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Test-drive the GATK tools and Best Practices pipelines on Terra


Check out this blog post to learn how you can get started with GATK and try out the pipelines in preconfigured workspaces (with a user-friendly interface!) without having to install anything.

NaN in depth of coverage output

Depth of Coverage output gives NaN instead of "0" at some target positions in chromosome Y. This is a female sample so technically all coverage for chrY should be 0.0 except for psuedoautosomal regions. But it seems some specific regions yield NaN instead of 0. Do you know why?...See the Depth of coverage output reduced to just chrY below. This does not happen at all in other chromosomes. Tool version is GATK v3.7-0-gcfedb67.
(Note: Scroll down until the end).

Command line: INFO 21:53:18,568 HelpFormatter - Program Args: -T DepthOfCoverage -R /data/Resources/ReferenceGenomes/human_g1k_v37_decoy.chr.fasta -I /data/GATK_DOC/sample1.bam -L /data/GATK_DOC/Target.bed -ct 10 -ct 30 -ct 80 -ct 100 -baseCounts -o /data/GATK_DOC/sample1/Depth_sample1

Output(reduced to chrY only):

Target total_coverage average_coverage C12878W_S1_total_cvg C12878W_S1_mean_cvg C12878W_S1_granular_Q1 C12878W_S1_granular_median C12878W_S1_granular_Q3 C12878W_S1_%above_10 C12878W_S1%above_30 C12878W_S1%above_80 C12878W_S1%_above_100
chrY:148007-148406 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:150808-151007 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:155369-155568 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:157280-157479 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:158144-158343 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:159644-159943 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:165734-166033 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:171703-171902 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:174004-174203 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:174374-174573 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:178041-178340 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:179413-179612 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:180801-180900 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:245078-245277 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:249293-249672 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:251488-251687 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:251987-252186 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:252593-252692 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:256230-256429 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:256853-257052 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:257424-257523 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:257921-258120 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:258277-258476 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:272083-272382 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:297065-297464 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:535059-535358 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:541156-541955 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:545308-545607 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:551535-551634 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:551679-551878 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:555099-555398 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:569493-569592 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1264855-1265054 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1267404-1267603 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1271239-1271438 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1275310-1275509 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1277651-1277850 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1281428-1281627 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1337683-1337782 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1343592-1343791 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1351278-1351477 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1351522-1351721 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1354643-1354842 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1357374-1357573 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1357617-1357816 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1359217-1359416 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1363188-1363387 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1364285-1364384 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1369352-1369551 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1372105-1372304 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1372765-1372964 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1374280-1374674 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1378239-1378538 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1405465-1405864 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1410572-1410771 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1414169-1414368 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1417282-1417481 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1420960-1421457 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1425072-1425271 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1427718-1427817 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1433989-1434188 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1447505-1447704 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1449857-1450056 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1451272-1451371 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1455474-1455673 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1456143-1456342 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1458078-1458677 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1460748-1460947 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1472123-1472422 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1481587-1481786 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1486838-1487037 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1487842-1488041 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1490494-1490793 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1494400-1494599 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1496571-1497070 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1501117-1501316 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1503896-1503995 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1504570-1504669 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1507964-1508063 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1511045-1511244 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1521588-1521787 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1522479-1522678 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1534324-1535523 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1605771-1606070 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1660475-1660674 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1662278-1663177 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1664252-1664451 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1668056-1668355 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1669520-1670519 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1683902-1684201 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1692020-1692219 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1693127-1693326 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1696581-1696680 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1698674-1698873 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1701539-1701738 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1702014-1702213 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1705293-1705492 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:1711652-1711951 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2089027-2089326 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2111018-2111317 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2134735-2135034 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2159494-2159693 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2276771-2276870 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2293192-2293391 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2356644-2358844 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2368312-2368611 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2368813-2369028 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2559122-2559521 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2582430-2582529 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2585620-2585719 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2587675-2587774 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2588382-2588481 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2590642-2590741 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2591331-2591430 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2594258-2594457 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2601352-2601451 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2606220-2606320 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
chrY:2608783-2608882 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN

