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_008291.1 Length=198050 Score E Sequences producing significant alignments: (Bits) Value seq22 154 2e-32 seq19 131 2e-25 seq16 114 2e-20 seq7 100 4e-16 seq4 100 4e-16 seq25 96.9 4e-15 seq2 96.9 4e-15 seq228 86.0 8e-12 >seq22 Length=61129363 Score = 154 bits (170), Expect = 2e-32 Identities = 389/586 (66%), Gaps = 4/586 (1%) Strand=Plus/Plus Query 32653 ACATCAAACATGCGAAATCGCAGTGTAGACCCTCGTCTCTACTAATTAATTCGTTGGAAA 32712 ||| ||| || |||||||||||||| ||||| || |||| ||||| ||||| || | Sbjct 6287571 ACAGCAAGCAAGCGAAATCGCAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGA 6287630 Query 32713 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGACGCA-AATGATCCA 32771 | || | ||||||||||| || | |||||| | ||||||||||| | || || ||| Sbjct 6287631 AAGTTAATCCGGGCATTAACCCCCTCTTTTTTAACCAAAATATGG-CACAGAAACTTCCG 6287689 Query 32772 GAAAAGAAAATTCCTTCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCGCTG 32831 || || || || |||||||| ||||| || || | | || | || | | | Sbjct 6287690 GAGAAAAAGATCCCTTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCG 6287749 Query 32832 TCATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATTGTCTCTATA 32891 | | ||||| || |||||| ||||| || || ||||| |||| ||||| || Sbjct 6287750 CCGTCGATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATG 6287809 Query 32892 GCATTAAAGAGATAGtttttttCATTACTATCTTTAACATATGTATCAATCAAAAGACTA 32951 || || ||| ||| ||||||| |||||| | || || || | | ||||| Sbjct 6287810 GCGCGGAAAAGACGGTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTG 6287869 Query 32952 TACATTTCCGAATGAATGTTTTCAATGGCCATTTGAAATCCGT-AGAAGCATCTAGCCTC 33010 ||||| || || || || ||||| || || ||||| || || | | ||||| | ||||| Sbjct 6287870 TACATCTCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAAAGCA-CGCGCCTC 6287928 Query 33011 GGTAATCTGTACTTCTGTACAAAATCGTTCTGCTAAATTTTCATTCACTATTCCGTCACT 33070 || ||||| || ||| | || || | || | || ||| ||||| || || Sbjct 6287929 GGAGATCTGGACCTCTTTCATGAACCGAACAGCAAGGTTCTCAAGGACTATGCCATCGGA 6287988 Query 33071 GGCTGCAAAAAACGCCAATACATGTTTTATAAAATATTTTTCGTCTGGTGTTAGTTTATT 33130 ||| || ||||| || | || || | || || | | || || | || || | | Sbjct 6287989 GGCGGCGAAAAAGGCGAGAACGTGACTAATGAAGTGATGCTCATCGGCGGTGAGAGTTTC 6288048 Query 33131 CCAATCATTGATATCTTTAGATATATCCACTTCTTCCACTGTCCAAAATGATGCCTCTGC 33190 ||| | | | |||| ||| | ||| ||||| || | |||||||| || || || || Sbjct 6288049 CCAGTGACGAAGATCTGAAGACAGATCGACTTCCTCTGCGGTCCAAAACGACGCTTCGGC 6288108 Query 33191 CTTTTTATACATATTCCAGATGTCATGATATTGAATTGGAAAAATA 33236 || || ||||| | ||| | || | ||||| || ||||| ||| Sbjct 6288109 TTTCTTGTACATTTCCCATACTTCTGGGTATTGGATCGGAAACATA 6288154 >seq19 Length=70911690 Score = 131 bits (144), Expect = 2e-25 Identities = 240/348 (69%), Gaps = 4/348 (1%) Strand=Plus/Minus Query 32653 ACATCAAACATGCGAAATCGCAGTGTAGACCCTCGTCTCTACTAATTAATTCGTTGGAAA 32712 ||| ||| || || || ||||| || ||||| || |||| | || || ||||| || | Sbjct 44463885 ACAGCAAGCAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGA 44463826 Query 32713 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGG-ACGCAAA-TGATCC 32770 | || | ||| ||||||| || |||||||| | ||||||||| | || ||| || || Sbjct 44463825 AAGTTAATCCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCGCACAGAAACTG--CC 44463768 Query 32771 AGAAAAGAAAATTCCTTCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCGCT 32830 || || || || |||||||| || || || || | | || || || | ||| Sbjct 44463767 GGAGAAAAATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCC 44463708 Query 32831 GTCATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATTGTCTCTAT 32890 | | | ||||| || |||||||||||| || || || || |||| || || | Sbjct 44463707 GCCGTCGATCCATTTCAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGT 44463648 Query 32891 AGCATTAAAGAGATAGtttttttCATTACTATCTTTAACATATGTATCAATCAAAAGACT 32950 ||| | ||||| ||||||||| | |||||||| ||| || || | | ||||| Sbjct 44463647 AGCGTGGAAGAGGCGGTTTTTTTCGGTGGAATCTTTAATATAAGTTTCGAGGAGGAGACT 44463588 Query 32951 ATACATTTCCGAATGAATGTTTTCAATGGCCATTTGAAATCCGTAGAA 32998 |||||| || || || || || || ||||| ||||| ||||| || || Sbjct 44463587 ATACATCTCAGAGTGGATATTCTCGATGGCGATTTGGAATCCATAAAA 44463540 >seq16 Length=102030775 Score = 114 bits (126), Expect = 2e-20 Identities = 235/347 (68%), Gaps = 2/347 (1%) Strand=Plus/Minus Query 32653 ACATCAAACATGCGAAATCGCAGTGTAGACCCTCGTCTCTACTAATTAATTCGTTGGAAA 32712 ||| ||| || |||||||| ||||| ||||| || |||| ||||| ||||| || | Sbjct 57862383 ACAGCAAGCAAGCGAAATCACAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGA 57862324 Query 32713 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGACGCA-AATGATCCA 32771 | || | ||||||||||| || | |||||| | ||||||||||| | || || ||| Sbjct 57862323 AAGTTAATCCGGGCATTAACCCCCTCTTTTTTAACCAAAATATGG-CACAGAAACTTCCG 57862265 Query 32772 GAAAAGAAAATTCCTTCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCGCTG 32831 || || || || || ||||| ||||| || || | | || | || | | | Sbjct 57862264 GAGAAAAAGATCCCCTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCG 57862205 Query 32832 TCATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATTGTCTCTATA 32891 | | ||||| || |||||| ||||| || || ||||| |||| ||||| || Sbjct 57862204 CCGTCGATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATG 57862145 Query 32892 GCATTAAAGAGATAGtttttttCATTACTATCTTTAACATATGTATCAATCAAAAGACTA 32951 || || ||| ||| ||||||| |||||| | || || || | | ||||| Sbjct 57862144 GCGCGGAAAAGACGGTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTG 57862085 Query 32952 TACATTTCCGAATGAATGTTTTCAATGGCCATTTGAAATCCGTAGAA 32998 ||||| || || || || ||||| || || ||||| || || || || Sbjct 57862084 TACATCTCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAA 57862038 >seq7 Length=42802127 Score = 100 bits (110), Expect = 4e-16 Identities = 159/228 (70%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 63466 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGAGTAAACCATTTTTCAGAAAGTAGATT 63525 |||||| ||||| || | || |||||||| |||||||||||| ||| ||| | | | Sbjct 28741192 AGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGAGACATCATGTG 28741133 Query 63526 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 63585 || || | ||||| || || || || | ||||||||| ||||| || | ||| || Sbjct 28741132 ATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCAACCCTCATCAA 28741073 Query 63586 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 63645 |||||| || || ||||| | | ||| | | ||| || | |||||| | || | Sbjct 28741072 CATGTGTTGGGGCCTTTCTATAACCTTCCCTTGAACTTTTAAGAGGTAGGACCTCTCAAG 28741013 Query 63646 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 63693 ||||| ||||||||||| | || |||||| || || || || || Sbjct 28741012 GGTTTTGAAACCAAAATAATCATAGTCAAAGTCCCGATCATATATGAT 28740965 Score = 84.2 bits (92), Expect = 3e-11 Identities = 151/221 (68%), Gaps = 0/221 (0%) Strand=Plus/Minus Query 63227 CCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACCA 63286 ||||| ||||| | || | ||| |||| ||| | || | || |||||| | ||| ||| Sbjct 28741535 CCTCCTTGATCAACATAACGAGCAGTGTCATTGAACACCCGCAGCATTGGGACAATGCCA 28741476 Query 63287 TTGGATGTACCATTGGTCCCTGAGATATAGCTTCCACTGGCACGAATATTACTAATTGAT 63346 || ||||||||||| || || || || || | | || |||||||| || ||| Sbjct 28741475 TTAGATGTACCATTTGTTCCACGAATGTAACTACTTGTAGCCCGAATATTGTGAACTGAG 28741416 Query 63347 AGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGATG 