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_031033.1 Length=217124 Score E Sequences producing significant alignments: (Bits) Value seq11 196 7e-45 seq1 172 8e-38 seq3 111 2e-19 seq2 93.3 6e-14 >seq11 Length=62681010 Score = 196 bits (216), Expect = 7e-45 Identities = 568/870 (65%), Gaps = 6/870 (1%) Strand=Plus/Minus Query 47850 TTTTGATATTCACCCACACGTTTCTCGAAAAAATTAGTTTTGCCTTCCAATGATATATTT 47909 |||||||| || || || | ||||||||| ||||| ||||| |||| ||| ||||| | Sbjct 8942611 TTTTGATACTCTCCAACCCTTTTCTCGAAGAAATTGGTTTTCCCTTGCAACGATATCAGT 8942552 Query 47910 TCCATAAAATCAAATGGATTAACTGCATTATAAAtttttttAAATCCTAATTCTGAAATC 47969 ||||| |||||||||| || || |||| || || ||| | ||||| || | | Sbjct 8942551 TCCATCCAATCAAATGGGTTGACCACATTGTACATCTTTCCGTACCCTAACGCTCCCAGC 8942492 Query 47970 AGTCTATCTGCAACGAATTCTATATATCTTTTCATCATTTCACAATTCATTCCTATAAGT 48029 || | ||| || ||||| || || || | |||| | || | ||||| || | | Sbjct 8942491 AGCCGATCCGCCACGAACTCGATGTACCGACTCATTAACTCGCCGTTCATCCCAACCAAC 8942432 Query 48030 TTAACTGGTAGAGCCTC-CGTAAGAAACTCTTGTTCGATAGTGACAGCATCCACTATTAT 48088 || ||||| || | || ||| ||| || || || || ||| | ||| Sbjct 8942431 GCGCAGGGCAGAGCATCGCATACGAA-CTCCCTCTCTATGTCCACCGCGTCCCTCACTAT 8942373 Query 48089 CGATGTTACCGTTTCCTCACTTGG--TGGATACAACAAATGTTTAAACATTAAACATGCA 48146 | | || || ||||| | | || | | | || || || || || Sbjct 8942372 CCCCCTCACGCGCTCTTCACTCAGCTTTGACCGGAGGAGAGAGTA--CAGCAAGCAAGCG 8942315 Query 48147 AAATCACAATGAAGACCTTCATCTCTACTAATTAATTCGTTAGAAAATGTGAGACCGGGC 48206 ||||| || || ||||||||||||| ||||| ||||| || || || | |||||| Sbjct 8942314 AAATCGCAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGAAAGTTAATCCGGGC 8942255 Query 48207 ATTAGTCCACGTTTTTTGAGCCAAAATATTGCCGCGAAAGATCCAGAAAAGAATATGCCT 48266 |||| || | ||||| | ||||||||| || |||| ||| || || || || ||| Sbjct 8942254 ATTAACCCCCTCTTTTTTAACCAAAATATGGCACAGAAACTTCCGGAGAAAAAGATCCCT 8942195 Query 48267 TCTACGGCCGCAAATGCGGTAAGTCTCTCTCCGTAACTGGCTTCGTTGTGTATCCACCGT 48326 |||||| ||||| ||| | | | || || || | || || || ||||| Sbjct 8942194 TCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCGCCGTCGATCCATTTC 8942135 Query 48327 TGTGCCCAATCAGCCTTCTTCTTTACACAAGGCATTGTTTCTATAGCATTAAAGAGAAAG 48386 ||||| || || || || ||||| |||| || || || || || ||| | Sbjct 8942134 ATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATGGCGCGGAAAAGACGG 8942075 Query 48387 tttttttCATTGCTATCTTTAACGTAAGTATCTATTAAAAGACTATACATTTCGGAGTGA 48446 || ||||||| | |||||| | |||||| || | | ||||| ||||| |||||||| Sbjct 8942074 TTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTGTACATCTCGGAGTGG 8942015 Query 48447 ATATTTTCAATTGCCATCTGAAATCCGTAAAAACATCTCGCTTCTGTGATCTGTACCTCC 48506 |||||||| || || || || || || |||||| | ||| || | |||||| ||||| Sbjct 8942014 ATATTTTCGATAGCGATTTGGAAACCATAAAAAGCACGCGCCTCGGAGATCTGGACCTCT 8941955 Query 48507 GTACAAAATCGTTCAGCCAAATTCTCATTTACTATTCCATCACTAGCAGCAAAAAATGCT 48566 | || || |||| | |||||| ||||| ||||| || || ||||| || Sbjct 8941954 TTCATGAACCGAACAGCAAGGTTCTCAAGGACTATGCCATCGGAGGCGGCGAAAAAGGCG 8941895 Query 48567 AATACATGTTTAATAAAATATTTTTCGTTGGAAGTCAGTTTATTCCAGTCATTGATATCT 48626 | || || |||| || | | || | || || || | | ||||| | | ||| Sbjct 8941894 AGAACGTGACTAATGAAGTGGTGCTCATCGGCGGTGAGAGTTTCCCAGTGACGAAGATCG 8941835 Query 48627 TTTGATATATCTACTTCTTCAGCTGTCCAAAATGATGCCTCTGCTTTTTTATACATATTC 48686 || | ||| ||||| || || |||||||| || || || ||||| || ||||| | | Sbjct 8941834 GAAGACAGATCGACTTCCTCTGCGGTCCAAAACGACGCTTCGGCTTTCTTGTACATTTCC 8941775 Query 48687 CATATATCACTGTATTGGATTGGGAAAATA 48716 |||| || ||||||||| || || ||| Sbjct 8941774 CATACTTCTGGGTATTGGATCGGAAACATA 8941745 >seq1 Length=55868233 Score = 172 bits (190), Expect = 8e-38 Identities = 569/875 (65%), Gaps = 20/875 (2%) Strand=Plus/Minus Query 47850 TTTTGATATTCACCCACACGTTTCTCGAAAAAATTAGTTTTGCCTTCCAATGATATATTT 47909 || ||||| || || || | |||||||| ||||| ||||| |||| |||||| || | Sbjct 54863034 TTCTGATACTCCCCAACTCTCTTCTCGAAGAAATTGGTTTTCCCTTGCAATGAAATTAGT 54862975 Query 47910 TCCATAAAATCAAATGGATTAACTGCATTATAAAtttttttAAATCCTAATTCTGAAATC 47969 ||||| ||||||| || ||| | ||||| || ||||| | | ||||| || || Sbjct 54862974 TCCATCCAATCAAAAGGGTTAGCCGCATTGTACATTTTGCCATACCCTAAAGCTCCTATA 54862915 Query 47970 AGTCTATCTGCAACGAATTCTATATATCTTTTCATCATTTCACAATTCATTCCTA-TAAG 48028 | ||| |||||||| || || ||| |||||| |||| ||||| || | ||| Sbjct 54862914 C--CGATCCGCAACGAACTCAATGTATTGACTCATCAACTCACCGTTCATCCCAACTAAC 54862857 Query 48029 TTTAACTGGTAGAGCCTCCGTAAGAAACTCTTGTTCGATAGTGACAGCATCC---ACTAT 48085 | || ||||| || | |||||| || | | || |||||| ||||| Sbjct 54862856 GCGCAG-GGAAGAGCGTCGCATACAAACTCCCTCTCTACATCCACCGCATCCCTCACTAT 54862798 Query 48086 TATCGATGTTACCGTTTCCTCACTTGG--TGGATACAACAAATGTTTAAACATTAAACAT 48143 | | | || || |||||| | | || | | | || || || || Sbjct 54862797 TCCCT---TCACGCGCTCTTCACTTAGCTTTGACTGGAGGAGAGAGTA--CAGCAAGCAA 54862743 Query 48144 GCAAAATCACAATGAAGACCTTCATCTCTACTAATTAATTCGTTAGAAAATGTGAGACCG 