chrY:2654988-2655687 200 0.29 200 0.29 1 1 2 0.0 0.0 0.0 0.0
chrY:2709618-2709717 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:2710195-2710294 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:2712059-2712358 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:2713636-2713835 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:2722627-2722826 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:2733108-2733307 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:2734785-2734984 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:2803105-2803869 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:2821895-2822094 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:2829102-2829701 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:2843111-2843310 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:2843524-2843723 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:2844688-2844887 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:2845952-2846151 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:2846793-2848092 201 0.15 201 0.15 1 1 1 0.0 0.0 0.0 0.0
chrY:3447103-3447202 53 0.53 53 0.53 1 1 2 0.0 0.0 0.0 0.0
chrY:3447255-3447854 13178 21.96 13178 21.96 2 20 38 59.2 29.2 0.0 0.0
chrY:4868262-4868661 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:4898925-4899124 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:4899900-4900099 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:4900691-4900790 107 1.07 107 1.07 1 1 3 0.0 0.0 0.0 0.0
chrY:4924833-4925532 20741 29.63 20741 29.63 1 10 42 48.7 28.6 16.7 12.4
chrY:4966203-4968802 127812 49.16 127812 49.16 1 16 96 52.3 43.3 28.6 24.1
chrY:4972344-4972443 13 0.13 13 0.13 1 1 1 0.0 0.0 0.0 0.0
chrY:5369048-5369347 2049 6.83 2049 6.83 6 9 11 33.7 0.0 0.0 0.0
chrY:5449778-5449877 573 5.73 573 5.73 5 7 8 0.0 0.0 0.0 0.0
chrY:5605299-5605998 154 0.22 154 0.22 1 1 1 0.0 0.0 0.0 0.0
chrY:6114253-6114852 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6115386-6115485 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6115559-6115758 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6115789-6115988 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6116009-6116208 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6116806-6116905 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6734067-6734166 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6736041-6736540 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6736746-6736845 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6738021-6738120 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6740579-6740678 152 1.52 152 1.52 2 3 3 0.0 0.0 0.0 0.0
chrY:6741986-6742085 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6778681-6779080 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6780072-6780271 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6846220-6846319 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6863793-6863992 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6889435-6889634 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6893030-6893229 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6910994-6911193 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6931915-6932214 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6938204-6938403 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6938732-6938931 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6939583-6939682 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6939723-6939922 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6942582-6942681 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6948734-6948933 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6953927-6954026 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6954295-6954494 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6955291-6955490 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6958081-6958280 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:6959474-6959573 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9175071-9175670 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9176219-9176318 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9176392-9176591 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9176622-9176821 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9176842-9177041 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9177639-9177738 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9195395-9195994 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9196534-9196633 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9196707-9196906 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9196937-9197136 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9197157-9197356 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9197954-9198053 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9236019-9236618 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9237158-9237257 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9237331-9237530 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9237561-9237760 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9237781-9237980 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9238578-9238677 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9304553-9305152 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9305692-9305791 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9305865-9306064 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9306095-9306294 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9306315-9306514 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9307110-9307209 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9365478-9366077 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9366617-9366716 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9366790-9366989 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9367020-9367219 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9367240-9367439 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:9368037-9368136 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14813128-14814027 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14820547-14820646 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14821299-14821498 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14832497-14832696 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14834031-14834130 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14837003-14837202 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14838468-14838767 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14847504-14847703 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14847908-14848207 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14848315-14848514 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14850068-14850267 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14851412-14851611 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14869076-14869375 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14870405-14870604 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14872381-14872580 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14882946-14883145 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14885489-14885888 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14887353-14887552 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14888539-14888838 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14889924-14890223 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14890515-14890714 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14891421-14891620 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14898103-14898302 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14898445-14898744 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14902303-14902502 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14903395-14903594 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14904950-14905149 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14922069-14922268 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14922581-14922780 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14923544-14923743 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14924727-14925026 151 0.50 151 0.50 1 2 2 0.0 0.0 0.0 0.0
chrY:14928020-14928319 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14930301-14930600 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14945601-14945800 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14949808-14950007 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14951766-14952565 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14952898-14953097 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14954129-14954428 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14954954-14955153 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14958201-14958500 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14958819-14959308 202 0.41 202 0.41 1 1 1 0.0 0.0 0.0 0.0
chrY:14968244-14968443 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14968515-14968814 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14969439-14969638 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:14971173-14971372 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15015873-15016372 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15016820-15016920 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15017659-15017758 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15019427-15019526 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15021245-15021344 85 0.85 85 0.85 2 2 2 0.0 0.0 0.0 0.0
chrY:15023716-15023915 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15024617-15024816 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15024825-15025024 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15025598-15025797 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15026419-15026618 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15026746-15026945 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15026960-15027159 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15027515-15027714 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15027768-15027967 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15028114-15028587 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15028796-15029030 157 0.67 157 0.67 1 2 2 0.0 0.0 0.0 0.0
