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_027213.1 Length=214699 Score E Sequences producing significant alignments: (Bits) Value seq11 165 1e-35 seq1 145 1e-29 seq2 140 4e-28 seq3 129 8e-25 >seq11 Length=62681010 Score = 165 bits (182), Expect = 1e-35 Identities = 559/869 (64%), Gaps = 4/869 (0%) Strand=Plus/Minus Query 39326 TTTTGGTATTCACCAACGCGTTTCTCGAAAAAATTAGTTTTGCCTTCCAATGATATATTT 39385 ||||| || || ||||| | ||||||||| ||||| ||||| |||| ||| ||||| | Sbjct 8942611 TTTTGATACTCTCCAACCCTTTTCTCGAAGAAATTGGTTTTCCCTTGCAACGATATCAGT 8942552 Query 39386 TCCATGAAATCAAACGGATTAGTTGCATTATAtttttttttAAATCCTAATTCTGAAATC 39445 ||||| ||||||| || || |||| || | ||| | ||||| || | | Sbjct 8942551 TCCATCCAATCAAATGGGTTGACCACATTGTACATCTTTCCGTACCCTAACGCTCCCAGC 8942492 Query 39446 AATCTATCTGCAACAAATTCTATGTATGTTTTCATCATTTCACAATTCATTCCTATGAGT 39505 | | ||| || || || || ||||| |||| | || | ||||| || | | Sbjct 8942491 AGCCGATCCGCCACGAACTCGATGTACCGACTCATTAACTCGCCGTTCATCCCAACCAAC 8942432 Query 39506 TTAACTGGTAGAGCCTCCGTTAGAAACTCTTTTTCGATGTCTACGGCCTCTGTTATTATC 39565 || ||||| || || ||||| | || ||||| || || || | | |||| Sbjct 8942431 GCGCAGGGCAGAGCATCGCATACGAACTCCCTCTCTATGTCCACCGCGTCCCTCACTATC 8942372 Query 39566 GATGTTACTACCTCATCACTCGG--TGGATGCAATAAATGTTTAAACATTAAGCAGGCGA 39623 | || ||| |||||| | | || | | | || || ||||| |||| Sbjct 8942371 CCCCTCACGCGCTCTTCACTCAGCTTTGACCGGAGGAGAGAGTA--CAGCAAGCAAGCGA 8942314 Query 39624 AGTCACAATGTAGGCCCTCATCTCTACTAATTAATTCGTTAGAAAATGTGAGTCCAGGCA 39683 | || || || || || ||||||| ||||| ||||| || || || | ||| |||| Sbjct 8942313 AATCGCAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGAAAGTTAATCCGGGCA 8942254 Query 39684 TTAGACCACGCTTTTTGAGCCAAAATATGGCAGCAAAAGATCCAGAAAAGAAGATGCCTT 39743 ||| || | |||||| | ||||||||||||| ||| ||| || || ||||| |||| Sbjct 8942253 TTAACCCCCTCTTTTTTAACCAAAATATGGCACAGAAACTTCCGGAGAAAAAGATCCCTT 8942194 Query 39744 CTACTGCTGCAAATGCAACAAGTCTCTCTCCGTAACTTGTATCATTATGTATCCACTTCT 39803 |||| ||||| || | | | || || || || | | ||||| ||| Sbjct 8942193 CTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCGCCGTCGATCCATTTCA 8942134 Query 39804 GTGCCCAATCAGCTTTCTTCTTTACACAAGGCATTGTTTCTATAGCATTAAAGAGATAAT 39863 ||||| || ||||| || ||||| |||| || || || || || ||| | Sbjct 8942133 TAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATGGCGCGGAAAAGACGGT 8942074 Query 39864 