48203 ||||| || ||||| ||||||||||||| | || || | ||| || || || || Sbjct 54862742 GCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTTGTTTGAGAAAGTTTATCCA 54862683 Query 48204 GGCATTAGTCCACGTTTTTTGAGCCAAAATATTGCCGCGAAAGATCCAGAAAAGAATATG 48263 ||||||| || || ||||| | ||||||||| || |||| || || || |||||| Sbjct 54862682 GGCATTAACCCGCGCTTTTTTAACCAAAATATCGCACAGAAACTGCCGGAGAAAAATATG 54862623 Query 48264 CCTTCTACGGCCGCAAATGCGGTAAGTCTCTCTCCGTAACTGGCTTCGTTGT-GT--ATC 48320 ||||||||| || || ||| | | | || | || |||||| | || ||| Sbjct 54862622 CCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAA---GCTTCGCCGCCGTCGATC 54862566 Query 48321 CACCGTTGTGCCCAATCAGCCTTCTTCTTTACACAAGGCATTGTTTCTATAGCATTAAAG 48380 || |||||||| || || || || || |||| ||||| |||| | ||| Sbjct 54862565 CATTTCAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGTAGCGTGGAAG 54862506 Query 48381 AGAAAGtttttttCATTGCTATCTTTAACGTAAGTATCTATTAAAAGACTATACATTTCG 48440 || ||| ||||| || |||||||| ||||| || | | ||||||||||| || Sbjct 54862505 AGGCGGTTCTTTTCGGTGGAATCTTTAATATAAGTTTCGAGGAGGAGACTATACATCTCA 54862446 Query 48441 GAGTGAATATTTTCAATTGCCATCTGAAATCCGTAAAAACATCTCGCTTCTGTGATCTGT 48500 ||||| ||||| || || || || || ||||| ||||| | ||| || | ||| || Sbjct 54862445 GAGTGGATATTCTCGATGGCGATTTGGAATCCATAAAATGCACGCGCCTCCGCGATTTGG 54862386 Query 48501 ACCTCCGTACAAAATCGTTCAGCCAAATTCTCATTTACTATTCCATCACTAGCAGCAAAA 48560 ||||| | || || | || | ||| || || || ||||| || || || Sbjct 54862385 ACCTCTTTCATGAAGCGAACGGCGAGATTTTCTAGGACGATGCCATCGGATGCGGCGAAG 54862326 Query 48561 AATGCTAATACATGTTTAATAAAATATTTTTCGTTGGAAGTCAGTTTATTCCAGTCATTG 48620 || || | ||||| | || || | ||||| || | || || | ||||| Sbjct 54862325 AAGGCAAGGACATGACTGATGAAGTGGCGTTCGTCGGCGTTAAGATTTTGCCAGTGTGGA 54862266 Query 48621 ATATCTTTTGATATATCTACTTCTTCAGCTGTCCAAAATGATGCCTCTGCTTTTTTATAC 48680 | ||| || | ||| ||||| || || |||||||| || || || ||||| || ||| Sbjct 54862265 AGATCGGAAGAGAGATCAACTTCCTCGGCAGTCCAAAAAGAGGCTTCGGCTTTCTTGTAC 54862206 Query 48681 ATATTCCATATATCACTGTATTGGATTGGGAAAAT 48715 || | |||||| | ||||||||||||||| || Sbjct 54862205 ATTTCCCATATCTGTGGGTATTGGATTGGGAACAT 54862171 >seq3 Length=45765648 Score = 111 bits (122), Expect = 2e-19 Identities = 118/156 (76%), Gaps = 0/156 (0%) Strand=Plus/Plus Query 77897 CTCTCTTTCATATTGAGTATATAGCCGTTCAAATTCATCTCCCCAAACATCATCCAATCC 77956 |||||||||||| ||| |||| ||| |||||||| || |||||| ||| ||| ||| Sbjct 6819451 CTCTCTTTCATAATGAATATACAGCTCCTCAAATTCTTCACCCCAACAATCTGCCAGTCC 