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_013797.1 Length=108592 Score E Sequences producing significant alignments: (Bits) Value seq27 102 6e-17 seq11 102 6e-17 seq168 98.7 7e-16 seq18 96.9 2e-15 seq6 95.1 8e-15 seq4 89.7 4e-13 seq23 87.8 1e-12 seq17 87.8 1e-12 seq14 87.8 1e-12 >seq27 Length=3408634 Score = 102 bits (112), Expect = 6e-17 Identities = 161/228 (71%), Gaps = 2/228 (1%) Strand=Plus/Minus Query 39493 CCGCCTCGCAAACGCAGTACCAAATGCAAAGTGCTTTCTTTTTGTATATTATAATCGGCC 39552 || || || | ||| || || | || | |||| || ||||| ||||| ||||| ||| Sbjct 2140751 CCACCACGAAGACGAAGAACAAGGTGAAGAGTGGACTCCTTTTGAATATTGTAATCAGCC 2140692 Query 39553 AAAACGCGTTCATCGTCCAATTGTTTCCCGCCAAAAATTAAACGCTGCTGATCCGAGGGT 39612 ||| | | | || |||| ||||||||| ||||||| || | |||||||| | || Sbjct 2140691 AAAGTCCTTCCGTCTTCCAGTTGTTTCCCAGCAAAAATCAACCTTTGCTGATCTGGTGGA 2140632 Query 39613 ACGCCTTCTTTGTCGCATATTTTTTGTTTAATCGTCGCTACT-GTGTCTGCGCTTTCCAC 39671 | |||||||| || | | | || | || ||| | | || || | ||| ||||| Sbjct 2140631 ATCCCTTCTTTCTC-CTGACTCTTCGCTTTCGCGTTATCAATCGTATCCGAGCTCTCCAC 2140573 Query 39672 GTCCAAAGTAATTGTTTTACCCGTTAAAGTTTTTACGAAGATCTGCAT 39719 || |||||||| || ||||| || ||||| || |||||||||||||| Sbjct 2140572 TTCTAAAGTAATCGTCTTACCGGTCAAAGTCTTGACGAAGATCTGCAT 2140525 >seq11 Length=95484752 Score = 102 bits (112), Expect = 6e-17 Identities = 161/229 (70%), Gaps = 4/229 (2%) Strand=Plus/Minus Query 39493 CCGCCTCGCAAACGCAGTACCAAATGCAAAGTGCTTTCTTTTTGTATATTATAATCGGCC 39552 || || || | ||||| || | || | |||| ||| || || ||||| ||||| ||| Sbjct 29435115 CCACCCCGAAGACGCAAGACAAGGTGGAGAGTGGATTCCTTCTGAATATTGTAATCAGCC 29435056 Query 39553 AAAACGCGTTCATCGTCCAATTGTTTCCCGCCAAAAATTAAACGCTGCTGATCCGAGGGT 39612 ||| | | |||| |||||||||||||| | ||||| || | |||||||| | || Sbjct 29435055 AAAGTCCTTCCATCTTCCAATTGTTTCCCAGCGAAAATCAACCTTTGCTGATCTGGTGGA 29434996 Query 39613 ACGCCTTCTTTGTCGCATATTTTTTGTTTA--ATCGTCGCTACTGTGTCTGCGCTTTCCA 39670 | ||||||||||| || || ||| || |||| | || || | || |||| Sbjct 29434995 ATTCCTTCTTTGTCCTGAATCTTCGCCTTAACATTGTCG--ATCGTATCGGAACTCTCCA 29434938 Query 39671 CGTCCAAAGTAATTGTTTTACCCGTTAAAGTTTTTACGAAGATCTGCAT 39719 | |||||||| || ||||| || || || || || ||||| |||||||| Sbjct 29434937 CCTCCAAAGTTATGGTTTTCCCAGTCAACGTCTTGACGAAAATCTGCAT 29434889 Score = 93.3 bits (102), Expect = 3e-14 Identities = 151/215 (70%), Gaps = 2/215 (1%) Strand=Plus/Minus Query 39507 CAGTACCAAATGCAAAGTGCTTTCTTTTTGTATATTATAATCGGCCAAAACGCGTTCATC 39566 || ||||||||| | || || || || || || ||||||||||| ||| | || Sbjct 29434873 