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_003310.1 Length=196858 Score E Sequences producing significant alignments: (Bits) Value seq22 188 9e-43 seq19 150 2e-31 seq16 150 2e-31 seq228 102 1e-16 seq7 96.9 4e-15 seq4 96.9 4e-15 seq25 91.5 2e-13 seq2 91.5 2e-13 >seq22 Length=61129363 Score = 188 bits (208), Expect = 9e-43 Identities = 392/584 (67%), Gaps = 0/584 (0%) Strand=Plus/Plus Query 33574 ACATCAAACATGCGAAATCGCAGTGCAGACCCTCGTCTCTACTAATTAATTCGTTAGAAA 33633 ||| ||| || |||||||||||||| ||||| || |||| ||||| ||||| || | Sbjct 6287571 ACAGCAAGCAAGCGAAATCGCAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGA 6287630 Query 33634 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGAAGCGAATGATCCGG 33693 | || | ||||||||||| || | |||||| | ||||||||||| | ||| ||||| Sbjct 6287631 AAGTTAATCCGGGCATTAACCCCCTCTTTTTTAACCAAAATATGGCACAGAAACTTCCGG 6287690 Query 33694 AAAAGAAGATTCCTTCTACTGCAGCAAAGGCAATAAGTCTCTCTCCATAACCGGCGCTGT 33753 | || ||||| |||||||| |||||| || || | | || | || | | | Sbjct 6287691 AGAAAAAGATCCCTTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCGC 6287750 Query 33754 CATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTATGG 33813 | | ||||| || |||||| ||||| || || ||||| |||| ||| || |||| Sbjct 6287751 CGTCGATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATGG 6287810 Query 33814 CATTAAAGAGATAGtttttttCATTACTATCTTTAACATAAGTATCGATCAAAAGACTAT 33873 | || ||| ||| ||||||| |||||| | ||||| |||| | ||||| | Sbjct 6287811 CGCGGAAAAGACGGTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTGT 6287870 Query 33874 ACATTTCCGAATGAATGTTTTCAATGGCCATCTGAAATCCGTAGAAACATCTAGCCTCGG 33933 |||| || || || || ||||| || || || || || || || ||| | ||||||| Sbjct 6287871 ACATCTCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAAAGCACGCGCCTCGG 6287930 Query 33934 TAATCTGCACTTCTGTACAAAATCGTTCTGCTAAATTTTCATTCACTATTCCATCACTGG 33993 ||||| || ||| | || || | || | || ||| ||||| ||||| || Sbjct 6287931 AGATCTGGACCTCTTTCATGAACCGAACAGCAAGGTTCTCAAGGACTATGCCATCGGAGG 6287990 Query 33994 CTGCAAAAAACGCCAATACATGTTTTATAAAATATTTTTCGTCTGGTGTTAGTTTATTCC 34053 | || ||||| || | || || | || || | | || || | || || | | || Sbjct 6287991 CGGCGAAAAAGGCGAGAACGTGACTAATGAAGTGATGCTCATCGGCGGTGAGAGTTTCCC 6288050 Query 34054 AATCATTGATATCTTTAGATATATCCACTTCTTCCACTGTCCAAAATGATGCCTCTGCCT 34113 | | | | |||| ||| | ||| ||||| || | |||||||| || || || || | Sbjct 6288051 AGTGACGAAGATCTGAAGACAGATCGACTTCCTCTGCGGTCCAAAACGACGCTTCGGCTT 6288110 Query 34114 TTTTATACATATTCCAGATGTCATGATATTGGATTGGGAAAATA 34157 | || ||||| | ||| | || | |||||||| || || ||| Sbjct 6288111 TCTTGTACATTTCCCATACTTCTGGGTATTGGATCGGAAACATA 6288154 >seq19 Length=70911690 Score = 150 bits (166), Expect = 2e-31 Identities = 241/346 (70%), Gaps = 0/346 (0%) Strand=Plus/Minus Query 33574 ACATCAAACATGCGAAATCGCAGTGCAGACCCTCGTCTCTACTAATTAATTCGTTAGAAA 33633 ||| ||| || || || ||||| || ||||| || |||| | || || ||||| || | Sbjct 44463885 ACAGCAAGCAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGA 44463826 Query 