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_20arboreum_20[refseq_20GCF_5F000612285.1_202015-09-28] 75,419 sequences; 1,694,597,732 total letters Query= NC_031038.1 Length=222832 Score E Sequences producing significant alignments: (Bits) Value seq9 141 1e-28 seq1 138 2e-27 seq2 129 8e-25 seq4 125 1e-23 >seq9 Length=96604005 Score = 141 bits (156), Expect = 1e-28 Identities = 556/870 (64%), Gaps = 6/870 (1%) Strand=Plus/Minus Query 46339 TTTTGGTATTCACCTACACGTTTCTCGAAAAAATTAGTTTTGCCTTCCAATGATATATTT 46398 ||||| || || || || | ||||||||| ||||| ||||| |||| ||| ||||| | Sbjct 49336681 TTTTGATACTCTCCAACTCTTTTCTCGAAGAAATTGGTTTTCCCTTGCAACGATATCAGT 49336622 Query 46399 TCCATAAAATCAAACGGATTAGTAACATTATAAAtttttttAAATCCTAATTCTGAAATC 46458 ||||| ||||||| || || || || || || ||| | ||||| || | | Sbjct 49336621 TCCATCCAATCAAATGGGTTGACCACGTTGTACATCTTTCCGTACCCTAACGCTCCCAAC 49336562 Query 46459 AGTCTATCTGCAACGAATTCTATATACGTTTTCATCATTTCACAATTCATTCCTATGAGT 46518 | | ||| || ||||| || || ||| |||| | || | ||||| || | | Sbjct 49336561 AACCGATCCGCTACGAACTCGATGTACTGACTCATTAACTCGCCGTTCATCCCAACCAAC 49336502 Query 46519 TTGACCGGTAGAGCCTC-CGTAAGAAACTCTTGTTCAATAGTGACAGCATCCGATATTAT 46577 | || ||||| || | || ||| ||| || || || || ||| || ||| Sbjct 49336501 GCGCAGGGCAGAGCATCGCATACGAA-CTCCCTCTCTATGTCCACCGCGTCCCTTACTAT 49336443 Query 46578 CGATGTTACTGTTTCCTCACTTGG--TGGATGCATCAAATGTTTAAACATTAAACATGCA 46635 | | | || ||| ||||| | | || | | | | ||| || || || Sbjct 49336442 CCCTCTCACGCGTTCTTCACTCAGCTTTGA--CCTGAGGAGAGAGTACAGCAAGCAAGCG 49336385 Query 46636 AAATCACAATGAAGGCCTTCATCTCTACTAATTAATTCGTTAGAAAATGTGAGCCCAGGC 46695 |||||||| || || |||||||||| ||||| ||||| || || || | || ||| Sbjct 49336384 AAATCACAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGAAAGTTAATCCGGGC 49336325 Query 46696 ATTAGTCCACGCTTTTTGAGCCAAAATATAGCCGCGAAAGATCCAGAAAAGAATATGCCT 46755 |||| || | |||||| | ||||||||| || |||| ||| || || || || || Sbjct 49336324 ATTAACCCCCTCTTTTTTAACCAAAATATGGCACAGAAACTTCCGGAGAAAAAGATCCCC 49336265 Query 46756 TCTACAGCCGCGAATGCGACAAGTCTCTCTCCGTAACTGGCATCATTATGAATCCACCTT 46815 ||||| || || |||| | | || || || | | | | ||||| | Sbjct 49336264 TCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCGCCGTCGATCCATTTC 49336205 Query 46816 TGAGCCCAATCAGCCTTTTTCTTTACACAAGGCATTGTTTCTATAGCATTAAAGAGAAAG 46875 |||||| || || ||||| ||||| |||| || || || || || ||| | Sbjct 49336204 ATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATGGCGCGGAAAAGACGG 49336145 Query 46876 tttttttCATCACTATCTTTAACATATGTATCTATTAAAAGACTATACATTTCTGAATGA 46935 || ||||| || |||||| | || || || | | ||||| ||||| || || || Sbjct 49336144 TTCTTTTCGTCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTGTACATCTCGGAGTGG 49336085 Query 46936 ATGTTTTCAATAGCCATCTGAAATCCGTAAAAACATCTTGCTTCAGTAATCTGTACCTCT 46995 || ||||| ||||| || || || || |||||| | || || | || || |||||| Sbjct 49336084 ATATTTTCGATAGCGATTTGGAAACCATAAAAAGCACGCGCCTCGGAGATTTGGACCTCT 49336025 Query 46996 GTACAAAATCGTTCAGACAAATTCTCATTCACTATTCCATCACTAGCAGCAAAAAATGCC 47055 | || || ||| | |||||| ||||| ||||| || |||||||| || Sbjct 49336024 TTCATGAACCGAACAGCAAGGTTCTCAAGGACTATGCCATCGGAGGCGGCAAAAAAGGCG 49335965 Query 47056 AATACATGTTTAATAAAATATTTTTCATCGGTAGTCAGTTTATTCCAGTCATTGATATCT 47115 | || || |||| || | | || || | || || | ||||| | | | | Sbjct 49335964 AGAACGTGACTAATGAAGTGGTGCTCGTCAGCGGTGAGAGCTTCCCAGTGACGAAGAACG 49335905 Query 47116 TTTGATATATCTACTTCTTCAGCTGTCCAGAATGACGCCTCTGCTTTTTTATACATATTC 47175 || | ||| ||||| || || ||||| || ||||| || ||||| || ||||| | | Sbjct 49335904 GAAGACAGATCGACTTCCTCTGCGGTCCAAAACGACGCTTCGGCTTTCTTGTACATTTCC 49335845 Query 47176 CATATATCACGATATTGGATCGGAAAAATA 47205 |||| || | ||||||||||| || ||| Sbjct 49335844 CATACTTCTGGGTATTGGATCGGGAACATA 49335815 >seq1 Length=147124936 Score = 138 bits (152), Expect = 2e-27 Identities = 413/634 (65%), Gaps = 10/634 (2%) Strand=Plus/Plus Query 46339 TTTTGGTATTCACCTACACGTTTCTCGAAAAAATTAGTTTTGCCTTCCAATGATATATTT 46398 || || || || || || | |||||||| ||||| ||||| |||| |||||| || | Sbjct 98686984 TTCTGATACTCTCCAACTCTCTTCTCGAAGAAATTGGTTTTCCCTTGCAATGAAATTAGT 98687043 Query 46399 TCCATAAAATCAAACGGATTAGTAACATTATAAAtttttttAAATCCTAATTCTGAAATC 46458 ||||| ||||||| || |||| |||| || ||||| | | ||||| || | | Sbjct 98687044 TCCATCCAATCAAAAGGGTTAGCCGCATTGTACATTTTGCCATACCCTAAAGCTCCTAAC 98687103 Query 46459 AGTCTATCTGCAACGAATTCTATATACGTTTTCATCATTTCACAATTCATTCCTATGAGT 46518 | | ||| |||||||| || || || |||||| |||| |||||| || | | Sbjct 98687104 AACCGATCCGCAACGAACTCAATGTATTGACTCATCAACTCACCATTCATCCCAACTAAC 98687163 Query 46519 TTGACCGGTAGAGCCTCCGTAAGAAACTCTTGTTCAATAGTGACAGCATCCGATATTATC 46578 | || ||||| || | |||||| || ||| || ||||| | ||| Sbjct 98687164 GCGCAAGGAAGAGCGTCGCATACAAACTCCCTCTCTATATACACCGCATCACTCACTATT 98687223 Query 46579 GATGTTACTGTTTCCTCACTTGG---TGGATGCATCAAATGTTTAAACATTAAACATGCA 46635 | || || |||||| | || || | | | | ||| || || ||| Sbjct 98687224 CCCTTCACGCGCTCTTCACTTAGCTTTGACTGAAGGAGAGAGT---ACAGCAAGCAAGCA 98687280 Query 46636 AAATCACAATGAAGGCCTTCATCTCTACTAATTAATTCGTTAGAAAATGTGAGCCCAGGC 46695 || || ||||| || |||||||||| | || || ||||| || || || | |||||| Sbjct 98687281 AAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGAAAGTTAATCCAGGC 98687340 Query 46696 ATTAGTCCACGCTTTTTGAGCCAAAATATAGCCGCGAAAGATCCAGAAAAGAATATGCCT 46755 |||| || |||||||| | ||||||||| || |||| || || || ||||||||| Sbjct 98687341 ATTAACCCGCGCTTTTTTAACCAAAATATCGCGCAGAAACTGCCGGAGAAAAATATGCCT 98687400 Query 46756 TCTACAGCCGCGAATGCGACAAGTCTCTCTCCGTAACTGGCATCATTATGAATCCACCTT 46815 ||||| ||||| |||| | | || | || | | | ||||| || Sbjct 98687401 TCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCCGCCGTCGATCCA--TT 98687458 Query 46816 TG--AGCCCAATCAGCCTTTTTCTTTACACAAGGCATTGTTTCTATAGCATTAAAGAGAA 46873 || ||||||||| || ||||| || || |||| ||||| |||| | ||||| Sbjct 98687459 TGAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGTAGCGTGGAAGAGGC 98687518 Query 46874 AGtttttttCATCACTATCTTTAACATATGTATCTATTAAAAGACTATACATTTCTGAAT 46933 ||||||||| |||||| | ||| || || | | ||||||||||| || || | Sbjct 98687519 GGTTTTTTTCGGTGGCATCTTTGATATAAGTTTCGAGGAGGAGACTATACATCTCAGAGT 98687578 Query 46934 GAATGTTTTCAATAGCCATCTGAAATCCGTAAAA 46967 | || || || || || || || ||||| ||||| Sbjct 98687579 GGATATTCTCGATGGCGATTTGGAATCCATAAAA 98687612 >seq2 Length=101023042 Score = 129 bits (142), Expect = 8e-25 Identities = 161/221 (73%), Gaps = 0/221 (0%) Strand=Plus/Plus Query 76754 CCTCCCTGATCTATATATCTGGCAGTGTTATTATAAACTCTCAACATTGGAATAATGCCG 76813 ||||| ||||| | ||| | ||||||| ||| | || | || |||||| | |||||| Sbjct 61425054 CCTCCTTGATCAACATAACGAGCAGTGTCATTGAACACCCGCAGCATTGGGACAATGCCA 61425113 Query 76814 TTAGATGTACCATTTGTTCCAGAAATATAACTTCCACATGCACGAATATTACTAATAGAT 76873 ||||||||||||||||||||| ||| ||||| | || |||||||| || || Sbjct 61425114 TTAGATGTACCATTTGTTCCACGAATGTAACTACTTGTAGCCCGAATATTGTGAACTGAG 61425173 Query 76874 AGGCCTATTCCTCCTGCCATTTTAGAGATTAGAGCACAGCGTTTCAATGTGTCATAGATG 76933 | || |||||||| || ||| ||||| |||||| ||||| |||||||| || Sbjct 61425174 ACACCAATTCCTCCAGCTGATTTGCTGATTATAGCACACTCCTTCAAAGTGTCATATATT 61425233 Query 76934 CCCTCTATACTATCATCCATCATGTTAAGAAGAAAACAGCT 76974 ||||| ||||||||||| |||| || | ||| ||||| Sbjct 61425234 CCCTCGATACTATCATCTTTCATACACAGTAAAAAGCAGCT 61425274 Score = 102 bits (112), Expect = 1e-16 Identities = 116/156 (74%), Gaps = 0/156 (0%) Strand=Plus/Plus Query 76492 CTCTCTTTCATATTGTGTATATAACCGTTCAAATTCATCTCCCCAAACATCATCCAAACC 76551 |||||||||||| || |||| | | |||||||| || |||||| ||| ||| || Sbjct 61424569 CTCTCTTTCATAATGAATATACAGCTCCTCAAATTCTTCACCCCAACAATCTGCCAGTCC 61424628 Query 76552 AGGACATTCATTCGGACACATCAATGACCACTCACCATCTTCCTTAACCCGTTTCATAAA 76611 ||| ||||||| ||||| | |||||||||| |||| || || | || ||| || Sbjct 61424629 TGGAGATTCATTAGGACAGAATAATGACCACTGCCCATTACTCTGGACTCTTTGCATGAA 61424688 Query 76612 GAGATCAGGTATCCATAGAGCAATAAATAGATCTCG 76647 |||||||| | |||||||||| ||||||||| || Sbjct 61424689 AAGATCAGGCACCCATAGAGCATAAAATAGATCACG 61424724 Score = 95.1 