Alignment viewer

BLASTN 2.6.0+ Reference: Stephen F. Altschul, Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Database: Gossypium_20raimondii_20[refseq_20GCF_5F000327365.1_202012-12-20] 1,034 sequences; 761,565,430 total letters Query= NC_005906.1 Length=81755 Score E Sequences producing significant alignments: (Bits) Value seq1 116 2e-21 seq8 114 7e-21 seq5 114 7e-21 seq11 113 2e-20 seq9 113 2e-20 seq12 109 3e-19 seq4 107 1e-18 seq7 105 3e-18 seq6 104 1e-17 seq2 102 4e-17 seq3 100 1e-16 >seq1 Length=55868233 Score = 116 bits (128), Expect = 2e-21 Identities = 88/103 (85%), Gaps = 1/103 (1%) Strand=Plus/Minus Query 11437 AATTAATAAAAAATCAAA-TTGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATT 11495 || ||| |||| || ||| |||||||||| | | |||||||| |||||||||||||||| Sbjct 40807585 AAATAAAAAAAGATAAAAATTGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATT 40807526 Query 11496 AGCACGACGCTCTRACCAACTGAGCTAATGGGCCGTCGACGAT 11538 ||||||||||||| |||| |||||||||| |||| ||||||| Sbjct 40807525 AGCACGACGCTCTAACCAGCTGAGCTAATAGGCCTGCGACGAT 40807483 >seq8 Length=57128820 Score = 114 bits (126), Expect = 7e-21 Identities = 95/114 (83%), Gaps = 6/114 (5%) Strand=Plus/Minus Query 11427 GGAAATATA--GAATTAATAAAAA---ATCAAATTGGCCCATGAAAGGATCGAACCTTCG 11481 ||||||| | ||| |||||||| ||||| | |||||||| | | |||||||| || Sbjct 52776930 GGAAATAAAAAGAAAAAATAAAAAGATATCAAGT-GGCCCATGCAGGTCTCGAACCTGCG 52776872 Query 11482 ACCTTCGCGTTATTAGCACGACGCTCTRACCAACTGAGCTAATGGGCCGTCGAC 11535 ||||||||||||||||||||||||||| ||||||||||||||| |||| | ||| Sbjct 52776871 ACCTTCGCGTTATTAGCACGACGCTCTAACCAACTGAGCTAATAGGCCATTGAC 52776818 Score = 102 bits (112), Expect = 4e-17 Identities = 72/82 (88%), Gaps = 1/82 (1%) Strand=Plus/Minus Query 11448 AATCAAATTGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGCTC 11507 || ||||| |||||||| | | |||||||| ||||||| ||||||||||||| |||||| Sbjct 1359563 AAACAAAT-GGCCCATGCAGGTCTCGAACCTGCGACCTTGGCGTTATTAGCACCACGCTC 1359505 Query 11508 TRACCAACTGAGCTAATGGGCC 11529 | |||||||||||||||||||| Sbjct 1359504 TAACCAACTGAGCTAATGGGCC 1359483 >seq5 Length=64140413 Score = 114 bits (126), Expect = 7e-21 Identities = 76/84 (90%), Gaps = 1/84 (1%) Strand=Plus/Plus Query 11446 AAAATCAAATTGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGC 11505 |||||||||| |||||||| | | |||||||| |||||||||||||||||||||||||| Sbjct 54611668 AAAATCAAAT-GGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGC 54611726 Query 11506 TCTRACCAACTGAGCTAATGGGCC 11529 ||| ||||||||||||||| |||| Sbjct 54611727 TCTAACCAACTGAGCTAATAGGCC 54611750 >seq11 Length=62681010 Score = 113 bits (124), Expect = 2e-20 Identities = 78/89 (88%), Gaps = 4/89 (4%) Strand=Plus/Minus Query 11445 AAAAATCAAA----TTGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCAC 11500 ||||| |||| |||||||||| | ||||||||||| ||||||||||||||||||||| Sbjct 17660770 AAAAAACAAAATTGTTGGCCCATGCAGGGATCGAACCTGCGACCTTCGCGTTATTAGCAC 17660711 Query 11501 GACGCTCTRACCAACTGAGCTAATGGGCC 11529 |||||||| |||| |||||||||| |||| Sbjct 17660710 GACGCTCTAACCAGCTGAGCTAATAGGCC 17660682 Score = 109 bits (120), Expect = 3e-19 Identities = 74/84 (88%), Gaps = 0/84 (0%) Strand=Plus/Minus Query 11448 AATCAAATTGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGCTC 11507 || |||| ||||||||| | | |||||| | |||||||||||||||||||||||||||| Sbjct 55267111 AAACAAAGTGGCCCATGCAGGTCTCGAACTTGCGACCTTCGCGTTATTAGCACGACGCTC 55267052 Query 11508 TRACCAACTGAGCTAATGGGCCGT 11531 | ||||||||||||||| |||||| Sbjct 