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_006998.1 Length=194711 Score E Sequences producing significant alignments: (Bits) Value seq22 172 7e-38 seq16 150 2e-31 seq19 141 1e-28 seq7 96.9 4e-15 seq4 96.9 4e-15 seq228 93.3 5e-14 seq25 91.5 2e-13 seq2 91.5 2e-13 >seq22 Length=61129363 Score = 172 bits (190), Expect = 7e-38 Identities = 564/871 (65%), Gaps = 8/871 (1%) Strand=Plus/Plus Query 33013 TTTTGGTATTCACCCACACGTTTTTCGAAAAAATTAGTTTTTCCTTCCAATGATATATTT 33072 ||||| || || || || | ||| ||||| ||||| ||||| |||| ||| ||||| | Sbjct 6287288 TTTTGATACTCTCCAACCCTTTTCTCGAAGAAATTGGTTTTCCCTTGCAACGATATCAGT 6287347 Query 33073 TCCATGAAATCAAACGGATTGGTAACATTATAAAtttttttAAATCCCAATTCAGAAATC 33132 ||||| ||||||| || ||| ||||| || || ||| | || || | | | Sbjct 6287348 TCCATCCAATCAAATGGGTTGACCACATTGTACATCTTTCCGTACCCTAACGCTCCCAGC 6287407 Query 33133 AATCTATCCGCGACGAATTCTATATATGTTTTCATCATTTCACAATTCATTCCTATAAGT 33192 | | |||||| ||||| || || || |||| | || | ||||| || | | Sbjct 6287408 AGCCGATCCGCTACGAACTCGATGTACCGACTCATTAACTCGCCGTTCATCCCAACCAAC 6287467 Query 33193 TTAACTGGAAGAGC--CGCAGTAAGAAATTCTTGTTCAATGGATACCGCATCTGTTATAA 33250 || ||||| |||| || ||| | | | | | ||| ||||| || ||| | Sbjct 6287468 GCGCAGGGGAGAGCATCGCA-TACGAACTCCCTCT-CTATGTCCACCGCGTCCCTTACTA 6287525 Query 33251 TAGATCTAACGGTTTCTTCACTCGG--TGGATGCAATAAATGTTTAAACATCAAACATGC 33308 | || ||| ||||||||| | | || | | | || || ||| || || Sbjct 6287526 TCCCCCTCACGCGCTCTTCACTCAGCTTTGACCGGAGGAGAGAGTA--CAGCAAGCAAGC 6287583 Query 33309 GAAATCGCAGTGCAGACCCTCGTCTCTACTAATTAGTTCGTTGGAAAACGTGAGTCCGGG 33368 |||||||||||| ||||| || |||| |||| ||||| || || || | |||||| Sbjct 6287584 GAAATCGCAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGAAAGTTAATCCGGG 6287643 Query 33369 CATTAGGCCACGCTTTTTAAGCCAAAATATGGAAGCGAATGATCCAGAAAAGAAGATTCC 33428 ||||| || | |||||| | ||||||||||| | ||| ||| || || ||||| || Sbjct 6287644 CATTAACCCCCTCTTTTTTAACCAAAATATGGCACAGAAACTTCCGGAGAAAAAGATCCC 6287703 Query 33429 TTCTACTGCAGCAAAGGCAATAAGTCTCTCTCCATAACCGGCGCTGTCATGTATCCACTT 33488 |||||| |||||| || || | | || | || | | | | | ||||| || Sbjct 6287704 TTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCGCCGTCGATCCATTT 6287763 Query 33489 TTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTATGGCATTAAAGAGATA 33548 |||||| ||||| || || ||||| |||| ||| || ||||| || ||| Sbjct 6287764 CATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATGGCGCGGAAAAGACG 6287823 Query 33549 GtttttttCATTACTATCTTTAACATAAGTATCGATCAAAAGACTATACATTTCCGAATG 33608 ||| ||||||| |||||| | ||||| |||| | ||||| ||||| || || || Sbjct 6287824 GTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTGTACATCTCGGAGTG 6287883 Query 33609 AATGTTTTCAATGGCCATCTGAAATCCGTAGAAACATCTAGCCTCGGTAATCTGTACTTC 33668 || ||||| || || || || || || || ||| | ||||||| ||||| || || Sbjct 6287884 GATATTTTCGATAGCGATTTGGAAACCATAAAAAGCACGCGCCTCGGAGATCTGGACCTC 6287943 Query 33669 TGTACAAAATCGTTCCGCCAAATTTTCATTCACTATTCCGTCACTGGCTGCAAAAAACGC 33728 | | || || | || | || ||| ||||| || || ||| || ||||| || Sbjct 6287944 TTTCATGAACCGAACAGCAAGGTTCTCAAGGACTATGCCATCGGAGGCGGCGAAAAAGGC 6288003 Query 33729 