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_003391.1 Length=205719 Score E Sequences producing significant alignments: (Bits) Value seq22 150 2e-31 seq19 127 3e-24 seq16 116 5e-21 seq7 96.9 5e-15 seq4 96.9 5e-15 seq25 91.5 2e-13 seq2 91.5 2e-13 >seq22 Length=61129363 Score = 150 bits (166), Expect = 2e-31 Identities = 386/585 (66%), Gaps = 2/585 (0%) Strand=Plus/Plus Query 36150 ACATCAAACATGCGAAATCGCAGTGTAGACCCTCGTCTCTACTAATTAATTCGTTGGAAA 36209 ||| ||| || |||||||||||||| ||||| || |||| ||||| ||||| || | Sbjct 6287571 ACAGCAAGCAAGCGAAATCGCAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGA 6287630 Query 36210 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGACGCA-AATGATCCA 36268 | || | ||||||||||| || | |||||| | ||||||||||| | || || ||| Sbjct 6287631 AAGTTAATCCGGGCATTAACCCCCTCTTTTTTAACCAAAATATGG-CACAGAAACTTCCG 6287689 Query 36269 GAAAAGAAAATTCCTTCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCACTG 36328 || || || || |||||||| ||||| || || | | || | || | | | Sbjct 6287690 GAGAAAAAGATCCCTTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCG 6287749 Query 36329 TCATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATTGTCTCTATA 36388 | | ||||| || |||||| ||||| || || ||||| |||| ||||| || Sbjct 6287750 CCGTCGATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATG 6287809 Query 36389 GCATTAAAGAGATAGtttttttCATTACTATCTTTAACATATGTATCAATCAAAAGACTA 36448 || || ||| ||| ||||||| |||||| | || || || | | ||||| Sbjct 6287810 GCGCGGAAAAGACGGTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTG 6287869 Query 36449 TACATTTCCGAATGAATGTTTTCAATGGCCATTTGAAATCCGTAGAAACATCTAGCCTCG 36508 ||||| || || || || ||||| || || ||||| || || || ||| | |||||| Sbjct 6287870 TACATCTCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAAAGCACGCGCCTCG 6287929 Query 36509 GTAATCTGTACTTCTGTACAAAATCGTTCTGCTAAATTTTCATTCACTATTCCGTCACTG 36568 | ||||| || ||| | || || | || | || ||| ||||| || || | Sbjct 6287930 GAGATCTGGACCTCTTTCATGAACCGAACAGCAAGGTTCTCAAGGACTATGCCATCGGAG 6287989 Query 36569 GCTGCAAAAAACGCCAATACATGTTTTATAAAATATTTTTCGTTTGGTGTTAGTTTATTC 36628 || || ||||| || | || || | || || | | || | | || || | | | Sbjct 6287990 GCGGCGAAAAAGGCGAGAACGTGACTAATGAAGTGATGCTCATCGGCGGTGAGAGTTTCC 6288049 Query 36629 CAATCATTGATATCTTTAGATATATCCACTTCTTCCACTGTCCAAAATGATGCCTCTGCC 36688 || | | | |||| ||| | ||| ||||| || | |||||||| || || || || Sbjct 6288050 CAGTGACGAAGATCTGAAGACAGATCGACTTCCTCTGCGGTCCAAAACGACGCTTCGGCT 6288109 Query 36689 TTTTTATACATATTCCAGATGTCATGATATTGAATTGGAAAAATA 36733 || || ||||| | ||| | || | ||||| || ||||| ||| Sbjct 6288110 TTCTTGTACATTTCCCATACTTCTGGGTATTGGATCGGAAACATA 6288154 >seq19 Length=70911690 Score = 127 bits (140), Expect = 3e-24 Identities = 239/348 (69%), Gaps = 4/348 (1%) Strand=Plus/Minus Query 36150 ACATCAAACATGCGAAATCGCAGTGTAGACCCTCGTCTCTACTAATTAATTCGTTGGAAA 36209 ||| ||| || || || ||||| || ||||| || |||| | || || ||||| || | Sbjct 44463885 ACAGCAAGCAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGA 44463826 Query 36210 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGG-ACGCAAA-TGATCC 36267 | || | ||| ||||||| || |||||||| | ||||||||| | || ||| || || Sbjct 44463825 AAGTTAATCCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCGCACAGAAACTG--CC 44463768 Query 36268 AGAAAAGAAAATTCCTTCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCACT 36327 || || || || |||||||| || || || || | | || || || | | | Sbjct 44463767 GGAGAAAAATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCC 44463708 Query 36328 GTCATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATTGTCTCTAT 36387 | | | ||||| || |||||||||||| || || || || |||| || || | Sbjct 44463707 GCCGTCGATCCATTTCAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGT 44463648 Query 36388 AGCATTAAAGAGATAGtttttttCATTACTATCTTTAACATATGTATCAATCAAAAGACT 36447 ||| | ||||| ||||||||| | |||||||| ||| || || | | ||||| Sbjct 44463647 AGCGTGGAAGAGGCGGTTTTTTTCGGTGGAATCTTTAATATAAGTTTCGAGGAGGAGACT 44463588 Query 36448 ATACATTTCCGAATGAATGTTTTCAATGGCCATTTGAAATCCGTAGAA 36495 |||||| || || || || || || ||||| ||||| ||||| || || Sbjct 44463587 ATACATCTCAGAGTGGATATTCTCGATGGCGATTTGGAATCCATAAAA 44463540 >seq16 Length=102030775 Score = 116 bits (128), Expect = 5e-21 Identities = 236/348 (68%), Gaps = 2/348 (1%) Strand=Plus/Minus Query 36150 ACATCAAACATGCGAAATCGCAGTGTAGACCCTCGTCTCTACTAATTAATTCGTTGGAAA 36209 ||| ||| || |||||||| ||||| ||||| || |||| ||||| ||||| || | Sbjct 57862383 ACAGCAAGCAAGCGAAATCACAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGA 57862324 Query 36210 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGACGCA-AATGATCCA 36268 | || | ||||||||||| || | |||||| | ||||||||||| | || || ||| Sbjct 57862323 AAGTTAATCCGGGCATTAACCCCCTCTTTTTTAACCAAAATATGG-CACAGAAACTTCCG 57862265 Query 36269 GAAAAGAAAATTCCTTCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCACTG 36328 || || || || || ||||| ||||| || || | | || | || | | | Sbjct 57862264 GAGAAAAAGATCCCCTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCG 57862205 Query 36329 TCATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATTGTCTCTATA 36388 | | ||||| || |||||| ||||| || || ||||| |||| ||||| || Sbjct 57862204 CCGTCGATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATG 57862145 Query 36389 GCATTAAAGAGATAGtttttttCATTACTATCTTTAACATATGTATCAATCAAAAGACTA 36448 || || ||| ||| ||||||| |||||| | || || || | | ||||| Sbjct 57862144 GCGCGGAAAAGACGGTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTG 57862085 Query 36449 TACATTTCCGAATGAATGTTTTCAATGGCCATTTGAAATCCGTAGAAA 36496 ||||| || || || || ||||| || || ||||| || || || ||| Sbjct 57862084 TACATCTCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAAA 57862037 >seq7 Length=42802127 Score = 96.9 bits (106), Expect = 5e-15 Identities = 158/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 66455 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 66514 |||||| ||||| || | || |||||||| || ||||||||| ||| ||| | | | Sbjct 28741192 AGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGAGACATCATGTG 28741133 Query 66515 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 66574 || || | ||||| || || || || | ||||||||| ||||| || | ||| || Sbjct 28741132 ATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCAACCCTCATCAA 28741073 Query 66575 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 66634 |||||| || || ||||| | | ||| | | ||| || | |||||| | || | Sbjct 28741072 CATGTGTTGGGGCCTTTCTATAACCTTCCCTTGAACTTTTAAGAGGTAGGACCTCTCAAG 28741013 Query 66635 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 66682 ||||| ||||||||||| | || |||||| || || || || || Sbjct 28741012 GGTTTTGAAACCAAAATAATCATAGTCAAAGTCCCGATCATATATGAT 