55267051 TAACCAACTGAGCTAATAGGCCGT 55267028 Score = 107 bits (118), Expect = 1e-18 Identities = 70/78 (90%), Gaps = 0/78 (0%) Strand=Plus/Minus Query 11452 AAATTGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGCTCTRAC 11511 ||| ||||||||| | | |||||||| ||||||||||||||||||||||||||||| || Sbjct 55264963 AAAATGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAAC 55264904 Query 11512 CAACTGAGCTAATGGGCC 11529 ||||||||||||| |||| Sbjct 55264903 CAACTGAGCTAATAGGCC 55264886 Score = 105 bits (116), Expect = 3e-18 Identities = 69/77 (90%), Gaps = 0/77 (0%) Strand=Plus/Minus Query 11453 AATTGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGCTCTRACC 11512 || ||||||||| | | |||||||| ||||||||||||||||||||||||||||| ||| Sbjct 6408756 AAATGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACC 6408697 Query 11513 AACTGAGCTAATGGGCC 11529 |||||||||||| |||| Sbjct 6408696 AACTGAGCTAATAGGCC 6408680 >seq9 Length=70713020 Score = 113 bits (124), Expect = 2e-20 Identities = 75/84 (89%), Gaps = 0/84 (0%) Strand=Plus/Minus Query 11446 AAAATCAAATTGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGC 11505 ||||| | ||||||||||| | | |||||||| |||||||||||||||||||||||||| Sbjct 28509447 AAAATAAGATTGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGC 28509388 Query 11506 TCTRACCAACTGAGCTAATGGGCC 11529 ||| ||||||||||||||| |||| Sbjct 28509387 TCTAACCAACTGAGCTAATAGGCC 28509364 Score = 111 bits (122), Expect = 8e-20 Identities = 83/98 (85%), Gaps = 5/98 (5%) Strand=Plus/Minus Query 11437 AATTAATAAAAAATCAAAT-----TGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGT 11491 || ||| ||||||| |||| ||||||||| | | |||||||| |||||||||||| Sbjct 27313590 AAGTAAAAAAAAATGAAATACTAATGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGT 27313531 Query 11492 TATTAGCACGACGCTCTRACCAACTGAGCTAATGGGCC 11529 ||||||||||||||||| ||||||||||||||| |||| Sbjct 27313530 TATTAGCACGACGCTCTAACCAACTGAGCTAATAGGCC 27313493 Score = 109 bits (120), Expect = 3e-19 Identities = 71/79 (90%), Gaps = 0/79 (0%) Strand=Plus/Plus Query 11456 TGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGCTCTRACCAAC 11515 ||||||||| | | |||||||| ||||||||||||||||||||||||||||| |||| | Sbjct 27383892 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGC 27383951 Query 11516 TGAGCTAATGGGCCGTCGA 11534 ||||||||| ||||||||| Sbjct 27383952 TGAGCTAATAGGCCGTCGA 27383970 Score = 105 bits (116), Expect = 3e-18 Identities = 71/80 (89%), Gaps = 0/80 (0%) Strand=Plus/Plus Query 11455 TTGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGCTCTRACCAA 11514 |||||||||| | | |||||||| ||||||||||||||||||||||||||||| |||| Sbjct 27383400 TTGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAG 27383459 Query 11515 CTGAGCTAATGGGCCGTCGA 11534 |||||||||| |||||| || Sbjct 27383460 CTGAGCTAATAGGCCGTTGA 27383479 Score = 104 bits (114), Expect = 1e-17 Identities = 70/79 (89%), Gaps = 0/79 (0%) Strand=Plus/Minus Query 11456 TGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGCTCTRACCAAC 11515 ||||||||| | | |||||||| ||||||||||||||||||||||||||||| |||| | Sbjct 27313257 TGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGC 27313198 Query 11516 TGAGCTAATGGGCCGTCGA 11534 ||||||||| |||||| || Sbjct 27313197 TGAGCTAATAGGCCGTTGA 27313179 Score = 104 bits (114), Expect = 1e-17 Identities = 70/79 (89%), Gaps = 0/79 (0%) Strand=Plus/Plus Query 11456 TGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGCTCTRACCAAC 11515 ||||||||| | | |||||||| ||||||||||||||||||||||||||||| |||| | Sbjct 