CAATACCAAATGGAGGGTCGACTCCTTCTGGATGTTGTAATCGGCCAAGGTGCGACCGTC 29434814 Query 39567 GTCCAATTGTTTCCCGCCAAAAATTAAACGCTGCTGATCCGAGGGTACGCCTTCTTTGTC 39626 || | |||||||||| |||| || | | ||||| || | || | |||||| ||||| Sbjct 29434813 CTCGAGTTGTTTCCCGGCAAATATGAGCCTTTGCTGGTCTGGTGGGATGCCTTCCTTGTC 29434754 Query 39627 GCATATTTTTTGTTTAATCGTCGCTACTG-TGTCTGCGCTTTCCACGTCCAAAGTAATTG 39685 || ||| || | ||| | | || |||| | |||||| || |||||||| || | Sbjct 29434753 TTGGATCTTTGCCTTGA-CGTTGTCAATGGTGTCAGAGCTTTCGACTTCCAAAGTTATGG 29434695 Query 39686 TTTTACCCGTTAAAGTTTTTACGAAGATCTGCATG 39720 | || || || | ||||| ||||||||||||||| Sbjct 29434694 TCTTGCCGGTCAGGGTTTTGACGAAGATCTGCATG 29434660 >seq168 Length=529997 Score = 98.7 bits (108), Expect = 7e-16 Identities = 158/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 39493 CCGCCTCGCAAACGCAGTACCAAATGCAAAGTGCTTTCTTTTTGTATATTATAATCGGCC 39552 || || || | ||| || || | || | |||| || ||||| ||||| |||| ||| Sbjct 131829 CCACCACGAAGACGAAGAACAAGGTGAAGAGTGGACTCCTTTTGAATATTGTAATTAGCC 131770 Query 39553 AAAACGCGTTCATCGTCCAATTGTTTCCCGCCAAAAATTAAACGCTGCTGATCCGAGGGT 39612 ||| | | |||| |||| |||||||| ||||||| || | |||||| | | || Sbjct 131769 AAAGTCCTTCCATCTTCCAGCTGTTTCCCAGCAAAAATCAACCTTTGCTGACCTGGTGGA 131710 Query 39613 ACGCCTTCTTTGTCGCATATTTTTTGTTTAATCGTCGCTACTGTGTCTGCGCTTTCCACG 39672 | ||||||||||| || || ||| | | | | || || | ||| ||||| Sbjct 131709 ATTCCTTCTTTGTCCTGAATCTTCGCTTTCACGTTATCAATCGTATCCGAGCTCTCCACT 131650 Query 39673 TCCAAAGTAATTGTTTTACCCGTTAAAGTTTTTACGAAGATCTGCAT 39719 || |||||||| || ||||| || ||||| || |||||||||||||| Sbjct 131649 TCTAAAGTAATGGTCTTACCGGTCAAAGTCTTGACGAAGATCTGCAT 131603 >seq18 Length=57801308 Score = 96.9 bits (106), Expect = 2e-15 Identities = 160/229 (70%), Gaps = 4/229 (2%) Strand=Plus/Minus Query 39493 CCGCCTCGCAAACGCAGTACCAAATGCAAAGTGCTTTCTTTTTGTATATTATAATCGGCC 39552 || || || | ||||| || | || | |||| ||| || || ||||| ||||| ||| Sbjct 49489141 CCACCACGAAGACGCAAGACAAGGTGGAGAGTGGATTCCTTCTGAATATTGTAATCAGCC 49489082 Query 39553 AAAACGCGTTCATCGTCCAATTGTTTCCCGCCAAAAATTAAACGCTGCTGATCCGAGGGT 39612 ||| | | |||| ||||| |||||||| | ||||| || | |||||||| | || Sbjct 49489081 AAAGTCCTTCCATCTTCCAACTGTTTCCCAGCGAAAATCAACCTTTGCTGATCTGGTGGA 49489022 Query 39613 ACGCCTTCTTTGTCGCATATTTTTTGTTTA--ATCGTCGCTACTGTGTCTGCGCTTTCCA 39670 | ||||||||||| || || ||| || |||| | || || | || |||| Sbjct 49489021 ATCCCTTCTTTGTCCTGAATCTTCGCCTTAACATTGTCG--ATCGTATCGGAACTCTCCA 49488964 Query 39671 CGTCCAAAGTAATTGTTTTACCCGTTAAAGTTTTTACGAAGATCTGCAT 39719 | |||||||| || ||||| || || || || || ||||| |||||||| Sbjct 