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_029071.1 Length=41085 Score E Sequences producing significant alignments: (Bits) Value seq5259 1032 0.0 >seq5259 Length=4105 Score = 1032 bits (1144), Expect = 0.0 Identities = 742/844 (88%), Gaps = 17/844 (2%) Strand=Plus/Minus Query 29622 GCGTCCATTGCAGCCGTACCAGTGCGATATAAAGCCATAATTACACCTCATTTTATTCAT 29681 || ||||||| ||||||||||||||||||||||||||||||| |||||||| ||| | Sbjct 1300 GCATCCATTGTAGCCGTACCAGTGCGATATAAAGCCATAATTTCACCTCATAGCATTTTT 1241 Query 29682 TG--AAACA---GTGTAGTGATTATGCGATATTGCTATGTTACATGCAATaaaaaaaCCC 29736 || ||| | || || ||||||| | | | ||||||||||||| ||||||||| Sbjct 1240 TGTTAAAAATAGGTCATGTAATTATGCTACAGCCATTTGTTACATGCAAT-AAAAAACCC 1182 Query 29737 CGCCCTTAGCGGGGT-TCGTCAACGACAACGAGAAGTCAATGAGCAGTAGCCATCGAAAG 29795 ||| || ||||||| || |||||| |||| |||| || ||| || | ||||| Sbjct 1181 CGCAATT-GCGGGGTAATGTTAACGACGACGAAAAGTAAACTTGCA-TA-TAACAGAAAG 1125 Query 29796 TGTTAG----TAGCATGA--TGAATATTATAATAAGTCTGATGCCTTGTAAAGCCTACGC 29849 ||| || | || | ||||||||| |||||| ||| ||||||||||| | | Sbjct 1124 TGTAAGGGTCAACCAACAATAAAATATTATAGTAAGTCGCTTGCTTTGTAAAGCCTCCTC 1065 Query 29850 TCTATTCCA-TTTTGAATCTTCCGTTAATCGGCAACATTACGTCTAACTCGCGATCATCA 29908 ||||||||| |||||||| | ||||||| || |||||||||||||| || |||||||| Sbjct 1064 TCTATTCCATTTTTGAATTTACCGTTAACTGGTAACATTACGTCTAATTCTCGATCATCG 1005 Query 29909 GCGGCAATCAATGTTTCACGGTCATTAGCATGGCACACCACGCGCATTTTACGATCACCT 29968 || |||||||| || || || ||||||||||||||||| ||||||||||||||||| ||| Sbjct 1004 GCAGCAATCAAAGTATCGCGATCATTAGCATGGCACACAACGCGCATTTTACGATCTCCT 945 Query 29969 TTATACCTGTATGCAACAATTTCAAGATTTGAAGGCGAGAAACACGCCCATACTTCTTGC 30028 || || ||||||| ||||||||||||||||||||| ||||||||||||||||||||||| Sbjct 944 TTGTATCTGTATGAAACAATTTCAAGATTTGAAGGTGAGAAACACGCCCATACTTCTTGA 885 Query 30029 CCCGTCGCCAGGTGTATATGTTGCGCATCAATCCAATCAACGCAAAGGTAAATTGTTTTG 30088 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 884 CCCGTCGCCAGGTGTATATGTTGCGCATCAATCCAATCAACGCAAAGGTAAATTGTTTTG 825 Query 30089 TCAGTCTTGCCAGTTACCGCAACGCTTCCACGCGTGTAATCTTTCGCGTAAAAACTGCTT 30148 ||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||| Sbjct 824 TCAGTCTTGCCAGTTACCGCAACGCTTCCGCGCGTGTAATCTTTCGCGTAAAAACTGCTT 765 Query 30149 TTACCTTCCTCATTGACGAAAAGAATATTGCACATGTCATCATCCAATTCATCACTATGC 30208 ||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||| Sbjct 764 TTACCTTCCTCATTGACGAAAAGAATATTGCACATATCATCATCCAATTCATCACTATGC 705 Query 30209 ACCAGGTGGCAAGGAATGGCGTGTATATGCTCGCAATATCCATTTTCATGAGTTTTCACG 30268 |||| |||||||| || |||||||||||||||||||||||||| ||||||||||| ||| Sbjct 704 ACCATGTGGCAAGTGATAGCGTGTATATGCTCGCAATATCCATTGTCATGAGTTTTTACG 645 Query 30269 CCCACTTGATACGATTCGCCGTCTAATGGATAAAACGCCTCAAAAACGCTTAGATTTGTT 30328 || ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 644 CCAACTTGATACGATTCGCCGTCTAATGGATAAAACGCCTCAAAAACGCTTAGATTTGTT 585 Query 30329 ATTTCCATGCGTTCAGTTTTATCCATCACCTCAACGCACTTTTCGTGTGGCGCTTGCGAT 30388 ||||||||||||||||||||||||||||||||||| || ||||| || || ||||||||| Sbjct 584 ATTTCCATGCGTTCAGTTTTATCCATCACCTCAACACATTTTTCATGAGGTGCTTGCGAT 525 Query 30389 CCGAAATTGTAACCGGAATCACGTTTTGCCGCTTTGTTAGCCTTGTTGACAACCTCAACC 30448 ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||| Sbjct 524 CCGAAATTGTAACCGGAGTCACGTTTTGCCGCTTTGTTAGCCTTGTTGACAACCTCAACG 465 Query 30449 GGAA 30452 |||| Sbjct 464 GGAA 461 Score = 605 bits (670), Expect = 7e-169 Identities = 349/358 (97%), Gaps = 0/358 (0%) Strand=Plus/Minus Query 30509 ATGCGCATGAATAATCCGATCCCTGAATCATTCCCGCACTGGTTGCAAATGTTGCCGCCG 30568 || |||||||| |||||||||||||||||||| |||||||||||||||||||| |||||| Sbjct 358 ATACGCATGAACAATCCGATCCCTGAATCATTGCCGCACTGGTTGCAAATGTTTCCGCCG 299 Query 30569 TCGCCTTTCTCGTTGATTTTGTCAGTCCAGCGAAAGCGATCTTTACCGCCGCAATAAGGG 30628 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 298 TCGCCTTTCTCGTTGATTTTGTCAGTCCAGCGAAAGCGATCTTTACCGCCGCAATAAGGG 239 Query 30629 CATGGTTGATGTTTTCCGTTAAAGGTTAATTGAGGAATATCGCAAAGTTTCATTAATGCC 30688 || || || ||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 238 CAAGGCTGGTGTTTTCCGTTAAAGGTTAATTGAGGAATATCGCAAAGTTTCATTAATGCC 179 Query 30689 GCTTGCCACATGCCGCGCATCTTTGGGATCACTTCTTCTTTTTGATAGTGCATTTCTCAA 30748 ||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||| Sbjct 178 GCTTGCCACATGCCGCGCATCTTTGGGATCACTTCTTCTTTTTGATAATGCATTTCTCAA 119 Query 30749 CCTCCAAATAAAAAACCTGGCACGATGATAAACCATGCCAGGCCGGAATTTTTAGCAATC 30808 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Sbjct 118 CCTCCAAATAAAAAACCTGGCACGATGATAAACCATGCCAGGCCGGAATTTTTAGCAATC 59 Query 30809 AGTGCTATCGACGGAAATCACAACGCGTTTTTTCTGATTGGCTTCCTTTGCTTTGCGC 30866 |||||||||||||||||||||||||||||| ||||||||||||||||||||||||||| Sbjct 58 AGTGCTATCGACGGAAATCACAACGCGTTTCTTCTGATTGGCTTCCTTTGCTTTGCGC 1 Score = 544 bits (602), Expect = 2e-150 Identities = 485/612 (79%), Gaps = 9/612 (1%) Strand=Plus/Minus Query 24693 AAGGCTCGCGGTTTTAATCCGGCTGAACCAGCGGCAAATGTTGCGAAGAATGAAAAAGTT 24752 ||||||| || || |||||||||||||||||||| |||||||| ||||||||||| ||| Sbjct 4048 AAGGCTCTTGGCTTCAATCCGGCTGAACCAGCGGCTAATGTTGCAAAGAATGAAAAGGTT 3989 Query 24753 