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mps
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I have a FASTA file which contains hg38 assembly. It contains the primary contigs, alt contigs, decoy, HLA, mito.
How do I determine the exact version of hg38 based on the FASTA?
Here some of the headers:
>chr1 AC:CM000663.2 gi:568336023 LN:248956422 rl:Chromosome M5:6aef897c3d6ff0c78aff06ac189178dd AS:GRCh38
>chr2 AC:CM000664.2 gi:568336022 LN:242193529 rl:Chromosome M5:f98db672eb0993dcfdabafe2a882905c AS:GRCh38
>chr3 AC:CM000665.2 gi:568336021 LN:198295559 rl:Chromosome M5:76635a41ea913a405ded820447d067b0 AS:GRCh38
>chr4 AC:CM000666.2 gi:568336020 LN:190214555 rl:Chromosome M5:3210fecf1eb92d5489da4346b3fddc6e AS:GRCh38
>chr5 AC:CM000667.2 gi:568336019 LN:181538259 rl:Chromosome M5:a811b3dc9fe66af729dc0dddf7fa4f13 AS:GRCh38 hm:47309185-49591369
>chr6 AC:CM000668.2 gi:568336018 LN:170805979 rl:Chromosome M5:5691468a67c7e7a7b5f2a3a683792c29 AS:GRCh38
>chr7 AC:CM000669.2 gi:568336017 LN:159345973 rl:Chromosome M5:cc044cc2256a1141212660fb07b6171e AS:GRCh38
>chr8 AC:CM000670.2 gi:568336016 LN:145138636 rl:Chromosome M5:c67955b5f7815a9a1edfaa15893d3616 AS:GRCh38
>chr9 AC:CM000671.2 gi:568336015 LN:138394717 rl:Chromosome M5:6c198acf68b5af7b9d676dfdd531b5de AS:GRCh38
>chr10 AC:CM000672.2 gi:568336014 LN:133797422 rl:Chromosome M5:c0eeee7acfdaf31b770a509bdaa6e51a AS:GRCh38
>chr11 AC:CM000673.2 gi:568336013 LN:135086622 rl:Chromosome M5:1511375dc2dd1b633af8cf439ae90cec AS:GRCh38
>chr12 AC:CM000674.2 gi:568336012 LN:133275309 rl:Chromosome M5:96e414eace405d8c27a6d35ba19df56f AS:GRCh38
>chr13 AC:CM000675.2 gi:568336011 LN:114364328 rl:Chromosome M5:a5437debe2ef9c9ef8f3ea2874ae1d82 AS:GRCh38
>chr14 AC:CM000676.2 gi:568336010 LN:107043718 rl:Chromosome M5:e0f0eecc3bcab6178c62b6211565c807 AS:GRCh38 hm:multiple
>chr15 AC:CM000677.2 gi:568336009 LN:101991189 rl:Chromosome M5:f036bd11158407596ca6bf3581454706 AS:GRCh38
>chr16 AC:CM000678.2 gi:568336008 LN:90338345 rl:Chromosome M5:db2d37c8b7d019caaf2dd64ba3a6f33a AS:GRCh38
>chr17 AC:CM000679.2 gi:568336007 LN:83257441 rl:Chromosome M5:f9a0fb01553adb183568e3eb9d8626db AS:GRCh38
>chr18 AC:CM000680.2 gi:568336006 LN:80373285 rl:Chromosome M5:11eeaa801f6b0e2e36a1138616b8ee9a AS:GRCh38
>chr19 AC:CM000681.2 gi:568336005 LN:58617616 rl:Chromosome M5:85f9f4fc152c58cb7913c06d6b98573a AS:GRCh38 hm:multiple
>chr20 AC:CM000682.2 gi:568336004 LN:64444167 rl:Chromosome M5:b18e6c531b0bd70e949a7fc20859cb01 AS:GRCh38
>chr21 AC:CM000683.2 gi:568336003 LN:46709983 rl:Chromosome M5:974dc7aec0b755b19f031418fdedf293 AS:GRCh38 hm:multiple
>chr22 AC:CM000684.2 gi:568336002 LN:50818468 rl:Chromosome M5:ac37ec46683600f808cdd41eac1d55cd AS:GRCh38 hm:multiple
>chrX AC:CM000685.2 gi:568336001 LN:156040895 rl:Chromosome M5:2b3a55ff7f58eb308420c8a9b11cac50 AS:GRCh38
>chrY AC:CM000686.2 gi:568336000 LN:57227415 rl:Chromosome M5:ce3e31103314a704255f3cd90369ecce AS:GRCh38 hm:10001-2781479,56887903-57217415