49488963 CCTCCAAAGTTATGGTTTTCCCAGTCAACGTCTTGACGAAAATCTGCAT 49488915 Score = 82.4 bits (90), Expect = 5e-11 Identities = 148/214 (69%), Gaps = 2/214 (1%) Strand=Plus/Minus Query 39507 CAGTACCAAATGCAAAGTGCTTTCTTTTTGTATATTATAATCGGCCAAAACGCGTTCATC 39566 || ||||||||| | || || || || || || ||||||||||| ||| | || Sbjct 49488899 CAATACCAAATGGAGGGTCGACTCCTTCTGGATGTTGTAATCGGCCAAGGTGCGACCGTC 49488840 Query 39567 GTCCAATTGTTTCCCGCCAAAAATTAAACGCTGCTGATCCGAGGGTACGCCTTCTTTGTC 39626 || | |||||||||| |||| || | | ||||| || | || | |||||| ||||| Sbjct 49488839 CTCGAGTTGTTTCCCGGCAAAGATGAGCCTTTGCTGGTCTGGTGGGATGCCTTCCTTGTC 49488780 Query 39627 GCATATTTTTTGTTTAATCGTCGCTACTG-TGTCTGCGCTTTCCACGTCCAAAGTAATTG 39685 || || || | ||| | | || |||| | |||||| || |||||||| || | Sbjct 49488779 TTGGATCTTGGCCTTGA-CGTTGTCAATGGTGTCAGAGCTTTCGACTTCCAAAGTTATGG 49488721 Query 39686 TTTTACCCGTTAAAGTTTTTACGAAGATCTGCAT 39719 | || || || | || || |||||||||||||| Sbjct 49488720 TCTTGCCGGTCAGGGTCTTAACGAAGATCTGCAT 49488687 >seq6 Length=79162310 Score = 95.1 bits (104), Expect = 8e-15 Identities = 160/230 (70%), Gaps = 4/230 (2%) Strand=Plus/Minus Query 39492 GCCGCCTCGCAAACGCAGTACCAAATGCAAAGTGCTTTCTTTTTGTATATTATAATCGGC 39551 ||| || || | ||| || || | || | ||| ||| || || |||||||||||||| Sbjct 21701957 GCCCCCGCGAAGACGGAGGACGAGGTGGAGGGTGGATTCCTTCTGGATATTATAATCGGC 21701898 Query 39552 CAAAACGCGTTCATCGTCCAATTGTTTCCCGCCAAAAATTAAACGCTGCTGATCCGAGGG 39611 ||| || |||| || | ||||| ||| | || || | ||||||||| || | || Sbjct 21701897 CAAGGTACGGCCATCTTCGAGCTGTTTGCCGGCGAAGATGAGACGCTGCTGGTCTGGTGG 21701838 Query 39612 TACGCCTTCTTTGTCGCATATTTTTTGTTT--AATCGTCGCTACTGTGTCTGCGCTTTCC 39669 | |||||| ||||| ||||| || || |||| | ||||| | ||| || Sbjct 21701837 GATGCCTTCCTTGTCTTGGATTTTAGACTTGACATTGTCG--ATGGTGTCGGAGCTCTCG 21701780 Query 39670 ACGTCCAAAGTAATTGTTTTACCCGTTAAAGTTTTTACGAAGATCTGCAT 39719 || || | || || || ||||| ||||| ||||| |||||||||||||| Sbjct 21701779 ACTTCGAGGGTGATGGTCTTACCGGTTAAGGTTTTGACGAAGATCTGCAT 21701730 >seq4 Length=78750349 Score = 89.7 bits (98), Expect = 4e-13 Identities = 159/230 (69%), Gaps = 4/230 (2%) Strand=Plus/Plus Query 39492 GCCGCCTCGCAAACGCAGTACCAAATGCAAAGTGCTTTCTTTTTGTATATTATAATCGGC 39551 ||| || || | ||| || || | || | ||| ||| || || |||||||||||||| Sbjct 57540555 GCCCCCGCGAAGACGGAGGACGAGGTGGAGGGTGGATTCCTTCTGGATATTATAATCGGC 57540614 Query 39552 CAAAACGCGTTCATCGTCCAATTGTTTCCCGCCAAAAATTAAACGCTGCTGATCCGAGGG 39611 ||| || |||| || | ||||| ||| | || || | ||||||||| || | || Sbjct 57540615 CAAGGTACGGCCATCTTCGAGCTGTTTGCCGGCGAAGATGAGACGCTGCTGGTCTGGTGG 