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_028969.1 Length=52955 Score E Sequences producing significant alignments: (Bits) Value seq1219 311 3e-80 seq4166 237 5e-58 >seq1219 Length=45996 Score = 311 bits (344), Expect = 3e-80 Identities = 934/1422 (66%), Gaps = 50/1422 (4%) Strand=Plus/Minus Query 5867 AAAGAA-ATCTTGAAGTTCCCCGATCATTACGTAGCTTTAGCTGTAACAGTAGATGATAC 5925 |||||| ||| |||| || || ||||| ||||| |||||| ||||| || |||| Sbjct 23843 AAAGAACATCGTGAAATTTCCTGATCACTACGTCAATTTAGCGGTAACGGTTAGTGATGA 23784 Query 5926 GGGAGTTACGGCGAATGCTGAGGGAAAGAAAATCGTACCAGCTGGAACTATTTTGGGAGG 5985 || || || | || || | || |||||||| || || || || || || | || || Sbjct 23783 AGGTGTGACTG--AAAGCA-ATGGCAAGAAAATTGTTCCTGCCGGCACAATCCTCGGCGG 23727 Query 5986 TGGAGTGCT---AGCTGATCCGAGTAAAGTTGCAAAGAAGGCTAAAACAACTGCTGATAA 6042 ||| || | || |||| ||| | || || ||| |||| | |||| || | Sbjct 23726 TGGCGTATTGGAAGATGATACGAATTTAGCTGT---GAAAGCTA---CGACTGGCGAAGA 23673 Query 6043 G----TCAG--ATGCAGAGGGTGTTCTATTAAATGACACTGATGTGACGTATGGCCCTGC 6096 | | || | || |||||||| | || || || ||||||||| || || || || Sbjct 23672 GGGATTGAGTAACGCGGAGGGTGTCTTGTTTAACGATGTTGATGTGACATACGGTCCCGC 23613 Query 6097 ATCAGGAGCAATGGTCATCCATGGATTTATTGATGTAAGTAAAATTCCAAATCAACCTGA 6156 || || || || |||| ||||||||| | || || || | || |||| Sbjct 23612 TTCTGGCGCTCTGCTCATTCATGGATTTGTAGACTTAGAAAAGCTACCTGCAGAACCAAC 23553 Query 6157 TGTTGCAGAAACTGCTGCGCTTAAACAAATTACATTTTTGAAATAAGAAAGGG-TGTTAC 6215 | || ||||| ||||| | ||||||||||||||| | |||||| ||| || Sbjct 23552 AGCTGAAGAAAAGGCTGCATTAAAACAAATTACATTTGTTCGATAAGAGAGGACTGAATA 23493 Query 6216 TGAATG---AATATTTTTGATCTTGTAAACGCAAAGAACATTTCAACGTACTATCTAGCT 6272 | |||| | |||||||||| |||||| || || | ||| | | |||||| | Sbjct 23492 TAAATGCCAACTATTTTTGATTATGTAAATGCTAACGAGATTGCCGCTTACTATACAAAC 23433 Query 6273 AATCCATCTAACACGATTCCATACTTGGGAGCCACGCTGTTTCCACCTAAAAAACAACTT 6332 | | | || ||| | | || |||| | ||| | ||||| | ||||| | Sbjct 23432 AGTACGTCAAACGCTGTCCCTGCACTGGGTTCTACGTTATTTCCTGCGCGTAAACAGTTA 23373 Query 6333 GGTCTTGATCTGAGTTGGATTAAAGGTTCACGAGGACTACCAATTGC--TTTAATGCCTT 6390 || |||||| | || |||||||||||| | || || || | || || || |||| Sbjct 23372 GGGCTTGATTTAAGCTGGATTAAAGGTGCGAACGGGCTTCCTGTAGCGCTTGAA--CCTT 23315 Query 6391 CTGAATTCGATGCAAAGGCTACACTACGTGATCGTATCGGATTCAGCAAAATTGATACGG 6450 ||| || || || || || | | | ||||| || |||||| ||| | ||| | Sbjct 23314 CTGCTTTTGACGCGAAAGCAAACGTGAGAGATCGCATTGGATTCGAGAAAGTCGATGAAG 23255 Query 6451 AAATGCCGTTCTTCCGTGAAGCAATGCGAATTGGGGAGAAAGATCGTCAGGAACTAAACA 6510 |||||||||||||||||||||||||| ||||||| |||||||| || ||| | |||||| Sbjct 23254 