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_029104.1 Length=54312 Score E Sequences producing significant alignments: (Bits) Value seq1219 316 7e-82 seq4166 241 4e-59 >seq1219 Length=45996 Score = 316 bits (350), Expect = 7e-82 Identities = 937/1425 (66%), Gaps = 56/1425 (4%) Strand=Plus/Minus Query 5863 AAAGAA-ATCTTGAAGTTCCCCGATCATTACGTAGCTTTAGCTGTAACAGTAGATGATAC 5921 |||||| ||| |||| || || ||||| ||||| |||||| ||||| || |||| Sbjct 23843 AAAGAACATCGTGAAATTTCCTGATCACTACGTCAATTTAGCGGTAACGGTTAGTGATGA 23784 Query 5922 GGGAGTTACGGCGAATGCTGAGGGAAAGAAAATCGTACCAGCTGGAACTATTTTGGGAGG 5981 || || || | || || | || |||||||| || || || || || || | || || Sbjct 23783 AGGTGTGACTG--AAAGCA-ATGGCAAGAAAATTGTTCCTGCCGGCACAATCCTCGGCGG 23727 Query 5982 TGGAGTGCT---AGCTGATCCGAGTAAAGTTGCAAAGAAGGCTAAAACAACTGCTGATAA 6038 ||| || | || |||| ||| | || || ||| |||| | |||| || | Sbjct 23726 TGGCGTATTGGAAGATGATACGAATTTAGCTGT---GAAAGCTA---CGACTGGCGAAGA 23673 Query 6039 G----TCAG--ATGCAGAGGGTGTTCTATTAAATGACACTGATGTGACGTATGGCCCTGC 6092 | | || | || |||||||| | || || || ||||||||| || || || || Sbjct 23672 GGGATTGAGTAACGCGGAGGGTGTCTTGTTTAACGATGTTGATGTGACATACGGTCCCGC 23613 Query 6093 ATCAGGAGCAATGGTCATCCATGGATTTATTGATGTAAGTAAAATTCCAAATCAACCTGA 6152 || || || || |||| ||||||||| | || || || | || |||| Sbjct 23612 TTCTGGCGCTCTGCTCATTCATGGATTTGTAGACTTAGAAAAGCTACCTGCAGAACCAAC 23553 Query 6153 TGTTGCAGAAACTGCTGCGCTTAAACAAATTACATTTTTGAAATAAGAAAGGG-TGTTAC 6211 | || ||||| ||||| | ||||||||||||||| | |||||| ||| || Sbjct 23552 AGCTGAAGAAAAGGCTGCATTAAAACAAATTACATTTGTTCGATAAGAGAGGACTGAATA 23493 Query 6212 TGAATG---AATATTTTTGATCTTGTAAACGCAAAGAACATTTCAACGTACTATCTAGCT 6268 | |||| | |||||||||| |||||| || || | ||| | | |||||| | Sbjct 23492 TAAATGCCAACTATTTTTGATTATGTAAATGCTAACGAGATTGCCGCTTACTATACAAAC 23433 Query 6269 AATCCATCTAACACGATTCCATACTTGGGAGCCACGCTGTTTCCACCTAAAAAACAACTT 6328 | | | || ||| | | || |||| | ||| | ||||| | ||||| | Sbjct 23432 AGTACGTCAAACGCTGTCCCTGCACTGGGTTCTACGTTATTTCCTGCGCGTAAACAGTTA 23373 Query 6329 GGTCTTGATCTGAGTTGGATTAAAGGTTCACGAGGACTACCAATTGC--TTTAATGCCTT 6386 || |||||| | || |||||||||||| | || || || | || || || |||| Sbjct 23372 GGGCTTGATTTAAGCTGGATTAAAGGTGCGAACGGGCTTCCTGTAGCGCTTGAA--CCTT 23315 Query 6387 CTGAATTCGATGCAAAGGCTACACTACGTGATCGTATCGGATTCAGCAAAATTGATACGG 6446 ||| || || || || || | | | ||||| || |||||| ||| | ||| | Sbjct 23314 CTGCTTTTGACGCGAAAGCAAACGTGAGAGATCGCATTGGATTCGAGAAAGTCGATGAAG 23255 Query 6447 AAATGCCGTTCTTCCGTGAAGCAATGCGAATTGGGGAGAAAGATCGTCAGGAACTAAACA 6506 |||||||||||||||||||||||||| ||||||| |||||||| || ||| | |||||| Sbjct 23254 