>chrM AC:J01415.2 gi:113200490 LN:16569 rl:Mitochondrion M5:c68f52674c9fb33aef52dcf399755519 AS:GRCh38 tp:circular
>chr1_KI270706v1_random AC:KI270706.1 gi:568335410 LN:175055 rg:chr1 rl:unlocalized M5:62def1a794b3e18192863d187af956e6 AS:GRCh38
>chr1_KI270707v1_random AC:KI270707.1 gi:568335409 LN:32032 rg:chr1 rl:unlocalized M5:78135804eb15220565483b7cdd02f3be AS:GRCh38
>chr1_KI270708v1_random AC:KI270708.1 gi:568335408 LN:127682 rg:chr1 rl:unlocalized M5:1e95e047b98ed92148dd84d6c037158c AS:GRCh38
>chr1_KI270709v1_random AC:KI270709.1 gi:568335407 LN:66860 rg:chr1 rl:unlocalized M5:4e2db2933ea96aee8dab54af60ecb37d AS:GRCh38
>chr1_KI270710v1_random AC:KI270710.1 gi:568335406 LN:40176 rg:chr1 rl:unlocalized M5:9949f776680c6214512ee738ac5da289 AS:GRCh38
>chr1_KI270711v1_random AC:KI270711.1 gi:568335405 LN:42210 rg:chr1 rl:unlocalized M5:af383f98cf4492c1f1c4e750c26cbb40 AS:GRCh38
>chr1_KI270712v1_random AC:KI270712.1 gi:568335404 LN:176043 rg:chr1 rl:unlocalized M5:c38a0fecae6a1838a405406f724d6838 AS:GRCh38
>chr1_KI270713v1_random AC:KI270713.1 gi:568335403 LN:40745 rg:chr1 rl:unlocalized M5:cb78d48cc0adbc58822a1c6fe89e3569 AS:GRCh38
>chr1_KI270714v1_random AC:KI270714.1 gi:568335402 LN:41717 rg:chr1 rl:unlocalized M5:42f7a452b8b769d051ad738ee9f00631 AS:GRCh38
>chr2_KI270715v1_random AC:KI270715.1 gi:568335401 LN:161471 rg:chr2 rl:unlocalized M5:b65a8af1d7bbb7f3c77eea85423452bb AS:GRCh38
>chr2_KI270716v1_random AC:KI270716.1 gi:568335400 LN:153799 rg:chr2 rl:unlocalized M5:2828e63b8edc5e845bf48e75fbad2926 AS:GRCh38
>chr3_GL000221v1_random AC:GL000221.1 gi:224183270 LN:155397 rg:chr3 rl:unlocalized M5:3238fb74ea87ae857f9c7508d315babb AS:GRCh38
>chr4_GL000008v2_random AC:GL000008.2 gi:568335399 LN:209709 rg:chr4 rl:unlocalized M5:a999388c587908f80406444cebe80ba3 AS:GRCh38
>chr5_GL000208v1_random AC:GL000208.1 gi:224183050 LN:92689 rg:chr5 rl:unlocalized M5:aa81be49bf3fe63a79bdc6a6f279abf6 AS:GRCh38
>chr9_KI270717v1_random AC:KI270717.1 gi:568335398 LN:40062 rg:chr9 rl:unlocalized M5:796773a1ee67c988b4de887addbed9e7 AS:GRCh38
>chr9_KI270718v1_random AC:KI270718.1 gi:568335397 LN:38054 rg:chr9 rl:unlocalized M5:b0c463c8efa8d64442b48e936368dad5 AS:GRCh38
>chr9_KI270719v1_random AC:KI270719.1 gi:568335396 LN:176845 rg:chr9 rl:unlocalized M5:cd5e932cfc4c74d05bb64e2126873a3a AS:GRCh38
>chr9_KI270720v1_random AC:KI270720.1 gi:568335395 LN:39050 rg:chr9 rl:unlocalized M5:8c2683400a4aeeb40abff96652b9b127 AS:GRCh38
>chr11_KI270721v1_random AC:KI270721.1 gi:568335394 LN:100316 rg:chr11 rl:unlocalized M5:9654b5d3f36845bb9d19a6dbd15d2f22 AS:GRCh38
>chr14_GL000009v2_random AC:GL000009.2 gi:568335393 LN:201709 rg:chr14 rl:unlocalized M5:862f555045546733591ff7ab15bcecbe AS:GRCh38
>chr14_GL000225v1_random AC:GL000225.1 gi:224183274 LN:211173 rg:chr14 rl:unlocalized M5:63945c3e6962f28ffd469719a747e73c AS:GRCh38
>chr14_KI270722v1_random AC:KI270722.1 gi:568335392 LN:194050 rg:chr14 rl:unlocalized M5:51f46c9093929e6edc3b4dfd50d803fc AS:GRCh38