chrY:15029285-15029484 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15029945-15030044 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15361700-15361809 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15362880-15363082 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15372122-15372321 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15409556-15409757 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15410781-15411080 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15414715-15414914 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15417254-15417453 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15417906-15418005 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15418049-15418148 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15434972-15435271 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15435388-15435687 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15436434-15436633 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15438066-15438265 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15447430-15448229 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15466640-15466739 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15466831-15467330 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15467751-15467950 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15469704-15469903 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15470289-15470521 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15470936-15471135 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15471607-15471906 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15472260-15472459 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15478111-15478310 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15481083-15481282 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15505707-15505806 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15508776-15508875 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15522834-15523033 192 0.96 192 0.96 2 2 2 0.0 0.0 0.0 0.0
chrY:15526595-15526694 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15560872-15560971 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15581956-15582155 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15591116-15591215 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15591370-15591569 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15816166-15816365 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:15817073-15817172 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:16097739-16098038 3910 13.03 3910 13.03 3 9 23 48.0 16.0 0.0 0.0
chrY:16098170-16098369 88 0.44 88 0.44 1 1 2 0.0 0.0 0.0 0.0
chrY:16168121-16168320 45 0.23 45 0.23 1 1 1 0.0 0.0 0.0 0.0
chrY:16168452-16168751 3538 11.79 3538 11.79 3 9 22 47.7 6.7 0.0 0.0
chrY:16634460-16634859 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:16635608-16635807 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:16733887-16734486 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:16831319-16831418 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:16834974-16835173 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:16845275-16845474 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:16936011-16936310 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:16941555-16942454 11559 12.84 11559 12.84 1 2 29 32.7 24.3 0.0 0.0
chrY:16952268-16953167 19919 22.13 19919 22.13 1 1 41 36.7 29.1 13.1 0.6
chrY:19881401-19881800 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:19990112-19991811 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:20137956-20139655 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:20297975-20298374 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:20708631-20709230 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:20709612-20710411 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:20750372-20750571 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:20893605-20893804 202 1.01 202 1.01 2 2 2 0.0 0.0 0.0 0.0
chrY:20933768-20934567 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:20934949-20935548 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21867857-21868256 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21868277-21868576 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21868665-21868764 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21868983-21869682 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21869789-21869988 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21870120-21870319 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21870731-21870930 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21871317-21871716 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21872211-21872410 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21877212-21877411 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21877464-21877949 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21878113-21878412 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21878442-21878641 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21882740-21882939 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21882957-21883256 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21885174-21885373 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21893638-21893837 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21893892-21894091 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21894450-21894649 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21897211-21897410 39 0.20 39 0.20 1 1 1 0.0 0.0 0.0 0.0
chrY:21897472-21897671 101 0.51 101 0.51 1 2 2 0.0 0.0 0.0 0.0
chrY:21901382-21901581 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21903190-21903389 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21903583-21903782 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21905037-21905136 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21906256-21906455 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:21906537-21906836 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:22737716-22737815 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:22741436-22741635 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:22744428-22744627 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:22746336-22746435 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:22749851-22750050 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:22751316-22751515 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:22754180-22754279 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:22918002-22918101 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:22918653-22918752 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:22921695-22921994 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:22923119-22923318 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:22930677-22930876 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:22941374-22941573 101 0.51 101 0.51 1 2 2 0.0 0.0 0.0 0.0
chrY:22942768-22942967 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23545020-23545219 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23545301-23545700 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23545778-23545877 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23548084-23548183 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23673203-23673402 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23675190-23675389 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23675772-23675971 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23678932-23679131 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23681013-23681212 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23683157-23683356 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23684225-23684424 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23684777-23684976 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23685322-23685521 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23686354-23686740 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23687046-23687445 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23696744-23696943 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23698731-23698930 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23699313-23699512 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23702473-23702672 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23704554-23704753 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23706698-23706897 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23707766-23707965 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23708318-23708517 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23708863-23709062 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23709895-23710280 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:23710586-23710985 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:24026451-24026850 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:24027156-24027542 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:24028375-24028574 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:24028920-24029119 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:24029472-24029671 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:24030540-24030739 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:24032684-24032883 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:24034764-24034963 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:24037917-24038123 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:24038509-24038708 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:24039771-24039870 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:24040495-24040694 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:24049993-24050392 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
chrY:24050698-24051083 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0

