Mercurial > repos > iuc > find_nested_alt_orfs
diff test-data/gencode_canonical.hg38.chr6_GL0002508.bed @ 0:14f4c7a8a962 draft default tip
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/naltorfs/ commit cbedf7b5968b45a08df88d4ad799951d6f50a2bd"
| author | iuc |
|---|---|
| date | Mon, 11 Apr 2022 20:37:19 +0000 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/gencode_canonical.hg38.chr6_GL0002508.bed Mon Apr 11 20:37:19 2022 +0000 @@ -0,0 +1,77 @@ +chr6_GL000250v2_alt 168585 189574 ENST00000437160.6 0 - 169653 189217 12,12,120 8 1664,27,33,116,23,231,96,777, 0,4234,5806,5971,8695,17011,18891,20212, +chr6_GL000250v2_alt 260408 270885 ENST00000426120.2 0 - 260624 269578 12,12,120 7 1802,105,127,92,82,269,253, 0,3949,4702,5171,8728,9161,10224, +chr6_GL000250v2_alt 309837 310865 ENST00000421027.1 0 - 309837 310800 12,12,120 1 1028, 0, +chr6_GL000250v2_alt 351929 352936 ENST00000420178.3 0 - 351929 352871 12,12,120 1 1007, 0, +chr6_GL000250v2_alt 377510 378446 ENST00000428081.1 0 + 377510 378446 12,12,120 1 936, 0, +chr6_GL000250v2_alt 438928 440200 ENST00000440124.4 0 + 439261 440200 12,12,120 1 1272, 0, +chr6_GL000250v2_alt 572355 573321 ENST00000420495.4 0 + 572355 573321 12,12,120 1 966, 0, +chr6_GL000250v2_alt 691168 722731 ENST00000435232.5 0 - 692358 693306 12,12,120 5 2229,48,125,124,85, 0,3408,4796,6359,31478, +chr6_GL000250v2_alt 704969 706618 ENST00000455234.1 0 + 705679 706618 12,12,120 1 1649, 0, +chr6_GL000250v2_alt 722840 729989 ENST00000453467.5 0 + 727430 728381 12,12,120 4 27,116,51,2830, 0,1273,3224,4319, +chr6_GL000250v2_alt 752426 753563 ENST00000418003.3 0 - 752426 753563 12,12,120 1 1137, 0, +chr6_GL000250v2_alt 821306 825621 ENST00000414436.2 0 - 821574 825397 12,12,120 2 739,251, 0,4064, +chr6_GL000250v2_alt 821306 893756 ENST00000449163.5 0 - 869267 893509 12,12,120 19 739,176,144,129,128,94,108,117,133,151,78,64,243,192,66,102,171,135,553, 0,47959,48912,49278,49987,50809,51316,51521,53020,53648,55343,56970,57662,65507,66158,66510,67711,68296,71897, +chr6_GL000250v2_alt 853147 854731 ENST00000453513.4 0 + 853637 854576 12,12,120 1 1584, 0, +chr6_GL000250v2_alt 922689 938078 ENST00000548017.1 0 + 922918 936889 12,12,120 7 317,348,114,21,21,21,1203, 0,2336,9166,10657,10918,13715,14186, +chr6_GL000250v2_alt 938190 938841 ENST00000432222.1 0 - 938207 938841 12,12,120 1 651, 0, +chr6_GL000250v2_alt 1093432 1096751 ENST00000615098.4 0 + 1093456 1095994 12,12,120 7 97,270,276,276,117,33,372, 0,226,722,1597,1995,2557,2947, +chr6_GL000250v2_alt 1147347 1267669 ENST00000640829.1 0 + 1147490 1266858 12,12,120 11 216,16,14,240,276,276,33,84,93,35,281, 0,340,39005,53186,53667,54522,68203,118979,119506,119955,120041, +chr6_GL000250v2_alt 1319351 1323001 ENST00000443494.6 0 + 1319622 1322789 12,12,120 4 416,101,110,237, 0,663,970,3413, +chr6_GL000250v2_alt 1324800 1328425 ENST00000441553.5 0 + 1326768 1327398 