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_20hirsutum_20[refseq_20GCF_5F000987745.1_202015-05-05] 9,148 sequences; 2,189,140,010 total letters Query= NC_031026.1 Length=49167 Score E Sequences producing significant alignments: (Bits) Value seq5259 1099 0.0 seq9 374 3e-99 seq12 105 2e-18 seq1 104 7e-18 >seq5259 Length=4105 Score = 1099 bits (1218), Expect = 0.0 Identities = 754/845 (89%), Gaps = 14/845 (2%) Strand=Plus/Minus Query 29457 GCGTCCATTGCAGCCGTACCAGTGCGATATAAAGCCATAATTTCACCTCATAGCATTTTT 29516 || ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 1300 GCATCCATTGTAGCCGTACCAGTGCGATATAAAGCCATAATTTCACCTCATAGCATTTTT 1241 Query 29517 TGTTAAAA-TAGGTCATGTAATTATGCTACAGCCATTTGTTACATGCAATAAAAAACCCC 29575 |||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 1240 TGTTAAAAATAGGTCATGTAATTATGCTACAGCCATTTGTTACATGCAATAAAAAACCCC 1181 Query 29576 GCCGAAGCGGGGCATCGTTAACGACAACGAGAAGTCAA--TGAAACAGATTCATCGAAAA 29633 || |||||| | ||||||||| |||| |||| || || || || | | ||| Sbjct 1180 GCAATTGCGGGGTAATGTTAACGACGACGAAAAGTAAACTTG---CATAT--AACAGAAA 1126 Query 29634 GTGTTAGTAGCAGG-----ATGAA-TATTATAATAAGTCACTTGCCTTGTAAAGCCTCCG 29687 |||| || || || || ||||||| |||||| ||||| ||||||||||||| Sbjct 1125 GTGTAAGGGTCAACCAACAATAAAATATTATAGTAAGTCGCTTGCTTTGTAAAGCCTCCT 1066 Query 29688 CTCTATTCCATTTTTGAATTTACCGTTAATTGGTAACATTACGTCTAATTCCCTTTCATC 29747 ||||||||||||||||||||||||||||| ||||||||||||||||||||| | ||||| Sbjct 1065 CTCTATTCCATTTTTGAATTTACCGTTAACTGGTAACATTACGTCTAATTCTCGATCATC 1006 Query 29748 GGCTGCAATAATAGTTTCCTTGTCATCCTTATGGCAAACAACGCGCATTTTGCGATCTCC 29807 ||| ||||| | ||| || |||| |||||| |||||||||||||| |||||||| Sbjct 1005 GGCAGCAATCAAAGTATCGCGATCATTAGCATGGCACACAACGCGCATTTTACGATCTCC 946 Query 29808 TTTGTACCTGTATGCGACGATTTCAAGATTTGATGCAGAGAAGCAAGCCCATACTTCTTG 29867 |||||| ||||||| || |||||||||||||| | ||||| || |||||||||||||| Sbjct 945 TTTGTATCTGTATGAAACAATTTCAAGATTTGAAGGTGAGAAACACGCCCATACTTCTTG 886 Query 29868 TCCCGTAGCTAGGTGGATATGTTGCGCATCAATCCAATCAACGCAAAGGTAAATTGTTTT 29927 ||||| || ||||| |||||||||||||||||||||||||||||||||||||||||||| Sbjct 885 ACCCGTCGCCAGGTGTATATGTTGCGCATCAATCCAATCAACGCAAAGGTAAATTGTTTT 826 Query 29928 GTCAGTCTTGCCAGTTACCGCAACGGAGCCGCGCGTGTAATCCTTAGCGTAAAAACTGCT 29987 ||||||||||||||||||||||||| |||||||||||||| || |||||||||||||| Sbjct 825 GTCAGTCTTGCCAGTTACCGCAACGCTTCCGCGCGTGTAATCTTTCGCGTAAAAACTGCT 766 Query 29988 TTGACCTTCCTCATTGACGAAAAGAATATTACACATTTCATCATCCAGTTCATCGCTATG 30047 || ||||||||||||||||||||||||||| ||||| |||||||||| |||||| ||||| Sbjct 765 TTTACCTTCCTCATTGACGAAAAGAATATTGCACATATCATCATCCAATTCATCACTATG 706 Query 30048 CACCAAGTGGCAAGGAATTGCGTGTATATGCTCGCAATATCCATTGTCATGAGTTTTTAC 30107 ||||| |||||||| || ||||||||||||||||||||||||||||||||||||||||| Sbjct 705 CACCATGTGGCAAGTGATAGCGTGTATATGCTCGCAATATCCATTGTCATGAGTTTTTAC 646 Query 30108 TCCAACTTGATACGATTCGCCGTCTAATGGATAAAACGCCTCAAAAACGCTTAGATTTGT 30167 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 645 GCCAACTTGATACGATTCGCCGTCTAATGGATAAAACGCCTCAAAAACGCTTAGATTTGT 586 Query 30168 TATTTCCATGCGTTCAGTTTTATCCATCACCTCAACACATTTTTCATGTGGTGCTTGCGA 30227 |||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||| Sbjct 585 TATTTCCATGCGTTCAGTTTTATCCATCACCTCAACACATTTTTCATGAGGTGCTTGCGA 526 Query 30228 TCCGAAATTGTAACCTGAGTCACGTTTTGCCGCTTTGTTGGCCTTGTTGACAACCTCAAC 30287 ||||||||||||||| ||||||||||||||||||||||| |||||||||||||||||||| Sbjct 525 TCCGAAATTGTAACCGGAGTCACGTTTTGCCGCTTTGTTAGCCTTGTTGACAACCTCAAC 466 Query 30288 CGGAA 30292 |||| Sbjct 465 GGGAA 461 Score = 605 bits (670), Expect = 9e-169 Identities = 349/358 (97%), Gaps = 0/358 (0%) Strand=Plus/Minus Query 30349 ATGCGCATGAATAATCCGATCCCTGAATCATTCCCGCATTGGTTGCAAATGTTTCCGCCG 30408 || |||||||| |||||||||||||||||||| ||||| ||||||||||||||||||||| Sbjct 358 ATACGCATGAACAATCCGATCCCTGAATCATTGCCGCACTGGTTGCAAATGTTTCCGCCG 299 Query 30409 TCGCCTTTCTCGTTGATTTTGTCAGTCCAACGAAAGCGATCTTTACCGCCGCAATAAGGG 30468 ||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||| Sbjct 298 TCGCCTTTCTCGTTGATTTTGTCAGTCCAGCGAAAGCGATCTTTACCGCCGCAATAAGGG 239 Query 30469 CAAGGCTGATGCTTTCCGTTAAAGGTTAATTGAGGAATATCGCAAAGTTTCATCAATGCC 30528 |||||||| || ||||||||||||||||||||||||||||||||||||||||| |||||| Sbjct 238 CAAGGCTGGTGTTTTCCGTTAAAGGTTAATTGAGGAATATCGCAAAGTTTCATTAATGCC 179 Query 30529 GCTTGCCACATGCCGCGCATCTTTGGGATCACTTCTTCTTTTTGATAATGCATTTCTCAA 30588 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 178 GCTTGCCACATGCCGCGCATCTTTGGGATCACTTCTTCTTTTTGATAATGCATTTCTCAA 119 Query 30589 CCTCCAAATAAAAAACCTGGCACGATGATAAACCATGCCAGGCCGGAATTTTTAGCAATC 30648 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 118 CCTCCAAATAAAAAACCTGGCACGATGATAAACCATGCCAGGCCGGAATTTTTAGCAATC 59 Query 30649 GGTGCTATCGACGGAAATCACAACGCGTTTCTTCTGATTGGCTTCCTTTGCTTTGCGC 30706 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 58 AGTGCTATCGACGGAAATCACAACGCGTTTCTTCTGATTGGCTTCCTTTGCTTTGCGC 1 Score = 572 bits (634), Expect = 5e-159 Identities = 498/619 (80%), Gaps = 4/619 (1%) Strand=Plus/Minus Query 26472 AAGGCTCGCGGTTTTAATCCGGCAGCGCCAGCGGCTAATGTTGCGAAGAAGGAAAATGTT 26531 ||||||| || || |||||||| | ||||||||||||||||| ||||| ||||| ||| Sbjct 4048 AAGGCTCTTGGCTTCAATCCGGCTGAACCAGCGGCTAATGTTGCAAAGAATGAAAAGGTT 3989 Query 26532 GAAAACGAGCCGCAACAGGAAGTAAAATCTCAATCTATCACAGACTTTGAATAAATTAAC 26591 ||||| || |||||||||||||||||||| || ||||||| |||||||||||| ||| Sbjct 3988 GAAAAGGAACCGCAACAGGAAGTAAAATCACAGCCTATCACTGACTTTGAATAA--TAAT 3931 Query 26592 GTGGGGCG-GTAACGCCCCAATAAGGATTAATAATGCACGTAATCACCGGAGAAATTCGC 26650 || || | |||| ||| | ||||||| |||||||||||| ||||| || ||||||||| Sbjct 3930 TTGCGGGGCGTAATGCCACGATAAGGAAAAATAATGCACGTTATCACTGGTGAAATTCGC 3871 Query 26651 AAAGAGCCATTTGTAAAGCAAGGCGCAAACGGCACATTATACATCGTTGAGCTTTCGGAG 26710 |||||||| | ||| ||||||||||||||||| || |||||||||||||| | |||| Sbjct 3870 AAAGAGCCTTATGTTAAGCAAGGCGCAAACGGAACTTTATACATCGTTGAATTAGCGGAA 3811 Query 26711 TCATTTAAAGATCGTGAAGGTAATCGACAATACACCAATTACAAATTCTTCTTTAATGCT 26770 || | ||||||||| ||||||||||||||||||||||||||||| || ||||||||||| Sbjct 3810 TCGTATAAAGATCGCGAAGGTAATCGACAATACACCAATTACAAGTTTTTCTTTAATGCC 3751 Query 26771 AAAAGCGACGGCATGAATAATTGGTATCGTGAAGCATTTCAGCAGGGTAAAGTTATTTCT 26830 ||||||||||| |||||||| ||||||| || || || ||| ||||||||| || Sbjct 3750 AAAAGCGACGGAATGAATAAATGGTATCTCGATGCGTTCCAGGTCGGTAAAGTTGTTCTA 3691 Query 26831 GTATCATGCGATCAGTTACGCATTGATAGCCAGGAATACAACGGGCAGATTTATAACACA 26890 || || |||||||||||||||||||||||| | || |||||||| || ||||||||||| Sbjct 3690 GTGTCTTGCGATCAGTTACGCATTGATAGCAATGAGTACAACGGACAAATTTATAACACG 3631 Query 26891 TTGACGGCGGCGGGCTTTCCTAATCTTTTATTCAGTCAACGCGGAGAAGGGCAAGCGCCA 26950 | || || || ||| |||| || ||| || || ||||| ||||| ||||| ||| Sbjct 3630 CTAACAAGTGCTGGATTTGCTAACCTGCAATTTAGCCAGCGCGGGGAAGGTCAAGCACCA 3571 Query 26951 CAACAGCAGCAACCTCGNNNNNNNNNNNNATCGCCACGCCAGCAAGCGCCTCAAAACAAC 27010 || || || | ||||| | ||| | ||| |||||| |||||||| Sbjct 3570 CAGCAACAACGACCTCCTCAGCAACAGCGACAGCCGCAACAGAAAGCGCAACAAAACAAT 3511 Query 27011 GAGCCGCCTATGGATTTTGATGATGATATCCCATTCTGATAAAAGAAAAGGAGCCGAAAG 27070 |||||||| |||||||| ||||||||||| ||||||||||||||||||||||||| || Sbjct 3510 GAGCCGCCAATGGATTTCGATGATGATATTCCATTCTGATAAAAGAAAAGGAGCCTTTAG 3451 Query 27071 GCTCCTTTTTTATTACTTA 27089 ||||| ||||||||||||| Sbjct 3450 GCTCC-TTTTTATTACTTA 3433 Score = 533 bits (590), Expect = 5e-147 Identities = 334/360 (93%), Gaps = 0/360 (0%) Strand=Plus/Minus Query 29094 TCCGTTTTTTGTGCGGAAGACTCAGCGCGAGCAACAAGATCCTGTAATGTTTTAAGGTCA 29153 ||||||||||| ||||||| |||||||| ||||| |||||||||||| |||||||| | Sbjct 1747 TCCGTTTTTTGAGCGGAAGCCTCAGCGCTAGCAATAAGATCCTGTAACTGTTTAAGGTAA 1688 Query 29154 AAGTTTTTGAAGAATTCAATTGCTTCCTCAATAACCGTTTCTTTACTTTGGTAATATCTC 29213 |||||||||||||||||||||||||||||||| | | |||||| |||||||| || | | Sbjct 1687 AAGTTTTTGAAGAATTCAATTGCTTCCTCAATTCCAGGTTCTTTGCTTTGGTAGTAACGC 1628 Query 29214 AGCGTTTCCGCTACATCTTGCGCCATTCCATCGACAGTTAGCGAGTCATTCAACAGGATT 29273 || |||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 1627 AGAGTTTCCGCTACATCTTGCGCCATTCCATCGACAGTTAGCGAGTCATTCAACAGGATC 1568 Query 29274 ACATAATTTCCGTTTGCTACTGGCTCGCCGTCAGTCTGGATCGCTTTCATTTCCGTGTCG 29333 ||||||||| ||||| ||||||||||||||||||||||||||||||||||||| || ||| Sbjct 1567 ACATAATTTACGTTTTCTACTGGCTCGCCGTCAGTCTGGATCGCTTTCATTTCTGTATCG 1508 Query 29334 CTTACAATATCGCTGATAACCGCCAGCTTTAAAGGCGTGGTTaaaaaaaCGATTGTTGCG 29393 |||||||||||||||||||||||||| |||||||| ||||||||||| |||||||||||| Sbjct 1507 CTTACAATATCGCTGATAACCGCCAGTTTTAAAGGAGTGGTTAAAAATACGATTGTTGCG 1448 Query 29394 CCAGTGCGAATAAGAGAAAGCGGCTCACGCCATTTTGTGCCAGTACCAGTGATAACGCCT 29453 |||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||| Sbjct 1447 CCAGTGCGAATAAGAGAAAGCGGCTCACGCCATTTTGTGCCAGTACCAGTGATAACACCT 1388 Score = 217 bits (240), Expect = 5e-52 Identities = 135/145 (93%), Gaps = 0/145 (0%) Strand=Plus/Minus Query 29051 TTGCGTGTCGTTTTTTAATTGCTCAGTTGCGGCGCGATCTGCATCCGTTTTTTGTGCGGA 29110 |||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||| Sbjct 1891 TTGCGTGTCGTTTTTTAATTGCTCAGTTGCGGCGCGATCTGCATCCGTTTTTTGAGCGGA 1832 Query 29111 AGACTCAGCGCGAGCAACAAGATCCTGTAATGTTTTAAGGTCAAAGTTTTTGAAGAATTC 29170 || |||||||| ||||| |||||||||||| |||||||| |||||||||||||||||| Sbjct 1831 AGCCTCAGCGCTAGCAATAAGATCCTGTAACTGTTTAAGGTAAAAGTTTTTGAAGAATTC 1772 Query 29171 AATTGCTTCCTCAATAACCGTTTCT 29195 ||||||||||||||| || |||||| Sbjct 1771 AATTGCTTCCTCAATTACAGTTTCT 1747 Score = 158 bits (174), Expect = 4e-34 Identities = 219/303 (72%), Gaps = 8/303 (3%) Strand=Plus/Minus Query 28676 ATCTTTATTAGCAAGATCATTAAGATTCTGATCCTTATGCAGAAGGTTTTCAGGGTTAAC 28735 ||| ||||| | || ||||||||| || ||||| |||| ||| | |||||||||||||| Sbjct 2200 ATCCTTATTTGGAACATCATTAAGGTTTTGATCTTTATTCAGTAAGTTTTCAGGGTTAAT 2141 Query 28736 TTGTTGTGCCCATTGGCGAGCTTCATCACGCGCAGTTTCAGCGCCTTGTTTAGCGTTTCC 28795 ||||| ||||||||| ||||||||||||||||||||||||| || || ||||| Sbjct 2140 CTGTTGCGCCCATTGGTGAGCTTCATCACGCGCAGTTTCAGCACCAGACTTTGCGTTATT 2081 Query 28796 GGCTGCAAC-GTTTGATTGTTCAGCGGCAAGTTGTG---ATTCCTTTGCTGCATCGCTAG 