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_025257.1 Length=102759 Score E Sequences producing significant alignments: (Bits) Value seq9 104 2e-17 seq11 93.3 3e-14 seq10 86.0 4e-12 seq2 86.0 4e-12 seq13 84.2 1e-11 >seq9 Length=70713020 Score = 104 bits (114), Expect = 2e-17 Identities = 169/240 (70%), Gaps = 4/240 (2%) Strand=Plus/Plus Query 33513 AAAATCGTCA--CCACCTCTCAAACGTAACACCAAATGTAGAGTGCTCTCTTTTTGTATG 33570 |||||| || ||||| || | ||| | || | || || || |||||| || ||| Sbjct 66882027 AAAATCTGCATCCCACCCCTAAGACGAAGGACAAGGTGGAGGGTAGACTCTTTCTGGATG 66882086 Query 33571 TTGTAATCGGAGAGTGTGCGTTCGTCGTCCAATTGTTTTCCGGCAAAAATCAAACGCTGC 33630 |||||||| | ||||| | | || || | ||||||||||||||||||||| | |||| Sbjct 66882087 TTGTAATCTGCAAGTGTCCTACCATCTTCGAGTTGTTTTCCGGCAAAAATCAACCTCTGC 66882146 Query 33631 TGATCTTGCGGCACACCTTCTTTGTCGGCAATTTTCTGTTTCAACATAGTC-ACGGTGTC 33689 |||||| | || | ||||| ||||| || || | | |||| || | || || Sbjct 66882147 TGATCTGGTGGAATCCCTTCCTTGTCTTGGATCTT-GGCCTTGACATTATCGATAGTATC 66882205 Query 33690 GCTTGATTCCACGTCAACCGTGATCGTTTTACCTGTTAACGTTTTTACAAAGATCTGCAT 33749 | ||||| |||| ||||| || ||||| || | |||||||||||||||||||| Sbjct 66882206 GGAGCTCTCCACCTCAAGGGTGATGGTCTTACCAGTAAGGGTTTTTACAAAGATCTGCAT 66882265 Score = 102 bits (112), Expect = 5e-17 Identities = 163/229 (71%), Gaps = 4/229 (2%) Strand=Plus/Plus Query 33523 CCACCTCTCAAACGTAACACCAAATGTAGAGTGCTCTCTTTTTGTATGTTGTAATCGGAG 33582 || ||||| | || || |||||||| |||||| || ||||| ||||| || || | Sbjct 66887737 CCTCCTCTAAGGCGCAAAACCAAATGCAGAGTGGATTCCTTTTGGATGTTATAGTCCGCA 66887796 Query 33583 AGTGTGCGTTCGTCGTCCAATTGTTTTCCGGCAAAAATCAAACGCTGCTGATCTTGCGGC 33642 || || | | || || | || ||||||||||||||||| | |||||| ||| | || Sbjct 66887797 AGCGTCCTCCCATCCTCAAGCTGCTTTCCGGCAAAAATCAACCTCTGCTGGTCTGGAGGA 66887856 Query 33643 ACACCTTCTTTGTCGGCAATTTTCTGTTTCAACATAGTC-ACGGTGTCGCTTGAT-TCCA 33700 | || || ||||| ||||||| | || ||||| ||| | |||||| | | | || | Sbjct 66887857 ATCCCCTCCTTGTCCTGAATTTTC-GCTTTAACATTGTCAATGGTGTC-CGAGCTCTCGA 66887914 Query 33701 CGTCAACCGTGATCGTTTTACCTGTTAACGTTTTTACAAAGATCTGCAT 33749 | || | || || |||||||| || || || || || || |||||||| Sbjct 66887915 CCTCCAGTGTTATGGTTTTACCAGTCAAGGTCTTAACGAATATCTGCAT 66887963 Score = 98.7 bits (108), Expect = 7e-16 Identities = 154/218 (71%), Gaps = 2/218 (1%) Strand=Plus/Minus Query 33534 ACGTAACACCAAATGTAGAGTGCTCTCTTTTTGTATGTTGTAATCGGAGAGTGTGCGTTC 33593 |||||| || | || || ||| || || || ||||||||||||| | || || | Sbjct 65273397 ACGTAAGACAAGGTGGAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTACGGCC 65273338 Query 33594 GTCGTCCAATTGTTTTCCGGCAAAAATCAAACGCTGCTGATCTTGCGGCACACCTTCTTT 33653 ||| || | ||||||||||| || || | ||||||||| ||| | || | ||||| || Sbjct 65273337 GTCCTCGAGCTGTTTTCCGGCGAAGATAAGACGCTGCTGGTCTGGTGGGATGCCTTCCTT 65273278 Query 33654 GTCGGCAATTTTCTGTTTCAACATAGTC-ACGGTGTCGCTTGATTCCACGTCAACCGTGA 33712 ||| |||||| ||| |||| || | ||||||| || || || | |||| Sbjct 65273277 GTCTTGAATTTTAGACTTC-ACATTATCGATGGTGTCGGAGCTCTCGACTTCGAGGGTGA 65273219 Query 33713 TCGTTTTACCTGTTAACGTTTTTACAAAGATCTGCATA 33750 | || || || ||||| ||||| || |||||||||||| Sbjct 65273218 TGGTCTTGCCGGTTAAGGTTTTGACGAAGATCTGCATA 65273181 Score = 98.7 bits (108), Expect = 7e-16 Identities = 155/217 (71%), Gaps = 4/217 (2%) Strand=Plus/Plus Query 33535 CGTAACACCAAATGTAGAGTGCTCTCTTTTTGTATGTTGTAATCGGAGAGTGTGCGTTCG 33594 ||||| |||||||| || || || ||||| ||||| || || | ||||| | | Sbjct 66881367 CGTAAAACCAAATGCAGGGTCGATTCCTTTTGGATGTTATAGTCTGCAAGTGTCCTCCCA 66881426 Query 33595 TCGTCCAATTGTTTTCCGGCAAAAATCAAACGCTGCTGATCTTGCGGCACACCTTCTTTG 33654 || || | || ||||||||||||||||| | |||||| ||| | || | || || ||| Sbjct 66881427 TCCTCAAGCTGCTTTCCGGCAAAAATCAACCTCTGCTGGTCTGGAGGAATCCCCTCCTTG 66881486 Query 33655 TCGGCAATTTTCTGTTTCAACATAGTC-ACGGTGTCGCTTGAT-TCCACGTCAACCGTGA 33712 || ||||||| | || |||| ||| | |||||| | | | || || || | |||| Sbjct 66881487 TCCTGAATTTTC-GCTTTGACATTGTCAATGGTGTC-CGAGCTCTCGACCTCCAGGGTGA 66881544 Query 33713 TCGTTTTACCTGTTAACGTTTTTACAAAGATCTGCAT 33749 | |||||||| || || || || || || |||||||| Sbjct 66881545 TGGTTTTACCGGTCAAGGTCTTCACGAATATCTGCAT 66881581 Score = 98.7 bits (108), Expect = 7e-16 Identities = 168/240 (70%), Gaps = 4/240 (2%) Strand=Plus/Plus Query 33513 AAAATCGTCA--CCACCTCTCAAACGTAACACCAAATGTAGAGTGCTCTCTTTTTGTATG 33570 |||||| || ||||| | || || | ||||||||| || || ||| ||||| ||| Sbjct 66888181 AAAATCTGCATTCCACCACGCAGTCGCAGCACCAAATGCAGGGTTGACTCCTTTTGGATG 66888240 Query 33571 TTGTAATCGGAGAGTGTGCGTTCGTCGTCCAATTGTTTTCCGGCAAAAATCAAACGCTGC 33630 || ||||| | ||||| | | || || | || |||||||||||||||| | |||| Sbjct 66888241 TTATAATCCGCTAGTGTCCTCCCATCCTCGAGCTGCTTTCCGGCAAAAATCAGCCTCTGC 66888300 Query 33631 TGATCTTGCGGCACACCTTCTTTGTCGGCAATTTTCTGTTTCAACATAGTC-ACGGTGTC 33689 |||||| | || | ||| || ||||| ||| || | | ||||| || | ||| || Sbjct 66888301 TGATCTGGTGGAATACCCTCCTTGTCCTGAATCTT-GGCCTTAACATTATCAATGGTATC 66888359 Query 33690 GCTTGATTCCACGTCAACCGTGATCGTTTTACCTGTTAACGTTTTTACAAAGATCTGCAT 33749 ||||| || | ||||| ||||| || || | ||||||||||| |||||||| Sbjct 66888360 AGAACTCTCCACCTCCAAAGTGATGGTTTTTCCGGTGAGGGTTTTTACAAATATCTGCAT 66888419 Score = 87.8 bits (96), Expect = 1e-12 Identities = 145/207 (70%), Gaps = 2/207 (1%) Strand=Plus/Minus Query 33559 TCTTTTTGTATGTTGTAATCGGAGAGTGTGCGTTCGTCGTCCAATTGTTTTCCGGCAAAA 33618 || || || ||||||||||||| | || || |||| || | ||||||||||| || Sbjct 