33634 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGAAGCGAATGATCCGG 33693 | || | ||| ||||||| || |||||||| | ||||||||| | | ||| |||| Sbjct 44463825 AAGTTAATCCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCGCACAGAAACTGCCGG 44463766 Query 33694 AAAAGAAGATTCCTTCTACTGCAGCAAAGGCAATAAGTCTCTCTCCATAACCGGCGCTGT 33753 | || || || |||||||| ||| || || || | | || || || | ||| | Sbjct 44463765 AGAAAAATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCCGC 44463706 Query 33754 CATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTATGG 33813 | | ||||| || |||||||||||| || || || || |||| |||||| | | Sbjct 44463705 CGTCGATCCATTTCAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGTAG 44463646 Query 33814 CATTAAAGAGATAGtttttttCATTACTATCTTTAACATAAGTATCGATCAAAAGACTAT 33873 | | ||||| ||||||||| | |||||||| |||||| |||| | ||||||| Sbjct 44463645 CGTGGAAGAGGCGGTTTTTTTCGGTGGAATCTTTAATATAAGTTTCGAGGAGGAGACTAT 44463586 Query 33874 ACATTTCCGAATGAATGTTTTCAATGGCCATCTGAAATCCGTAGAA 33919 |||| || || || || || || ||||| || || ||||| || || Sbjct 44463585 ACATCTCAGAGTGGATATTCTCGATGGCGATTTGGAATCCATAAAA 44463540 >seq16 Length=102030775 Score = 150 bits (166), Expect = 2e-31 Identities = 417/634 (66%), Gaps = 8/634 (1%) Strand=Plus/Minus Query 33291 TTTTGGTATTCACCCACACGTTTTTCGAAAAAATTAGTTTTTCCTTCCAATGATATATTT 33350 ||||| || || || || | ||| ||||| ||||| ||||| |||| ||| ||||| | Sbjct 57862666 TTTTGATACTCTCCAACTCTTTTCTCGAAGAAATTGGTTTTCCCTTGCAACGATATCAGT 57862607 Query 33351 TCCATGAAATCAAACGGATTGGTAACATTGTAAAtttttttAAATCCCAATTCAGAAATC 33410 ||||| ||||||| || ||| || ||||| || ||| | || || | | | Sbjct 57862606 TCCATCCAATCAAATGGGTTGACCACGTTGTACATCTTTCCGTACCCTAACGCTCCCAAC 57862547 Query 33411 AATCTATCTGCGACGAATTCTATATATGTTTTCATCATTTCACAATTCATTCCTATGAGT 33470 || ||||| || ||||| || || || |||| | || | ||||| || | | Sbjct 57862546 AACCTATCCGCTACGAACTCGATGTACTGACTCATTAACTCGCCGTTCATCCCAACCAAC 57862487 Query 33471 TTAACTGGAAGAGC--CACAGTAAGAAATTCTTGTTCAATGGATACCGCATTTGTTATAA 33528 || ||||| | || || ||| | | | | | ||| ||||| | ||| | Sbjct 57862486 GCGCAGGGCAGAGCATCGCA-TACGAACTCCCTCT-CTATGTCCACCGCGTCCCTTACTA 57862429 Query 33529 TAAATCTAACGGTTTCTTCACTCGG--TGGATGTAATAAATGTTTAAACATCAAACATGC 33586 | ||| ||| |||||||||| | | || | | | || || ||| || || Sbjct 57862428 TCCCTCTCACGCGTTCTTCACTCAGCTTTGACCGGAGGAGAGAGTA--CAGCAAGCAAGC 57862371 Query 33587 GAAATCGCAGTGCAGACCCTCGTCTCTACTAATTAATTCGTTAGAAAACGTGAGTCCGGG 33646 |||||| ||||| ||||| || |||| ||||| ||||| || || || | |||||| Sbjct 57862370 GAAATCACAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGAAAGTTAATCCGGG 57862311 Query 33647 CATTAGGCCACGCTTTTTAAGCCAAAATATGGAAGCGAATGATCCGGAAAAGAAGATTCC 33706 ||||| || | |||||| | ||||||||||| | ||| |||||| || ||||| || Sbjct 57862310 CATTAACCCCCTCTTTTTTAACCAAAATATGGCACAGAAACTTCCGGAGAAAAAGATCCC 57862251 Query 33707 TTCTACTGCAGCAAAGGCAATAAGTCTCTCTCCATAACCGGCGCTGTCATGTATCCACTT 33766 ||||| |||||| || || | | || | || | | | | | ||||| || Sbjct 57862250 CTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCGCCGTCGATCCATTT 57862191 Query 33767 TTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTATGGCATTAAAGAGATA 33826 |||||| ||||| || || ||||| |||| ||| || ||||| || ||| Sbjct 57862190 CATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATGGCGCGGAAAAGACG 57862131 Query 33827 GtttttttCATTACTATCTTTAACATAAGTATCGATCAAAAGACTATACATTTCCGAATG 33886 ||| ||||||| |||||| | ||||| |||| | ||||| ||||| || || || Sbjct 57862130 GTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTGTACATCTCGGAGTG 57862071 Query 33887 AATGTTTTCAATGGCCATCTGAAATCCGTAGAAA 33920 || ||||| || || || || || || || ||| Sbjct 57862070 GATATTTTCGATAGCGATTTGGAAACCATAAAAA 57862037 >seq228 Length=356584 Score = 102 bits (112), Expect = 1e-16 Identities = 193/284 (68%), Gaps = 0/284 (0%) Strand=Plus/Plus Query 33578 CAAACATGCGAAATCGCAGTGCAGACCCTCGTCTCTACTAATTAATTCGTTAGAAAACGT 33637 ||| || || || ||||| || ||||| || |||| | || || ||||| || || || Sbjct 282326 CAAGCAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGAAAGT 282385 Query 33638 GAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGAAGCGAATGATCCGGAAAA 33697 | ||| ||||||| || |||||||| | ||||||||| | ||| ||||| || Sbjct 282386 TAATCCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCGCGCAGAAACTGCCGGAGAA 282445 Query 33698 GAAGATTCCTTCTACTGCAGCAAAGGCAATAAGTCTCTCTCCATAACCGGCGCTGTCATG 33757 || || |||||||| ||| || || || | | || || || | ||| | | | Sbjct 282446 AAATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCGGCCGTC 282505 Query 33758 TATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTATGGCATT 33817 ||||| || |||||||||||| || || || || |||| |||||| | || | Sbjct 282506 GATCCATTTGAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGTAGCGTG 282565 Query 33818 AAAGAGATAGtttttttCATTACTATCTTTAACATAAGTATCGA 33861 ||||| ||||||||| | |||||| | | |||| |||| Sbjct 282566 GAAGAGGCGGTTTTTTTCGGTGGAATCTTTGATAGAAGTTTCGA 282609 >seq7 Length=42802127 Score = 96.9 bits (106), Expect = 4e-15 Identities = 158/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 63662 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 63721 |||||| ||||| || | || |||||||| || ||||||||| ||| ||| | | | Sbjct 28741192 AGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGAGACATCATGTG 28741133 Query 63722 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 63781 || || | ||||| || || || || | ||||||||| ||||| || | ||| || Sbjct 28741132 ATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCAACCCTCATCAA 28741073 Query 63782 CATGTGCTGAGGTCTTTCAACAATTTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 63841 |||||| || || ||||| | || || | | ||| || | |||||| | || | Sbjct 28741072 CATGTGTTGGGGCCTTTCTATAACCTTCCCTTGAACTTTTAAGAGGTAGGACCTCTCAAG 28741013 Query 63842 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 63889 ||||| ||||||||||| | || |||||| || || || || || Sbjct 28741012 GGTTTTGAAACCAAAATAATCATAGTCAAAGTCCCGATCATATATGAT 28740965 >seq4 Length=78750349 Score = 96.9 bits (106), Expect = 4e-15 Identities = 