63406 | ||| ||||| || || ||| ||| | || || || || || ||||| || Sbjct 28741415 ACACCAATTCCTCCAGCTGATTTGCTGATAATAGCACACTCCTTCAAAGTGTCATATATT 28741356 Query 63407 CCCTCTATACTATCATCCATCATGTTAAGTAGAAAACAGCT 63447 ||||| ||||| ||||| |||| |||| ||| ||||| Sbjct 28741355 CCCTCAATACTGTCATCTTTCATACACAGTAAAAAGCAGCT 28741315 >seq4 Length=78750349 Score = 100 bits (110), Expect = 4e-16 Identities = 159/228 (70%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 63466 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGAGTAAACCATTTTTCAGAAAGTAGATT 63525 |||||| ||||| || | || |||||||| |||||||||||| ||| ||| | | | Sbjct 13233471 AGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGAGACATCATGTG 13233412 Query 63526 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 63585 || || | ||||| || || || || | ||||||||| ||||| || | ||| || Sbjct 13233411 ATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCAACCCTCATCAA 13233352 Query 63586 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 63645 |||||| || || ||||| | | ||| | | ||| || | |||||| | || | Sbjct 13233351 CATGTGTTGGGGCCTTTCTATAACCTTCCCTTGAACTTTTAAGAGGTAGGACCTCTCAAG 13233292 Query 63646 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 63693 ||||| ||||||||||| | || |||||| || || || || || Sbjct 13233291 GGTTTTGAAACCAAAATAATCATAGTCAAAGTCCCGATCATATATGAT 13233244 Score = 93.3 bits (102), Expect = 5e-14 Identities = 153/221 (69%), Gaps = 0/221 (0%) Strand=Plus/Minus Query 63227 CCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACCA 63286 ||||| ||||| | || | ||| |||| ||| | || | || |||||| | ||| ||| Sbjct 13233814 CCTCCTTGATCAACATAACGAGCAGTGTCATTGAACACCCGCAGCATTGGGACAATGCCA 13233755 Query 63287 TTGGATGTACCATTGGTCCCTGAGATATAGCTTCCACTGGCACGAATATTACTAATTGAT 63346 || ||||||||||| || || || || || | | || |||||||| || ||| Sbjct 13233754 TTAGATGTACCATTTGTTCCACGAATGTAACTACTTGTAGCCCGAATATTGTGAACTGAG 13233695 Query 63347 AGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGATG 63406 | ||| ||||| || || ||| ||||| || || || || || ||||| || Sbjct 13233694 ACACCAATTCCTCCAGCTGATTTGCTGATTATAGCACACTCCTTCAAAGTGTCATATATT 13233635 Query 63407 CCCTCTATACTATCATCCATCATGTTAAGTAGAAAACAGCT 63447 ||||| ||||||||||| |||| |||| ||| ||||| Sbjct 13233634 CCCTCGATACTATCATCTTTCATACACAGTAAAAAGCAGCT 13233594 >seq25 Length=50193149 Score = 96.9 bits (106), Expect = 4e-15 Identities = 158/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 63466 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGAGTAAACCATTTTTCAGAAAGTAGATT 63525 ||| || ||||| || | || |||||||| ||||| |||||| ||| ||| | | | Sbjct 26655750 AGTCCCAGCATTGAAAAGAGTGGGAGAAGCATGAGTGAACCATCTTTGAGACATCATGTG 26655691 Query 63526 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 63585 || || | ||||| || || || || | ||||||||| || || || | |||||| Sbjct 26655690 ATAAGTTTTTATAGCAGAATCAATGTCATCCTTATGAATTCCAACAGCAACCCTCATTAA 26655631 Query 63586 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 63645 |||||||||||| ||||| | | ||| | | |||||| | || || | |||| Sbjct 26655630 CATGTGCTGAGGCCTTTCTATAACCTTCCCTTGAACTTTCAAGAGATAAGACCTCTCCAG 26655571 Query 63646 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 63693 ||||| || ||||| || | ||| |||||| || || || || || Sbjct 26655570 GGTTTTGAAGCCAAAGTAATCGTAGTCAAAGTCACGATCATATATGAT 26655523 Score = 91.5 bits (100), Expect = 2e-13 Identities = 143/205 (70%), Gaps = 0/205 (0%) Strand=Plus/Minus Query 63226 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 63285 |||||| ||||| | |||| ||| || | ||| | || | || |||||| | ||| || Sbjct 26656093 TCCTCCTTGATCAACATATCGAGCAGTATCATTGAACACCCGCAGCATTGGGACAATTCC 26656034 Query 63286 