GTTTTTCATCACTATCTTTAACATATGTATCTATTAACAGACTATACATTTCTGAATGGA 39923 |||||||| |||||| | || || || | | ||||| ||||| || || |||| Sbjct 8942073 TCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTGTACATCTCGGAGTGGA 8942014 Query 39924 TGTTTTCAATCGCCATCTGAAATCCGTAAAAACATCTTGCTTCAGTAATTTGTACCTCTG 39983 | ||||| || || || || || || |||||| | || || | || || |||||| Sbjct 8942013 TATTTTCGATAGCGATTTGGAAACCATAAAAAGCACGCGCCTCGGAGATCTGGACCTCTT 8941954 Query 39984 AACAAAATCTTTCCGCCAAATTTTCATTCACTATTCCATCACTAGCGGCAAAAAATGCCA 40043 || | | || | || ||| ||||| ||||| ||||| ||||| || | Sbjct 8941953 TCATGAACCGAACAGCAAGGTTCTCAAGGACTATGCCATCGGAGGCGGCGAAAAAGGCGA 8941894 Query 40044 ATACATGTTTAATAAAATATTTTTCATCGGGTGTCAATTTATTCCAGTCATTGATATCTT 40103 || || |||| || | | ||||||| || | | | ||||| | | ||| Sbjct 8941893 GAACGTGACTAATGAAGTGGTGCTCATCGGCGGTGAGAGTTTCCCAGTGACGAAGATCGG 8941834 Query 40104 TTGATATATCTACTTCTTCAGCTGTCCAAAACGACGCCTCTGCCTTTTTGTACATGTTCC 40163 || | ||| ||||| || || |||||||||||||| || || || |||||||| | || Sbjct 8941833 AAGACAGATCGACTTCCTCTGCGGTCCAAAACGACGCTTCGGCTTTCTTGTACATTTCCC 8941774 Query 40164 ATATATCACGATATTGTATTGGAAAAATA 40192 ||| || | ||||| || ||||| ||| Sbjct 8941773 ATACTTCTGGGTATTGGATCGGAAACATA 8941745 >seq1 Length=55868233 Score = 145 bits (160), Expect = 1e-29 Identities = 555/869 (64%), Gaps = 8/869 (1%) Strand=Plus/Minus Query 39326 TTTTGGTATTCACCAACGCGTTTCTCGAAAAAATTAGTTTTGCCTTCCAATGATATATTT 39385 || || || || ||||| | |||||||| ||||| ||||| |||| |||||| || | Sbjct 54863034 TTCTGATACTCCCCAACTCTCTTCTCGAAGAAATTGGTTTTCCCTTGCAATGAAATTAGT 54862975 Query 39386 TCCATGAAATCAAACGGATTAGTTGCATTATAtttttttttAAATCCTAATTCTGAAATC 39445 ||||| ||||||| || |||| ||||| || |||| | | ||||| || || Sbjct 54862974 TCCATCCAATCAAAAGGGTTAGCCGCATTGTACATTTTGCCATACCCTAAAGCTCCTAT- 54862916 Query 39446 AATCTATCTGCAACAAATTCTATGTATGTTTTCATCATTTCACAATTCATTCCTATGAGT 39505 | | ||| ||||| || || |||||| |||||| |||| ||||| || | | Sbjct 54862915 -ACCGATCCGCAACGAACTCAATGTATTGACTCATCAACTCACCGTTCATCCCAACTAAC 54862857 Query 39506 TTAACTGGTAGAGCCTCCGTTAGAAACTCTTTTTCGATGTCTACGGCCTCTGTTATTATC 39565 || ||||| || || |||||| | || | || || || || | | ||| Sbjct 54862856 GCGCAGGGAAGAGCGTCGCATACAAACTCCCTCTCTACATCCACCGCATCCCTCACTATT 54862797 Query 39566 GATGTTACTACCTCATCACTCGG---TGGATGCAATAAATGTTTAAACATTAAGCAGGCG 39622 | || ||| ||||| | || || | | | | ||| ||||| || Sbjct 