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_028091.1 Length=196300 Score E Sequences producing significant alignments: (Bits) Value seq104 100 4e-16 seq25 100 4e-16 seq23 100 4e-16 seq7 98.7 1e-15 seq4 98.7 1e-15 seq16 96.9 4e-15 seq22 91.5 2e-13 seq19 89.7 6e-13 seq2 89.7 6e-13 seq10 86.0 8e-12 >seq104 Length=774161 Score = 100 bits (110), Expect = 4e-16 Identities = 303/461 (66%), Gaps = 8/461 (2%) Strand=Plus/Minus Query 11482 ATCAAGGATATCCACGCGATTAGTGGCCGCAATAACCACAATGCCAGTCTCATTGTCAAA 11541 |||||| || || | | ||||| || ||||| || | || || || | | || || Sbjct 269153 ATCAAGAATGTCAGCTCTGTTAGTTGCTGCAATTACGATGATACCGGTGTTACCCTCGAA 269094 Query 11542 GCCATCCATCTCGGTGAGTAATTGATTAATTGTTTGTTCTCTCTCATCATTTGCTGGCAT 11601 |||||||| ||||| | | || |||| ||||| |||||||||||||| || Sbjct 269093 ACCATCCATTTCGGTCAAAAGCTGGTTAAGAGTTTGCTCTCTCTCATCATTCCCTCCACC 269034 Query 11602 ACCACCAGCACTGCGTTGCTTGCCCACCGCATCAATCTCATCAATGAAGACAATACATGG 11661 | ||||| | | ||| || || |||||||| ||||| | ||||||||||| || Sbjct 269033 AATACCAGTTCCTCTTTGTCGTCCAACGGCATCAATTTCATCCACAAAGACAATACAGGG 268974 Query 11662 TTGATTTTCGCGGGCGATTTCAAAGAGATCGCGAACCCTTTTGGCACCCACACCAACAAA 11721 ||| || ||| | | || ||||| ||||| | ||||| ||||||||||| Sbjct 268973 GGCATTCTCCTTGGCCTTCTTGAAAAGATCACGAACTCGAGAAGCACCAACACCAACAAA 268914 Query 11722 CATCTCCACAAAGTTTGCGGCAGAGCACTG--GATGAATGGGACATTTGATTCACCCGCG 11779 ||| || ||||| | | | || | || || |||||| ||| | |||||| || Sbjct 268913 CATTTCAACAAACTCAGAACCGGA--AATGGAGAAGAATGGCACACCAGCTTCACCGGCA 268856 Query 11780 ATGGCTCGGGCGAGGAGGGTCTTTCCCGTACCTGGCTTACCCGCGAGAAGGGCGCCTCGG 11839 || || || || || |||||||| || || || || |||||| | ||| Sbjct 268855 ATTGCCTTAGCAAGAAGAGTCTTTCCGGTTCCAGGAGGGCCAATGAGAAGAACACCTTTA 268796 Query 11840 GGGAT-CTTGGCACCACTTCCAAAATATCTCTCGGGTTGCTTGAGAAAATCCACAATCT- 11897 ||||| | | | | ||| | || |||| || || | ||| | || ||||||| || Sbjct 268795 GGGATACGAGCCCCGACTGCGGTAA-ATCTTTCTGGCTTCTTTAAGAACTCCACAACCTC 268737 Query 11898 CTTCAAGTTCATCTTTGGCCGCGTCAATCCCCTCAACATCA 11938 | | |||| | |||| || | |||| || |||||||| Sbjct 268736 CATGAAGTCCTGCTTT-GCTTCATCAACTCCAGCAACATCA 268697 >seq25 Length=50193149 Score = 100 bits (110), Expect = 4e-16 Identities = 246/370 (66%), Gaps = 10/370 (3%) Strand=Plus/Minus Query 11450 CGATCAAAACGACCCGGGCGAAGGAGGGCGTCATCAAGGATATCCACGCGATTAGTGGCC 11509 || ||||| | |||||| || | | ||| ||||||| | |||| | || || || Sbjct 41159253 CGGTCAAACCTACCCGGCCGCAACAAAGCGGCATCAAGAACATCCGGTCTGTTGGTTGCT 41159194 Query 11510 GCAATAACCACAATGCCAGTCT-CATTGTCAAAGCCATCCATCTCGGTGAGTAATTGATT 11568 || | ||| | | |||| | | || ||| ||||||||||| || | || ||||| Sbjct 41159193 GCCAAAACAATGACACCAGAATTCCCTGA-AAATCCATCCATCTCAGTCAACAACTGATT 41159135 Query 11569 AATTGTTTGTTCTCTCTCATCATTTGCTGGCATACCACCAGCACTGCGTTGCTTGCCCAC 11628 ||||| || ||||||||||||||| || | |||||| | | || | || || Sbjct 41159134 GATTGTCTGCTCTCTCTCATCATTTCCTCCTCCAAGACCAGCTCCTCTCTGTCTCCCAAC 41159075 Query 11629 CGCATCAATCTCATCAATGAAGACAATACATGG----TTGATTTTCGCGGGCGATTTCAA 11684 ||||||||||||||||||||||| || || || ||| ||| ||| | || | Sbjct 41159074 AGCATCAATCTCATCAATGAAGACGATGCAAGGAGCCTTGGATTT----GGCCTTATCGA 41159019 Query 11685 AGAGATCGCGAACCCTTTTGGCACCCACACCAACAAACATCTCCACAAAGTTTGCGGCAG 11744 | | || | || || ||||| || ||||| |||| ||||||||| | | |||| Sbjct 41159018 ATAAGTCCCTTACTCTGGATGCACCTACTCCAACGAACAACTCCACAAACTCAGAAGCAG 41158959 Query 11745 AGCACTGGATGAATGGGACATTTGATTCACCCGCGATGGCTCGGGCGAGGAGGGTCTTTC 11804 ||| || || || || | ||| || || | |||| || | || ||||||| Sbjct 41158958 CGCATGAGAAAAACGGAACCCCGGCTTCTCCTGCTACTGCTCTCGCCAATAGAGTCTTTC 41158899 Query 11805 CCGTACCTGG 11814 | ||||| || Sbjct 41158898 CAGTACCAGG 41158889 Score = 89.7 bits (98), Expect = 6e-13 Identities = 158/228 (69%), Gaps = 2/228 (1%) Strand=Plus/Minus Query 111941 TGCGGTCTTGGTGTACCAGCATTGAAGAGGGTTGGTGTTGCGTGAATGAACATACCTTGG 112000 || || ||||| || ||||||||||| || || || | || ||| ||||| | ||| Sbjct 26655761 TGAGGCCTTGGAGTCCCAGCATTGAAAAGAGTGGGAGAAGCATGAGTGAACCATCTTTGA 26655702 Query 112001 GACATCTTGTCGTATGTCTCCAAGACAGAATCAATGTCTTCCCCGTGGATGCCGATTGCG 112060 |||||| ||| || || | | ||||||||||||| ||| || || || | || Sbjct 26655701 GACATCATGTGATAAGTTTTTATAGCAGAATCAATGTCATCCTTATGAATTCCAACAGCA 26655642 Query 112061 ACCCGCATGAACATGTACTGTGGGGTTTCCATGAGGATGCCATCGAGCCGTTGA-AGATA 112119 |||| ||| ||||||| ||| || |||| || | | || | || | | | ||||| Sbjct 26655641 ACCCTCATTAACATGTGCTGAGGCCTTTCTAT-AACCTTCCCTTGAACTTTCAAGAGATA 26655583 Query 112120 GCTCTTCTCAAGGGTTTTGAGACCAAAGTAACCAAAATCATAGTCCCG 112167 | |||| |||||||||| ||||||||| | | ||| |||| || Sbjct 26655582 AGACCTCTCCAGGGTTTTGAAGCCAAAGTAATCGTAGTCAAAGTCACG 26655535 >seq23 Length=61753794 Score = 100 