12,12,120 3 301,109,1230, 0,1881,2395, +chr6_GL000250v2_alt 1328357 1333979 ENST00000450015.2 0 - 1329202 1333881 12,12,120 4 1426,92,23,665, 0,2891,3190,4957, +chr6_GL000250v2_alt 1368538 1371196 ENST00000422484.1 0 - 1368538 1370895 12,12,120 4 231,96,500,43, 0,1199,1940,2615, +chr6_GL000250v2_alt 1394223 1406831 ENST00000433713.5 0 + 1395132 1405908 12,12,120 6 62,649,96,225,23,1011, 0,605,9866,10857,11392,11597, +chr6_GL000250v2_alt 1410040 1419029 ENST00000449208.6 0 - 1412064 1418953 12,12,120 7 2542,33,116,23,231,96,505, 0,3782,4994,5424,6453,7204,8484, +chr6_GL000250v2_alt 1421285 1430769 ENST00000552062.2 0 + 1421971 1430429 12,12,120 8 860,96,231,9,14,116,33,858, 0,3970,5094,6035,6633,7295,7770,8626, +chr6_GL000250v2_alt 1442505 1471482 ENST00000425523.5 0 - 1443926 1457164 12,12,120 9 2104,33,116,23,231,96,488,104,123, 0,4719,4970,5565,12071,13984,14221,16590,28854, +chr6_GL000250v2_alt 1656333 1673225 ENST00000458607.5 0 + 1658808 1671755 12,12,120 8 152,153,460,96,231,23,116,2018, 0,2046,2468,3938,8907,13070,13667,14874, +chr6_GL000250v2_alt 1658801 1676354 ENST00000550581.3 0 + 1658808 1676306 12,12,120 10 460,96,231,23,116,185,101,83,126,146, 0,1470,6439,10602,11199,12406,15992,16185,17126,17407, +chr6_GL000250v2_alt 1870880 1883062 ENST00000383450.3 0 - 1875575 1883062 12,12,120 7 4937,141,163,179,195,96,208, 0,5319,5735,5975,11091,11708,11974, +chr6_GL000250v2_alt 1988977 2002543 ENST00000450902.6 0 - 1988977 2002347 12,12,120 12 153,99,211,116,111,192,204,255,57,163,239,403, 0,264,560,3155,3439,5329,5599,6007,10938,11318,11564,13163, +chr6_GL000250v2_alt 2005895 2017402 ENST00000438815.2 0 - 2006775 2015525 12,12,120 3 900,211,3488, 0,2790,8019, +chr6_GL000250v2_alt 2017553 2020927 ENST00000427944.5 0 - 2018167 2020481 12,12,120 5 896,177,197,440,45, 0,1229,2000,2795,3329, +chr6_GL000250v2_alt 2029311 2047393 ENST00000427406.6 0 - 2029969 2044679 12,12,120 15 826,111,126,183,120,2478,71,792,93,60,1481,70,381,139,645, 0,2746,2945,3297,3611,3814,7576,7758,11604,11859,12066,13840,13995,15232,17437, +chr6_GL000250v2_alt 2049703 2054929 ENST00000421473.6 0 + 2050009 2053900 12,12,120 4 363,109,111,2087, 0,2336,2717,3139, +chr6_GL000250v2_alt 2057211 2060006 ENST00000420604.1 0 - 2057618 2060006 12,12,120 3 437,165,76, 0,2313,2719, +chr6_GL000250v2_alt 2217891 2218933 ENST00000434428.5 0 + 2218232 2218933 12,12,120 3 426,103,229, 0,519,813, +chr6_GL000250v2_alt 2313217 2319398 ENST00000430305.2 0 + 2313458 2317689 12,12,120 3 302,1445,1904, 0,2514,4277, +chr6_GL000250v2_alt 2827448 2843673 ENST00000619506.1 0 + 2838192 2842459 12,12,120 6 115,255,288,279,132,1342, 0,10718,11244,12123,12501,14883, +chr6_GL000250v2_alt 2861265 2862781 ENST00000424816.2 0 + 2861563 2862484 12,12,120 2 469,486, 0,1030, +chr6_GL000250v2_alt 2862767 2871733 ENST00000448800.5 0 - 2862982 2871733 12,12,120 9 232,148,145,110,132,119,184,93,38, 