54862796 CCCTTCACGCGCTCTTCACTTAGCTTTGACTGGAGGAGAGAGT---ACAGCAAGCAAGCA 54862740 Query 39623 AAGTCACAATGTAGGCCCTCATCTCTACTAATTAATTCGTTAGAAAATGTGAGTCCAGGC 39682 ||||| ||||| || || ||||||| | || || | ||| || || || ||||||| Sbjct 54862739 AAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTTGTTTGAGAAAGTTTATCCAGGC 54862680 Query 39683 ATTAGACCACGCTTTTTGAGCCAAAATATGGCAGCAAAAGATCCAGAAAAGAAGATGCCT 39742 |||| || |||||||| | ||||||||| ||| ||| || || || || |||||| Sbjct 54862679 ATTAACCCGCGCTTTTTTAACCAAAATATCGCACAGAAACTGCCGGAGAAAAATATGCCT 54862620 Query 39743 TCTACTGCTGCAAATGCAACAAGTCTCTCTCCGTAACTTGTATCATTATGTATCCACTTC 39802 ||||| || || || | | | || | || | | | ||||| ||| Sbjct 54862619 TCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCCGCCGTCGATCCATTTC 54862560 Query 39803 TGTGCCCAATCAGCTTTCTTCTTTACACAAGGCATTGTTTCTATAGCATTAAAGAGATAA 39862 |||||||| ||||| || || || |||| ||||| |||| | ||||| Sbjct 54862559 AAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGTAGCGTGGAAGAGGCGG 54862500 Query 39863 TGTTTTTCATCACTATCTTTAACATATGTATCTATTAACAGACTATACATTTCTGAATGG 39922 | ||||| |||||||| ||| || || | | ||||||||||| || || ||| Sbjct 54862499 TTCTTTTCGGTGGAATCTTTAATATAAGTTTCGAGGAGGAGACTATACATCTCAGAGTGG 54862440 Query 39923 ATGTTTTCAATCGCCATCTGAAATCCGTAAAAACATCTTGCTTCAGTAATTTGTACCTCT 39982 || || || || || || || ||||| ||||| | || || | ||||| |||||| Sbjct 54862439 ATATTCTCGATGGCGATTTGGAATCCATAAAATGCACGCGCCTCCGCGATTTGGACCTCT 54862380 Query 39983 GAACAAAATCTTTCCGCCAAATTTTCATTCACTATTCCATCACTAGCGGCAAAAAATGCC 40042 || | | || | |||||| || || ||||| ||||| || || || Sbjct 54862379 TTCATGAAGCGAACGGCGAGATTTTCTAGGACGATGCCATCGGATGCGGCGAAGAAGGCA 54862320 Query 40043 AATACATGTTTAATAAAATATTTTTCATCGGGTGTCAATTTATTCCAGTCATTGATATCT 40102 | ||||| | || || | ||| |||| | | || | ||||| | ||| Sbjct 54862319 AGGACATGACTGATGAAGTGGCGTTCGTCGGCGTTAAGATTTTGCCAGTGTGGAAGATCG 54862260 Query 40103 TTTGATATATCTACTTCTTCAGCTGTCCAAAACGACGCCTCTGCCTTTTTGTACATGTTC 40162 || | ||| ||||| || || |||||||| || || || || || |||||||| | | Sbjct 54862259 GAAGAGAGATCAACTTCCTCGGCAGTCCAAAAAGAGGCTTCGGCTTTCTTGTACATTTCC 54862200 Query 40163 CATATATCACGATATTGTATTGGAAAAAT 40191 ||||| | | ||||| ||||| || || Sbjct 54862199 CATATCTGTGGGTATTGGATTGGGAACAT 54862171 >seq2 Length=62769430 Score = 140 bits (154), Expect = 4e-28 Identities = 154/205 (75%), Gaps = 0/205 (0%) Strand=Plus/Minus Query 69750 TCCTCCCTGATCTATGTATCTGGCAGTGTTATTATAGACTCTCAGCATCGGAATAATACC 69809 |||||| ||||| | |||| ||||| | ||| | || | |||||| || | ||| || Sbjct 29135071 TCCTCCTTGATCAACATATCGAGCAGTATCATTGAACACCCGCAGCATTGGGACAATTCC 29135012 Query 69810 ATTAGATTTACCATTTGTTCCAGAAATATAACTTCCTCTTGCGCGAATATTACTAATAGA 69869 ||||||| |||||||||||||| ||||||||| ||| | || |||||||| || ||| Sbjct 29135011 ATTAGATGTACCATTTGTTCCACGAATATAACTACCTGTGGCTCGAATATTGTGAACAGA 29134952 Query 69870 TAGACCTATTCCTCCTGCCATTTTAGAGATTAGAGCACAACGTTTCAATGTGTCATATAT 69929 | ||| |||||||| || ||| ||| | |||||| ||||| || |||||||| Sbjct 29134951 AACACCAATTCCTCCAGCTGATTTGCTGATAACAGCACACTCCTTCAAAGTTTCATATAT 29134892 Query 69930 ACCCTCTATGCTATCATCTATCATG 69954 || || || ||||||||| ||||| Sbjct 29134891 TCCTTCAATACTATCATCTTTCATG 29134867 Score = 96.9 bits (106), Expect = 5e-15 Identities = 92/118 (78%), Gaps = 0/118 (0%) Strand=Plus/Minus Query 68734 AACACTCTACGAGTGTAAATATTACTGGTATATGGTTCCACAGATTCATTATTTCCCAGA 68793 || ||||||||| | |||||||| ||||||||| || | |||||||||| || ||| Sbjct 29137044 AAAACTCTACGACTATAAATATTGGAGGTATATGGCTCAAAGCATTCATTATTCCCAAGA 29136985 Query 68794 ATTTGAGCAGTTGATGCAGTTGGCATAGGTGCCACCAATAAACTATTTCTAAGACCAT 68851 || ||| |||||| ||||||||||||||||| | ||||| |||||| | |||| Sbjct 29136984 ATCTGACTAGTTGAAGCAGTTGGCATAGGTGCTAACAATAGTGAATTTCTCACTCCAT 29136927 Score = 91.5 bits (100), Expect = 2e-13 Identities = 148/213 (69%), Gaps = 0/213 (0%) Strand=Plus/Minus Query 69990 AGTTCCCGCATTAAATAATGTAGGAGATGCGTGAGTGAACCATTTTTCAGAAAGCAGATT 70049 ||| || ||||| || | || ||||| || |||||||||||| ||| ||| | || | Sbjct 29134728 AGTCCCAGCATTGAAAAGAGTGGGAGAAGCATGAGTGAACCATCTTTGAGACATCATGTG 29134669 Query 70050 GTATGTTTCAATAGCTGATTCTATATCCCACTGATGAATTCCTATCGCGACACGCATCAA 70109 || |||| ||||| || || || || || ||||||||| | || || | ||| || Sbjct 29134668 ATAAGTTTTTATAGCAGAATCAATGTCATCCTTATGAATTCCAACAGCAACCCTCATTAA 29134609 Query 70110 CATATGCTGAGGTCGTTCTACCGTTTTATTATTTATTTTCAACAGGTATGATTTTTCCAG 70169 ||| |||||||| | ||||| || | | |||||| || || || | ||||| Sbjct 29134608 CATGTGCTGAGGCCTTTCTATAACCTTCCCTTGAACTTTCAAGAGATAAGACCTCTCCAG 29134549 Query 70170 AGTTTTAAACCCAAAATAGTTGTATGAAAAGTC 70202 ||||| || ||||| || | ||| |||||| Sbjct 29134548 GGTTTTGAAGCCAAAGTAATCGTAGTCAAAGTC 29134516 Score = 86.0 bits (94), Expect = 9e-12 Identities = 