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_20raimondii_20[refseq_20GCF_5F000327365.1_202012-12-20] 1,034 sequences; 761,565,430 total letters Query= NC_031038.1 Length=222832 Score E Sequences producing significant alignments: (Bits) Value seq11 165 1e-35 seq1 127 3e-24 seq2 125 1e-23 seq3 120 4e-22 >seq11 Length=62681010 Score = 165 bits (182), Expect = 1e-35 Identities = 384/579 (66%), Gaps = 0/579 (0%) Strand=Plus/Minus Query 46627 AAACATGCAAAATCACAATGAAGGCCTTCATCTCTACTAATTAATTCGTTAGAAAATGTG 46686 || || || ||||| || || || |||||||||| ||||| ||||| || || || Sbjct 8942323 AAGCAAGCGAAATCGCAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGAAAGTT 8942264 Query 46687 AGCCCAGGCATTAGTCCACGCTTTTTGAGCCAAAATATAGCCGCGAAAGATCCAGAAAAG 46746 | || ||||||| || | |||||| | ||||||||| || |||| ||| || || Sbjct 8942263 AATCCGGGCATTAACCCCCTCTTTTTTAACCAAAATATGGCACAGAAACTTCCGGAGAAA 8942204 Query 46747 AATATGCCTTCTACAGCCGCGAATGCGACAAGTCTCTCTCCGTAACTGGCATCATTATGA 46806 || || |||||||| || || |||| | | || || || | | | | Sbjct 8942203 AAGATCCCTTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCGCCGTCG 8942144 Query 46807 ATCCACCTTTGAGCCCAATCAGCCTTTTTCTTTACACAAGGCATTGTTTCTATAGCATTA 46866 ||||| | |||||| || || ||||| ||||| |||| || || || || Sbjct 8942143 ATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATGGCGCGG 8942084 Query 46867 AAGAGAAAGtttttttCATCACTATCTTTAACATATGTATCTATTAAAAGACTATACATT 46926 || ||| ||| |||||||| |||||| | || || || | | ||||| ||||| Sbjct 8942083 AAAAGACGGTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTGTACATC 8942024 Query 46927 TCTGAATGAATGTTTTCAATAGCCATCTGAAATCCGTAAAAACATCTTGCTTCAGTAATC 46986 || || || || ||||| ||||| || || || || |||||| | || || | ||| Sbjct 8942023 TCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAAAGCACGCGCCTCGGAGATC 8941964 Query 46987 TGTACCTCTGTACAAAATCGTTCAGACAAATTCTCATTCACTATTCCATCACTAGCAGCA 47046 || |||||| | || || ||| | |||||| ||||| ||||| || || Sbjct 8941963 TGGACCTCTTTCATGAACCGAACAGCAAGGTTCTCAAGGACTATGCCATCGGAGGCGGCG 8941904 Query 47047 AAAAATGCCAATACATGTTTAATAAAATATTTTTCATCGGTAGTCAGTTTATTCCAGTCA 47106 ||||| || | || || |||| || | | ||||||| || || | | ||||| | Sbjct 8941903 AAAAAGGCGAGAACGTGACTAATGAAGTGGTGCTCATCGGCGGTGAGAGTTTCCCAGTGA 8941844 Query 47107 TTGATATCTTTTGATATATCTACTTCTTCAGCTGTCCAGAATGACGCCTCTGCTTTTTTA 47166 | ||| || | ||| ||||| || || ||||| || ||||| || ||||| || Sbjct 8941843 CGAAGATCGGAAGACAGATCGACTTCCTCTGCGGTCCAAAACGACGCTTCGGCTTTCTTG 8941784 Query 47167 TACATATTCCATATATCACGATATTGGATCGGAAAAATA 47205 ||||| | ||||| || | |||||||||||||| ||| Sbjct 8941783 TACATTTCCCATACTTCTGGGTATTGGATCGGAAACATA 8941745 >seq1 Length=55868233 Score = 127 bits (140), Expect = 3e-24 Identities = 551/869 (63%), Gaps = 8/869 (1%) Strand=Plus/Minus Query 46339 TTTTGGTATTCACCTACACGTTTCTCGAAAAAATTAGTTTTGCCTTCCAATGATATATTT 