0,560,834,1077,2561,5148,6281,8544,8928, +chr6_GL000250v2_alt 2909112 2910915 ENST00000445232.2 0 + 2909112 2910116 12,12,120 3 46,48,1221, 0,233,582, +chr6_GL000250v2_alt 2913133 2915004 ENST00000457552.2 0 - 2913287 2914996 12,12,120 4 609,72,46,170, 0,1004,1259,1701, +chr6_GL000250v2_alt 2918702 2921488 ENST00000433676.6 0 + 2919878 2921255 12,12,120 4 192,119,23,392, 0,1076,1820,2394, +chr6_GL000250v2_alt 2921473 2925564 ENST00000432392.6 0 - 2921772 2925300 12,12,120 4 337,108,345,307, 0,631,887,3784, +chr6_GL000250v2_alt 3089203 3095288 ENST00000430216.5 0 + 3090740 3095143 12,12,120 14 325,872,73,110,81,88,190,127,150,75,144,138,74,257, 0,830,1956,2174,2505,2833,3194,3498,4098,4596,4880,5226,5520,5828, +chr6_GL000250v2_alt 3095410 3097463 ENST00000436320.5 0 + 3095666 3097143 12,12,120 4 370,141,96,413, 0,616,1265,1640, +chr6_GL000250v2_alt 3098201 3109905 ENST00000452329.2 0 - 3098205 3109390 12,12,120 17 181,175,140,302,93,153,133,186,117,113,170,196,111,97,279,249,186, 0,293,655,873,1568,1772,2032,3427,4084,4410,7363,7651,8925,9742,10373,10955,11518, +chr6_GL000250v2_alt 3130006 3139596 ENST00000432122.2 0 - 3130367 3139369 12,12,120 5 487,60,31,68,230, 0,594,1081,8680,9360, +chr6_GL000250v2_alt 3142240 3147687 ENST00000426095.2 0 - 3142668 3144594 12,12,120 2 2367,177, 0,5270, +chr6_GL000250v2_alt 3148164 3150568 ENST00000422919.1 0 + 3148378 3150304 12,12,120 2 289,1620, 0,784, +chr6_GL000250v2_alt 3160359 3162874 ENST00000450744.1 0 + 3160575 3162501 12,12,120 1 2515, 0, +chr6_GL000250v2_alt 3167532 3172376 ENST00000430690.5 0 + 3169944 3172278 12,12,120 5 283,41,219,200,219, 0,492,1382,2319,4625, +chr6_GL000250v2_alt 3191667 3195522 ENST00000423382.2 0 - 3192334 3195392 12,12,120 6 894,223,183,263,193,289, 0,990,1387,2136,2947,3566, +chr6_GL000250v2_alt 3195810 3211661 ENST00000550401.2 0 - 3196242 3211595 12,12,120 20 554,85,95,71,74,104,95,254,103,93,100,236,84,88,61,100,79,74,49,106, 0,1457,1621,1815,2120,2303,2495,2678,5960,6350,7406,7615,8117,8277,11264,11733,12656,12860,13838,15745, +chr6_GL000250v2_alt 3212373 3230306 ENST00000421926.6 0 - 3212698 3230299 12,12,120 28 506,176,79,87,116,78,145,168,155,105,102,123,107,83,183,236,144,149,102,115,135,156,41,85,254,219,67,49, 0,914,1255,2940,3135,3603,4047,4633,4886,5153,6822,7016,7236,7818,8020,8282,8604,8840,9210,9469,9709,12652,12939,13071,16511,16854,17171,17884, +chr6_GL000250v2_alt 3406267 3418718 ENST00000433037.1 0 - 3406267 3418718 12,12,120 6 306,333,306,291,297,369, 0,5366,7700,8368,10745,12082, +chr6_GL000250v2_alt 3480956 3485682 ENST00000445122.5 0 - 3481819 3484701 12,12,120 6 1040,186,216,91,81,112, 0,1178,2009,3450,3737,4614, +chr6_GL000250v2_alt 3497183 3500883 ENST00000414111.6 0 + 3498767 3500558 12,12,120 9 75,129,123,110,96,171,80,154,372, 0,1556,1916,2119,2328,2505,2768,2921,3328, +chr6_GL000250v2_alt 3500813 3510698 ENST00000430777.2 0 - 3501877 