6819510 Query 77957 AGGGCATTCATTTGGGCACATCAATGACCAGTCACCATCTTCCTTAACTCGTTTCATAAA 78016 || ||||||| || || | |||||||| | |||| || |||| || |||||| Sbjct 6819511 TGGAGATTCATTAGGACAGAATAATGACCACTGCCCATTACTCTGGACTCTTTGCATAAA 6819570 Query 78017 GAGATCAGGTATCCATAGAGCAATAAATAGATCTCG 78052 |||||||| | |||||||||| ||||||||| || Sbjct 6819571 AAGATCAGGCACCCATAGAGCATAAAATAGATCACG 6819606 Score = 93.3 bits (102), Expect = 6e-14 Identities = 153/221 (69%), Gaps = 0/221 (0%) Strand=Plus/Plus Query 78159 CCTCCCTGATCTATATATCTGGCGGTGTTATTATAAACTCTCAACATTGGAATAATACCG 78218 ||||| ||||| | ||| | || |||| ||| | || | || |||||| | ||| || Sbjct 6819936 CCTCCTTGATCAACATAACGAGCAGTGTCATTGAACACCCGCAGCATTGGGACAATGCCA 6819995 Query 78219 TTAGATGTTCCATTTGTTCCAGAAATATAACTTCCACTTGCGCGAATATTACTAATGGAT 78278 |||||||| |||||||||||| ||| ||||| | | || |||||||| || || Sbjct 6819996 TTAGATGTACCATTTGTTCCACGAATGTAACTACTTGTAGCCCGAATATTGTGAACTGAG 6820055 Query 78279 ATCCCTATTCCTCCTGCCATCTTAGATATTAGAGCGCAACGTTTCAATGTATCGTAGATA 78338 | || |||||||| || || || | ||| || ||||| || || || || Sbjct 6820056 ACACCAATTCCTCCAGCTGATTTGCTGATAATAGCACACTCCTTCAAAGTGTCATATATT 6820115 Query 78339 CCCTCTATACTGTCATCCATCATGTTAAGAAGAAAACAGCT 78379 ||||| ||||||||||| |||| || | ||| ||||| Sbjct 6820116 CCCTCAATACTGTCATCTTTCATACACAGTAAAAAGCAGCT 6820156 Score = 93.3 bits (102), Expect = 6e-14 Identities = 142/201 (71%), Gaps = 6/201 (3%) Strand=Plus/Plus Query 78398 AGTTCCTGCATTAAATAATGTCGGAGATGCATGCGTAAACCATTTTTCAGAAAGTAGATT 78457 |||||| ||||| || | ||| ||||| ||||| ||||||||| ||| ||| | | | Sbjct 6820279 AGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGAGACATCATGTG 6820338 Query 78458 GTATGTTTCAATAGCTGATTCTATGTCCCATTGATGAATTCCTACCGCTACACGCATCAA 78517 || |||| ||||| || || ||||| | ||||||||| || || || | ||| || Sbjct 6820339 ATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCAACCCTCATTAA 6820398 Query 78518 CATATGCTGAGGTCTTTC---AACCGTCTTATTATTTATTTTCAACAAGTATGATTTTTC 78574 ||| || || || ||||| |||| || | | | |||||| | ||| || | || Sbjct 6820399 CATGTGTTGGGGCCTTTCTATAACCTTCCCTTGA---ACTTTCAAGAGGTAGGACCTCTC 6820455 Query 78575 CAAAGTTTTAAAACCAAAATA 78595 | ||||| ||||||||||| Sbjct 6820456 AAGGGTTTTGAAACCAAAATA 6820476 Score = 86.0 bits (94), Expect = 9e-12 Identities = 137/197 (70%), Gaps = 0/197 (0%) Strand=Plus/Plus Query 77145 ACTCTACGAGTGTAAATATTACTGGTATATGGTTCCACAGATTCATTGTTTCCCAAAATT 77204 ||||||||| | || ||||| ||||||||||| | | ||||| ||||| | ||| Sbjct 