46398 || || || || || || | |||||||| ||||| ||||| |||| |||||| || | Sbjct 54863034 TTCTGATACTCCCCAACTCTCTTCTCGAAGAAATTGGTTTTCCCTTGCAATGAAATTAGT 54862975 Query 46399 TCCATAAAATCAAACGGATTAGTAACATTATAAAtttttttAAATCCTAATTCTGAAATC 46458 ||||| ||||||| || |||| |||| || ||||| | | ||||| || || Sbjct 54862974 TCCATCCAATCAAAAGGGTTAGCCGCATTGTACATTTTGCCATACCCTAAAGCTCCTATA 54862915 Query 46459 AGTCTATCTGCAACGAATTCTATATACGTTTTCATCATTTCACAATTCATTCCTATGAGT 46518 | ||| |||||||| || || || |||||| |||| ||||| || | | Sbjct 54862914 C--CGATCCGCAACGAACTCAATGTATTGACTCATCAACTCACCGTTCATCCCAACTAAC 54862857 Query 46519 TTGACCGGTAGAGCCTCCGTAAGAAACTCTTGTTCAATAGTGACAGCATCCGATATTATC 46578 | || ||||| || | |||||| || | | || |||||| | ||| Sbjct 54862856 GCGCAGGGAAGAGCGTCGCATACAAACTCCCTCTCTACATCCACCGCATCCCTCACTATT 54862797 Query 46579 GATGTTACTGTTTCCTCACTTGG---TGGATGCATCAAATGTTTAAACATTAAACATGCA 46635 | || || |||||| | || || | | | | ||| || || ||| Sbjct 54862796 CCCTTCACGCGCTCTTCACTTAGCTTTGACTGGAGGAGAGAGT---ACAGCAAGCAAGCA 54862740 Query 46636 AAATCACAATGAAGGCCTTCATCTCTACTAATTAATTCGTTAGAAAATGTGAGCCCAGGC 46695 || || ||||| || |||||||||| | || || | ||| || || || |||||| Sbjct 54862739 AAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTTGTTTGAGAAAGTTTATCCAGGC 54862680 Query 46696 ATTAGTCCACGCTTTTTGAGCCAAAATATAGCCGCGAAAGATCCAGAAAAGAATATGCCT 46755 |||| || |||||||| | ||||||||| || |||| || || || ||||||||| Sbjct 54862679 ATTAACCCGCGCTTTTTTAACCAAAATATCGCACAGAAACTGCCGGAGAAAAATATGCCT 54862620 Query 46756 TCTACAGCCGCGAATGCGACAAGTCTCTCTCCGTAACTGGCATCATTATGAATCCACCTT 46815 ||||| ||||| |||| | | || | || | | | ||||| | Sbjct 54862619 TCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCCGCCGTCGATCCATTTC 54862560 Query 46816 TGAGCCCAATCAGCCTTTTTCTTTACACAAGGCATTGTTTCTATAGCATTAAAGAGAAAG 46875 ||||||||| || ||||| || || |||| ||||| |||| | ||||| | Sbjct 54862559 AAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGTAGCGTGGAAGAGGCGG 54862500 Query 46876 tttttttCATCACTATCTTTAACATATGTATCTATTAAAAGACTATACATTTCTGAATGA 46935 || ||||| |||||||| ||| || || | | ||||||||||| || || || Sbjct 54862499 TTCTTTTCGGTGGAATCTTTAATATAAGTTTCGAGGAGGAGACTATACATCTCAGAGTGG 54862440 Query 46936 ATGTTTTCAATAGCCATCTGAAATCCGTAAAAACATCTTGCTTCAGTAATCTGTACCTCT 46995 || || || || || || || ||||| ||||| | || || | || || |||||| Sbjct 54862439 ATATTCTCGATGGCGATTTGGAATCCATAAAATGCACGCGCCTCCGCGATTTGGACCTCT 54862380 Query 46996 GTACAAAATCGTTCAGACAAATTCTCATTCACTATTCCATCACTAGCAGCAAAAAATGCC 47055 | || || | | | ||| || || || ||||| || || || || || Sbjct 54862379 TTCATGAAGCGAACGGCGAGATTTTCTAGGACGATGCCATCGGATGCGGCGAAGAAGGCA 54862320 Query 47056 AATACATGTTTAATAAAATATTTTTCATCGGTAGTCAGTTTATTCCAGTCATTGATATCT 47115 | ||||| | || || | ||| |||| | || || | ||||| | ||| Sbjct 54862319 AGGACATGACTGATGAAGTGGCGTTCGTCGGCGTTAAGATTTTGCCAGTGTGGAAGATCG 