113/154 (73%), Gaps = 2/154 (1%) Strand=Plus/Minus Query 69489 CTCTTTTTCATATTGTGTATATAGCCGTTCGAATTCATCTCCCCAAACATCATCCAATCC 69548 |||||||||||| || |||| ||| ||| ||||| || |||||| ||| ||| || Sbjct 29135536 CTCTTTTTCATAATGAATATACAGCTTTTCAAATTCTTCACCCCAACAATCTGCCAGGCC 29135477 Query 69549 AGGACATTCATTTGGACACATCAATGACCACACATCATCATCCTTAACTCGTTTCATAAA 69608 ||| ||||| ||||| | ||||||||| ||| | | | ||| | || |||||| Sbjct 29135476 TGGAGCCTCATTAGGACAGAACAATGACCATTGGCCATTACCTTGAACCCTTTGCATAAA 29135417 Query 69609 TAGATCGGGAATCCAAAGAGCTATA-AAGAGATC 69641 ||||| || | ||||||||| ||| || ||||| Sbjct 29135416 AAGATCAGGCACCCAAAGAGC-ATAGAATAGATC 29135384 >seq3 Length=45765648 Score = 129 bits (142), Expect = 8e-25 Identities = 161/221 (73%), Gaps = 0/221 (0%) Strand=Plus/Plus Query 69751 CCTCCCTGATCTATGTATCTGGCAGTGTTATTATAGACTCTCAGCATCGGAATAATACCA 69810 ||||| ||||| | || | ||||||| ||| | || | |||||| || | ||| ||| Sbjct 6819936 CCTCCTTGATCAACATAACGAGCAGTGTCATTGAACACCCGCAGCATTGGGACAATGCCA 6819995 Query 69811 TTAGATTTACCATTTGTTCCAGAAATATAACTTCCTCTTGCGCGAATATTACTAATAGAT 69870 |||||| |||||||||||||| ||| ||||| | | | || |||||||| || || Sbjct 6819996 TTAGATGTACCATTTGTTCCACGAATGTAACTACTTGTAGCCCGAATATTGTGAACTGAG 6820055 Query 69871 AGACCTATTCCTCCTGCCATTTTAGAGATTAGAGCACAACGTTTCAATGTGTCATATATA 69930 | ||| |||||||| || ||| ||| | |||||| ||||| ||||||||||| Sbjct 6820056 ACACCAATTCCTCCAGCTGATTTGCTGATAATAGCACACTCCTTCAAAGTGTCATATATT 6820115 Query 69931 CCCTCTATGCTATCATCTATCATGTTAAGAAGAAAACAGCT 69971 ||||| || || |||||| |||| || | ||| ||||| Sbjct 6820116 CCCTCAATACTGTCATCTTTCATACACAGTAAAAAGCAGCT 6820156 Score = 89.7 bits (98), Expect = 7e-13 Identities = 111/152 (73%), Gaps = 0/152 (0%) Strand=Plus/Plus Query 68737 ACTCTACGAGTGTAAATATTACTGGTATATGGTTCCACAGATTCATTATTTCCCAGAATT 68796 ||||||||| | || ||||| ||||||||||| | | ||||||||||| ||||| Sbjct 6817978 ACTCTACGACTATAGATATTGGAAGTATATGGTTCAAAGCACTCATTATTTCCAAGAATC 6818037 Query 68797 TGAGCAGTTGATGCAGTTGGCATAGGTGCCACCAATAAACTATTTCTAAGACCATGTGTT 68856 || |||||||||||||||||||||||| | ||| | |||||| | ||||| | Sbjct 6818038 TGGCTAGTTGATGCAGTTGGCATAGGTGCTAACAAAAGTGAATTTCTCACTCCATGCTTA 6818097 Query 68857 ATGATTTTATCTTTTAGATGTTTCCAATCCCA 68888 || || ||| | ||| ||||| ||||| Sbjct 6818098 GCTATGTTGTCTCTAAGAGCATTCCAGTCCCA 6818129 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 686899921703760