3504098 12,12,120 7 1237,73,96,176,134,209,96, 0,1754,1953,2213,2725,3085,9789, +chr6_GL000250v2_alt 3510955 3513395 ENST00000449794.2 0 + 3511113 3512928 12,12,120 6 298,19,113,55,118,565, 0,1187,1297,1523,1655,1875, +chr6_GL000250v2_alt 3513569 3516924 ENST00000549839.5 0 - 3513744 3516824 12,12,120 5 272,83,123,107,152, 0,383,2660,2913,3203, +chr6_GL000250v2_alt 3517334 3522785 ENST00000453487.2 0 - 3518980 3522514 12,12,120 9 1739,87,89,154,136,191,248,74,492, 0,1868,2077,2506,2911,3230,3521,3987,4959, +chr6_GL000250v2_alt 3523364 3528122 ENST00000457070.1 0 - 3523964 3525112 12,12,120 8 738,200,103,59,84,81,93,98, 0,943,1382,1706,2275,3544,3971,4660, +chr6_GL000250v2_alt 3527441 3536999 ENST00000425600.1 0 - 3528035 3536999 12,12,120 12 1308,98,148,296,139,82,220,176,384,524,113,253, 0,1481,2082,2456,3579,3807,4084,6000,6286,7245,8938,9305, +chr6_GL000250v2_alt 3655068 3704125 ENST00000425722.1 0 - 3655068 3703952 12,12,120 19 21,21,24,21,21,21,21,21,21,39,90,21,21,21,30,33,33,87,186, 0,637,1109,8114,9561,12963,13438,14141,16499,17121,26913,32289,32814,43342,43448,45110,45965,47083,48871, +chr6_GL000250v2_alt 3726193 3739359 ENST00000445928.5 0 - 3726199 3739352 12,12,120 7 95,282,348,21,282,348,86, 0,781,2076,7820,8970,10974,13080, +chr6_GL000250v2_alt 3823888 3837634 ENST00000426847.2 0 - 3824827 3837535 12,12,120 6 953,24,111,282,270,199, 0,1752,2249,3043,5625,13547, +chr6_GL000250v2_alt 4047519 4053351 ENST00000449560.5 0 + 4047581 4052533 12,12,120 4 144,249,282,973, 0,3778,4410,4859, +chr6_GL000250v2_alt 4062236 4069674 ENST00000419685.6 0 - 4062591 4069610 12,12,120 6 369,24,111,282,267,161, 0,1184,1676,2753,5563,7277, +chr6_GL000250v2_alt 4117786 4122072 ENST00000426644.6 0 - 4118239 4121975 12,12,120 6 489,32,111,282,270,188, 0,677,960,1557,2281,4098, +chr6_GL000250v2_alt 4126846 4143590 ENST00000439425.6 0 - 4127302 4143099 12,12,120 12 486,137,160,174,189,129,198,206,131,115,497,75, 0,7419,7949,8286,8637,10352,10646,13173,13662,15556,15760,16669, +chr6_GL000250v2_alt 4145581 4149568 ENST00000436627.2 0 - 4145823 4149278 12,12,120 6 331,205,130,112,148,425, 0,814,1417,1955,2225,3562, +chr6_GL000250v2_alt 4150073 4158843 ENST00000418205.2 0 - 4150443 4158681 12,12,120 11 577,137,163,174,189,129,198,206,131,115,940, 0,1859,2304,2710,3443,3781,5109,5733,6900,7179,7830, +chr6_GL000250v2_alt 4159070 4184429 ENST00000425855.2 0 + 4159094 4184317 12,12,120 6 84,68,130,142,93,156, 0,1932,3799,4158,22841,25203, +chr6_GL000250v2_alt 4239473 4245915 ENST00000395312.7 0 - 4239815 4245652 12,12,120 6 359,36,117,285,282,318, 0,713,907,2543,4055,6124, +chr6_GL000250v2_alt 4369248 4385378 ENST00000443117.5 0 - 4373329 4378232 12,12,120 6 779,167,282,246,199,31, 0,4069,4450,5072,8884,16099, +chr6_GL000250v2_alt 4380587 4391853 ENST00000411749.6 0 + 4380703 4390890 12,12,120 6 216,264,282,111,24,663, 0,4752,9014,9843,10283,10603,