AAATGCCGTTCTTCCGTGAAGCAATGAGAATTGGAGAGAAAGACCGCCAGAACTTAAACA 23195 Query 6507 AGCTTGCTG-CTTCACAAAACGAAGCGTTGATCATGCCAGTTATAAATTCGATCTATGAT 6565 | ||| || || || | ||| || ||||| |||| || | ||| || |||||| Sbjct 23194 A-CTTCATGTCTACAAACAACCAAAGCTTGATTTTGCCTTTTGTTAATCGTATTTATGAT 23136 Query 6566 GATGTCACTAACCTGGTTAATGGTGCGCAAGTTATTCCGGAACGGATGATCATGCAGTTG 6625 || | ||| || || ||| |||| ||| || || || ||||||||||| || Sbjct 23135 GACGCGGCTACGTTGATTGCTGGCGCGCGAGTGCAACCAGAGCGAATGATCATGCAACTG 23076 Query 6626 CTTTCTACTGGAAAGATTAGCATTACAGCTAACCGATTGAATTATGATTACAACTATAAA 6685 |||||||||||||||||| ||| |||||||| ||||| ||| | || | Sbjct 23075 CTTTCTACTGGAAAGATTGCGATTGTCGCTAACCGTCAAAATTACAGCTACGATTACATG 23016 Query 6686 ATGCCAGAGGAGCACAAAGAAACGTTGACGGCTGATGCGAAGTGG------AGCAGTCCA 6739 ||| || ||||| ||||| ||||| | || || ||| | | || | Sbjct 23015 ATGAAGGATGAGCATAAAGAGGTTTTGACTGGTGCAGCTGCATGGTCTGATACAACTCAA 22956 Query 6740 --GACGCTGATGTGGTCGGTGATATTAAGACATGGCAGGATAAGGTTGAGGATGATACAG 6797 |||| || | | |||||| | ||||| ||| || ||||| |||||| Sbjct 22955 TCAACGC----CTGTACAG-GATATTTTAGCTTGGCAAGATCGTGTAGAGGAGAATACAG 22901 Query 6798 GTGTTCGTCCAACAAATGCGATTTGCACACGGAAAAC-CTGGAATTACATCTTGCAGAAC 6856 || |||||||| || ||| ||| ||||| ||||| || | ||| | || ||||| Sbjct 22900 GTTCACGTCCAACGAACGCGGTTTTGACACGTAAAACGCTTG-GTTATCTAATGGAGAAC 22842 Query 6857 AAACCTGTACGACTAGATATGAATCCATTGGGCGGTCAGAACATCATCATGACAGACGCG 6916 | | ||| | ||| | || || ||| ||||| |||||||| ||||| || Sbjct 22841 CGTTCAATTCGAATGGATCTAAACCCGACGGGTGGTCAAAACATCATTATGACTGAGCAA 22782 Query 6917 ATGATGAAGCAATATTTACAATCTAAGTTAGGGATTAATGTAGCAGTTTACAATAAAAAG 6976 ||||| ||||| || | ||| | || | || | || || |||||||||||| Sbjct 22781 ATGATCCGCCAATACTTCTCGACAAAGCTTGGATTGAACATTGCTGTCTACAATAAAAAG 22722 Query 6977 TTTGCTCTACAGGATG-----GTAG-TACAAATCTATTCTATCCAGATGATGTATTTACG 7030 ||| |||||| | || | | || ||||| || || |||||||| ||| Sbjct 22721 TTT------AAGGATGAAAAAGGAGCTGCGCGTCAATTCTTCCCGGACGATGTATTCACG 22668 Query 7031 CTTATCCCAGATGGAACGCTTGGAAACACATATTACGGTACCACACCGGAAGAATCTGAT 7090 || || || ||||| | ||||||||||| || || ||||| || || ||||| || Sbjct 22667 CTGATTCCTGATGGGAACCTTGGAAACACGTACTATGGTACAACGCCTGAAGAGAGCGAC 22608 Query 7091 TTGATGGCTGGAAGCACAGTAGCGCAGGTCTCCATTGTTAATACAGGTGTAGCAATCACA 7150 | ||| ||| | |||| || ||||| |||||| |||||||| | || | ||| Sbjct 22607 CTCATGAATGGTGGAACAGACGCACAGGTTCGAATTGTTGATACAGGTATTGCGGTAACA 22548 Query 7151 ACGATAAAAGAGCCTCACCCAGTAAATGTAGAAACTATCGTTAGTGAGATTGTTCTACCT 7210 || || |||||||| || ||||| ||||| | || | || || || || ||||| Sbjct 22547 ACAATTAAAGAGCCACATCCAGTTAATGTTCAGACGGTGGTCTCTGGTATCGTACTACCA 22488 Query 7211 