28851 ||| | | | ||||| |||||| ||| | | |||| || ||||| || Sbjct 2080 GGCATTAGCTGCATGATT-TTCAGCCGCATCACGCGCCAATTC---AGCCTGATCGCGAG 2025 Query 28852 CATTAACAGCCTCGTTTTTAATTGATCCAATTTCAGCAACGGCGCTATCTTTTATTTGTT 28911 | ||| | |||| | |||||| | | | |||| | || || |||||| || | || Sbjct 2024 CGCTAAAAACCTCTTGTTTAATGGCTTCCGTTTCTGTTACTGCTGAATCTTTAATATTTT 1965 Query 28912 GCGTCTGCGTTTTTATTGCGTCAGTGTCCGCCTTTATCTGATTGGTTTCATAAACAGCAG 28971 |||| || |||| |||||| ||||| |||| ||||| | ||||||| |||||| | Sbjct 1964 GCGTTTGGTTTTTAATTGCGCTCGTGTCTTCCTTAATCTGTTGCGTTTCATTAACAGCGG 1905 Query 28972 CAT 28974 ||| Sbjct 1904 CAT 1902 >seq9 Length=117247901 Score = 374 bits (414), Expect = 3e-99 Identities = 218/225 (97%), Gaps = 0/225 (0%) Strand=Plus/Plus Query 41279 ATTTCAGGAAAGTGAGGATGTTTATCATCTTCCGGCAACAGACCTCCAAACGCGCAAGGA 41338 |||||||||||||||||||||||||||||||||||||||||||| ||||| ||||||||| Sbjct 108216539 ATTTCAGGAAAGTGAGGATGTTTATCATCTTCCGGCAACAGACCGCCAAATGCGCAAGGA 108216598 Query 41339 TGAAAGATAAAATCAGGTTGCCGCCACATTGACGACAGAACACTAACAGGATTCTCAATC 41398 |||||||||||||||||||||| |||||| |||||||| || |||||||||||||| ||| Sbjct 108216599 TGAAAGATAAAATCAGGTTGCCTCCACATCGACGACAGGACGCTAACAGGATTCTCGATC 108216658 Query 41399 ATGTATGGAACGTTAAACCGATCCGCAATATTGGCAGCAATCTTTGCCGTTTCAACCGCC 41458 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 108216659 ATGTATGGAACGTTAAACCGATCCGCAATATTGGCAGCAATCTTTGCCGTTTCAACCGCC 108216718 Query 41459 TTTTTCTGGAAGTCTGGATCACGTTCACGCTTTGCTGCAAAGTGA 41503 ||||||||||||||||||||||||||||||||||||||||||||| Sbjct 108216719 TTTTTCTGGAAGTCTGGATCACGTTCACGCTTTGCTGCAAAGTGA 108216763 >seq12 Length=102570143 Score = 105 bits (116), Expect = 2e-18 Identities = 62/63 (98%), Gaps = 1/63 (2%) Strand=Plus/Plus Query 43119 CGAAGTTAGTAGTTGTTTT-TGATACCATCATTTTAAAATTCTCCGGTTCGTTTCGATGA 43177 ||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||| Sbjct 98861689 CGAAGTTAGTAGTTGTTTTTTGATACCATCATTTTAAAATTCTCCGGTTCGTTTCGATGA 98861748 Query 43178 ATG 43180 ||| Sbjct 98861749 ATG 98861751 >seq1 Length=92291805 Score = 104 bits (114), Expect = 7e-18 Identities = 60/62 (97%), Gaps = 0/62 (0%) Strand=Plus/Minus Query 43555 CCTGGCGCGTATAACCGATCTCCATCTTCAGTTATGCAAAGACAAAGTGCAAGGCCGCGA 43614 ||||||||||||||||| ||||||||||||||||||||||||||||| |||||||||||| Sbjct 25804125 CCTGGCGCGTATAACCGCTCTCCATCTTCAGTTATGCAAAGACAAAGGGCAAGGCCGCGA 25804066 Query 43615 TT 43616 || Sbjct 25804065 TT 25804064 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 157195721580504