bits (104), Expect = 2e-14 Identities = 93/119 (78%), Gaps = 6/119 (5%) Strand=Plus/Plus Query 76088 ATAAATGCATCTGCTAGTCCCTGAACTCCAATACCAATAGGTCTATGTCTCTTATTGGAA 76147 || |||| |||||| || |||||||||||||||||||| |||||||| | | ||| || Sbjct 61423662 ATGAATGTATCTGCAAGCCCCTGAACTCCAATACCAATGGGTCTATGACGCAAATTTGAT 61423721 Query 76148 ATTT---CAGCTTCTGGAATAGGGTAATAATTAATATCTATAATTTTATTGAGATTTCT 76203 ||| ||| ||| || |||||| ||||||| ||| || ||||| || |||||||| Sbjct 61423722 CTTTTTGCAGTTTC---AACAGGGTAGTAATTAACATCAATTATTTTGTTAAGATTTCT 61423777 >seq4 Length=137675496 Score = 125 bits (138), Expect = 1e-23 Identities = 150/204 (74%), Gaps = 0/204 (0%) Strand=Plus/Minus Query 76754 CCTCCCTGATCTATATATCTGGCAGTGTTATTATAAACTCTCAACATTGGAATAATGCCG 76813 ||||| ||||| | ||||| ||||| | ||| | || | || |||||| | ||| || Sbjct 106877164 CCTCCTTGATCAACATATCGAGCAGTATCATTGAACACCCGCAGCATTGGGACAATTCCA 106877105 Query 76814 TTAGATGTACCATTTGTTCCAGAAATATAACTTCCACATGCACGAATATTACTAATAGAT 76873 ||||||||||||||||||||| ||||||||| || || |||||||| || ||| Sbjct 106877104 TTAGATGTACCATTTGTTCCACGAATATAACTACCTGTGGCTCGAATATTGTGAACAGAA 106877045 Query 76874 AGGCCTATTCCTCCTGCCATTTTAGAGATTAGAGCACAGCGTTTCAATGTGTCATAGATG 76933 | || |||||||| || ||| ||| | |||||| ||||| || ||||| || Sbjct 106877044 ACACCAATTCCTCCAGCTGATTTGCTGATAACAGCACACTCCTTCAAAGTTTCATATATT 106876985 Query 76934 CCCTCTATACTATCATCCATCATG 76957 || || ||||||||||| ||||| Sbjct 106876984 CCTTCAATACTATCATCTTTCATG 106876961 Score = 87.8 bits (96), Expect = 3e-12 Identities = 92/120 (77%), Gaps = 6/120 (5%) Strand=Plus/Minus Query 76088 ATAAATGCATCTGCTAGTCCCTGAACTCCAATACCAATAGGTCTATGTCTCTTATTGGAA 76147 || |||| ||||| || |||||||||||||||||||| || ||||| | | ||| || Sbjct 106878521 ATGAATGTGTCTGCAAGACCCTGAACTCCAATACCAATGGGCCTATGACGCAAATTTGAT 106878462 Query 76148 ATTT---CAGCTTCTGGAATAGGGTAATAATTAATATCTATAATTTTATTGAGATTTCTG 76204 ||| ||| ||| || ||||| ||||||| ||| |||||||| || ||||||||| Sbjct 106878461 CTTTTGGCAGTTTC---AACGGGGTAGTAATTAACATCAATAATTTTGTTAAGATTTCTG 106878405 Score = 84.2 bits (92), Expect = 3e-11 Identities = 90/119 (76%), Gaps = 0/119 (0%) Strand=Plus/Minus Query 75736 CAATACTCTTCGAGTGTAAATATTACTGGTATATGGTTCCACAGATTCATTGTTTCCCAA 75795 ||| ||||| ||| | |||||||| ||||||||| || | ||||||| || || | Sbjct 106879145 CAAAACTCTGCGACTATAAATATTGGAGGTATATGGCTCAAAGCATTCATTATTCCCAAG 106879086 Query 75796 AATTTGAGCAGTTGAAGCAGTCGGCATAGGTGCCACCAATAAACTATTTCTGAGACCAT 75854 ||| ||| |||||||||||| ||||||||||| | ||||| |||||| | |||| Sbjct 106879085 AATCTGACTAGTTGAAGCAGTTGGCATAGGTGCTAACAATAGTGAATTTCTCACTCCAT 106879027 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 712262290006080