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: Capsella_20rubella_20[refseq_20GCF_5F000375325.1_202013-04-23] 773 sequences; 133,063,876 total letters Query= NC_003529.1 Length=155060 Score E Sequences producing significant alignments: (Bits) Value seq6 116 4e-21 seq2 102 8e-17 seq5 82.4 8e-11 >seq6 Length=16577294 Score = 116 bits (128), Expect = 4e-21 Identities = 162/227 (71%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 139538 CCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTC 139597 || |||| |||||| | ||| || || | || |||||||| || ||||| |||||| | Sbjct 6990882 CCACCTCTTAAACGGAGAACCAAATGGAGGGTGGACTCTTTCTGGATGTTGTAATCGGCC 6990941 Query 139598 ATTGTGCTCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGT 139657 | |||| ||||| ||||||||||| || |||||| | |||||| || ||||| Sbjct 6990942 AAGGTGCGGCCATCTTCAAGCTGTTTACCGGCGAAGATCAATCTTTGCTGGTCCGGAGGA 6991001 Query 139658 ATGCCTTCTTTGTCGGTGATTTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACC 139717 |||||||| ||||| ||| ||| || | | || | ||||| | | ||| ||| Sbjct 6991002 ATGCCTTCCTTGTCCTGGATCTTTGCCTTAACATTGTCGATGGTGTCAGAGCTCTCGACC 6991061 Query 139718 TCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCAT 139764 |||| || | ||||| || || | ||||| ||||| |||||||| Sbjct 6991062 TCAAGAGTGATGGTCTTACCAGTGAGTGTTTTCACGAAAATTTGCAT 6991108 Score = 109 bits (120), Expect = 5e-19 Identities = 161/228 (71%), Gaps = 0/228 (0%) Strand=Plus/Plus Query 139538 CCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTC 139597 || || || | ||| | || ||||||| || || || || |||||||| || || | Sbjct 2562610 CCACCACGGAGACGGAGGACCAAGTGAAGGGTCGATTCCTTCTGAATGTTGTAGTCTGCC 2562669 Query 139598 ATTGTGCTCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGT 139657 | ||||| ||| || ||||| || ||||| |||| ||||| ||||| || ||||| Sbjct 2562670 AGTGTGCGACCGTCCTCAAGCTGCTTTCCAGCGAAGATGAGACGCTGCTGGTCCGGAGGG 2562729 Query 139658 ATGCCTTCTTTGTCGGTGATTTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACC 139717 |||||||| || || ||| || || | | || | ||||||| | ||| ||| Sbjct 2562730 ATGCCTTCCTTATCCTGGATCTTGGCCTTCACGTTGTCAATGGTGTCGGAGCTCTCAACC 2562789 Query 139718 TCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCATA 139765 |||| ||| | ||||| ||||||||||| || || || || |||||| Sbjct 2562790 TCAAGGGTGATGGTCTTCCCGGTCAACGTCTTCACAAAAATCTGCATA 2562837 Score = 105 bits (116), Expect = 7e-18 Identities = 162/231 (70%), Gaps = 0/231 (0%) Strand=Plus/Minus Query 139538 CCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTC 139597 || || || | |||||| || ||||||| |||||||| ||||| ||||| || || | Sbjct 14990611 CCTCCACGCAGACGCAAGACCAAGTGAAGGGTAGACTCCTTTTGGATGTTGTAGTCAGCC 14990552 Query 139598 ATTGTGCTCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGT 139657 | || || ||| || | ||| || |||||| |||||| | ||||| || || || Sbjct 14990551 AAGGTTCTGCCGTCCTCCAACTGCTTTCCAGCAAAGATCAACCTCTGCTGGTCCGGTGGG 14990492 Query 139658 ATGCCTTCTTTGTCGGTGATTTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACC 139717 || || |||||||| ||| || || | | || | ||||| | ||||||| Sbjct 14990491 ATACCCTCTTTGTCCTGGATCTTGGCCTTCACGTTGTCGATGGTGTCAGAACTCTCCACC 14990432 Query 139718 TCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCATAGCT 139768 || | ||| | ||||| ||||||||||| || || || ||||||||| || Sbjct 14990431 TCCAAGGTGATAGTCTTCCCGGTCAACGTCTTGACAAAGATTTGCATACCT 14990381 Score = 104 bits (114), Expect = 2e-17 Identities = 149/210 (71%), Gaps = 0/210 (0%) Strand=Plus/Minus Query 139555 AACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTCATTGTGCTCGAGTCTTC 139614 ||| || |||| || |||||||| || ||||| ||||| || || | ||||| Sbjct 8339186 AACCAAATGAAGGGTTGACTCTTTCTGGATGTTGTAATCTGCCAAGGTACGGCCATCTTC 8339127 Query 139615 GAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGT 139674 |||||||||||||| |||||| | ||||||||| ||||| |||||||| ||||| Sbjct 8339126 TAGCTGTTTACCAGCGAAGATCAATCTTTGCTGATCCGGAGGAATGCCTTCCTTGTCCTG 8339067 Query 139675 GATTTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCTT 139734 ||| || || | | || | ||||| | | ||| ||||| | || | ||||| Sbjct 8339066 GATCTTCGCCTTAACATTGTCAATGGTGTCAGAGCTCTCAACCTCGAGAGTGATGGTCTT 8339007 Query 139735 GCCGGTCAACGTTTTTACGAATATTTGCAT 139764 ||| || | ||||| ||||| |||||||| Sbjct 8339006 GCCAGTGAGTGTTTTCACGAAAATTTGCAT 8338977 Score = 98.7 bits (108), Expect = 1e-15 Identities = 165/231 (71%), Gaps = 6/231 (3%) Strand=Plus/Plus Query 139538 CCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATC-GCT 139596 || || || | ||| | || ||||||| |||||||| || || ||||| ||||| ||| Sbjct 735109 CCACCACGGAGACGAAGCACCAAGTGAAGGGTAGACTCCTTCTGGATGTTGTAATCCGCT 735168 Query 139597 CATTGTGC-TCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAG 139655 | |||| || | ||||||||||| || ||||| |||| || | ||||| || || | Sbjct 735169 -AGGGTGCGTCCA-TCTTCGAGCTGCTTCCCAGCGAAGATGAGTCTCTGCTGGTCTGGTG 735226 Query 139656 GTATGCCTTCTTTGTCGGTGATTTTTTG-TTTTAGCTGTTCCACTGTGTCGGTGGGCTCC 139714 | || ||||| ||||| ||| | || | ||| | | || | |||||| | | |||| Sbjct 735227 GGATCCCTTCCTTGTC-CTGAATCTTGGCTTTGACGTTGTCGATTGTGTCAGAGCTCTCC 735285 Query 139715 ACCTCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCATA 139765 ||||| | || | ||||||||||| | || || || || || |||||| Sbjct 735286 ACCTCCAAAGTGATGGTCTTGCCGGTTAGGGTCTTGACAAAAATCTGCATA 735336 Score = 98.7 bits (108), Expect = 1e-15 Identities = 158/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 139538 CCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTC 139597 || |||| || || | ||| ||||| | || ||||| || || ||||| ||||| | Sbjct 735565 CCACCTCTCAACCGGAGAACCAAGTGGAGGGTCGACTCCTTCTGGATGTTGTAATCAGCC 735624 Query 139598 ATTGTGCTCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGT 139657 | || | |||||||||||||||||||| |||| | | |||||||| ||||| Sbjct 735625 AAGGTACGGCCATCTTCGAGCTGTTTACCAGCGAAGATTAATCTCTGCTGATCCGGAGGA 735684 Query 139658 ATGCCTTCTTTGTCGGTGATTTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACC 139717 |||||||| ||||| ||| ||| || | | || | ||||| | | ||| ||| Sbjct 735685 ATGCCTTCCTTGTCCTGGATCTTTGCCTTCACATTGTCGATGGTGTCTGAGCTCTCGACC 735744 Query 139718 TCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCAT 139764 || | || | |||||||| || | ||||| || || |||||||| Sbjct 735745 TCGAGAGTGATGGTCTTGCCAGTTAGTGTTTTCACAAAAATTTGCAT 735791 Score = 98.7 bits (108), Expect = 1e-15 Identities = 163/230 (71%), Gaps = 4/230 (2%) Strand=Plus/Minus Query 139538 CCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATC-GCT 139596 || || || | |||||| || | ||||| || ||||| || |||||||| ||||| ||| Sbjct 8339659 CCACCACGAAGACGCAACACAAGGTGAAGGGTTGACTCCTTCTGAATGTTGTAATCCGCT 8339600 Query 139597 CATTGTGCTCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGG 139656 | ||||| || || |||||||||||||| |||| || | ||| || || || || Sbjct 8339599 -AGTGTGCGACCATCCTCAAGCTGTTTACCAGCGAAGATGAGTCTTTGTTGGTCTGGTGG 8339541 Query 139657 TATGCCTTCTTTGTCGGTGATTTTTTG-TTTTAGCTGTTCCACTGTGTCGGTGGGCTCCA 139715 || ||||| || || ||| | || | || | | || | |||||| | | ||| | Sbjct 8339540 GATCCCTTCCTTTTC-CTGAATCTTAGCCTTGACGTTATCAATTGTGTCTGAGCTCTCAA 