6817978 ACTCTACGACTATAGATATTGGAAGTATATGGTTCAAAGCACTCATTATTTCCAAGAATC 6818037 Query 77205 TGAGCAGTAGAAGCAGTTGGCATAGGTGCCACCAATAAACTATTTCTGAGACCATGTGTT 77264 || ||| || ||||||||||||||||| | ||| | |||||| | ||||| | Sbjct 6818038 TGGCTAGTTGATGCAGTTGGCATAGGTGCTAACAAAAGTGAATTTCTCACTCCATGCTTA 6818097 Query 77265 CTGATTTTATCTTTTAGATATTTCCAATCCCAAAGATCTGAAGGTACAACATCCCAAAGA 77324 || || ||| | ||| ||||| ||||| ||| ||||| |||| |||| | | Sbjct 6818098 GCTATGTTGTCTCTAAGAGCATTCCAGTCCCACCGATTTGAAGCAGTAACACCCCACATA 6818157 Query 77325 TCGTATTGTAGAATTCC 77341 || | || ||||| || Sbjct 6818158 TCTTGCTGGAGAATACC 6818174 >seq2 Length=62769430 Score = 93.3 bits (102), Expect = 6e-14 Identities = 143/204 (70%), Gaps = 0/204 (0%) Strand=Plus/Minus Query 78159 CCTCCCTGATCTATATATCTGGCGGTGTTATTATAAACTCTCAACATTGGAATAATACCG 78218 ||||| ||||| | ||||| || || | ||| | || | || |||||| | ||| || Sbjct 29135070 CCTCCTTGATCAACATATCGAGCAGTATCATTGAACACCCGCAGCATTGGGACAATTCCA 29135011 Query 78219 TTAGATGTTCCATTTGTTCCAGAAATATAACTTCCACTTGCGCGAATATTACTAATGGAT 78278 |||||||| |||||||||||| ||||||||| || | || |||||||| || || Sbjct 29135010 TTAGATGTACCATTTGTTCCACGAATATAACTACCTGTGGCTCGAATATTGTGAACAGAA 29134951 Query 78279 ATCCCTATTCCTCCTGCCATCTTAGATATTAGAGCGCAACGTTTCAATGTATCGTAGATA 78338 | || |||||||| || || || | ||| || ||||| || || || || Sbjct 29134950 ACACCAATTCCTCCAGCTGATTTGCTGATAACAGCACACTCCTTCAAAGTTTCATATATT 29134891 Query 78339 CCCTCTATACTGTCATCCATCATG 78362 || || ||||| ||||| ||||| Sbjct 29134890 CCTTCAATACTATCATCTTTCATG 29134867 Score = 93.3 bits (102), Expect = 6e-14 Identities = 132/182 (73%), Gaps = 4/182 (2%) Strand=Plus/Minus Query 77141 CAATACTCTACGAGTGTAAATATTACTGGTATATGGTTCCACAGATTCATTGTTTCCCAA 77200 ||| ||||||||| | |||||||| ||||||||| || | ||||||| || || | Sbjct 29137045 CAAAACTCTACGACTATAAATATTGGAGGTATATGGCTCAAAGCATTCATTATTCCCAAG 29136986 Query 77201 AATTTGAGCAGTAGAAGCAGTTGGCATAGGTGCCACCAATAAACTATTTCTGAGACCATG 77260 ||| ||| ||| |||||||||||||||||||| | ||||| |||||| | |||| Sbjct 29136985 AATCTGACTAGTTGAAGCAGTTGGCATAGGTGCTAACAATAGTGAATTTCTCACTCCAT- 29136927 Query 77261 TGTT--CTGATTTTATCTTTTAGATATTTCCAATCCCAAAGATCTGAAGGTACAACATCC 77318 | || || || | || | ||| |||||||||| || ||||||| |||| || Sbjct 29136926 TCTTGGCT-ATCATGTCCCTAAGAGCAGTCCAATCCCACCGACCTGAAGGAGTAACACCC 29136868 Query 77319 CA 77320 || Sbjct 29136867 CA 29136866 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 694659821405760