65273144 TCCTTCTGGATGTTGTAATCGGCCAAGGTACGGCCGTCCTCGAGCTGTTTTCCGGCGAAG 65273085 Query 33619 ATCAAACGCTGCTGATCTTGCGGCACACCTTCTTTGTCGGCAATTTTCTGTTTCAACATA 33678 || | ||||||||| ||| | || | ||||| ||||| |||||| ||| |||| Sbjct 65273084 ATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACTTC-ACATT 65273026 Query 33679 GTC-ACGGTGTCGCTTGATTCCACGTCAACCGTGATCGTTTTACCTGTTAACGTTTTTAC 33737 ||| | |||||| || || || | ||||| || || || || | ||||| || Sbjct 65273025 GTCGATGGTGTCAGAACTCTCAACCTCGAGGGTGATGGTCTTGCCGGTAAGGGTTTTGAC 65272966 Query 33738 AAAGATCTGCATAGTTGGTGTGTTTAT 33764 ||||||||||| |||| | ||| || Sbjct 65272965 GAAGATCTGCATCTTTGGAGAGTTGAT 65272939 Score = 82.4 bits (90), Expect = 5e-11 Identities = 138/196 (70%), Gaps = 8/196 (4%) Strand=Plus/Minus Query 33559 TCTTTTTGTATGTTGTAATCGGAGAGTGTGCGTTCGTCGTCCAATTGTTTTCCGGCAAAA 33618 || || || ||||||||||||| | || || |||| || | ||||| ||||| || Sbjct 65273600 TCCTTCTGGATGTTGTAATCGGCCAAGGTACGGCCGTCCTCGAGCTGTTTGCCGGCGAAG 65273541 Query 33619 ATCAAACGCTGCTGATCTTGCGGCACACCTTCTTTGTCGGCAATTTTCTGTTTCAACATA 33678 || | ||||||||| ||| | || | ||||| ||||| |||||| | | |||| Sbjct 65273540 ATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTT-AGACTTTACATT 65273482 Query 33679 GTC-ACGGTGTC---GCTTGATTCCACGTCAACCGTGATCGTTTTACCTGTTAACGTTTT 33734 || | |||||| ||| || || || | ||||| || || || ||||| ||||| Sbjct 65273481 ATCGATGGTGTCAGAGCT---CTCGACTTCGAGGGTGATGGTCTTGCCGGTTAAAGTTTT 65273425 Query 33735 TACAAAGATCTGCATA 33750 || |||||||||||| Sbjct 65273424 GACGAAGATCTGCATA 65273409 >seq11 Length=62681010 Score = 93.3 bits (102), Expect = 3e-14 Identities = 159/228 (70%), Gaps = 2/228 (1%) Strand=Plus/Plus Query 33523 CCACCTCTCAAACGTAACACCAAATGTAGAGTGCTCTCTTTTTGTATGTTGTAATCGGAG 33582 ||||| | |||||| | || | || ||||| ||| ||||| ||||||||||||| Sbjct 1163909 CCACCGCGCAAACGGAGGACGAGGTGGAGAGTTGACTCCTTTTGGATGTTGTAATCGGCC 1163968 Query 33583 AGTGTGCGTTCGTCGTCCAATTGTTTTCCGGCAAAAATCAAACGCTGCTGATCTTGCGGC 33642 | || || |||| || | ||||||||||| || |||| ||||||||| ||| | || Sbjct 1163969 AAGGTCCGGCCGTCTTCGAGCTGTTTTCCGGCGAAGATCAGACGCTGCTGGTCTGGAGGG 1164028 Query 33643 ACACCTTCTTTGTCGGCAATTTTCTGTTTCAACATAGTC-ACGGTGTCGCTTGATTCCAC 33701 | ||||| || || ||||| ||| || | ||| | |||||| || || Sbjct 1164029 ATGCCTTCCTTATCTTGGATTTTGGCCTTC-ACGTTGTCGATCGTGTCGGAGCTCTCGAC 1164087 Query 33702 GTCAACCGTGATCGTTTTACCTGTTAACGTTTTTACAAAGATCTGCAT 33749 || | |||||||| || || |||| || || || ||||||||||| Sbjct 1164088 CTCGAGTGTGATCGTCTTGCCGGTTAGAGTCTTAACGAAGATCTGCAT 1164135 Score = 91.5 bits (100), Expect = 1e-13 Identities = 144/204 (71%), Gaps = 2/204 (1%) Strand=Plus/Plus Query 33547 