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_027350.1 Length=49816 Score E Sequences producing significant alignments: (Bits) Value seq5259 1131 0.0 seq9 365 1e-96 seq12 105 2e-18 seq1 104 7e-18 >seq5259 Length=4105 Score = 1131 bits (1254), Expect = 0.0 Identities = 762/845 (90%), Gaps = 19/845 (2%) Strand=Plus/Minus Query 25258 GCGTCCATTGCAGCCGTACCAGTTCGATATAAAGCCATAATTACACCTCATTTTATTCAT 25317 || ||||||| |||||||||||| |||||||||||||||||| |||||||| ||| | Sbjct 1300 GCATCCATTGTAGCCGTACCAGTGCGATATAAAGCCATAATTTCACCTCATAGCATTTTT 1241 Query 25318 TG----AAACAGTGTA-GTGATTATGCGATATTGCTATGTTACATGCAATAAAAAACCCC 25372 || ||| || | || ||||||| | | | ||||||||||||||||||||||| Sbjct 1240 TGTTAAAAATAGGTCATGTAATTATGCTACAGCCATTTGTTACATGCAATAAAAAACCCC 1181 Query 25373 GCCTTAGCGGGGTTC-GTCAACGACAACGAGAAGCCAA--TGAAACAGATTCATCGAAAA 25429 || | ||||||| || |||||| |||| ||| || || || || | | ||| Sbjct 1180 GCAATTGCGGGGTAATGTTAACGACGACGAAAAGTAAACTTG---CATAT--AACAGAAA 1126 Query 25430 GTGTTAGTAGCAGG-----ATGAA-TATTATAATAAGTCACTTGCCTTGTAAAGCCTCCG 25483 |||| || || || || ||||||| |||||| ||||| ||||||||||||| Sbjct 1125 GTGTAAGGGTCAACCAACAATAAAATATTATAGTAAGTCGCTTGCTTTGTAAAGCCTCCT 1066 Query 25484 CTCTATTCCATTTTTGAATTTACCGTTAATTGGTAGCATTACGTCTAATTCGCGATCATC 25543 ||||||||||||||||||||||||||||| ||||| ||||||||||||||| |||||||| Sbjct 1065 CTCTATTCCATTTTTGAATTTACCGTTAACTGGTAACATTACGTCTAATTCTCGATCATC 1006 Query 25544 AGCAGAAATCAAAGTATCGCGATCATTAGCATGGCACACAACGCGCATTTTGCGATCTCC 25603 |||| ||||||||||||||||||||||||||||||||||||||||||||| |||||||| Sbjct 1005 GGCAGCAATCAAAGTATCGCGATCATTAGCATGGCACACAACGCGCATTTTACGATCTCC 946 Query 25604 TTTGTATCTGTATGCAACAATTTCAAGATTTGAAGGCGAGAAACACGCCCATACTTCTTG 25663 |||||||||||||| ||||||||||||||||||||| ||||||||||||||||||||||| Sbjct 945 TTTGTATCTGTATGAAACAATTTCAAGATTTGAAGGTGAGAAACACGCCCATACTTCTTG 886 Query 25664 CCCCGTCGCCAGGTGTATATGTTGCGCATCAATCCAATCAACGCAAAGGTAAATTGTTTT 25723 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 885 ACCCGTCGCCAGGTGTATATGTTGCGCATCAATCCAATCAACGCAAAGGTAAATTGTTTT 826 Query 25724 GTCAGTCTTGCCAGTTACCGCAACGCTTCCACGCGTGTAATCTTTCGCGTAAAAACTGCT 25783 |||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||| Sbjct 825 GTCAGTCTTGCCAGTTACCGCAACGCTTCCGCGCGTGTAATCTTTCGCGTAAAAACTGCT 766 Query 25784 TTTACCTTCCTCATTGACGAAAAGAATATTGCACATGTCATCATCCAATTCATCACTATG 25843 |||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||| Sbjct 765 TTTACCTTCCTCATTGACGAAAAGAATATTGCACATATCATCATCCAATTCATCACTATG 706 Query 25844 CACCAGGTGGCAAGGAATAGCGTGTATATGCTCGCAATATCCATTTTCATGAGTTTTTAC 25903 ||||| |||||||| ||||||||||||||||||||||||||||| |||||||||||||| Sbjct 705 CACCATGTGGCAAGTGATAGCGTGTATATGCTCGCAATATCCATTGTCATGAGTTTTTAC 646 Query 25904 GCCAACTTGATACGATTCGCCGTCTAATGGATAAAACGCCTCAAAAACGCTTAGATTTGT 25963 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 645 GCCAACTTGATACGATTCGCCGTCTAATGGATAAAACGCCTCAAAAACGCTTAGATTTGT 586 Query 25964 TATTTCCATGCGTTCAGTTTTATCCATAACCTCAACACATTTTTCATGAGTTGCTTGCGA 26023 ||||||||||||||||||||||||||| |||||||||||||||||||||| ||||||||| Sbjct 585 TATTTCCATGCGTTCAGTTTTATCCATCACCTCAACACATTTTTCATGAGGTGCTTGCGA 526 Query 26024 TCCGAAATTGTAACCGGAGTCACGTTTTGCCGCTTTGTTAGCCTTGTTGACAACCTCAAC 26083 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 525 TCCGAAATTGTAACCGGAGTCACGTTTTGCCGCTTTGTTAGCCTTGTTGACAACCTCAAC 466 Query 26084 CGGAA 26088 |||| Sbjct 465 GGGAA 461 Score = 764 bits (846), Expect = 0.0 Identities = 459/483 (95%), Gaps = 0/483 (0%) Strand=Plus/Minus Query 22542 AAGGCTCGCGGCTTTAATCCGGCTGAACCAGCGGCGAATGTTGCAAAGAATGAAAAGGTT 22601 ||||||| ||||| |||||||||||||||||||| |||||||||||||||||||||||| Sbjct 4048 AAGGCTCTTGGCTTCAATCCGGCTGAACCAGCGGCTAATGTTGCAAAGAATGAAAAGGTT 3989 Query 22602 GAAAAGGAACCGCAACAGGAAGTAAAATCACAGTCTATCACTGACTTTGAATAATAATTT 22661 ||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||| Sbjct 3988 GAAAAGGAACCGCAACAGGAAGTAAAATCACAGCCTATCACTGACTTTGAATAATAATTT 3929 Query 22662 GCGGGGCGTAATGCCCCGATAAGGAAAAATAATGCACGTTATCACTGGTGAAATTCGCAA 22721 ||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||| Sbjct 3928 GCGGGGCGTAATGCCACGATAAGGAAAAATAATGCACGTTATCACTGGTGAAATTCGCAA 3869 Query 22722 AGAGCCTTATATTAAGCAGGGCGCAAGCGGAACTTTATACATCGTTGAATTAGCGGAATC 22781 |||||||||| ||||||| ||||||| ||||||||||||||||||||||||||||||||| Sbjct 3868 AGAGCCTTATGTTAAGCAAGGCGCAAACGGAACTTTATACATCGTTGAATTAGCGGAATC 3809 Query 22782 GTATAAAGATCGTGAAGGTAATCGACAATATACGAATTACAAGTTTTTCTTTAATGCCAA 22841 |||||||||||| ||||||||||||||||| || |||||||||||||||||||||||||| Sbjct 3808 GTATAAAGATCGCGAAGGTAATCGACAATACACCAATTACAAGTTTTTCTTTAATGCCAA 3749 Query 22842 AAGCGACGGCATGAATAATTGGTATCGCGATGCGTTCCAGATCGGTAAGGTTGTTTCAGT 22901 ||||||||| |||||||| ||||||| ||||||||||||| ||||||| |||||| ||| Sbjct 3748 AAGCGACGGAATGAATAAATGGTATCTCGATGCGTTCCAGGTCGGTAAAGTTGTTCTAGT 3689 Query 22902 ATCGTGCGATCAGTTACGCATTGATAGCAACGAATACAACGGACAAATTTATAACACGCT 22961 || |||||||||||||||||||||||||| || |||||||||||||||||||||||||| Sbjct 3688 GTCTTGCGATCAGTTACGCATTGATAGCAATGAGTACAACGGACAAATTTATAACACGCT 3629 Query 22962 AACAAGTGCTGGATTTGCTAACCTGCAATTTAGCCAGCGCGGGGAAGGTCAAGCACCACA 23021 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 