TCATTCGAAACCATAGATACTATTTTCATCGCAAGAGTTGCTTAA 7255 || |||||||| || |||| || || ||||||| ||| || ||| Sbjct 22487 TCGTTCGAAACAATTGATAACATCTTTATCGCAACAGTAGCGTAA 22443 Score = 89.7 bits (98), Expect = 2e-13 Identities = 142/201 (71%), Gaps = 2/201 (1%) Strand=Plus/Minus Query 45112 CGATACAAAGTTGGCAAACATTACTTTGTACTACAAGGTGAGGAATTAAGACAGTTTAAA 45171 |||||||||||||| |||||||| |||| | || ||||| ||||| | |||||| Sbjct 39058 CGATACAAAGTTGGAAAACATTATTTTGCTTTGACTGGAGAGGATTTAAGGGATTTTAAA 38999 Query 45172 GCTTCTACG-CAAATATCGGGGAACCTCAAATTTGCTCCAATCCTATACCTTTGGACTGA 45230 | || ||| ||| | | | ||| |||| | || | || || |||||||| || Sbjct 38998 GGGTC-ACGTCAATTTGACGCTAGCCTTAAATACACATCAGTGCTTTATCTTTGGACAGA 38940 Query 45231 AAAAGGTGCGTGGCTTCAAGCGAAATCTCTTAACACAGATCAAGCGTGGGAAGCCTACGA 45290 ||||| || ||||| || || ||||| | ||||| || |||| ||||| || ||||| Sbjct 38939 GAAAGGCGCATGGCTACATGCTAAATCGTTAAACACTGACGAAGCATGGGACGCTTACGA 38880 Query 45291 AATGCTAGTAGATGATTACTA 45311 || ||||| || ||||| Sbjct 38879 GGCTCTTGTAGACGACTACTA 38859 >seq4166 Length=5795 Score = 241 bits (266), Expect = 4e-59 Identities = 743/1142 (65%), Gaps = 57/1142 (5%) Strand=Plus/Plus Query 6156 TGCAGAAACTGCTGCGCTTAAACAAATTACATTTTTGAAATAAGAAAGGG-TGTTACTGA 6214 || ||||| ||||| | ||||||||||||||| || |||||| ||| || | | Sbjct 4593 TGAAGAAAAGGCTGCATTAAAACAAATTACATTTGTGCGATAAGAGAGGACTGATTATAC 4652 Query 6215 ATG---AATATTTTTGATCTTGTAAACGCAAAGAACATTTCAACGTACTATCTAGCTAAT 6271 ||| | |||||||||| |||||| || || | ||| | | |||||| | | Sbjct 4653 ATGCCAACTATTTTTGATTATGTAAATGCTAATGAGATTGCCGCTTACTATACAAACAGC 4712 Query 6272 CCATCTAACACGATTCCATACTTGGGAGCCACGCTGTTTCCACCTAAAAAACAACTTGGT 6331 | |||||| | | || |||| | ||| | || ||| | ||||| | || Sbjct 4713 ACGTCTAACGCTGTCCCTGCACTGGGTTCTACGTTATTCCCAGCGCGTAAACAGTTAGGG 4772 Query 6332 CTTGATCTGAGTTGGATTAAAGGTTCACGAGGACTACCAATTGC--TTTAATGCCTTCTG 6389 |||||| | || |||||||||||| | || || || | || || || ||||||| Sbjct 4773 CTTGATTTAAGCTGGATTAAAGGTGCGAACGGGCTTCCTGTAGCGCTTGAA--CCTTCTG 4830 Query 6390 AATTCGATGCAAAGGCTACACTACGTGATCGTATCGGATTCAGCAAAATTGATACGGAAA 6449 || || || || || | | | ||||| || |||||| ||| | ||| |||| Sbjct 4831 CTTTTGACGCGAAAGCAAACGTGAGAGATCGCATTGGATTCGAGAAAGTCGATGAAGAAA 4890 Query 6450 TGCCGTTCTTCCGTGAAGCAATG--------------------CGAATTGGGGAGAAAGA 6489 ||||||||||||||||||||||| |||||||| |||||||| Sbjct 4891 TGCCGTTCTTCCGTGAAGCAATGANNNNNNNNNNATCTCGATGCGAATTGGAGAGAAAGA 4950 Query 6490 TCGTCAGGAACTAAACAAGCTTGCTG-CTTCACAAAACGAAGCGTTGATCATGCCAGTTA 6548 || || | | ||||| ||| || | || | ||| || || || | || || Sbjct 4951 CCGCCAAAACTTGAACAA-CTTTATGTCGACAAACAACCAAAGCTTAATTTTACCTTTTG 5009 Query 6549 