AAATGCCGTTCTTCCGTGAAGCAATGAGAATTGGAGAGAAAGACCGCCAGAACTTAAACA 23195 Query 6511 AGCTTGCTG-CTTCACAAAACGAAGCGTTGATCATGCCAGTTATAAATTCGATCTATGAT 6569 | ||| || || || | ||| || ||||| |||| || | ||| || |||||| Sbjct 23194 A-CTTCATGTCTACAAACAACCAAAGCTTGATTTTGCCTTTTGTTAATCGTATTTATGAT 23136 Query 6570 GATGTAACTAACCTGGTAAATGGTGCACAAGTTATTCCAGAACGTATGATCATGCAGCTG 6629 || | ||| || | ||| || | ||| ||||| || ||||||||||| ||| Sbjct 23135 GACGCGGCTACGTTGATTGCTGGCGCGCGAGTGCAACCAGAGCGAATGATCATGCAACTG 23076 Query 6630 CTTTCTACTGGAAAGATTAGCATTACGGCTAACCGATTGAACTATGACTACAACTATAAA 6689 |||||||||||||||||| ||| |||||||| || || |||| | || | Sbjct 23075 CTTTCTACTGGAAAGATTGCGATTGTCGCTAACCGTCAAAATTACAGCTACGATTACATG 23016 Query 6690 ATGCCTGAGGATCACAAAGAAACGTTGACGGCTGATGCGAAGTGGAGCAATCCAGACGC- 6748 ||| || || || ||||| ||||| | || || ||| || || || | Sbjct 23015 ATGAAGGATGAGCATAAAGAGGTTTTGACTGGTGCAGCTGCATGGTCTGATACA-ACTCA 22957 Query 6749 --GGATG-TGGTTGGTGATATTAAGACATGGCAGGATAAGGTTGAGGATGATACAGGTGT 6805 | | || |||||| | ||||| ||| || ||||| |||||||| Sbjct 22956 ATCAACGCCTGTACAGGATATTTTAGCTTGGCAAGATCGTGTAGAGGAGAATACAGGTTC 22897 Query 6806 TCGCCCAACAAATGCGATTTGTACACGAAAAA--CATGGAATTACATCTTGCAGAACAAA 6863 || ||||| || ||| ||| ||||| |||| | ||| ||| | || ||||| Sbjct 22896 ACGTCCAACGAACGCGGTTTTGACACGTAAAACGCTTGG--TTATCTAATGGAGAACCGT 22839 Query 6864 CCTGTACGACTAGATATGAATCCATTGGGTGGTCAGAATATCATCATGACGGACGCAATG 6923 | | ||| | ||| | || || ||||||||| || ||||| ||||| || |||| Sbjct 22838 TCAATTCGAATGGATCTAAACCCGACGGGTGGTCAAAACATCATTATGACTGAGCAAATG 22779 Query 6924 ATGAAGCAATATTTACAATCTAAGTTAGGGATTAATGTAGCAGTTTACAATAAAAAGTTT 6983 || ||||| || | ||| | || | || | || || ||||||||||||||| Sbjct 22778 ATCCGCCAATACTTCTCGACAAAGCTTGGATTGAACATTGCTGTCTACAATAAAAAGTTT 22719 Query 6984 GCTCTACAGGATG-----GTAG-TACAAATCTATTCTATCCAGATGATGTATTTACGCTT 7037 |||||| | || | | || ||||| || || |||||||| ||||| Sbjct 22718 ------AAGGATGAAAAAGGAGCTGCGCGTCAATTCTTCCCGGACGATGTATTCACGCTG 22665 Query 7038 ATCCCAGATGGAACGCTTGGAAACACATATTACGGTACCACACCGGAAGAATCTGATTTG 7097 || || ||||| | ||||||||||| || || ||||| || || ||||| || | Sbjct 22664 ATTCCTGATGGGAACCTTGGAAACACGTACTATGGTACAACGCCTGAAGAGAGCGACCTC 22605 Query 7098 ATGGCTGGAAGCACAGTAGCGCAGGTCTCCATTGTTAATACAGGTGTAGCAATCACAACG 7157 ||| ||| | |||| || ||||| |||||| |||||||| | || | ||||| Sbjct 22604 ATGAATGGTGGAACAGACGCACAGGTTCGAATTGTTGATACAGGTATTGCGGTAACAACA 22545 Query 7158 ATAAAAGAGCCTCACCCAGTAAATGTAGAAACTATCGTTAGTGAGATTGTTCTACCTTCA 7217 || |||||||| || ||||| ||||| | || | || || || || ||||| || Sbjct 22544 ATTAAAGAGCCACATCCAGTTAATGTTCAGACGGTGGTCTCTGGTATCGTACTACCATCG 22485 Query 7218 