GAAAATCAACCGCAACAGGAAGTAAAATCACAGTCTATCACTGACTTTGAATAATTTATC 24812 ||||| |||||||||||||||||||||||||| ||||||||||||||||||||| | Sbjct 3988 GAAAAGGAACCGCAACAGGAAGTAAAATCACAGCCTATCACTGACTTTGAATAATAATTT 3929 Query 24813 GCGGGGCGATAGCGCCCCGATAAGGAAATAAAATGCACGTTATCACCGGAGAAATTCGCA 24872 |||||||| || ||| ||||||||||| | ||||||||||||||| || |||||||||| Sbjct 3928 GCGGGGCG-TAATGCCACGATAAGGAAAAATAATGCACGTTATCACTGGTGAAATTCGCA 3870 Query 24873 AAGAGCCTTTTGTTAAGCAAGGGCAAAACGGCACACTGTATATTGTTGAGCTTTCAGAAT 24932 ||||||||| |||||||||||| |||||| || | || || ||||| | | |||| Sbjct 3869 AAGAGCCTTATGTTAAGCAAGGCGCAAACGGAACTTTATACATCGTTGAATTAGCGGAAT 3810 Query 24933 CATATAAGGATCGAGAAGGTAACAGACAATACACCAATTACAAATTCTTCTTTAATGCAA 24992 | ||||| ||||| |||||||| ||||||||||||||||||| || ||||||||||| | Sbjct 3809 CGTATAAAGATCGCGAAGGTAATCGACAATACACCAATTACAAGTTTTTCTTTAATGCCA 3750 Query 24993 AAAGCGAGGGAATGAATAATTGGTATCGTGAGGCATTCCAGCAGGGTAAAATTATTTCTG 25052 ||||||| ||||||||||| ||||||| || || |||||| |||||| || || | Sbjct 3749 AAAGCGACGGAATGAATAAATGGTATCTCGATGCGTTCCAGGTCGGTAAAGTTGTTCTAG 3690 Query 25053 TATCTTGCGATCAGTTGCGCATTGATAGCAGCGAATATAACGGGCAGATTTATAATACTC 25112 | |||||||||||||| ||||||||||||| || || ||||| || |||||||| || | Sbjct 3689 TGTCTTGCGATCAGTTACGCATTGATAGCAATGAGTACAACGGACAAATTTATAACACGC 3630 Query 25113 TAACAAGTGCTGGATTTGCTAACCTGCAATTTAGCCAGCGCGGAGGGCAGCAACAAGCGC 25172 |||||||||||||||||||||||||||||||||||||||||| ||| || ||||| | Sbjct 3629 TAACAAGTGCTGGATTTGCTAACCTGCAATTTAGCCAGCGCG--GGGAAG-GTCAAGCAC 3573 Query 25173 CACAGCAACAAAGCCANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGCGCCTCAAAATA 25232 ||||||||||| | | ||||| ||||| | Sbjct 3572 CACAGCAACAACGACCTCCTCAGCAACAGCGACAGCCGCAACAGAAAGCGCAACAAAACA 3513 Query 25233 ACGAGCCGCCTATGGATTTTGACGACGATATTCCATTC---TAAAAATAAAGGGGC--TT 25287 | |||||||| |||||||| || || |||||||||||| ||||| ||||| || || Sbjct 3512 ATGAGCCGCCAATGGATTTCGATGATGATATTCCATTCTGATAAAAGAAAAGGAGCCTTT 3453 Query 25288 ACGCCCCTTTTT 25299 | || ||||||| Sbjct 3452 AGGCTCCTTTTT 3441 Score = 408 bits (452), Expect = 1e-109 Identities = 286/323 (89%), Gaps = 2/323 (1%) Strand=Plus/Minus Query 29297 ATCCTGCAATTGTTTTTAGATCAAAGTTTT-GAAAAATTCAATCACTTCCTCAATAACAG 29355 |||||| || ||||| || | |||||||| ||| |||||||| |||||||||| ||| Sbjct 1709 ATCCTGTAACTGTTTA-AGGTAAAAGTTTTTGAAGAATTCAATTGCTTCCTCAATTCCAG 1651 Query 29356 TTTCTTTGCTTTGGTAATAGCGCAGAGTTTCCGCAACATCTTGCGCCATTCCATCTACCG 29415 ||||||||||||||| || |||||||||||||| |||||||||||||||||||| || | Sbjct 1650 GTTCTTTGCTTTGGTAGTAACGCAGAGTTTCCGCTACATCTTGCGCCATTCCATCGACAG 