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_001611.1 Length=185578 Score E Sequences producing significant alignments: (Bits) Value seq22 159 4e-34 seq19 136 5e-27 seq16 120 4e-22 seq228 91.5 2e-13 seq7 91.5 2e-13 seq4 91.5 2e-13 seq25 87.8 2e-12 seq2 87.8 2e-12 >seq22 Length=61129363 Score = 159 bits (176), Expect = 4e-34 Identities = 388/585 (66%), Gaps = 2/585 (0%) Strand=Plus/Plus Query 24127 ACATCAAACATGCGAAATCGCAGTGTAGACCCTCGTCTCTACTAATTAATTCGTTGGAAA 24186 ||| ||| || |||||||||||||| ||||| || |||| ||||| ||||| || | Sbjct 6287571 ACAGCAAGCAAGCGAAATCGCAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGA 6287630 Query 24187 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGACGCA-AATGATCCA 24245 | || | ||||||||||| || | |||||| | ||||||||||| | || || ||| Sbjct 6287631 AAGTTAATCCGGGCATTAACCCCCTCTTTTTTAACCAAAATATGG-CACAGAAACTTCCG 6287689 Query 24246 GAAAAGAAAATTCCTTCTACTGCCGCAAAGGCAATAAGTCTTTCTCCATAACCGGCGCTG 24305 || || || || |||||||| ||||| || || | | ||| | || | | | Sbjct 6287690 GAGAAAAAGATCCCTTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCG 6287749 Query 24306 TCATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATTGTCTCTATA 24365 | | ||||| || |||||| ||||| || || ||||| |||| ||||| || Sbjct 6287750 CCGTCGATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATG 6287809 Query 24366 GCATTAAAGAGATAGtttttttCATTACTATCTTTAACATATGTATCAATCAAAAGACTA 24425 || || ||| ||| ||||||| |||||| | || || || | | ||||| Sbjct 6287810 GCGCGGAAAAGACGGTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTG 6287869 Query 24426 TACATTTCCGAATGAATGTTTTCAATGGCCATTTGAAATCCGTAGAAACATCTAGCCTCG 24485 ||||| || || || || ||||| || || ||||| || || || ||| | |||||| Sbjct 6287870 TACATCTCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAAAGCACGCGCCTCG 6287929 Query 24486 GTAATCTGTACTTCTATACAAAATCGTTCTGCTAAATTTTCATTCACTATTCCGTCACTG 24545 | ||||| || ||| | || || | || | || ||| ||||| || || | Sbjct 6287930 GAGATCTGGACCTCTTTCATGAACCGAACAGCAAGGTTCTCAAGGACTATGCCATCGGAG 6287989 Query 24546 GCTGCAAAAAACGCCAATACATGTTTTATAAAATATTTTTCGTCTGGTGTTAGTTTATTC 24605 || || ||||| || | || || | || || | | || || | || || | | | Sbjct 6287990 GCGGCGAAAAAGGCGAGAACGTGACTAATGAAGTGATGCTCATCGGCGGTGAGAGTTTCC 6288049 Query 24606 CAATCATTGATATCTTTAGATATATCCACTTCTTCCACTGTCCAAAATGATGCCTCTGCC 24665 || | | | |||| ||| | ||| ||||| || | |||||||| || || || || Sbjct 6288050 CAGTGACGAAGATCTGAAGACAGATCGACTTCCTCTGCGGTCCAAAACGACGCTTCGGCT 6288109 Query 24666 TTTTTATACATATTCCAGATGTCATGATATTGAATTGGAAAAATA 24710 || || ||||| | ||| | || | ||||| || ||||| ||| Sbjct 6288110 TTCTTGTACATTTCCCATACTTCTGGGTATTGGATCGGAAACATA 6288154 >seq19 Length=70911690 Score = 136 bits (150), Expect = 5e-27 Identities = 241/348 (69%), Gaps = 4/348 (1%) Strand=Plus/Minus Query 24127 ACATCAAACATGCGAAATCGCAGTGTAGACCCTCGTCTCTACTAATTAATTCGTTGGAAA 24186 ||| ||| || || || ||||| || ||||| || |||| | || || ||||| || | Sbjct 44463885 ACAGCAAGCAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGA 44463826 Query 24187 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGG-ACGCAAA-TGATCC 24244 | || | ||| ||||||| || |||||||| | ||||||||| | || ||| || || Sbjct 44463825 AAGTTAATCCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCGCACAGAAACTG--CC 44463768 Query 24245 AGAAAAGAAAATTCCTTCTACTGCCGCAAAGGCAATAAGTCTTTCTCCATAACCGGCGCT 24304 || || || || |||||||| || || || || | | ||| || || | ||| Sbjct 44463767 GGAGAAAAATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCC 44463708 Query 24305 GTCATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATTGTCTCTAT 24364 | | | ||||| || |||||||||||| || || || || |||| || || | Sbjct 44463707 GCCGTCGATCCATTTCAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGT 44463648 Query 24365 AGCATTAAAGAGATAGtttttttCATTACTATCTTTAACATATGTATCAATCAAAAGACT 24424 ||| | ||||| ||||||||| | |||||||| ||| || || | | ||||| Sbjct 44463647 AGCGTGGAAGAGGCGGTTTTTTTCGGTGGAATCTTTAATATAAGTTTCGAGGAGGAGACT 44463588 Query 24425 ATACATTTCCGAATGAATGTTTTCAATGGCCATTTGAAATCCGTAGAA 24472 |||||| || || || || || || ||||| ||||| ||||| || || Sbjct 44463587 ATACATCTCAGAGTGGATATTCTCGATGGCGATTTGGAATCCATAAAA 44463540 >seq16 Length=102030775 Score = 120 bits (132), Expect = 4e-22 Identities = 237/348 (68%), Gaps = 2/348 (1%) Strand=Plus/Minus Query 24127 ACATCAAACATGCGAAATCGCAGTGTAGACCCTCGTCTCTACTAATTAATTCGTTGGAAA 24186 ||| ||| || |||||||| ||||| ||||| || |||| ||||| ||||| || | Sbjct 57862383 ACAGCAAGCAAGCGAAATCACAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGA 57862324 Query 24187 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGACGCA-AATGATCCA 24245 | || | ||||||||||| || | |||||| | ||||||||||| | || || ||| Sbjct 57862323 AAGTTAATCCGGGCATTAACCCCCTCTTTTTTAACCAAAATATGG-CACAGAAACTTCCG 57862265 Query 24246 GAAAAGAAAATTCCTTCTACTGCCGCAAAGGCAATAAGTCTTTCTCCATAACCGGCGCTG 24305 || || || || || ||||| ||||| || || | | ||| | || | | | Sbjct 57862264 GAGAAAAAGATCCCCTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCG 57862205 Query 24306 TCATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATTGTCTCTATA 24365 | | ||||| || |||||| ||||| || || ||||| |||| ||||| || Sbjct 57862204 CCGTCGATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATG 57862145 Query 24366 GCATTAAAGAGATAGtttttttCATTACTATCTTTAACATATGTATCAATCAAAAGACTA 24425 || || ||| ||| ||||||| |||||| | || || || | | ||||| Sbjct 57862144 GCGCGGAAAAGACGGTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTG 57862085 Query 24426 TACATTTCCGAATGAATGTTTTCAATGGCCATTTGAAATCCGTAGAAA 24473 ||||| || || || || ||||| || || ||||| || || || ||| Sbjct 57862084 TACATCTCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAAA 57862037 >seq228 Length=356584 Score = 91.5 bits (100), Expect = 2e-13 Identities = 177/259 (68%), Gaps = 2/259 (1%) Strand=Plus/Plus Query 24131 CAAACATGCGAAATCGCAGTGTAGACCCTCGTCTCTACTAATTAATTCGTTGGAAAACGT 24190 ||| || || || ||||| || ||||| || |||| | || || ||||| || || || Sbjct 282326 CAAGCAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGAAAGT 282385 Query 24191 GAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGACGCAAATGAT-CCAGAAA 24249 | ||| ||||||| || |||||||| | ||||||||| | |||| | | || || | Sbjct 282386 TAATCCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCG-CGCAGAAACTGCCGGAGA 282444 Query 24250 AGAAAATTCCTTCTACTGCCGCAAAGGCAATAAGTCTTTCTCCATAACCGGCGCTGTCAT 24309 | || || |||||||| || || || || | | ||| || || | ||| | | | Sbjct 282445 AAAATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCGGCCGT 282504 Query 24310 GTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATTGTCTCTATAGCAT 24369 ||||| || |||||||||||| || || || || |||| || || |||| | Sbjct 282505 CGATCCATTTGAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGTAGCGT 282564 Query 24370 TAAAGAGATAGtttttttC 24388 ||||| ||||||||| Sbjct 282565 GGAAGAGGCGGTTTTTTTC 282583 >seq7 Length=42802127 