TTCGAAACCATAGATACTATTTTCATCGCAAGAGTTGCTTAA 7259 |||||||| || |||| || || ||||||| ||| || ||| Sbjct 22484 TTCGAAACAATTGATAACATCTTTATCGCAACAGTAGCGTAA 22443 Score = 89.7 bits (98), Expect = 2e-13 Identities = 142/201 (71%), Gaps = 2/201 (1%) Strand=Plus/Minus Query 43755 CGATACAAAGTTGGCAAACATTACTTTGTACTACAAGGTGAGGAATTAAGACAGTTTAAA 43814 |||||||||||||| |||||||| |||| | || ||||| ||||| | |||||| Sbjct 39058 CGATACAAAGTTGGAAAACATTATTTTGCTTTGACTGGAGAGGATTTAAGGGATTTTAAA 38999 Query 43815 GCTTCTACG-CAAATATCGGGGAACCTCAAATTTGCTCCAATCCTATACCTTTGGACTGA 43873 | || ||| ||| | | | ||| |||| | || | || || |||||||| || Sbjct 38998 GGGTC-ACGTCAATTTGACGCTAGCCTTAAATACACATCAGTGCTTTATCTTTGGACAGA 38940 Query 43874 AAAAGGTGCGTGGCTTCAAGCGAAATCTCTTAACACAGATCAAGCGTGGGAAGCCTACGA 43933 ||||| || ||||| || || ||||| | ||||| || |||| ||||| || ||||| Sbjct 38939 GAAAGGCGCATGGCTACATGCTAAATCGTTAAACACTGACGAAGCATGGGACGCTTACGA 38880 Query 43934 AATGCTAGTAGATGATTACTA 43954 || ||||| || ||||| Sbjct 38879 GGCTCTTGTAGACGACTACTA 38859 >seq4166 Length=5795 Score = 237 bits (262), Expect = 5e-58 Identities = 742/1141 (65%), Gaps = 55/1141 (5%) Strand=Plus/Plus Query 6160 TGCAGAAACTGCTGCGCTTAAACAAATTACATTTTTGAAATAAGAAAGGG-TGTTACTGA 6218 || ||||| ||||| | ||||||||||||||| || |||||| ||| || | | Sbjct 4593 TGAAGAAAAGGCTGCATTAAAACAAATTACATTTGTGCGATAAGAGAGGACTGATTATAC 4652 Query 6219 ATG---AATATTTTTGATCTTGTAAACGCAAAGAACATTTCAACGTACTATCTAGCTAAT 6275 ||| | |||||||||| |||||| || || | ||| | | |||||| | | Sbjct 4653 ATGCCAACTATTTTTGATTATGTAAATGCTAATGAGATTGCCGCTTACTATACAAACAGC 4712 Query 6276 CCATCTAACACGATTCCATACTTGGGAGCCACGCTGTTTCCACCTAAAAAACAACTTGGT 6335 | |||||| | | || |||| | ||| | || ||| | ||||| | || Sbjct 4713 ACGTCTAACGCTGTCCCTGCACTGGGTTCTACGTTATTCCCAGCGCGTAAACAGTTAGGG 4772 Query 6336 CTTGATCTGAGTTGGATTAAAGGTTCACGAGGACTACCAATTGC--TTTAATGCCTTCTG 6393 |||||| | || |||||||||||| | || || || | || || || ||||||| Sbjct 4773 CTTGATTTAAGCTGGATTAAAGGTGCGAACGGGCTTCCTGTAGCGCTTGAA--CCTTCTG 4830 Query 6394 AATTCGATGCAAAGGCTACACTACGTGATCGTATCGGATTCAGCAAAATTGATACGGAAA 6453 || || || || || | | | ||||| || |||||| ||| | ||| |||| Sbjct 4831 CTTTTGACGCGAAAGCAAACGTGAGAGATCGCATTGGATTCGAGAAAGTCGATGAAGAAA 4890 Query 6454 TGCCGTTCTTCCGTGAAGCAATG--------------------CGAATTGGGGAGAAAGA 6493 ||||||||||||||||||||||| |||||||| |||||||| Sbjct 4891 TGCCGTTCTTCCGTGAAGCAATGANNNNNNNNNNATCTCGATGCGAATTGGAGAGAAAGA 4950 Query 6494 TCGTCAGGAACTAAACAAGCTTGCTG-CTTCACAAAACGAAGCGTTGATCATGCCAGTTA 6552 || || | | ||||| ||| || | || | ||| || || || | || || Sbjct 4951 CCGCCAAAACTTGAACAA-CTTTATGTCGACAAACAACCAAAGCTTAATTTTACCTTTTG 5009 Query 6553 