27383563 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGC 27383622 Query 11516 TGAGCTAATGGGCCGTCGA 11534 ||||||||| |||||| || Sbjct 27383623 TGAGCTAATAGGCCGTTGA 27383641 Score = 104 bits (114), Expect = 1e-17 Identities = 70/79 (89%), Gaps = 0/79 (0%) Strand=Plus/Plus Query 11456 TGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGCTCTRACCAAC 11515 ||||||||| | | |||||||| ||||||||||||||||||||| ||||||| |||| | Sbjct 27384059 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACAACGCTCTAACCAGC 27384118 Query 11516 TGAGCTAATGGGCCGTCGA 11534 ||||||||| ||||||||| Sbjct 27384119 TGAGCTAATAGGCCGTCGA 27384137 Score = 104 bits (114), Expect = 1e-17 Identities = 70/79 (89%), Gaps = 0/79 (0%) Strand=Plus/Minus Query 11456 TGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGCTCTRACCAAC 11515 ||||||||| | | |||||||| ||||||||||||||||||||||||||||| |||| | Sbjct 29255223 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGC 29255164 Query 11516 TGAGCTAATGGGCCGTCGA 11534 ||||||||| |||||| || Sbjct 29255163 TGAGCTAATAGGCCGTTGA 29255145 Score = 102 bits (112), Expect = 4e-17 Identities = 78/93 (84%), Gaps = 4/93 (4%) Strand=Plus/Minus Query 11456 TGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGCTCTRACCAAC 11515 ||||||||| | | |||||||| ||||||||||||||||||||||||||||| |||| | Sbjct 27313412 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGC 27313353 Query 11516 TGAGCTAATGGGCCGTCGACGATTGTGATTTTT 11548 ||||||||| |||| | | |||| |||||| Sbjct 27313352 TGAGCTAATAGGCCTTTG----TTGTCATTTTT 27313324 Score = 102 bits (112), Expect = 4e-17 Identities = 67/75 (89%), Gaps = 0/75 (0%) Strand=Plus/Plus Query 11456 TGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGCTCTRACCAAC 11515 ||||||||| | | |||||||| ||||||||||||||||||||||||||||| |||| | Sbjct 27383725 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGC 27383784 Query 11516 TGAGCTAATGGGCCG 11530 ||||||||| ||||| Sbjct 27383785 TGAGCTAATAGGCCG 27383799 Score = 102 bits (112), Expect = 4e-17 Identities = 86/106 (81%), Gaps = 3/106 (3%) Strand=Plus/Plus Query 11429 AAATATAGAATTAATAAAAAATCAAATT---GGCCCATGAAAGGATCGAACCTTCGACCT 11485 ||| | | ||| || ||||||| ||| |||||||| | | |||||||| ||||| Sbjct 27384365 AAACAAAAAATAAAGAAAAAATACCATTAATGGCCCATGCAGGTTTCGAACCTGTGACCT 27384424 Query 11486 TCGCGTTATTAGCACGACGCTCTRACCAACTGAGCTAATGGGCCGT 11531 ||||||||||||||||||||||| |||| |||||||||| |||||| Sbjct 27384425 TCGCGTTATTAGCACGACGCTCTAACCAGCTGAGCTAATAGGCCGT 27384470 Score = 93.3 bits (102), Expect = 2e-14 Identities = 72/86 (84%), Gaps = 4/86 (5%) Strand=Plus/Plus Query 11453 AATTGGCCCATGAAAGGATCGAACC----TTCGACCTTCGCGTTATTAGCACGACGCTCT 11508 || ||||||||| | | ||||||| | ||||||||||||||||||||||||||||| Sbjct 27384223 AAATGGCCCATGCAGGTCTCGAACCGACCTGCGACCTTCGCGTTATTAGCACGACGCTCT 27384282 Query 11509 RACCAACTGAGCTAATGGGCCGTCGA 11534 |||| |||||||||| |||||| || Sbjct 27384283 AACCAGCTGAGCTAATAGGCCGTTGA 27384308 >seq12 Length=35429946 Score = 109 bits (120), Expect = 3e-19 Identities = 77/89 (87%), Gaps = 0/89 (0%) Strand=Plus/Plus Query 11441 AATAAAAAATCAAATTGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCAC 11500 || || |||| | | ||||||||| | | |||||||| ||||||||||||||||||||| Sbjct 5782166 AAAAACAAATAACAGTGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCAC 5782225 Query 11501 GACGCTCTRACCAACTGAGCTAATGGGCC 11529 |||||||| ||||||||||||||| |||| Sbjct 5782226 GACGCTCTAACCAACTGAGCTAATAGGCC 5782254 >seq4 