bits (110), Expect = 4e-16 Identities = 246/370 (66%), Gaps = 10/370 (3%) Strand=Plus/Plus Query 11450 CGATCAAAACGACCCGGGCGAAGGAGGGCGTCATCAAGGATATCCACGCGATTAGTGGCC 11509 || ||||| | |||||| || | | ||| ||||||| | |||| | || || || Sbjct 28934721 CGGTCAAACCTACCCGGCCGCAACAAAGCGGCATCAAGAACATCCGGTCTGTTGGTTGCT 28934780 Query 11510 GCAATAACCACAATGCCAGTCT-CATTGTCAAAGCCATCCATCTCGGTGAGTAATTGATT 11568 || | ||| | | |||| | | || ||| ||||||||||| || | || ||||| Sbjct 28934781 GCCAAAACAATGACACCAGAATTCCCTGA-AAATCCATCCATCTCAGTCAACAACTGATT 28934839 Query 11569 AATTGTTTGTTCTCTCTCATCATTTGCTGGCATACCACCAGCACTGCGTTGCTTGCCCAC 11628 ||||| || ||||||||||||||| || | |||||| | | || | || || Sbjct 28934840 GATTGTCTGCTCTCTCTCATCATTTCCTCCTCCAAGACCAGCTCCTCTCTGTCTCCCAAC 28934899 Query 11629 CGCATCAATCTCATCAATGAAGACAATACATGG----TTGATTTTCGCGGGCGATTTCAA 11684 ||||||||||||||||||||||| || || || ||| ||| ||| | || | Sbjct 28934900 AGCATCAATCTCATCAATGAAGACGATGCAAGGAGCCTTGGATTT----GGCCTTATCGA 28934955 Query 11685 AGAGATCGCGAACCCTTTTGGCACCCACACCAACAAACATCTCCACAAAGTTTGCGGCAG 11744 | | || | || || ||||| || ||||| |||| ||||||||| | | |||| Sbjct 28934956 ATAAGTCCCTTACTCTGGATGCACCTACTCCAACGAACAACTCCACAAACTCAGAAGCAG 28935015 Query 11745 AGCACTGGATGAATGGGACATTTGATTCACCCGCGATGGCTCGGGCGAGGAGGGTCTTTC 11804 ||| || || || || | ||| || || | |||| || | || ||||||| Sbjct 28935016 CGCATGAGAAAAACGGAACCCCGGCTTCTCCTGCTACTGCTCTCGCCAATAGAGTCTTTC 28935075 Query 11805 CCGTACCTGG 11814 | ||||| || Sbjct 28935076 CAGTACCAGG 28935085 >seq7 Length=42802127 Score = 98.7 bits (108), Expect = 1e-15 Identities = 160/228 (70%), Gaps = 2/228 (1%) Strand=Plus/Minus Query 111941 TGCGGTCTTGGTGTACCAGCATTGAAGAGGGTTGGTGTTGCGTGAATGAACATACCTTGG 112000 || || ||||| || ||||||||||| || || || | || ||| | ||| | ||| Sbjct 28741203 TGAGGCCTTGGAGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGA 28741144 Query 112001 GACATCTTGTCGTATGTCTCCAAGACAGAATCAATGTCTTCCCCGTGGATGCCGATTGCG 112060 |||||| ||| || || | | ||||||||||||| | | || || || | ||| Sbjct 28741143 GACATCATGTGATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCA 28741084 Query 112061 ACCCGCATGAACATGTACTGTGGGGTTTCCATGAGGATGCCATCGAGCCGTTGA-AGATA 112119 |||| ||| ||||||| || || |||| || | | || | || | || | || || Sbjct 28741083 ACCCTCATCAACATGTGTTGGGGCCTTTCTAT-AACCTTCCCTTGAACTTTTAAGAGGTA 28741025 Query 112120 