54862260 Query 47116 TTTGATATATCTACTTCTTCAGCTGTCCAGAATGACGCCTCTGCTTTTTTATACATATTC 47175 || | ||| ||||| || || ||||| || || || || ||||| || ||||| | | Sbjct 54862259 GAAGAGAGATCAACTTCCTCGGCAGTCCAAAAAGAGGCTTCGGCTTTCTTGTACATTTCC 54862200 Query 47176 CATATATCACGATATTGGATCGGAAAAAT 47204 ||||| | | |||||||| || || || Sbjct 54862199 CATATCTGTGGGTATTGGATTGGGAACAT 54862171 >seq2 Length=62769430 Score = 125 bits (138), Expect = 1e-23 Identities = 150/204 (74%), Gaps = 0/204 (0%) Strand=Plus/Minus Query 76754 CCTCCCTGATCTATATATCTGGCAGTGTTATTATAAACTCTCAACATTGGAATAATGCCG 76813 ||||| ||||| | ||||| ||||| | ||| | || | || |||||| | ||| || Sbjct 29135070 CCTCCTTGATCAACATATCGAGCAGTATCATTGAACACCCGCAGCATTGGGACAATTCCA 29135011 Query 76814 TTAGATGTACCATTTGTTCCAGAAATATAACTTCCACATGCACGAATATTACTAATAGAT 76873 ||||||||||||||||||||| ||||||||| || || |||||||| || ||| Sbjct 29135010 TTAGATGTACCATTTGTTCCACGAATATAACTACCTGTGGCTCGAATATTGTGAACAGAA 29134951 Query 76874 AGGCCTATTCCTCCTGCCATTTTAGAGATTAGAGCACAGCGTTTCAATGTGTCATAGATG 76933 | || |||||||| || ||| ||| | |||||| ||||| || ||||| || Sbjct 29134950 ACACCAATTCCTCCAGCTGATTTGCTGATAACAGCACACTCCTTCAAAGTTTCATATATT 29134891 Query 76934 CCCTCTATACTATCATCCATCATG 76957 || || ||||||||||| ||||| Sbjct 29134890 CCTTCAATACTATCATCTTTCATG 29134867 Score = 87.8 bits (96), Expect = 3e-12 Identities = 147/213 (69%), Gaps = 0/213 (0%) Strand=Plus/Minus Query 76993 AGTTCCTGCATTAAACAATGTAGGAGATGCATGAGTGAACCATTTTTCAGAAAGTAGATT 77052 ||| || ||||| || | || ||||| ||||||||||||||| ||| ||| | | | Sbjct 29134728 AGTCCCAGCATTGAAAAGAGTGGGAGAAGCATGAGTGAACCATCTTTGAGACATCATGTG 29134669 Query 77053 GTATGTTTCAATAACTGCTTCTATATCCCATTGATGAATTCCTACAGCGACACGCATCAA 77112 || |||| ||| | | || || || | ||||||||| ||||| || | ||| || Sbjct 29134668 ATAAGTTTTTATAGCAGAATCAATGTCATCCTTATGAATTCCAACAGCAACCCTCATTAA 29134609 Query 77113 CATATGCTGAGGTCGTTCTACAGTCTTATTATTTATTTTCAACAAGTATGATTTTTCCAA 77172 ||| |||||||| | ||||| | ||| | | |||||| | || || | |||| Sbjct 29134608 CATGTGCTGAGGCCTTTCTATAACCTTCCCTTGAACTTTCAAGAGATAAGACCTCTCCAG 29134549 Query 77173 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTC 77205 ||||| || ||||| || | ||| |||||| Sbjct 29134548 GGTTTTGAAGCCAAAGTAATCGTAGTCAAAGTC 29134516 Score = 87.8 bits (96), Expect = 3e-12 Identities = 92/120 (77%), Gaps = 6/120 (5%) Strand=Plus/Minus Query 76088 ATAAATGCATCTGCTAGTCCCTGAACTCCAATACCAATAGGTCTATGTCTCTTATTGGAA 76147 || |||| ||||| || |||||||||||||||||||| || ||||| | | ||| || Sbjct 29136420 ATGAATGTGTCTGCAAGACCCTGAACTCCAATACCAATTGGCCTATGACGCAAATTTGAT 29136361 Query 76148 ATTT---CAGCTTCTGGAATAGGGTAATAATTAATATCTATAATTTTATTGAGATTTCTG 76204 ||| ||| ||| || ||||| ||||||| ||| |||||||| || ||||||||| Sbjct 29136360 CTTTTGGCAGTTTC---AACGGGGTAGTAATTAACATCAATAATTTTGTTAAGATTTCTG 29136304 Score = 84.2 bits (92), Expect = 3e-11 Identities = 90/119 (76%), Gaps = 0/119 (0%) Strand=Plus/Minus Query 75736 CAATACTCTTCGAGTGTAAATATTACTGGTATATGGTTCCACAGATTCATTGTTTCCCAA 75795 ||| ||||| ||| | |||||||| ||||||||| || | ||||||| || || | Sbjct 29137045 CAAAACTCTACGACTATAAATATTGGAGGTATATGGCTCAAAGCATTCATTATTCCCAAG 29136986 Query 75796 AATTTGAGCAGTTGAAGCAGTCGGCATAGGTGCCACCAATAAACTATTTCTGAGACCAT 75854 ||| ||| |||||||||||| ||||||||||| | ||||| |||||| | |||| Sbjct 29136985 AATCTGACTAGTTGAAGCAGTTGGCATAGGTGCTAACAATAGTGAATTTCTCACTCCAT 29136927 >seq3 Length=45765648 Score = 120 bits (132), Expect = 4e-22 Identities = 159/221 (72%), Gaps = 0/221 (0%) Strand=Plus/Plus Query 76754 CCTCCCTGATCTATATATCTGGCAGTGTTATTATAAACTCTCAACATTGGAATAATGCCG 76813 ||||| ||||| | ||| | ||||||| ||| | || | || |||||| | |||||| Sbjct 6819936 CCTCCTTGATCAACATAACGAGCAGTGTCATTGAACACCCGCAGCATTGGGACAATGCCA 6819995 Query 76814 TTAGATGTACCATTTGTTCCAGAAATATAACTTCCACATGCACGAATATTACTAATAGAT 76873 ||||||||||||||||||||| ||| ||||| | || |||||||| || || Sbjct 6819996 TTAGATGTACCATTTGTTCCACGAATGTAACTACTTGTAGCCCGAATATTGTGAACTGAG 6820055 Query 76874 AGGCCTATTCCTCCTGCCATTTTAGAGATTAGAGCACAGCGTTTCAATGTGTCATAGATG 76933 | || |||||||| || ||| ||| | |||||| ||||| |||||||| || Sbjct 6820056 ACACCAATTCCTCCAGCTGATTTGCTGATAATAGCACACTCCTTCAAAGTGTCATATATT 6820115 Query 76934 CCCTCTATACTATCATCCATCATGTTAAGAAGAAAACAGCT 76974 ||||| ||||| ||||| |||| || | ||| ||||| Sbjct 6820116 CCCTCAATACTGTCATCTTTCATACACAGTAAAAAGCAGCT 6820156 Score = 105 bits (116), Expect = 1e-17 Identities = 117/156 (75%), Gaps = 0/156 (0%) Strand=Plus/Plus Query 76492 CTCTCTTTCATATTGTGTATATAACCGTTCAAATTCATCTCCCCAAACATCATCCAAACC 76551 |||||||||||| || |||| | | |||||||| || |||||| ||| ||| || Sbjct 6819451 CTCTCTTTCATAATGAATATACAGCTCCTCAAATTCTTCACCCCAACAATCTGCCAGTCC 6819510 Query 76552 AGGACATTCATTCGGACACATCAATGACCACTCACCATCTTCCTTAACCCGTTTCATAAA 76611 ||| ||||||| ||||| | |||||||||| |||| || || | || |||||| Sbjct 6819511 TGGAGATTCATTAGGACAGAATAATGACCACTGCCCATTACTCTGGACTCTTTGCATAAA 6819570 Query 76612 GAGATCAGGTATCCATAGAGCAATAAATAGATCTCG 76647 |||||||| | |||||||||| ||||||||| || Sbjct 6819571 AAGATCAGGCACCCATAGAGCATAAAATAGATCACG 6819606 Score = 95.1 bits (104), Expect = 2e-14 Identities = 93/119 (78%), Gaps = 6/119 (5%) Strand=Plus/Plus Query 76088 ATAAATGCATCTGCTAGTCCCTGAACTCCAATACCAATAGGTCTATGTCTCTTATTGGAA 76147 || |||| |||||| || |||||||||||||||||||| |||||||| | | ||| || Sbjct 6818546 ATGAATGTATCTGCAAGCCCCTGAACTCCAATACCAATGGGTCTATGACGCAAATTTGAT 6818605 Query 76148 ATTT---CAGCTTCTGGAATAGGGTAATAATTAATATCTATAATTTTATTGAGATTTCT 76203 ||| ||| ||| || |||||| ||||||| ||| || ||||| || |||||||| Sbjct 6818606 CTTTTTGCAGTTTC---AACAGGGTAGTAATTAACATCAATTATTTTGTTAAGATTTCT 6818661 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 712925185322880