CAATACATGTTTTATAAAATATTTTTCGTCTGGTGTTAGTTTATTCCAATCATTGATATC 33788 | || || | || || | | || || | || || | | ||| | | | ||| Sbjct 6288004 GAGAACGTGACTAATGAAGTGATGCTCATCGGCGGTGAGAGTTTCCCAGTGACGAAGATC 6288063 Query 33789 TTTAGATATATCTACTTCTTCCACTGTCCAAAATGATGCCTCTGCCTTTTTATACATGTT 33848 | ||| | ||| ||||| || | |||||||| || || || || || || ||||| | Sbjct 6288064 TGAAGACAGATCGACTTCCTCTGCGGTCCAAAACGACGCTTCGGCTTTCTTGTACATTTC 6288123 Query 33849 CCAGATGTCATAATATTGGATTGGGAAAATA 33879 ||| | || |||||||| || || ||| Sbjct 6288124 CCATACTTCTGGGTATTGGATCGGAAACATA 6288154 >seq16 Length=102030775 Score = 150 bits (166), Expect = 2e-31 Identities = 417/634 (66%), Gaps = 8/634 (1%) Strand=Plus/Minus Query 33013 TTTTGGTATTCACCCACACGTTTTTCGAAAAAATTAGTTTTTCCTTCCAATGATATATTT 33072 ||||| || || || || | ||| ||||| ||||| ||||| |||| ||| ||||| | Sbjct 57862666 TTTTGATACTCTCCAACTCTTTTCTCGAAGAAATTGGTTTTCCCTTGCAACGATATCAGT 57862607 Query 33073 TCCATGAAATCAAACGGATTGGTAACATTATAAAtttttttAAATCCCAATTCAGAAATC 33132 ||||| ||||||| || ||| || || || || ||| | || || | | | Sbjct 57862606 TCCATCCAATCAAATGGGTTGACCACGTTGTACATCTTTCCGTACCCTAACGCTCCCAAC 57862547 Query 33133 AATCTATCCGCGACGAATTCTATATATGTTTTCATCATTTCACAATTCATTCCTATAAGT 33192 || |||||||| ||||| || || || |||| | || | ||||| || | | Sbjct 57862546 AACCTATCCGCTACGAACTCGATGTACTGACTCATTAACTCGCCGTTCATCCCAACCAAC 57862487 Query 33193 TTAACTGGAAGAGC--CGCAGTAAGAAATTCTTGTTCAATGGATACCGCATCTGTTATAA 33250 || ||||| |||| || ||| | | | | | ||| ||||| || ||| | Sbjct 57862486 GCGCAGGGCAGAGCATCGCA-TACGAACTCCCTCT-CTATGTCCACCGCGTCCCTTACTA 57862429 Query 33251 TAGATCTAACGGTTTCTTCACTCGG--TGGATGCAATAAATGTTTAAACATCAAACATGC 33308 | ||| ||| |||||||||| | | || | | | || || ||| || || Sbjct 57862428 TCCCTCTCACGCGTTCTTCACTCAGCTTTGACCGGAGGAGAGAGTA--CAGCAAGCAAGC 57862371 Query 33309 GAAATCGCAGTGCAGACCCTCGTCTCTACTAATTAGTTCGTTGGAAAACGTGAGTCCGGG 33368 |||||| ||||| ||||| || |||| |||| ||||| || || || | |||||| Sbjct 57862370 GAAATCACAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGAAAGTTAATCCGGG 57862311 Query 33369 CATTAGGCCACGCTTTTTAAGCCAAAATATGGAAGCGAATGATCCAGAAAAGAAGATTCC 33428 ||||| || | |||||| | ||||||||||| | ||| ||| || || ||||| || Sbjct 57862310 CATTAACCCCCTCTTTTTTAACCAAAATATGGCACAGAAACTTCCGGAGAAAAAGATCCC 57862251 Query 33429 TTCTACTGCAGCAAAGGCAATAAGTCTCTCTCCATAACCGGCGCTGTCATGTATCCACTT 33488 ||||| |||||| || || | | || | || | | | | | ||||| || Sbjct 57862250 CTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCGCCGTCGATCCATTT 57862191 Query 33489 TTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTATGGCATTAAAGAGATA 33548 |||||| ||||| || || ||||| |||| ||| || ||||| || ||| Sbjct 57862190 CATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATGGCGCGGAAAAGACG 57862131 Query 33549 GtttttttCATTACTATCTTTAACATAAGTATCGATCAAAAGACTATACATTTCCGAATG 33608 ||| ||||||| |||||| | ||||| |||| | ||||| ||||| || || || Sbjct 57862130 GTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTGTACATCTCGGAGTG 57862071 Query 33609 AATGTTTTCAATGGCCATCTGAAATCCGTAGAAA 33642 || ||||| || || || || || || || ||| Sbjct 57862070 GATATTTTCGATAGCGATTTGGAAACCATAAAAA 57862037 >seq19 Length=70911690 Score = 141 bits (156), Expect = 1e-28 Identities = 239/346 (69%), Gaps = 0/346 (0%) Strand=Plus/Minus Query 33296 ACATCAAACATGCGAAATCGCAGTGCAGACCCTCGTCTCTACTAATTAGTTCGTTGGAAA 33355 ||| ||| || || || ||||| || ||||| || |||| | || | ||||| || | Sbjct 44463885 ACAGCAAGCAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGA 44463826 Query 33356 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGAAGCGAATGATCCAG 33415 | || | ||| ||||||| || |||||||| | ||||||||| | | ||| || | Sbjct 44463825 AAGTTAATCCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCGCACAGAAACTGCCGG 44463766 Query 33416 AAAAGAAGATTCCTTCTACTGCAGCAAAGGCAATAAGTCTCTCTCCATAACCGGCGCTGT 33475 | || || || |||||||| ||| || || || | | || || || | ||| | Sbjct 44463765 AGAAAAATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCCGC 44463706 Query 33476 CATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTATGG 33535 | | ||||| || |||||||||||| || || || || |||| |||||| | | Sbjct 44463705 CGTCGATCCATTTCAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGTAG 44463646 Query 33536 CATTAAAGAGATAGtttttttCATTACTATCTTTAACATAAGTATCGATCAAAAGACTAT 33595 | | ||||| ||||||||| | |||||||| |||||| |||| | ||||||| Sbjct 44463645 CGTGGAAGAGGCGGTTTTTTTCGGTGGAATCTTTAATATAAGTTTCGAGGAGGAGACTAT 44463586 Query 33596 ACATTTCCGAATGAATGTTTTCAATGGCCATCTGAAATCCGTAGAA 33641 |||| || || || || || || ||||| || || ||||| || || Sbjct 44463585 ACATCTCAGAGTGGATATTCTCGATGGCGATTTGGAATCCATAAAA 44463540 >seq7 Length=42802127 Score = 96.9 bits (106), Expect = 4e-15 Identities = 158/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 63611 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 63670 |||||| ||||| || | || |||||||| || ||||||||| ||| ||| | | | Sbjct 28741192 AGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGAGACATCATGTG 28741133 Query 63671 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 63730 || || | ||||| || || || || | ||||||||| ||||| || | ||| || Sbjct 28741132 ATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCAACCCTCATCAA 28741073 Query 63731 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 63790 |||||| || || ||||| | | ||| | | ||| || | |||||| | || | Sbjct 28741072 CATGTGTTGGGGCCTTTCTATAACCTTCCCTTGAACTTTTAAGAGGTAGGACCTCTCAAG 28741013 Query 63791 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 63838 ||||| ||||||||||| | || |||||| || || || || || 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 63611 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 63670 |||||| ||||| || | || |||||||| || ||||||||| ||| ||| | | | Sbjct 13233471 AGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGAGACATCATGTG 13233412 Query 63671 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 63730 || || | ||||| || || || || | ||||||||| ||||| || | ||| || Sbjct 13233411 ATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCAACCCTCATCAA 13233352 Query 63731 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 63790 |||||| || || ||||| | | ||| | | ||| || | |||||| | || | Sbjct 13233351 CATGTGTTGGGGCCTTTCTATAACCTTCCCTTGAACTTTTAAGAGGTAGGACCTCTCAAG 13233292 Query 63791 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 63838 ||||| ||||||||||| | || |||||| || || || || || Sbjct 13233291 GGTTTTGAAACCAAAATAATCATAGTCAAAGTCCCGATCATATATGAT 13233244 >seq228 Length=356584 Score = 93.3 bits (102), Expect = 5e-14 Identities = 191/284 (67%), Gaps = 0/284 (0%) Strand=Plus/Plus Query 33300 CAAACATGCGAAATCGCAGTGCAGACCCTCGTCTCTACTAATTAGTTCGTTGGAAAACGT 33359 ||| || || || ||||| || ||||| || |||| | || | ||||| || || || Sbjct 282326 CAAGCAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGAAAGT 282385 Query 33360 GAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGAAGCGAATGATCCAGAAAA 33419 | ||| ||||||| || |||||||| | ||||||||| | ||| || || || Sbjct 282386 TAATCCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCGCGCAGAAACTGCCGGAGAA 282445 Query 33420 GAAGATTCCTTCTACTGCAGCAAAGGCAATAAGTCTCTCTCCATAACCGGCGCTGTCATG 33479 || || |||||||| ||| || || || | | || || || | ||| | | | Sbjct 282446 AAATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCGGCCGTC 282505 Query 33480 TATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTATGGCATT 33539 ||||| || |||||||||||| || || || || |||| |||||| | || | Sbjct 282506 GATCCATTTGAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGTAGCGTG 282565 Query 33540 AAAGAGATAGtttttttCATTACTATCTTTAACATAAGTATCGA 33583 ||||| ||||||||| | |||||| | | |||| |||| Sbjct 282566 GAAGAGGCGGTTTTTTTCGGTGGAATCTTTGATAGAAGTTTCGA 282609 >seq25 Length=50193149 Score = 91.5 bits (100), Expect = 2e-13 Identities = 157/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 63611 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 63670 ||| || ||||| || | || |||||||| || || |||||| ||| ||| | | | Sbjct 26655750 AGTCCCAGCATTGAAAAGAGTGGGAGAAGCATGAGTGAACCATCTTTGAGACATCATGTG 26655691 Query 63671 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 63730 || || | ||||| || || || || | ||||||||| || || || | |||||| Sbjct 26655690 ATAAGTTTTTATAGCAGAATCAATGTCATCCTTATGAATTCCAACAGCAACCCTCATTAA 26655631 Query 63731 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 63790 |||||||||||| ||||| | | ||| | | |||||| | || || | |||| Sbjct 26655630 CATGTGCTGAGGCCTTTCTATAACCTTCCCTTGAACTTTCAAGAGATAAGACCTCTCCAG 26655571 Query 63791 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 63838 ||||| || ||||| || | ||| |||||| || || || || || 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 63611 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 63670 ||| || ||||| || | || |||||||| || || |||||| ||| ||| | | | Sbjct 29495687 AGTGCCAGCATTGAAAAGAGTGGGAGAAGCATGAGTGAACCATCTTTGAGACATCATGTG 29495628 Query 63671 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 63730 || || | ||||| || || || || | ||||||||| || || || | |||||| Sbjct 29495627 ATAAGTTTTTATAGCAGAATCAATGTCATCCTTATGAATTCCAACAGCAACCCTCATTAA 29495568 Query 63731 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 63790 |||||||||||| ||||| | | ||| | | |||||| | || || | ||||| Sbjct 29495567 CATGTGCTGAGGCCTTTCTATAACCTTCCCTTGAACTTTCAAGAGATAAGACCTCTCCAA 29495508 Query 63791 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 63838 ||||| || ||||| || | || |||||| || || || || || 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: 622875965987680