GCTCTTCTCAAGGGTTTTGAGACCAAAGTAACCAAAATCATAGTCCCG 112167 | | ||||||||||||||| |||||| ||| || | ||| ||||||| Sbjct 28741024 GGACCTCTCAAGGGTTTTGAAACCAAAATAATCATAGTCAAAGTCCCG 28740977 >seq4 Length=78750349 Score = 98.7 bits (108), Expect = 1e-15 Identities = 160/228 (70%), Gaps = 2/228 (1%) Strand=Plus/Minus Query 111941 TGCGGTCTTGGTGTACCAGCATTGAAGAGGGTTGGTGTTGCGTGAATGAACATACCTTGG 112000 || || ||||| || ||||||||||| || || || | || ||| | ||| | ||| Sbjct 13233482 TGAGGCCTTGGAGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGA 13233423 Query 112001 GACATCTTGTCGTATGTCTCCAAGACAGAATCAATGTCTTCCCCGTGGATGCCGATTGCG 112060 |||||| ||| || || | | ||||||||||||| | | || || || | ||| Sbjct 13233422 GACATCATGTGATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCA 13233363 Query 112061 ACCCGCATGAACATGTACTGTGGGGTTTCCATGAGGATGCCATCGAGCCGTTGA-AGATA 112119 |||| ||| ||||||| || || |||| || | | || | || | || | || || Sbjct 13233362 ACCCTCATCAACATGTGTTGGGGCCTTTCTAT-AACCTTCCCTTGAACTTTTAAGAGGTA 13233304 Query 112120 GCTCTTCTCAAGGGTTTTGAGACCAAAGTAACCAAAATCATAGTCCCG 112167 | | ||||||||||||||| |||||| ||| || | ||| ||||||| Sbjct 13233303 GGACCTCTCAAGGGTTTTGAAACCAAAATAATCATAGTCAAAGTCCCG 13233256 >seq16 Length=102030775 Score = 96.9 bits (106), Expect = 4e-15 Identities = 156/223 (70%), Gaps = 5/223 (2%) Strand=Plus/Minus Query 122670 GTGGAGACCCTCATCTCGGGAAATAAGTTCATTTGAGAAGCATAGACCTGGCATGAGACC 122729 ||||||||| |||||||| || || | || |||||||| || || ||||| | || Sbjct 57862361 GTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGAAAGTTAATCCGGGCATTAACCC 57862302 Query 122730 CCGCTTCTTCAACCAATAAATAGCGCAGAATGACCCGGAGAAGAAGATACCCTCCACACA 122789 || ||| || |||||| | || || ||||| |||||||| ||||| ||||| || || Sbjct 57862301 CCTCTTTTTTAACCAAAATATGGCACAGAAACTTCCGGAGAAAAAGATCCCCTCTACGCA 57862242 Query 122790 CGCAAACGCAAAAAGGCGTTCGGCGAAGGAGCGAGACTTTG-CATCAAACCATTTCATTG 122848 ||||| || | | ||||||||||| | || | | || | ||||||||| | Sbjct 57862241 AGCAAAAGCGATTAACCGTTCGGCGAA----AGTTTCTCCGCCGTCGATCCATTTCATAG 57862186 Query 122849 CCCATTTCGCCTTCTTCTCAATACATGGTACAGTTTGGATGGC 122891 |||| | || || || | | ||| || || || | |||||| Sbjct 57862185 CCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATGGC 57862143 >seq22 Length=61129363 Score = 91.5 bits (100), Expect = 2e-13 Identities = 155/223 (70%), Gaps = 5/223 (2%) Strand=Plus/Plus Query 122670 GTGGAGACCCTCATCTCGGGAAATAAGTTCATTTGAGAAGCATAGACCTGGCATGAGACC 122729 ||||||||| |||||||| || || | || |||||||| || || ||||| | || Sbjct 6287593 GTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGAAAGTTAATCCGGGCATTAACCC 6287652 Query 122730 CCGCTTCTTCAACCAATAAATAGCGCAGAATGACCCGGAGAAGAAGATACCCTCCACACA 122789 || ||| || |||||| | || || ||||| |||||||| ||||| || || || || Sbjct 6287653 CCTCTTTTTTAACCAAAATATGGCACAGAAACTTCCGGAGAAAAAGATCCCTTCTACGCA 6287712 Query 122790 CGCAAACGCAAAAAGGCGTTCGGCGAAGGAGCGAGACTTTG-CATCAAACCATTTCATTG 122848 ||||| || | | ||||||||||| | || | | || | ||||||||| | Sbjct 6287713 AGCAAAAGCGATTAACCGTTCGGCGAA----AGTTTCTCCGCCGTCGATCCATTTCATAG 6287768 Query 122849 CCCATTTCGCCTTCTTCTCAATACATGGTACAGTTTGGATGGC 122891 |||| | || || || | | ||| || || || | |||||| Sbjct 6287769 CCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATGGC 6287811 >seq19 Length=70911690 Score = 89.7 bits (98), Expect = 6e-13 Identities = 142/202 (70%), Gaps = 14/202 (7%) Strand=Plus/Plus Query 11539 AAAGCCATCCATCTCGGTGAGTAATTGATTAATTGTTTGTTCTCTCTCATCATTTGCTGG 11598 ||| ||||||||||| || || || ||||| ||||| || ||||| ||||||||| || Sbjct 54118390 AAATCCATCCATCTCAGTCAGCAACTGATTGATTGTCTGCTCTCTTTCATCATTTCCT-- 54118447 Query 11599 CATACCA--CCAGCACTGCGTTGCTTGCCCACCGCATCAATCTCATCAATGAAGACAATA 11656 | | | | ||||| | | || | || || ||||| |||||||| ||||| ||||| Sbjct 54118448 CCTCCAAGCCCAGCTCCTCTCTGTCTCCCAACAGCATCGATCTCATCTATGAATACAATC 54118507 Query 11657 CATGG-----TTGATTTTCGCGGGCGATTTCAAAGAGATCGCGAACCCTTTTGGCACCCA 11711 || || | |||||| || ||||||| | ||| | ||||| | || | Sbjct 54118508 CAAGGCGCTTTGGATTTT-----GCCTTTTCAAACAAATCCCTTACCCTGGACGTGCCTA 54118562 Query 11712 CACCAACAAACATCTCCACAAA 11733 | ||||| |||| ||||||||| Sbjct 54118563 CTCCAACGAACAACTCCACAAA 54118584 >seq2 Length=106994729 Score = 89.7 bits (98), Expect = 6e-13 Identities = 158/228 (69%), Gaps = 2/228 (1%) Strand=Plus/Minus Query 111941 TGCGGTCTTGGTGTACCAGCATTGAAGAGGGTTGGTGTTGCGTGAATGAACATACCTTGG 112000 || || ||||| || ||||||||||| || || || | || ||| ||||| | ||| Sbjct 29495698 TGAGGCCTTGGAGTGCCAGCATTGAAAAGAGTGGGAGAAGCATGAGTGAACCATCTTTGA 29495639 Query 112001 GACATCTTGTCGTATGTCTCCAAGACAGAATCAATGTCTTCCCCGTGGATGCCGATTGCG 112060 |||||| ||| || || | | ||||||||||||| ||| || || || | || Sbjct 29495638 