ATTGGATGTACCATTGGTCCCTGAGATATAGCTTCCACTGGCACGAATATTACTAATTGA 63345 ||| ||||||||||| || || ||||| || || |||| |||||||| || || Sbjct 26656033 ATTAGATGTACCATTTGTTCCACGAATATAACTACCTGTGGCTCGAATATTGTGAACAGA 26655974 Query 63346 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGAT 63405 | ||| ||||| || || ||| ||| | || || || || || ||||| || Sbjct 26655973 AACACCAATTCCTCCAGCTGATTTGCTGATAACAGCACACTCCTTCAAAGTTTCATAAAT 26655914 Query 63406 GCCCTCTATACTATCATCCATCATG 63430 || || ||||||||||| ||||| Sbjct 26655913 TCCTTCAATACTATCATCTTTCATG 26655889 >seq2 Length=106994729 Score = 96.9 bits (106), Expect = 4e-15 Identities = 158/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 63466 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGAGTAAACCATTTTTCAGAAAGTAGATT 63525 ||| || ||||| || | || |||||||| ||||| |||||| ||| ||| | | | Sbjct 29495687 AGTGCCAGCATTGAAAAGAGTGGGAGAAGCATGAGTGAACCATCTTTGAGACATCATGTG 29495628 Query 63526 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 63585 || || | ||||| || || || || | ||||||||| || || || | |||||| Sbjct 29495627 ATAAGTTTTTATAGCAGAATCAATGTCATCCTTATGAATTCCAACAGCAACCCTCATTAA 29495568 Query 63586 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 63645 |||||||||||| ||||| | | ||| | | |||||| | || || | ||||| Sbjct 29495567 CATGTGCTGAGGCCTTTCTATAACCTTCCCTTGAACTTTCAAGAGATAAGACCTCTCCAA 29495508 Query 63646 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 63693 ||||| || ||||| || | || |||||| || || || || || Sbjct 29495507 GGTTTTGAAGCCAAAGTAATCATAGTCAAAGTCACGATCATATATGAT 29495460 Score = 91.5 bits (100), Expect = 2e-13 Identities = 143/205 (70%), Gaps = 0/205 (0%) Strand=Plus/Minus Query 63226 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 63285 |||||| ||||| | |||| ||| || | ||| | || | || |||||| | ||| || Sbjct 29496030 TCCTCCTTGATCAACATATCGAGCAGTATCATTGAACACCCGCAGCATTGGGACAATTCC 29495971 Query 63286 ATTGGATGTACCATTGGTCCCTGAGATATAGCTTCCACTGGCACGAATATTACTAATTGA 63345 ||| ||||||||||| || || ||||| || || |||| |||||||| || || Sbjct 29495970 ATTAGATGTACCATTTGTTCCACGAATATAACTACCTGTGGCTCGAATATTGTGAACAGA 29495911 Query 63346 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGAT 63405 | ||| ||||| || || ||| ||| | || || || || || ||||| || Sbjct 29495910 AACACCAATTCCTCCAGCTGATTTGCTGATAACAGCACACTCCTTCAAAGTTTCATATAT 29495851 Query 63406 GCCCTCTATACTATCATCCATCATG 63430 || || ||||||||||| ||||| Sbjct 29495850 TCCTTCAATACTATCATCTTTCATG 29495826 >seq228 Length=356584 Score = 86.0 bits (94), Expect = 8e-12 Identities = 176/259 (68%), Gaps = 2/259 (1%) Strand=Plus/Plus Query 32657 CAAACATGCGAAATCGCAGTGTAGACCCTCGTCTCTACTAATTAATTCGTTGGAAAACGT 32716 ||| || || || ||||| || ||||| || |||| | || || ||||| || || || Sbjct 282326 CAAGCAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGAAAGT 282385 Query 32717 GAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGACGCAAATGAT-CCAGAAA 32775 | ||| ||||||| || |||||||| | ||||||||| | |||| | | || || | Sbjct 282386 TAATCCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCG-CGCAGAAACTGCCGGAGA 282444 Query 32776 AGAAAATTCCTTCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCGCTGTCAT 32835 | || || |||||||| || || || || | | || || || | ||| | | | Sbjct 282445 AAAATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCGGCCGT 282504 Query 32836 GTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATTGTCTCTATAGCAT 32895 ||||| || |||||||||||| || || || || |||| || || |||| | Sbjct 282505 CGATCCATTTGAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGTAGCGT 282564 Query 32896 TAAAGAGATAGtttttttC 32914 ||||| ||||||||| Sbjct 282565 GGAAGAGGCGGTTTTTTTC 282583 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 633559544180800