TAAATTCGATCTATGATGATGTAACTAACCTGGTAAATGGTGCACAAGTTATTCCAGAAC 6612 | ||| || |||||||||| | ||| || | ||| || | ||| ||||| | Sbjct 5010 TTAATCGTATTTATGATGATGCAGCTACGTTGATTGCTGGCGCGCGAGTGCAACCAGAGC 5069 Query 6613 GTATGATCATGCAGCTGCTTTCTACTGGAAAGATTAGCATTACGGCTAACCGATTGAACT 6672 | ||||||||||| ||||||||||||||||||||| ||| |||||||| || | Sbjct 5070 GGATGATCATGCAACTGCTTTCTACTGGAAAGATTGCAATTGTCGCTAACCGTCAAAATT 5129 Query 6673 ATGACTACAACTATAAAATGCCTGAGGATCACAAAGAAACGTTGACGGCTGATGCGAAGT 6732 | |||| | || | ||| || || || ||||| ||||| | || || | Sbjct 5130 ACAGCTACGATTACATGATGAAGGATGAGCATAAAGAGGTTTTGACTGGTGCGGCTGCAT 5189 Query 6733 GGAG-----CAATCCAGACG-CGGATGTGGTTGGTGATATTAAGACATGGCAGGATAAGG 6786 || ||| ||| | || ||| | | || ||| | ||||| ||| | Sbjct 5190 GGTCTGATACAACCCAATCAACGCCTGTACAGGAT-ATTTTAG--CTTGGCAAGATCGTG 5246 Query 6787 TTGAGGATGATACAGGTGTTCGCCCAACAAATGCGATTTGTACACGAAAAACA--TGGAA 6844 | ||||| |||||||| || ||||| || ||| ||| ||||| ||||| ||| Sbjct 5247 TAGAGGAGAATACAGGTTCACGTCCAACGAACGCGGTTTTGACACGTAAAACGCTTGG-- 5304 Query 6845 TTACATCTTGCAGAACAAACCTGTACGACTAGATATGAATCCATTGGGTGGTCAGAATAT 6904 ||| | || ||||| | | ||| | ||| | || || ||||||||| || || Sbjct 5305 TTATCTAATGGAGAACCGTTCAATTCGAATGGATCTAAACCCGACGGGTGGTCAAAACAT 5364 Query 6905 CATCATGACGGACGCAATGATGAAGCAATATTTACAATCTAAGTTAGGGATTAATGTAGC 6964 ||| ||||| || |||||| ||||| || | ||| | || | || | || Sbjct 5365 CATTATGACTGAGCAAATGATCCGCCAATACTTCTCGACAAAGCTTGGATTGAACATTGC 5424 Query 6965 AGTTTACAATAAAAAGTTTGCTCTACAGGATG-----GTAG-TACAAATCTATTCTATCC 7018 || ||||||||||||||| |||||| | || | | || ||||| || Sbjct 5425 TGTCTACAATAAAAAGTTTA------AGGATGAAAAAGGAGCTGCGCGTCAATTCTTCCC 5478 Query 7019 AGATGATGTATTTACGCTTATCCCAGATGGAACGCTTGGAAACACATATTACGGTACCAC 7078 || |||||||| ||||| || || ||||| | ||||||||||| || || ||||| || Sbjct 5479 GGACGATGTATTCACGCTGATTCCTGATGGGAACCTTGGAAACACGTACTATGGTACAAC 5538 Query 7079 ACCGGAAGAATCTGATTTGATGGCTGGAAGCACAGTAGCGCAGGTCTCCATTGTTAATAC 7138 || ||||| || | ||| ||| | |||| || ||||| |||||| |||| Sbjct 5539 GCCTGAAGAGAGCGACCTCATGAATGGTGGAACAGACGCACAGGTTCGAATTGTTGATAC 5598 Query 7139 AGGTGTAGCAATCACAACGATAAAAGAGCCTCACCCAGTAAATGTAGAAACTATCGTTAG 7198 |||| | || | ||||| || |||||||| || ||||| ||||| | || | || Sbjct 5599 AGGTATTGCGGTAACAACAATTAAAGAGCCACATCCAGTTAATGTTCAGACGGTGGTCTC 5658 Query 7199 TGAGATTGTTCTACCTTCATTCGAAACCATAGATACTATTTTCATCGCAAGAGTTGCTTA 7258 || || || ||||| || |||||||| || |||| || || ||||||| ||| || || Sbjct 5659 TGGTATCGTACTACCATCGTTCGAAACAATTGATAACATCTTTATCGCAACAGTAGCGTA 5718 Query 7259 A 7259 | Sbjct 5719 A 5719 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 169316004780792