3628 AACAAGTGCTGGATTTGCTAACCTGCAATTTAGCCAGCGCGGGGAAGGTCAAGCACCACA 3569 Query 23022 ACA 23024 || Sbjct 3568 GCA 3566 Score = 540 bits (598), Expect = 3e-149 Identities = 336/359 (94%), Gaps = 1/359 (0%) Strand=Plus/Minus Query 26145 ATGCGCATGAATAATCCGATCCCTGAATCATTCCCGCATTGGTTGCAAATGTTGCCGCCG 26204 || |||||||| |||||||||||||||||||| ||||| |||||||||||||| |||||| Sbjct 358 ATACGCATGAACAATCCGATCCCTGAATCATTGCCGCACTGGTTGCAAATGTTTCCGCCG 299 Query 26205 TCGCCTTTCTCGTTGATTTTGTCCGTCCATCTGAAACGGTCTTTACCTCCACAATAAGGG 26264 ||||||||||||||||||||||| ||||| | || || |||||||| || ||||||||| Sbjct 298 TCGCCTTTCTCGTTGATTTTGTCAGTCCAGCGAAAGCGATCTTTACCGCCGCAATAAGGG 239 Query 26265 CATGGTTGATGCTTTCCGTTAAAGGTTAATTGAGGAATATCACAAAGTTTCATCAATGCC 26324 || || || || ||||||||||||||||||||||||||||| ||||||||||| |||||| Sbjct 238 CAAGGCTGGTGTTTTCCGTTAAAGGTTAATTGAGGAATATCGCAAAGTTTCATTAATGCC 179 Query 26325 GCTTGCCACATTCCGCGCATCTTTGGGATCACTTCTTCTTTCTGGTAATGCATTTCTCAA 26384 ||||||||||| ||||||||||||||||||||||||||||| || ||||||||||||||| Sbjct 178 GCTTGCCACATGCCGCGCATCTTTGGGATCACTTCTTCTTTTTGATAATGCATTTCTCAA 119 Query 26385 CCTCCAAATaaaaaaaCCTGGCACGATGATAAACCATGCCAGGCCGGAATTTTTAGCAAT 26444 ||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 118 CCTCCAAAT-AAAAAACCTGGCACGATGATAAACCATGCCAGGCCGGAATTTTTAGCAAT 60 Query 26445 CAGTGCTATCGACGGAAATCACAACGCGTTTCTTCTGATTGGCTTCCTTTGCTTTGCGC 26503 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 59 CAGTGCTATCGACGGAAATCACAACGCGTTTCTTCTGATTGGCTTCCTTTGCTTTGCGC 1 Score = 419 bits (464), Expect = 7e-113 Identities = 273/300 (91%), Gaps = 0/300 (0%) Strand=Plus/Minus Query 24955 AAGTTTTTAAAGAATTCAATTGCTTCCTCAATTACCGTTTCTTTACTTTGGTAATAACGC 25014 |||||||| |||||||||||||||||||||||| | | |||||| |||||||| |||||| Sbjct 1687 AAGTTTTTGAAGAATTCAATTGCTTCCTCAATTCCAGGTTCTTTGCTTTGGTAGTAACGC 1628 Query 25015 AGCGTTTCCGCTACATCTTGCGCCATTCCATCGACAGTTAGCGAGTCATTCAACAGGATC 25074 || ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 1627 AGAGTTTCCGCTACATCTTGCGCCATTCCATCGACAGTTAGCGAGTCATTCAACAGGATC 1568 Query 25075 ACATAATTTCCGTTTGCTACTTGCTCGCCGTCAGTCTGGATCGCTTTCATTTCCGTGTCG 25134 ||||||||| ||||| ||||| ||||||||||||||||||||||||||||||| || ||| Sbjct 1567 ACATAATTTACGTTTTCTACTGGCTCGCCGTCAGTCTGGATCGCTTTCATTTCTGTATCG 1508 Query 25135 CTTACAATATCGCTAATCACAGCCAATTTAAGAGGCGATGTGAGAAATACGATTGTTGCG 25194 |||||||||||||| || || |||| ||| | ||| | || | |||||||||||||||| Sbjct 1507 CTTACAATATCGCTGATAACCGCCAGTTTTAAAGGAGTGGTTAAAAATACGATTGTTGCG 1448 Query 25195 CCAGTGCGGATAAGAGAAAGAGGCTCACGCCATTTTGTGCCAGTACCAGTAATAACGCCT 25254 |||||||| ||||||||||| ||||||||||||||||||||||||||||| ||||| ||| Sbjct 1447 CCAGTGCGAATAAGAGAAAGCGGCTCACGCCATTTTGTGCCAGTACCAGTGATAACACCT 1388 Score = 125 bits (138), Expect = 2e-24 Identities = 95/112 (85%), Gaps = 0/112 (0%) Strand=Plus/Minus Query 24510 ATCTTTATTAGCAAGATCATTAAGATTCTGATCCTTATGCAGAAGGTTTTCAGGGTTAAC 24569 ||| ||||| | || ||||||||| || ||||| |||| ||| | |||||||||||||| Sbjct 2200 ATCCTTATTTGGAACATCATTAAGGTTTTGATCTTTATTCAGTAAGTTTTCAGGGTTAAT 2141 Query 24570 TTGTTGTGCCCATTGGCGAGCTTCATCACGCGCAGTCTCAGCGCCAGCCTTT 24621 ||||| ||||||||| ||||||||||||||||||| ||||| |||| |||| Sbjct 2140 CTGTTGCGCCCATTGGTGAGCTTCATCACGCGCAGTTTCAGCACCAGACTTT 2089 Score = 98.7 bits (108), Expect = 3e-16 Identities = 57/59 (97%), Gaps = 0/59 (0%) Strand=Plus/Minus Query 22558 ATCCGGCTGAACCAGCGGCGAATGTTGCAAAGAATGAAAAGGTTGAAAAGGAACCGCAA 22616 ||||||||||||||||||| |||||||||||||||||||||| |||||||||||||||| Sbjct 4105 ATCCGGCTGAACCAGCGGCTAATGTTGCAAAGAATGAAAAGGGTGAAAAGGAACCGCAA 4047 >seq9 Length=117247901 Score = 365 bits (404), Expect = 1e-96 Identities = 216/225 (96%), Gaps = 0/225 (0%) Strand=Plus/Plus Query 37080 ATTTCAGGAAAGTGAGGATGTTTATCATCTTCCGGCAACAGACCTCCAAACGCGCAAGGA 37139 |||||||||||||||||||||||||||||||||||||||||||| ||||| ||||||||| Sbjct 108216539 ATTTCAGGAAAGTGAGGATGTTTATCATCTTCCGGCAACAGACCGCCAAATGCGCAAGGA 108216598 Query 37140 TGAAAGATAAAATCAGGTTGCCGCCACATTGACGACAGAACACTAACAGGATTCTCAATC 37199 |||||||||||||||||||||| |||||| |||||||| || |||||||||||||| ||| Sbjct 108216599 TGAAAGATAAAATCAGGTTGCCTCCACATCGACGACAGGACGCTAACAGGATTCTCGATC 108216658 Query 37200 ATATATGGAACGTTAAACCGATCCGCAATATTGGCAGCAATCTTTGCCGTTTCAACCGCC 37259 || ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 108216659 ATGTATGGAACGTTAAACCGATCCGCAATATTGGCAGCAATCTTTGCCGTTTCAACCGCC 108216718 Query 37260 TTTTTCTGGAAGTCTGGATCACGTTCACGCTTTGCGGCAAAGTGA 37304 ||||||||||||||||||||||||||||||||||| ||||||||| 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 38921 CGAAGTTAGTAGTTGTTTT-TGATACCATCATTTTAAAATTCTCCGGTTCGTTTCGATGA 38979 ||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||| Sbjct 98861689 CGAAGTTAGTAGTTGTTTTTTGATACCATCATTTTAAAATTCTCCGGTTCGTTTCGATGA 98861748 Query 38980 ATG 38982 ||| 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 39357 CCTGGCGCGTATAACCGATCTCCATCTTCAGTTATGCAAAGACAAAGTGCAAGGCCGCGA 39416 ||||||||||||||||| ||||||||||||||||||||||||||||| |||||||||||| Sbjct 25804125 CCTGGCGCGTATAACCGCTCTCCATCTTCAGTTATGCAAAGACAAAGGGCAAGGCCGCGA 25804066 Query 39417 TT 39418 || 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: 159272295972528