1591 Query 29416 TTAAAGAGTCATTCAACAGGATCACATAATTTCCGTTTTCTACTGACTCGCCGTCAGTCT 29475 ||| ||||||||||||||||||||||||||| |||||||||||| |||||||||||||| Sbjct 1590 TTAGCGAGTCATTCAACAGGATCACATAATTTACGTTTTCTACTGGCTCGCCGTCAGTCT 1531 Query 29476 GGATCGCTTTCATTTCCGTGTCGCTTACAATATCGCTAATCACAGCCAATTTAAGAGGCG 29535 |||||||||||||||| || ||||||||||||||||| || || |||| ||| | ||| | Sbjct 1530 GGATCGCTTTCATTTCTGTATCGCTTACAATATCGCTGATAACCGCCAGTTTTAAAGGAG 1471 Query 29536 ATGTTAGAAATACGATTGTTGCGCCAGTGCGGATAAGAGAAAGCGGCTCACGCCATTTTG 29595 |||| |||||||||||||||||||||||| |||||||||||||||||||||||||||| Sbjct 1470 TGGTTAAAAATACGATTGTTGCGCCAGTGCGAATAAGAGAAAGCGGCTCACGCCATTTTG 1411 Query 29596 TGCCAGTACCAGTAATAACGCCT 29618 ||||||||||||| ||||| ||| Sbjct 1410 TGCCAGTACCAGTGATAACACCT 1388 Score = 179 bits (198), Expect = 1e-40 Identities = 173/222 (78%), Gaps = 0/222 (0%) Strand=Plus/Minus Query 28763 CCCCAAGAAGCATTACCTACTGTTAAATATTTTATTTTGTCTGGGGATTGTATTGTTGTT 28822 ||||| || ||||| | ||||| ||||| ||| ||||| || ||||| |||| Sbjct 2310 CCCCACGAGTTATTACTAATTGTTATGTATTTAATTAGATCTGGAGAGAGTATTACTGTT 2251 Query 28823 TCACCTTCAAATTGATTAAATCGATCTAAAAATAATGCAATTCTTGCAGCGCCCTTATCA 28882 |||||||| |||| ||||| |||||| ||||||| ||||| || | |||||| Sbjct 2250 TCACCTTCCCTTTGACCAAATCTTTCTAAAGATAATGCTATTCTAGCCTCATCCTTATTT 2191 Query 28883 GAAACATCATTAAGGTTTTGATCCTTATGCAGCAGATTTTCAGGTTGCACCTGTTGCGCC 28942 | ||||||||||||||||||||| |||| ||| | |||||||| | | |||||||||| Sbjct 2190 GGAACATCATTAAGGTTTTGATCTTTATTCAGTAAGTTTTCAGGGTTAATCTGTTGCGCC 2131 Query 28943 CATTGGCGAGCTTCATCACGAGCAGTCTCAGCGCCAGCCTTT 28984 |||||| ||||||||||||| ||||| ||||| |||| |||| Sbjct 2130 CATTGGTGAGCTTCATCACGCGCAGTTTCAGCACCAGACTTT 2089 Score = 84.2 bits (92), Expect = 6e-12 Identities = 70/86 (81%), Gaps = 0/86 (0%) Strand=Plus/Minus Query 29081 TCGGTAACGGCAGAATCTTTAATCTGTTGCGTTTGGTTTTTTATTGCGTCCGTGTCGGCC 29140 || || || || ||||||||||| | ||||||||||||||| |||||| |||||| || Sbjct 1992 TCTGTTACTGCTGAATCTTTAATATTTTGCGTTTGGTTTTTAATTGCGCTCGTGTCTTCC 1933 Query 29141 TTAATCTGATTGGTTTCAGCAACAGC 29166 |||||||| | |||||| |||||| Sbjct 1932 TTAATCTGTTGCGTTTCATTAACAGC 1907 Score = 80.6 bits (88), Expect = 7e-11 Identities = 53/59 (90%), Gaps = 0/59 (0%) Strand=Plus/Minus Query 24709 ATCCGGCTGAACCAGCGGCAAATGTTGCGAAGAATGAAAAAGTTGAAAATCAACCGCAA 24767 ||||||||||||||||||| |||||||| ||||||||||| | |||||| |||||||| Sbjct 4105 ATCCGGCTGAACCAGCGGCTAATGTTGCAAAGAATGAAAAGGGTGAAAAGGAACCGCAA 4047 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 131336131077672