Length=62178258 Score = 107 bits (118), Expect = 1e-18 Identities = 79/92 (86%), Gaps = 3/92 (3%) Strand=Plus/Plus Query 11441 AATAAAAAATCAAAT---TGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAG 11497 || ||||| | |||| ||||||||| | | |||||||| |||||||||||||||||| Sbjct 6336446 AAGAAAAATTAAAATAGATGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAG 6336505 Query 11498 CACGACGCTCTRACCAACTGAGCTAATGGGCC 11529 ||||||||||| ||||||||||||||| |||| Sbjct 6336506 CACGACGCTCTAACCAACTGAGCTAATAGGCC 6336537 Score = 107 bits (118), Expect = 1e-18 Identities = 78/90 (87%), Gaps = 2/90 (2%) Strand=Plus/Minus Query 11440 TAATAAAAAATCAAATTGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCA 11499 ||||| ||| ||| ||||||||| | | |||||||| |||||||||||||||||||| Sbjct 21360785 TAATACAAATGCAA--TGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCA 21360728 Query 11500 CGACGCTCTRACCAACTGAGCTAATGGGCC 11529 ||||||||| ||||||||||||||| |||| Sbjct 21360727 CGACGCTCTAACCAACTGAGCTAATAGGCC 21360698 >seq7 Length=60982465 Score = 105 bits (116), Expect = 3e-18 Identities = 77/89 (87%), Gaps = 1/89 (1%) Strand=Plus/Plus Query 11442 ATAAAA-AATCAAATTGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCAC 11500 |||||| ||| | | ||||||||| | | |||||||| ||||||||||||||||||||| Sbjct 21858565 ATAAAATAATGATAATGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCAC 21858624 Query 11501 GACGCTCTRACCAACTGAGCTAATGGGCC 11529 |||||||| |||| |||||||||| |||| Sbjct 21858625 GACGCTCTAACCAGCTGAGCTAATAGGCC 21858653 Score = 104 bits (114), Expect = 1e-17 Identities = 67/74 (91%), Gaps = 0/74 (0%) Strand=Plus/Minus Query 11456 TGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGCTCTRACCAAC 11515 ||||||||| | | |||||||| ||||||||||||||||||||||||||||| |||||| Sbjct 18920562 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAAC 18920503 Query 11516 TGAGCTAATGGGCC 11529 ||||||||| |||| Sbjct 18920502 TGAGCTAATAGGCC 18920489 >seq6 Length=51074515 Score = 104 bits (114), Expect = 1e-17 Identities = 67/74 (91%), Gaps = 0/74 (0%) Strand=Plus/Minus Query 11456 TGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGCTCTRACCAAC 11515 ||||||||| | | |||||||| ||||||||||||||||||||||||||||| |||||| Sbjct 48356308 TGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAAC 48356249 Query 11516 TGAGCTAATGGGCC 11529 ||||||||| |||| Sbjct 48356248 TGAGCTAATAGGCC 48356235 >seq2 Length=62769430 Score = 102 bits (112), Expect = 4e-17 Identities = 85/101 (84%), Gaps = 4/101 (4%) Strand=Plus/Minus Query 11446 AAAATCAAATTGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGC 11505 |||| ||| ||||||||| | | |||||||| |||||||||||||||||||||||||| Sbjct 13179129 AAAAACAA--TGGCCCATGCAGGTTTCGAACCTGCGACCTTCGCGTTATTAGCACGACGC 13179072 Query 11506 TCTRACCAACTGAGCTAATGGGCC-GTCGACGATTGTGATT 11545 ||| |||| |||||||||| |||| || ||| ||||| || Sbjct 13179071 TCTAACCAGCTGAGCTAATAGGCCAGTTGAC-CTTGTGCTT 13179032 >seq3 Length=45765648 Score = 100 bits (110), Expect = 1e-16 Identities = 70/79 (89%), Gaps = 1/79 (1%) Strand=Plus/Plus Query 11452 AAAT-TGGCCCATGAAAGGATCGAACCTTCGACCTTCGCGTTATTAGCACGACGCTCTRA 11510 |||| ||||||||| | | |||||||| ||||||||||||||||||||||||||||| | Sbjct 10983768 AAATATGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAA 10983827 Query 11511 CCAACTGAGCTAATGGGCC 11529 ||| |||||||||| |||| Sbjct 10983828 CCAGCTGAGCTAATAGGCC 10983846 Lambda K H 0.638 0.409 0.919 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 261487904720584