TAAATTCGATCTATGATGATGTCACTAACCTGGTTAATGGTGCGCAAGTTATTCCGGAAC 6608 | ||| || |||||||||| ||| || || ||| |||| ||| || || | Sbjct 5010 TTAATCGTATTTATGATGATGCAGCTACGTTGATTGCTGGCGCGCGAGTGCAACCAGAGC 5069 Query 6609 GGATGATCATGCAGTTGCTTTCTACTGGAAAGATTAGCATTACAGCTAACCGATTGAATT 6668 ||||||||||||| |||||||||||||||||||| ||| |||||||| |||| Sbjct 5070 GGATGATCATGCAACTGCTTTCTACTGGAAAGATTGCAATTGTCGCTAACCGTCAAAATT 5129 Query 6669 ATGATTACAACTATAAAATGCCAGAGGAGCACAAAGAAACGTTGACGGCTGATGCGAAGT 6728 | ||| | || | ||| || ||||| ||||| ||||| | || || | Sbjct 5130 ACAGCTACGATTACATGATGAAGGATGAGCATAAAGAGGTTTTGACTGGTGCGGCTGCAT 5189 Query 6729 GGAG-----CAGTCCAG---ACGCTGATGTGGTCGGTGATATTAAGACATGGCAGGATAA 6780 || || ||| |||| || | | |||||| | ||||| ||| Sbjct 5190 GGTCTGATACAACCCAATCAACGCC----TGTACAG-GATATTTTAGCTTGGCAAGATCG 5244 Query 6781 GGTTGAGGATGATACAGGTGTTCGTCCAACAAATGCGATTTGCACACGGAAAAC-CTGGA 6839 || ||||| |||||||| |||||||| || ||| ||| ||||| ||||| || | Sbjct 5245 TGTAGAGGAGAATACAGGTTCACGTCCAACGAACGCGGTTTTGACACGTAAAACGCTTGG 5304 Query 6840 ATTACATCTTGCAGAACAAACCTGTACGACTAGATATGAATCCATTGGGCGGTCAGAACA 6899 ||| | || ||||| | | ||| | ||| | || || ||| ||||| |||| Sbjct 5305 -TTATCTAATGGAGAACCGTTCAATTCGAATGGATCTAAACCCGACGGGTGGTCAAAACA 5363 Query 6900 TCATCATGACAGACGCGATGATGAAGCAATATTTACAATCTAAGTTAGGGATTAATGTAG 6959 |||| ||||| || ||||| ||||| || | ||| | || | || | | Sbjct 5364 TCATTATGACTGAGCAAATGATCCGCCAATACTTCTCGACAAAGCTTGGATTGAACATTG 5423 Query 6960 CAGTTTACAATAAAAAGTTTGCTCTACAGGATG-----GTAG-TACAAATCTATTCTATC 7013 | || ||||||||||||||| |||||| | || | | || ||||| | Sbjct 5424 CTGTCTACAATAAAAAGTTTA------AGGATGAAAAAGGAGCTGCGCGTCAATTCTTCC 5477 Query 7014 CAGATGATGTATTTACGCTTATCCCAGATGGAACGCTTGGAAACACATATTACGGTACCA 7073 | || |||||||| ||||| || || ||||| | ||||||||||| || || ||||| | Sbjct 5478 CGGACGATGTATTCACGCTGATTCCTGATGGGAACCTTGGAAACACGTACTATGGTACAA 5537 Query 7074 CACCGGAAGAATCTGATTTGATGGCTGGAAGCACAGTAGCGCAGGTCTCCATTGTTAATA 7133 | || ||||| || | ||| ||| | |||| || ||||| |||||| ||| Sbjct 5538 CGCCTGAAGAGAGCGACCTCATGAATGGTGGAACAGACGCACAGGTTCGAATTGTTGATA 5597 Query 7134 CAGGTGTAGCAATCACAACGATAAAAGAGCCTCACCCAGTAAATGTAGAAACTATCGTTA 7193 ||||| | || | ||||| || |||||||| || ||||| ||||| | || | || Sbjct 5598 CAGGTATTGCGGTAACAACAATTAAAGAGCCACATCCAGTTAATGTTCAGACGGTGGTCT 5657 Query 7194 GTGAGATTGTTCTACCTTCATTCGAAACCATAGATACTATTTTCATCGCAAGAGTTGCTT 7253 || || || ||||| || |||||||| || |||| || || ||||||| ||| || | Sbjct 5658 CTGGTATCGTACTACCATCGTTCGAAACAATTGATAACATCTTTATCGCAACAGTAGCGT 5717 Query 7254 AA 7255 || Sbjct 5718 AA 5719 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 173657933055024