP 0 476 18 0.000372 0 0.000000 DP 0 477 18 0.000372 0 0.000000 DP 0 478 19 0.000392 0 0.000000 DP 0 479 20 0.000413 0 0.000000 DP 0 480 22 0.000454 0 0.000000 DP 0 481 21 0.000434 0 0.000000 DP 0 482 20 0.000413 0 0.000000 DP 0 483 18 0.000372 0 0.000000 DP 0 484 16 0.000330 0 0.000000 DP 0 485 20 0.000413 0 0.000000 DP 0 486 20 0.000413 0 0.000000 DP 0 487 26 0.000537 0 0.000000 DP 0 488 14 0.000289 0 0.000000 DP 0 489 16 0.000330 0 0.000000 DP 0 490 22 0.000454 0 0.000000 DP 0 491 8 0.000165 0 0.000000 DP 0 492 11 0.000227 0 0.000000 DP 0 493 14 0.000289 0 0.000000 DP 0 494 23 0.000475 0 0.000000 DP 0 495 16 0.000330 0 0.000000 DP 0 496 12 0.000248 0 0.000000 DP 0 497 15 0.000310 0 0.000000 DP 0 498 19 0.000392 0 0.000000 DP 0 499 20 0.000413 0 0.000000 DP 0 500 14 0.000289 0 0.000000 DP 0 >500 798 0.016478 0 0.000000 # PSC, Per-sample counts. Note that the ref/het/hom counts include only SNPs, for indels see PSI. The rest include both SNPs and indels. # PSC [2]id [3]sample [4]nRefHom [5]nNonRefHom [6]nHets [7]nTransitions [8]nTransversions [9]nIndels [10]average depth [11]nSingletons [12]nHapRef [13]nHapAlt [14]nMissing PSC 0 HG002 0 1743892 2258379 2630435 1371836 840534 39.5 4842805 0 0 0 # PSI, Per-Sample Indels. Note that alt-het genotypes with both ins and del allele are counted twice, in both nInsHets and nDelHets. # PSI [2]id [3]sample [4]in-frame [5]out-frame [6]not applicable [7]out/(in+out) ratio [8]nInsHets [9]nDelHets [10]nInsAltHoms [11]nDelAltHoms PSI 0 HG002 0 0 0 0.00 264703 273781 149540 152510 # HWE # HWE [2]id [3]1st ALT allele frequency [4]Number of observations [5]25th percentile [6]median [7]75th percentile HWE 0 0.000000 2796863 0.990000 0.990000 0.990000 HWE 0 0.990000 2045942 0.000000 0.000000 0.000000 # VAF, Variant Allele Frequency determined as fraction of alternate reads in FORMAT/AD # VAF [2]id [3]sample [4]SNV VAF distribution [5]indel VAF distribution VAF 0 HG002 0,0,44,516,2183,8812,36572,104565,281581,443430,547583,429219,262934,95760,34322,8694,4467,6980,21048,97945,1615616 0,0,72,1411,7274,20400,46668,68477,102557,104425,94412,61627,39186,22430,21883,21830,25153,26444,34669,54139,87477