>chr14_GL000194v1_random AC:GL000194.1 gi:224183213 LN:191469 rg:chr14 rl:unlocalized M5:6ac8f815bf8e845bb3031b73f812c012 AS:GRCh38
>chr14_KI270723v1_random AC:KI270723.1 gi:568335391 LN:38115 rg:chr14 rl:unlocalized M5:74a4b480675592095fb0c577c515b5df AS:GRCh38
>chr14_KI270724v1_random AC:KI270724.1 gi:568335390 LN:39555 rg:chr14 rl:unlocalized M5:c3fcb15dddf45f91ef7d94e2623ce13b AS:GRCh38
>chr14_KI270725v1_random AC:KI270725.1 gi:568335389 LN:172810 rg:chr14 rl:unlocalized M5:edc6402e58396b90b8738a5e37bf773d AS:GRCh38
>chr14_KI270726v1_random AC:KI270726.1 gi:568335388 LN:43739 rg:chr14 rl:unlocalized M5:fbe54a3197e2b469ccb2f4b161cfbe86 AS:GRCh38
>chr15_KI270727v1_random AC:KI270727.1 gi:568335387 LN:448248 rg:chr15 rl:unlocalized M5:84fe18a7bf03f3b7fc76cbac8eb583f1 AS:GRCh38
>chr16_KI270728v1_random AC:KI270728.1 gi:568335386 LN:1872759 rg:chr16 rl:unlocalized M5:369ff74cf36683b3066a2ca929d9c40d AS:GRCh38
>chr17_GL000205v2_random AC:GL000205.2 gi:568335385 LN:185591 rg:chr17 rl:unlocalized M5:458e71cd53dd1df4083dc7983a6c82c4 AS:GRCh38
>chr17_KI270729v1_random AC:KI270729.1 gi:568335384 LN:280839 rg:chr17 rl:unlocalized M5:2756f6ee4f5780acce31e995443508b6 AS:GRCh38
>chr17_KI270730v1_random AC:KI270730.1 gi:568335383 LN:112551 rg:chr17 rl:unlocalized M5:48f98ede8e28a06d241ab2e946c15e07 AS:GRCh38
>chr22_KI270731v1_random AC:KI270731.1 gi:568335382 LN:150754 rg:chr22 rl:unlocalized M5:8176d9a20401e8d9f01b7ca8b51d9c08 AS:GRCh38
>chr22_KI270732v1_random AC:KI270732.1 gi:568335381 LN:41543 rg:chr22 rl:unlocalized M5:d837bab5e416450df6e1038ae6cd0817 AS:GRCh38
>chr22_KI270733v1_random AC:KI270733.1 gi:568335380 LN:179772 rg:chr22 rl:unlocalized M5:f1fa05d48bb0c1f87237a28b66f0be0b AS:GRCh38
>chr22_KI270734v1_random AC:KI270734.1 gi:568335379 LN:165050 rg:chr22 rl:unlocalized M5:1d17410ae2569c758e6dd51616412d32 AS:GRCh38
>chr22_KI270735v1_random AC:KI270735.1 gi:568335378 LN:42811 rg:chr22 rl:unlocalized M5:eb6b07b73dd9a47252098ed3d9fb78b8 AS:GRCh38
>chr22_KI270736v1_random AC:KI270736.1 gi:568335377 LN:181920 rg:chr22 rl:unlocalized M5:2ff189f33cfa52f321accddf648c5616 AS:GRCh38
>chr22_KI270737v1_random AC:KI270737.1 gi:568335376 LN:103838 rg:chr22 rl:unlocalized M5:2ea8bc113a8193d1d700b584b2c5f42a AS:GRCh38
>chr22_KI270738v1_random AC:KI270738.1 gi:568335375 LN:99375 rg:chr22 rl:unlocalized M5:854ec525c7b6a79e7268f515b6a9877c AS:GRCh38
>chr22_KI270739v1_random AC:KI270739.1 gi:568335374 LN:73985 rg:chr22 rl:unlocalized M5:760fbd73515fedcc9f37737c4a722d6a AS:GRCh38
>chrY_KI270740v1_random AC:KI270740.1 gi:568335373 LN:37240 rg:chrY rl:unlocalized M5:69e42252aead509bf56f1ea6fda91405 AS:GRCh38
>chrUn_KI270302v1 AC:KI270302.1 gi:568335372 LN:2274 rl:unplaced M5:ee6dff38036f7d03478c70717643196e AS:GRCh38
>chrUn_KI270304v1 AC:KI270304.1 gi:568335371 LN:2165 rl:unplaced M5:9423c1b46a48aa6331a77ab5c702ac9d AS:GRCh38
>chrUn_KI270303v1 AC:KI270303.1 gi:568335370 LN:1942 rl:unplaced M5:2cb746c78e0faa11e628603a4bc9bd58 AS:GRCh38