GACATCATGTGATAAGTTTTTATAGCAGAATCAATGTCATCCTTATGAATTCCAACAGCA 29495579 Query 112061 ACCCGCATGAACATGTACTGTGGGGTTTCCATGAGGATGCCATCGAGCCGTTGA-AGATA 112119 |||| ||| ||||||| ||| || |||| || | | || | || | | | ||||| Sbjct 29495578 ACCCTCATTAACATGTGCTGAGGCCTTTCTAT-AACCTTCCCTTGAACTTTCAAGAGATA 29495520 Query 112120 GCTCTTCTCAAGGGTTTTGAGACCAAAGTAACCAAAATCATAGTCCCG 112167 | |||| | |||||||| ||||||||| || | ||| |||| || Sbjct 29495519 AGACCTCTCCAAGGTTTTGAAGCCAAAGTAATCATAGTCAAAGTCACG 29495472 >seq10 Length=91128445 Score = 86.0 bits (94), Expect = 8e-12 Identities = 289/445 (65%), Gaps = 14/445 (3%) Strand=Plus/Plus Query 11500 ATTAGTGGCCGCAATAACCACAATGCCAGTCTCATTGTCAAAGCCATCCATCTCGGTGAG 11559 ||||||||| ||||| || | || ||||| | | ||| |||||||| || || | Sbjct 89879489 ATTAGTGGCAGCAATGACAATAACTCCAGTATTACCAGTAAAACCATCCATTTCAGTCAA 89879548 Query 11560 TAATTGATTAATTGTTTGTTCTCTCTCATCATTTGCTGGCATACCA---CCAGCACTGCG 11616 | ||||| | ||||| || || |||||||| || |||| |||| | | Sbjct 89879549 CAGCTGATTCAAAGTTTGCTCCCTTTCATCATTCCCTCC---ACCAATCCCAGTTCCTCT 89879605 Query 11617 TTGCTTGCCCACCGCATCAATCTCATCAATGAAGACAATACATGGTTGATTTTCGCGGGC 11676 || | || || |||||||||||||| ||||| || | |||||| ||| | || Sbjct 89879606 CTGTCTTCCAACAGCATCAATCTCATCGATGAACACCAAACATGGGGAATTAGCCTTTGC 89879665 Query 11677 GATTTCAAAGAGATCGCGAACCCTTTTGGCACCCACACCAACAAACATCTCCACAAAGTT 11736 | | ||| || || | ||| || || || || |||||||||||||| | || | Sbjct 89879666 CTTGTTAAACAGGTCCCTAACTCTGGAAGCTCCAACGCCAACAAACATCTCGATGAACTC 89879725 Query 11737 TGCGGCAGAGCACTGG--ATGAATGGGACATTTGATTCACCCGCGATGGCTCGGGCGAGG 11794 || |||| | || | ||| || || || ||| || || ||||| ||| || Sbjct 89879726 TGAACCAGA--AAGGGAAAAGAAAGGAACCCCTGCTTCCCCTGCAATGGCCTTGGCCAGC 89879783 Query 11795 AGGGTCTTTCCCGTACCTGGCTTACCCGCGAGAAGGGCGCCTCGGGGGATCTTGGCACCA 11854 | ||||| || || ||||| || ||||| | ||| ||| || |||||||| Sbjct 89879784 AATGTCTTACCAGTCCCTGGAGGTCCAATTAGAAGCACTCCTTTGGGAATTGTGGCACCA 89879843 Query 11855 CTTCC--AAAATATCTCTCGGGTTGCTTGAGAAAATCCACAATCTCTTCAAGTTCATCTT 11912 || | |||| | ||| ||||| || | || ||||| | ||||| || || | | Sbjct 89879844 ATTGCTGCAAATTTTTCTGGGGTT--TTTAAGAACTCCACTACCTCTTGAAAATCTTGCT 89879901 Query 11913 TGGCCGCGTCAATCCCCTCAACATC 11937 |||| | ||||| || | ||||| Sbjct 89879902 TGGCTTCATCAATACCAGCTACATC 89879926 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 627960184540800