158/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 63662 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 63721 |||||| ||||| || | || |||||||| || ||||||||| ||| ||| | | | Sbjct 13233471 AGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGAGACATCATGTG 13233412 Query 63722 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 63781 || || | ||||| || || || || | ||||||||| ||||| || | ||| || Sbjct 13233411 ATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCAACCCTCATCAA 13233352 Query 63782 CATGTGCTGAGGTCTTTCAACAATTTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 63841 |||||| || || ||||| | || || | | ||| || | |||||| | || | Sbjct 13233351 CATGTGTTGGGGCCTTTCTATAACCTTCCCTTGAACTTTTAAGAGGTAGGACCTCTCAAG 13233292 Query 63842 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 63889 ||||| ||||||||||| | || |||||| || || || || || Sbjct 13233291 GGTTTTGAAACCAAAATAATCATAGTCAAAGTCCCGATCATATATGAT 13233244 >seq25 Length=50193149 Score = 91.5 bits (100), Expect = 2e-13 Identities = 157/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 63662 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 63721 ||| || ||||| || | || |||||||| || || |||||| ||| ||| | | | Sbjct 26655750 AGTCCCAGCATTGAAAAGAGTGGGAGAAGCATGAGTGAACCATCTTTGAGACATCATGTG 26655691 Query 63722 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 63781 || || | ||||| || || || || | ||||||||| || || || | |||||| Sbjct 26655690 ATAAGTTTTTATAGCAGAATCAATGTCATCCTTATGAATTCCAACAGCAACCCTCATTAA 26655631 Query 63782 CATGTGCTGAGGTCTTTCAACAATTTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 63841 |||||||||||| ||||| | || || | | |||||| | || || | |||| Sbjct 26655630 CATGTGCTGAGGCCTTTCTATAACCTTCCCTTGAACTTTCAAGAGATAAGACCTCTCCAG 26655571 Query 63842 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 63889 ||||| || ||||| || | ||| |||||| || || || || || Sbjct 26655570 GGTTTTGAAGCCAAAGTAATCGTAGTCAAAGTCACGATCATATATGAT 26655523 >seq2 Length=106994729 Score = 91.5 bits (100), Expect = 2e-13 Identities = 157/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 63662 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 63721 ||| || ||||| || | || |||||||| || || |||||| ||| ||| | | | Sbjct 29495687 AGTGCCAGCATTGAAAAGAGTGGGAGAAGCATGAGTGAACCATCTTTGAGACATCATGTG 29495628 Query 63722 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 63781 || || | ||||| || || || || | ||||||||| || || || | |||||| Sbjct 29495627 ATAAGTTTTTATAGCAGAATCAATGTCATCCTTATGAATTCCAACAGCAACCCTCATTAA 29495568 Query 63782 CATGTGCTGAGGTCTTTCAACAATTTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 63841 |||||||||||| ||||| | || || | | |||||| | || || | ||||| Sbjct 29495567 CATGTGCTGAGGCCTTTCTATAACCTTCCCTTGAACTTTCAAGAGATAAGACCTCTCCAA 29495508 Query 63842 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 63889 ||||| || ||||| || | || |||||| || || || || || Sbjct 29495507 GGTTTTGAAGCCAAAGTAATCATAGTCAAAGTCACGATCATATATGAT 29495460 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 629745580357440