28740965 Score = 84.2 bits (92), Expect = 3e-11 Identities = 151/221 (68%), Gaps = 0/221 (0%) Strand=Plus/Minus Query 66216 CCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACCA 66275 ||||| ||||| | || | ||| |||| ||| | || | || |||||| | ||| ||| Sbjct 28741535 CCTCCTTGATCAACATAACGAGCAGTGTCATTGAACACCCGCAGCATTGGGACAATGCCA 28741476 Query 66276 TTGGATGTACCATTGGTCCCGGAGATATAGCTTCCACTTGCACGAATATTACTAATTGAT 66335 || ||||||||||| || || || || || | | || |||||||| || ||| Sbjct 28741475 TTAGATGTACCATTTGTTCCACGAATGTAACTACTTGTAGCCCGAATATTGTGAACTGAG 28741416 Query 66336 AGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGATG 66395 | ||| ||||| || || ||| ||| | || || || || || ||||| || Sbjct 28741415 ACACCAATTCCTCCAGCTGATTTGCTGATAATAGCACACTCCTTCAAAGTGTCATATATT 28741356 Query 66396 CCCTCTATACTATCATCCATCATGTTAAGTAGAAAACAGCT 66436 ||||| ||||| ||||| |||| |||| ||| ||||| Sbjct 28741355 CCCTCAATACTGTCATCTTTCATACACAGTAAAAAGCAGCT 28741315 >seq4 Length=78750349 Score = 96.9 bits (106), Expect = 5e-15 Identities = 158/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 66455 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 66514 |||||| ||||| || | || |||||||| || ||||||||| ||| ||| | | | Sbjct 13233471 AGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGAGACATCATGTG 13233412 Query 66515 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 66574 || || | ||||| || || || || | ||||||||| ||||| || | ||| || Sbjct 13233411 ATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCAACCCTCATCAA 13233352 Query 66575 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 66634 |||||| || || ||||| | | ||| | | ||| || | |||||| | || | Sbjct 13233351 CATGTGTTGGGGCCTTTCTATAACCTTCCCTTGAACTTTTAAGAGGTAGGACCTCTCAAG 13233292 Query 66635 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 66682 ||||| ||||||||||| | || |||||| || || || || || Sbjct 13233291 GGTTTTGAAACCAAAATAATCATAGTCAAAGTCCCGATCATATATGAT 13233244 Score = 93.3 bits (102), Expect = 6e-14 Identities = 153/221 (69%), Gaps = 0/221 (0%) Strand=Plus/Minus Query 66216 CCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACCA 66275 ||||| ||||| | || | ||| |||| ||| | || | || |||||| | ||| ||| Sbjct 13233814 CCTCCTTGATCAACATAACGAGCAGTGTCATTGAACACCCGCAGCATTGGGACAATGCCA 13233755 Query 66276 TTGGATGTACCATTGGTCCCGGAGATATAGCTTCCACTTGCACGAATATTACTAATTGAT 66335 || ||||||||||| || || || || || | | || |||||||| || ||| Sbjct 13233754 TTAGATGTACCATTTGTTCCACGAATGTAACTACTTGTAGCCCGAATATTGTGAACTGAG 13233695 Query 66336 AGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGATG 66395 | ||| ||||| || || ||| ||||| || || || || || ||||| || Sbjct 13233694 ACACCAATTCCTCCAGCTGATTTGCTGATTATAGCACACTCCTTCAAAGTGTCATATATT 13233635 Query 66396 CCCTCTATACTATCATCCATCATGTTAAGTAGAAAACAGCT 66436 ||||| ||||||||||| |||| |||| ||| ||||| Sbjct 13233634 CCCTCGATACTATCATCTTTCATACACAGTAAAAAGCAGCT 13233594 >seq25 Length=50193149 Score = 91.5 bits (100), Expect = 2e-13 Identities = 157/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 66455 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 66514 ||| || ||||| || | || |||||||| || || |||||| ||| ||| | | | Sbjct 26655750 AGTCCCAGCATTGAAAAGAGTGGGAGAAGCATGAGTGAACCATCTTTGAGACATCATGTG 26655691 Query 66515 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 66574 || || | ||||| || || || || | ||||||||| || || || | |||||| Sbjct 26655690 ATAAGTTTTTATAGCAGAATCAATGTCATCCTTATGAATTCCAACAGCAACCCTCATTAA 26655631 Query 66575 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 66634 |||||||||||| ||||| | | ||| | | |||||| | || || | |||| Sbjct 26655630 CATGTGCTGAGGCCTTTCTATAACCTTCCCTTGAACTTTCAAGAGATAAGACCTCTCCAG 26655571 Query 66635 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 66682 ||||| || ||||| || | ||| |||||| || || || || || Sbjct 26655570 GGTTTTGAAGCCAAAGTAATCGTAGTCAAAGTCACGATCATATATGAT 26655523 Score = 86.0 bits (94), Expect = 8e-12 Identities = 142/205 (69%), Gaps = 0/205 (0%) Strand=Plus/Minus Query 66215 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 66274 |||||| ||||| | |||| ||| || | ||| | || | || |||||| | ||| || Sbjct 26656093 TCCTCCTTGATCAACATATCGAGCAGTATCATTGAACACCCGCAGCATTGGGACAATTCC 26656034 Query 66275 ATTGGATGTACCATTGGTCCCGGAGATATAGCTTCCACTTGCACGAATATTACTAATTGA 66334 ||| ||||||||||| || || ||||| || || | || |||||||| || || Sbjct 26656033 ATTAGATGTACCATTTGTTCCACGAATATAACTACCTGTGGCTCGAATATTGTGAACAGA 26655974 Query 66335 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGAT 66394 | ||| ||||| || || ||| ||| | || || || || || ||||| || Sbjct 26655973 AACACCAATTCCTCCAGCTGATTTGCTGATAACAGCACACTCCTTCAAAGTTTCATAAAT 26655914 Query 66395 GCCCTCTATACTATCATCCATCATG 66419 || || ||||||||||| ||||| Sbjct 26655913 TCCTTCAATACTATCATCTTTCATG 26655889 >seq2 Length=106994729 Score = 91.5 bits (100), Expect = 2e-13 Identities = 157/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 66455 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 66514 ||| || ||||| || | || |||||||| || || |||||| ||| ||| | | | Sbjct 29495687 AGTGCCAGCATTGAAAAGAGTGGGAGAAGCATGAGTGAACCATCTTTGAGACATCATGTG 29495628 Query 66515 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 66574 || || | ||||| || || || || | ||||||||| || || || | |||||| Sbjct 29495627 ATAAGTTTTTATAGCAGAATCAATGTCATCCTTATGAATTCCAACAGCAACCCTCATTAA 29495568 Query 66575 CATGTGCTGAGGTCTTTCAACGATCTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 66634 |||||||||||| ||||| | | ||| | | |||||| | || || | ||||| Sbjct 29495567 CATGTGCTGAGGCCTTTCTATAACCTTCCCTTGAACTTTCAAGAGATAAGACCTCTCCAA 29495508 Query 66635 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 66682 ||||| || ||||| || | || |||||| || || || || || Sbjct 29495507 GGTTTTGAAGCCAAAGTAATCATAGTCAAAGTCACGATCATATATGAT 29495460 Score = 86.0 bits (94), Expect = 8e-12 Identities = 142/205 (69%), Gaps = 0/205 (0%) Strand=Plus/Minus Query 66215 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 66274 |||||| ||||| | |||| ||| || | ||| | || | || |||||| | ||| || Sbjct 29496030 TCCTCCTTGATCAACATATCGAGCAGTATCATTGAACACCCGCAGCATTGGGACAATTCC 29495971 Query 66275 ATTGGATGTACCATTGGTCCCGGAGATATAGCTTCCACTTGCACGAATATTACTAATTGA 66334 ||| ||||||||||| || || ||||| || || | || |||||||| || || Sbjct 29495970 ATTAGATGTACCATTTGTTCCACGAATATAACTACCTGTGGCTCGAATATTGTGAACAGA 29495911 Query 66335 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGAT 66394 | ||| ||||| || || ||| ||| | || || || || || ||||| || Sbjct 29495910 AACACCAATTCCTCCAGCTGATTTGCTGATAACAGCACACTCCTTCAAAGTTTCATATAT 29495851 Query 66395 GCCCTCTATACTATCATCCATCATG 66419 || || ||||||||||| ||||| 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: 658097537940320