57540674 Query 39612 TACGCCTTCTTTGTCGCATATTTTTTGTTT--AATCGTCGCTACTGTGTCTGCGCTTTCC 39669 | |||||| ||||| ||||| || || |||| | ||||| | ||| || Sbjct 57540675 GATGCCTTCCTTGTCTTGGATTTTAGACTTGACATTGTCG--ATGGTGTCGGAGCTCTCG 57540732 Query 39670 ACGTCCAAAGTAATTGTTTTACCCGTTAAAGTTTTTACGAAGATCTGCAT 39719 || || | || || || || || ||||| ||||| |||||||||||||| Sbjct 57540733 ACTTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTGACGAAGATCTGCAT 57540782 >seq23 Length=61753794 Score = 87.8 bits (96), Expect = 1e-12 Identities = 159/232 (69%), Gaps = 8/232 (3%) Strand=Plus/Minus Query 39493 CCGCCTCGCAAACGCAGTACCAAATGCAAAGTGCTTTCTTTTTGTATATTATAATCGGCC 39552 || || || | ||||| |||||||| | || ||| ||||| || ||||| || || Sbjct 11030814 CCACCACGAAGACGCAACACCAAATGGAGGGTAGATTCCTTTTGAATGTTATAGTCTGCA 11030755 Query 39553 AAAACGCGTTC----ATCGTCCAATTGTTTCCCGCCAAAAATTAAACGCTGCTGATCCGA 39608 | | |||| ||| || | ||||||||| |||||||||| | |||||| || | Sbjct 11030754 A----GGGTTCTGCCATCTTCAAGTTGTTTCCCAGCAAAAATTAACCTCTGCTGGTCTGG 11030699 Query 39609 GGGTACGCCTTCTTTGTCGCATATTTTTTGTTTAATCGTCGCTACTGTGTCTGCGCTTTC 39668 || | ||| || ||||| || || |||| | | | ||| || | || || Sbjct 11030698 TGGGATGCCCTCCTTGTCCTGAATCTTGGACTTAACGTTATCAATTGTATCAGAACTCTC 11030639 Query 39669 CACGTCCAAAGTAATTGTTTTACCCGTTAAAGTTTTTACGAAGATCTGCATG 39720 ||| || ||||| || ||||| || || | |||||||| |||||||||||| Sbjct 11030638 CACCTCTAAAGTGATGGTTTTTCCAGTGAGCGTTTTTACAAAGATCTGCATG 11030587 Score = 84.2 bits (92), Expect = 2e-11 Identities = 148/216 (69%), Gaps = 0/216 (0%) Strand=Plus/Plus Query 39505 CGCAGTACCAAATGCAAAGTGCTTTCTTTTTGTATATTATAATCGGCCAAAACGCGTTCA 39564 || || |||||||| | ||| || || || |||||||||||||| | | | | || Sbjct 39553997 CGGAGAACCAAATGGAGAGTAGACTCCTTCTGGATATTATAATCGGCAAGAGTCCTTCCA 39554056 Query 39565 TCGTCCAATTGTTTCCCGCCAAAAATTAAACGCTGCTGATCCGAGGGTACGCCTTCTTTG 39624 || || | |||||| || ||||||| || | || || || | || | ||||||||| Sbjct 39554057 TCTTCAAGTTGTTTTCCAGCAAAAATCAATCTTTGTTGGTCTGGTGGGATTCCTTCTTTG 39554116 Query 39625 TCGCATATTTTTTGTTTAATCGTCGCTACTGTGTCTGCGCTTTCCACGTCCAAAGTAATT 39684 || || || ||| | | | | || || | || ||||| ||||| |||||| Sbjct 39554117 TCCTGAATCTTGGCTTTCACATTATCAATGGTATCCGAACTCTCCACCTCCAAGGTAATT 39554176 Query 39685 GTTTTACCCGTTAAAGTTTTTACGAAGATCTGCATG 39720 || || || || | |||||| || ||||| |||||| Sbjct 39554177 GTCTTTCCAGTGAGAGTTTTGACAAAGATTTGCATG 39554212 >seq17 Length=39386523 Score = 87.8 bits (96), Expect = 1e-12 Identities = 138/194 (71%), Gaps = 4/194 (2%) Strand=Plus/Minus Query 39528 