TGTAGAGTGCTCTCTTTTTGTATGTTGTAATCGGAGAGTGTGCGTTCGTCGTCCAATTGT 33606 || |||||| ||| ||||| || |||||||| | | || | | | || |||| ||| Sbjct 1163249 TGAAGAGTGGACTCCTTTTGAATATTGTAATCAGCCAAAGTCCTTCCATCTTCCAGCTGT 1163308 Query 33607 TTTCCGGCAAAAATCAAACGCTGCTGATCTTGCGGCACACCTTCTTTGTCGGCAATTTTC 33666 || || ||||||||||| | ||||||||| | || | ||||||||||| ||| ||| Sbjct 1163309 TTCCCAGCAAAAATCAACCTTTGCTGATCTGGTGGAATTCCTTCTTTGTCCTGAATCTTC 1163368 Query 33667 TGTTTCAACATAGTCACGGTGTCGCTTGAT-TCCACGTCAACCGTGATCGTTTTACCTGT 33725 ||||| || | || || | | | ||||| || | || ||||| ||||| || Sbjct 1163369 GCTTTCACGTTATCAATCGTATC-CGAGCTCTCCACTTCTAAAGTAATCGTCTTACCGGT 1163427 Query 33726 TAACGTTTTTACAAAGATCTGCAT 33749 || || || || ||||||||||| Sbjct 1163428 CAAAGTCTTGACGAAGATCTGCAT 1163451 >seq10 Length=62175169 Score = 86.0 bits (94), Expect = 4e-12 Identities = 158/229 (69%), Gaps = 2/229 (1%) Strand=Plus/Minus Query 33522 ACCACCTCTCAAACGTAACACCAAATGTAGAGTGCTCTCTTTTTGTATGTTGTAATCGGA 33581 |||||| | | ||| || || | || |||||| || || || || |||||||| | Sbjct 51861360 ACCACCACGAAGACGCAAGACAAGGTGGAGAGTGGATTCCTTCTGAATATTGTAATCAGC 51861301 Query 33582 GAGTGTGCGTTCGTCGTCCAATTGTTTTCCGGCAAAAATCAAACGCTGCTGATCTTGCGG 33641 | || | | | || ||||| ||||| || || |||||||| | ||||||||| | || Sbjct 51861300 CAAAGTCCTTCCATCTTCCAACTGTTTCCCAGCGAAAATCAACCTTTGCTGATCTGGTGG 51861241 Query 33642 CACACCTTCTTTGTCGGCAATTTTCTGTTTCAACATAGTC-ACGGTGTCGCTTGATTCCA 33700 | ||||||||||| ||| ||| | | ||||| ||| | || ||| |||| Sbjct 51861240 AATCCCTTCTTTGTCCTGAATCTTC-GCCTTAACATTGTCGATCGTATCGGAACTCTCCA 51861182 Query 33701 CGTCAACCGTGATCGTTTTACCTGTTAACGTTTTTACAAAGATCTGCAT 33749 | || | || || ||||| || || ||||| || || || |||||||| Sbjct 51861181 CCTCCAAAGTTATGGTTTTCCCAGTCAACGTCTTGACGAAAATCTGCAT 51861133 >seq2 Length=62769430 Score = 86.0 bits (94), Expect = 4e-12 Identities = 100/135 (74%), Gaps = 0/135 (0%) Strand=Plus/Minus Query 33522 ACCACCTCTCAAACGTAACACCAAATGTAGAGTGCTCTCTTTTTGTATGTTGTAATCGGA 33581 |||||| | | ||| | ||||||||| || ||| || ||||| ||||||||||| | Sbjct 10550076 ACCACCACGAAGACGAAGCACCAAATGGAGGGTGGATTCCTTTTGGATGTTGTAATCAGC 10550017 Query 33582 GAGTGTGCGTTCGTCGTCCAATTGTTTTCCGGCAAAAATCAAACGCTGCTGATCTTGCGG 33641 ||| ||||| | || || | ||| || |||||||| ||||| | ||| || ||| | || Sbjct 10550016 GAGAGTGCGGCCATCTTCAAGTTGCTTACCGGCAAAGATCAACCTCTGTTGGTCTGGGGG 10549957 Query 33642 CACACCTTCTTTGTC 33656 | ||| || ||||| Sbjct 10549956 AATACCCTCCTTGTC 10549942 Score = 84.2 bits (92), Expect = 1e-11 Identities = 150/215 (70%), Gaps = 8/215 (4%) Strand=Plus/Minus Query 33540 CACCAAATGTAGAGTGCTCTCTTTTTGTATGTTGTAATCGGAGAGTGTGCGTTCGTCGTC 33599 ||||||||| || ||| ||| ||||| ||||||||||| | || || || | || || Sbjct 