Answers

  • Shrey_SShrey_S Member

    Pasting rest of the body:
    chrY:24051916-24052115 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24052461-24052660 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24053013-24053212 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24054081-24054280 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24056225-24056424 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24058305-24058504 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24061465-24061664 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24062050-24062249 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24064016-24064215 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24218450-24218749 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24228185-24228384 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24230879-24231078 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24241823-24242022 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24242056-24242155 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24314917-24315316 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24315622-24316007 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24316842-24317041 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24317387-24317586 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24317938-24318137 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24319006-24319205 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24321150-24321349 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24323230-24323429 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24326390-24326589 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24326965-24327164 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24328931-24329130 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24549549-24549748 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24551548-24551747 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24552124-24552323 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24555288-24555487 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24557369-24557568 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24559513-24559712 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24560581-24560780 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24561132-24561331 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24561677-24561876 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24562711-24563096 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24563402-24563801 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24636543-24636642 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24636677-24636876 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24647621-24647820 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24650314-24650513 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:24659939-24660238 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25130381-25130480 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25130678-25130877 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25133873-25134072 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25138410-25138609 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25140587-25140786 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25143552-25143751 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25144357-25144456 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25281339-25281438 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25285962-25286061 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25286759-25286858 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25289144-25289243 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25298930-25299029 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25301307-25301406 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25303703-25303802 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25306086-25306185 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25308482-25308581 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25310873-25310972 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25313318-25313417 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25314774-25314973 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25315015-25315114 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25315509-25315608 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25316091-25316290 152 0.76 152 0.76 1 2 2 0.0 0.0 0.0 0.0
    chrY:25316485-25316684 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25325614-25325813 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25325855-25325954 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25326349-25326448 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25326931-25327130 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25327325-25327524 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25336462-25336661 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25336703-25336802 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25337197-25337296 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
    chrY:25337779-25337978 0 0.00 0 0.00 1 1 1 0.0 0.0 0.0 0.0
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    chrY:59252467-59252566 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
    chrY:59272318-59272517 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
    chrY:59274497-59276496 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
    chrY:59330206-59330505 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
    chrY:59334030-59334229 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
    chrY:59335522-59335733 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
    chrY:59336076-59336275 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
    chrY:59336338-59336540 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
    chrY:59337064-59337278 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
    chrY:59337900-59338199 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
    chrY:59338707-59338906 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
    chrY:59340137-59340336 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN
    chrY:59342434-59343537 0 NaN 0 NaN 1 1 1 NaN NaN NaN NaN

  • Tiffany_at_BroadTiffany_at_Broad Cambridge, MAMember, Administrator, Broadie, Moderator admin

    Hi @Shrey_S I'm sorry, but we don't technically support GATK 3 questions. Do you see these results when using a more recent version of GATK?

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