TTCTTTTTGTATATTATAATCGGCCAAAACGCGTTCATCGTCCAATTGTTTCCCGCCAAA 39587 ||| || || |||||||||||||||| || |||| || | ||||| ||| | || Sbjct 31748758 TTCCTTCTGGATATTATAATCGGCCAGGGTACGGCCATCTTCGAGCTGTTTGCCGGCGAA 31748699 Query 39588 AATTAAACGCTGCTGATCCGAGGGTACGCCTTCTTTGTCGCATATTTT-TTGTTTA-ATC 39645 || | ||||||||| || | || | |||||| ||||| ||||| |||| || Sbjct 31748698 GATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACTTTACATT 31748639 Query 39646 GTCGCTACTGTGTCTGCGCTTTCCACGTCCAAAGTAATTGTTTTACCCGTTAAAGTTTTT 39705 ||| | ||||| | ||| || || || | || || || || || ||||||||||| Sbjct 31748638 ATCG--ATGGTGTCAGAGCTCTCGACTTCGAGGGTGATGGTCTTGCCGGTTAAAGTTTTG 31748581 Query 39706 ACGAAGATCTGCAT 39719 |||||||||||||| Sbjct 31748580 ACGAAGATCTGCAT 31748567 >seq14 Length=44799946 Score = 87.8 bits (96), Expect = 1e-12 Identities = 134/191 (70%), Gaps = 0/191 (0%) Strand=Plus/Plus Query 39529 TCTTTTTGTATATTATAATCGGCCAAAACGCGTTCATCGTCCAATTGTTTCCCGCCAAAA 39588 ||||| || || |||||||| |||||| | |||| ||||||||||| ||| |||| Sbjct 8847940 TCTTTCTGAATGTTATAATCAGCCAAAGTCCTCCCATCTTCCAATTGTTTGCCGGCAAAG 8847999 Query 39589 ATTAAACGCTGCTGATCCGAGGGTACGCCTTCTTTGTCGCATATTTTTTGTTTAATCGTC 39648 || | | |||||||| | || | ||||| || || || ||| |||| | Sbjct 8848000 ATGAGCCTTTGCTGATCAGGTGGGATTCCTTCCTTATCCTGAATCTTTGCCTTAACATTG 8848059 Query 39649 GCTACTGTGTCTGCGCTTTCCACGTCCAAAGTAATTGTTTTACCCGTTAAAGTTTTTACG 39708 | | || || | |||||| || ||||| || |||||||| || || ||||| || || Sbjct 8848060 TCAATGGTATCGGAGCTTTCAACCTCCAAGGTGATTGTTTTGCCGGTCAAAGTCTTGACA 8848119 Query 39709 AAGATCTGCAT 39719 || |||||||| Sbjct 8848120 AAAATCTGCAT 8848130 Score = 82.4 bits (90), Expect = 5e-11 Identities = 136/194 (70%), Gaps = 2/194 (1%) Strand=Plus/Plus Query 39528 TTCTTTTTGTATATTATAATCGGCCAAAACGCGTTCATCGTCCAATTGTTTCCCGCCAAA 39587 ||| ||||| ||||||||||| ||||| | |||| ||||||||||| || | || Sbjct 8848167 TTCCTTTTGGATATTATAATCAGCCAAGGTCCTCCCATCTTCCAATTGTTTGCCAGCGAA 8848226 Query 39588 AATTAAACGCTGCTGATCCGAGGGTACGCCTTCTTTGTCGCATATTTTTTGTTTAATCGT 39647 || |||||||| || || | || | |||||| ||||| || || |||| ||| Sbjct 8848227 GATCAAACGCTGTTGGTCAGGTGGGATGCCTTCCTTGTCTTGAATCTTGGCCTTAA-CGT 8848285 Query 39648 CG-CTACTGTGTCTGCGCTTTCCACGTCCAAAGTAATTGTTTTACCCGTTAAAGTTTTTA 39706 | | | ||||| | || || || || | || || || || || ||||| ||||| | Sbjct 8848286 TGTCGATGGTGTCGGAACTCTCGACTTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTGA 8848345 Query 39707 CGAAGATCTGCATG 39720 | ||||| |||||| Sbjct 8848346 CAAAGATTTGCATG 8848359 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 347330871329084