10549602 CACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCAGCCAGGGTACGGCCATCTTC 10549543 Query 33600 CAATTGTTTTCCGGCAAAAATCAAACGCTGCTGATCTTGCGGCACACCTTCTTTGTCGGC 33659 | ||| || |||||||| || | | |||||| ||| | || | ||||||||||| Sbjct 10549542 TAGTTGCTTACCGGCAAAGATAAGTCTCTGCTGGTCTGGAGGGATCCCTTCTTTGTCTTG 10549483 Query 33660 AATTTTCTGTTTCAACATAGTC-ACGGTGTC---GCTTGATTCCACGTCAACCGTGATCG 33715 || || | | |||| || | |||||| ||| |||||| || | ||||| | Sbjct 10549482 GATCTT-GGCCTTGACATTATCAATGGTGTCCGAGCT---TTCCACCTCGAGGGTGATAG 10549427 Query 33716 TTTTACCTGTTAACGTTTTTACAAAGATCTGCATA 33750 | || || || | || || |||||||| |||||| Sbjct 10549426 TCTTGCCGGTGAGGGTCTTAACAAAGATTTGCATA 10549392 Score = 84.2 bits (92), Expect = 1e-11 Identities = 146/210 (70%), Gaps = 2/210 (1%) Strand=Plus/Minus Query 33541 ACCAAATGTAGAGTGCTCTCTTTTTGTATGTTGTAATCGGAGAGTGTGCGTTCGTCGTCC 33600 |||||||| ||||| ||| || || || || ||||||| || || | | | || || Sbjct 27609668 ACCAAATGGAGAGTAGACTCCTTCTGGATATTATAATCGGCAAGAGTTCTTCCATCTTCA 27609609 Query 33601 AATTGTTTTCCGGCAAAAATCAAACGCTGCTGATCTTGCGGCACACCTTCTTTGTCGGCA 33660 | ||||||||| ||||||||||| | || || ||| | || | ||||||||||| | Sbjct 27609608 AGTTGTTTTCCAGCAAAAATCAATCTTTGTTGGTCTGGTGGGATTCCTTCTTTGTCCTGA 27609549 Query 33661 ATTTTCTGTTTCAACATAGTC-ACGGTGTCGCTTGATTCCACGTCAACCGTGATCGTTTT 33719 || || |||| |||| || | ||| || || || || | ||||| || || Sbjct 27609548 ATCTTGGCTTTC-ACATTATCAATGGTATCCGAACTCTCGACCTCCAAGGTGATTGTCTT 27609490 Query 33720 ACCTGTTAACGTTTTTACAAAGATCTGCAT 33749 || || | ||||| |||||||| ||||| Sbjct 27609489 TCCAGTGAGAGTTTTGACAAAGATTTGCAT 27609460 >seq13 Length=58321163 Score = 84.2 bits (92), Expect = 1e-11 Identities = 158/230 (69%), Gaps = 2/230 (1%) Strand=Plus/Plus Query 33522 ACCACCTCTCAAACGTAACACCAAATGTAGAGTGCTCTCTTTTTGTATGTTGTAATCGGA 33581 |||||| ||||| || | |||||||| || ||| || || || |||||||| || | Sbjct 44437633 ACCACCCCTCAATCGGAGGACCAAATGGAGTGTGGATTCCTTCTGGATGTTGTAGTCAGC 44437692 Query 33582 GAGTGTGCGTTCGTCGTCCAATTGTTTTCCGGCAAAAATCAAACGCTGCTGATCTTGCGG 33641 || || || | || |||| |||||| || ||||| || | | |||||| ||| | || Sbjct 44437693 AAGGGTACGGCCATCCTCCAGTTGTTTACCAGCAAAGATAAGCCTCTGCTGGTCTGGTGG 44437752 Query 33642 CACACCTTCTTTGTCGGCAATTTTCTGTTTCAACATAGTC-ACGGTGTCGCTTGATTCCA 33700 | ||||||||||| || || | | |||| ||| | ||| || ||||| Sbjct 44437753 GATCCCTTCTTTGTCTTGGATCTT-GGCCTTTACATTGTCGATGGTATCAGAACTTTCCA 44437811 Query 33701 CGTCAACCGTGATCGTTTTACCTGTTAACGTTTTTACAAAGATCTGCATA 33750 | |||| ||||| || || || || | || || ||||| || |||||| Sbjct 44437812 CCTCAAGGGTGATGGTCTTCCCGGTGAGGGTCTTGACAAAAATTTGCATA 44437861 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 328699857713280