Score = 91.5 bits (100), Expect = 2e-13 Identities = 157/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 54424 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 54483 |||||| ||||| || | || |||||||| || ||||||||| ||| ||| | | | Sbjct 28741192 AGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGAGACATCATGTG 28741133 Query 54484 GTACGTCTCGATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 54543 || || | ||||| || || || || | ||||||||| ||||| || | ||| || Sbjct 28741132 ATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCAACCCTCATCAA 28741073 Query 54544 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAGCAAGTAGGATTTTTCCAA 54603 |||||| || || ||||| | | ||| | | ||| | | |||||| | || | Sbjct 28741072 CATGTGTTGGGGCCTTTCTATAACCTTCCCTTGAACTTTTAAGAGGTAGGACCTCTCAAG 28741013 Query 54604 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 54651 ||||| ||||||||||| | || |||||| || || || || || Sbjct 28741012 GGTTTTGAAACCAAAATAATCATAGTCAAAGTCCCGATCATATATGAT 28740965 >seq4 Length=78750349 Score = 91.5 bits (100), Expect = 2e-13 Identities = 157/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 54424 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 54483 |||||| ||||| || | || |||||||| || ||||||||| ||| ||| | | | Sbjct 13233471 AGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGAGACATCATGTG 13233412 Query 54484 GTACGTCTCGATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 54543 || || | ||||| || || || || | ||||||||| ||||| || | ||| || Sbjct 13233411 ATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCAACCCTCATCAA 13233352 Query 54544 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAGCAAGTAGGATTTTTCCAA 54603 |||||| || || ||||| | | ||| | | ||| | | |||||| | || | Sbjct 13233351 CATGTGTTGGGGCCTTTCTATAACCTTCCCTTGAACTTTTAAGAGGTAGGACCTCTCAAG 13233292 Query 54604 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 54651 ||||| ||||||||||| | || |||||| || || || || || Sbjct 13233291 GGTTTTGAAACCAAAATAATCATAGTCAAAGTCCCGATCATATATGAT 13233244 Score = 84.2 bits (92), Expect = 3e-11 Identities = 151/221 (68%), Gaps = 0/221 (0%) Strand=Plus/Minus Query 54185 CCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACCA 54244 ||||| ||||| | || | ||| |||| ||| | || | || |||||| | ||| ||| Sbjct 13233814 CCTCCTTGATCAACATAACGAGCAGTGTCATTGAACACCCGCAGCATTGGGACAATGCCA 13233755 Query 54245 TTGGATGCACCATTGGTCCCGGAGATATAGCTTCCACTGGCACGAATATTACTAATTGAT 54304 || |||| |||||| || || || || || | | || |||||||| || ||| Sbjct 13233754 TTAGATGTACCATTTGTTCCACGAATGTAACTACTTGTAGCCCGAATATTGTGAACTGAG 13233695 Query 54305 AGACCTATCCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGATG 54364 | ||| || || || || ||| ||||| || || || || || ||||| || Sbjct 13233694 ACACCAATTCCTCCAGCTGATTTGCTGATTATAGCACACTCCTTCAAAGTGTCATATATT 13233635 Query 54365 CCCTCTATACTATCATCCATCATGTTAAGTAGAAAACAGCT 54405 ||||| ||||||||||| |||| |||| ||| ||||| Sbjct 13233634 CCCTCGATACTATCATCTTTCATACACAGTAAAAAGCAGCT 13233594 >seq25 Length=50193149 Score = 87.8 bits (96), Expect = 2e-12 Identities = 156/228 (68%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 54424 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 54483 ||| || ||||| || | || |||||||| || || |||||| ||| ||| | | | Sbjct 26655750 AGTCCCAGCATTGAAAAGAGTGGGAGAAGCATGAGTGAACCATCTTTGAGACATCATGTG 26655691 Query 54484 GTACGTCTCGATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 54543 || || | ||||| || || || || | ||||||||| || || || | |||||| Sbjct 26655690 ATAAGTTTTTATAGCAGAATCAATGTCATCCTTATGAATTCCAACAGCAACCCTCATTAA 26655631 Query 54544 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAGCAAGTAGGATTTTTCCAA 54603 |||||||||||| ||||| | | ||| | | ||||| | || || | |||| Sbjct 26655630 CATGTGCTGAGGCCTTTCTATAACCTTCCCTTGAACTTTCAAGAGATAAGACCTCTCCAG 26655571 Query 54604 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 54651 ||||| || ||||| || | ||| |||||| || || || || || Sbjct 26655570 GGTTTTGAAGCCAAAGTAATCGTAGTCAAAGTCACGATCATATATGAT 26655523 Score = 82.4 bits (90), Expect = 9e-11 Identities = 141/205 (69%), Gaps = 0/205 (0%) Strand=Plus/Minus Query 54184 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 54243 |||||| ||||| | |||| ||| || | ||| | || | || |||||| | ||| || Sbjct 26656093 TCCTCCTTGATCAACATATCGAGCAGTATCATTGAACACCCGCAGCATTGGGACAATTCC 26656034 Query 54244 ATTGGATGCACCATTGGTCCCGGAGATATAGCTTCCACTGGCACGAATATTACTAATTGA 54303 ||| |||| |||||| || || ||||| || || |||| |||||||| || || Sbjct 26656033 ATTAGATGTACCATTTGTTCCACGAATATAACTACCTGTGGCTCGAATATTGTGAACAGA 26655974 Query 54304 TAGACCTATCCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGAT 54363 | ||| || || || || ||| ||| | || || || || || ||||| || Sbjct 26655973 AACACCAATTCCTCCAGCTGATTTGCTGATAACAGCACACTCCTTCAAAGTTTCATAAAT 26655914 Query 54364 GCCCTCTATACTATCATCCATCATG 54388 || || ||||||||||| ||||| Sbjct 26655913 TCCTTCAATACTATCATCTTTCATG 26655889 >seq2 Length=106994729 Score = 87.8 bits (96), Expect = 2e-12 Identities = 156/228 (68%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 54424 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 54483 ||| || ||||| || | || |||||||| || || |||||| ||| ||| | | | Sbjct 29495687 AGTGCCAGCATTGAAAAGAGTGGGAGAAGCATGAGTGAACCATCTTTGAGACATCATGTG 29495628 Query 54484 GTACGTCTCGATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 54543 || || | ||||| || || || || | ||||||||| || || || | |||||| Sbjct 29495627 ATAAGTTTTTATAGCAGAATCAATGTCATCCTTATGAATTCCAACAGCAACCCTCATTAA 29495568 Query 54544 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAGCAAGTAGGATTTTTCCAA 54603 |||||||||||| ||||| | | ||| | | ||||| | || || | ||||| Sbjct 29495567 CATGTGCTGAGGCCTTTCTATAACCTTCCCTTGAACTTTCAAGAGATAAGACCTCTCCAA 29495508 Query 54604 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 54651 ||||| || ||||| || | || |||||| || || || || || Sbjct 29495507 GGTTTTGAAGCCAAAGTAATCATAGTCAAAGTCACGATCATATATGAT 29495460 Score = 82.4 bits (90), Expect = 9e-11 Identities = 141/205 (69%), Gaps = 0/205 (0%) Strand=Plus/Minus Query 54184 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 54243 |||||| ||||| | |||| ||| || | ||| | || | || |||||| | ||| || Sbjct 29496030 TCCTCCTTGATCAACATATCGAGCAGTATCATTGAACACCCGCAGCATTGGGACAATTCC 29495971 Query 54244 ATTGGATGCACCATTGGTCCCGGAGATATAGCTTCCACTGGCACGAATATTACTAATTGA 54303 ||| |||| |||||| || || ||||| || || |||| |||||||| || || Sbjct 29495970 ATTAGATGTACCATTTGTTCCACGAATATAACTACCTGTGGCTCGAATATTGTGAACAGA 29495911 Query 54304 TAGACCTATCCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGAT 54363 | ||| || || || || ||| ||| | || || || || || ||||| || Sbjct 29495910 AACACCAATTCCTCCAGCTGATTTGCTGATAACAGCACACTCCTTCAAAGTTTCATATAT 29495851 Query 54364 GCCCTCTATACTATCATCCATCATG 54388 || || ||||||||||| ||||| Sbjct 29495850 TCCTTCAATACTATCATCTTTCATG 29495826 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 593653707935040