8339482 Query 139716 CCTCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCATA 139765 | || | ||| | |||||||| ||||| || || || || ||||||||| Sbjct 8339481 CTTCCAAGGTGATAGTCTTGCCAGTCAAAGTCTTCACAAAAATTTGCATA 8339432 Score = 93.3 bits (102), Expect = 4e-14 Identities = 164/231 (71%), Gaps = 6/231 (3%) Strand=Plus/Plus Query 139538 CCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATC-GCT 139596 || || || | ||| | || ||||||| || ||||| || || ||||| ||||| ||| Sbjct 734881 CCACCACGAAGACGAAGGACCAAGTGAAGAGTCGACTCCTTCTGGATGTTGTAATCCGCT 734940 Query 139597 CATTGTGC-TCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAG 139655 | |||| || | ||||||||||| || ||||| |||| || | ||||| || || | Sbjct 734941 -AGGGTGCGTCCA-TCTTCGAGCTGCTTCCCAGCGAAGATGAGTCTCTGCTGGTCTGGTG 734998 Query 139656 GTATGCCTTCTTTGTCGGTGATTTTTTG-TTTTAGCTGTTCCACTGTGTCGGTGGGCTCC 139714 | || ||||| ||||| ||| |||| | ||| | | || | |||||| | | ||| Sbjct 734999 GGATCCCTTCCTTGTC-CTGAATTTTAGCTTTGACGTTGTCGATTGTGTCTGAGCTCTCA 735057 Query 139715 ACCTCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCATA 139765 ||||| | || | ||||| ||||| | || || || || ||||||||| Sbjct 735058 ACCTCCAAAGTGATGGTCTTTCCGGTGAGGGTCTTCACAAAGATTTGCATA 735108 Score = 91.5 bits (100), Expect = 1e-13 Identities = 159/229 (69%), Gaps = 2/229 (1%) Strand=Plus/Plus Query 139538 CCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTC 139597 ||||| || | ||| | ||| ||||||| |||||||| || || ||||| ||||| Sbjct 6989970 CCGCCACGAAGACGAAGAACCAAGTGAAGAGTAGACTCCTTCTGGATGTTGTAATCTGCA 6990029 Query 139598 ATTGTGCTCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGT 139657 | || | || || |||||||| ||||| |||| || | ||||| || || || Sbjct 6990030 AGAGTCCGACCATCCTCAAGCTGTTTCCCAGCGAAGATGAGTCTCTGCTGGTCTGGTGGG 6990089 Query 139658 ATGCCTTCTTTGTCGGTGATTTTTTGTTTTAGCTGTTCCACT-GTGTCGGTGGGCTCCAC 139716 || ||||| ||||| ||| | || | |||| | | || | ||||| | | ||| || Sbjct 6990090 ATCCCTTCCTTGTCC-TGAATCTTGGCTTTAACGTTATCAATAGTGTCTGAGCTCTCAAC 6990148 Query 139717 CTCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCATA 139765 ||| | || | ||||||||||| | || || || || ||||||||| Sbjct 6990149 CTCCAAAGTGATGGTCTTGCCGGTAAGGGTCTTCACAAAAATTTGCATA 6990197 Score = 91.5 bits (100), Expect = 1e-13 Identities = 141/199 (71%), Gaps = 2/199 (1%) Strand=Plus/Plus Query 139568 GTAGACTCTTTTTGAATGTTATAATCGCTCATTGTGCTCGAGTCTTCGAGCTGTTTACCA 139627 |||||||||||||| ||||| ||||| | || | |||||| |||||||| || Sbjct 6990228 GTAGACTCTTTTTGGATGTTGTAATCAGCGAGGGTACGTCCGTCTTCAAGCTGTTTCCCG 6990287 Query 139628 GCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGTGATTTTTTGTTTT 139687 ||| |||| || | ||||| || || || || ||||| ||||| ||| | |||| || Sbjct 6990288 GCAAAGATGAGTCTCTGCTGGTCTGGTGGGATCCCTTCCTTGTCT-TGAATCTTTGCCTT 6990346 Query 139688 AGCTGT-TCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCTTGCCGGTCAACGT 139746 | | || | |||||| | | ||| ||||| | || | ||||||||||| | || Sbjct 6990347 GACGTTATCGATTGTGTCTGAGCTCTCAACCTCCAAAGTGATAGTCTTGCCGGTTAGGGT 6990406 Query 139747 TTTTACGAATATTTGCATA 139765 ||||| || || |||||| Sbjct 6990407 CTTTACAAAAATCTGCATA 6990425 >seq2 Length=14066726 Score = 102 bits (112), Expect = 8e-17 Identities = 163/229 (71%), Gaps = 4/229 (2%) Strand=Plus/Plus Query 139538 CCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTC 139597 || |||| ||| | | ||| ||||| | || || || || || || || ||||| | Sbjct 7053607 CCACCTCTTAACCTGAGAACCAAGTGGAGAGTTGATTCCTTCTGTATATTGTAATCCGCC 7053666 Query 139598 ATTGTGC-TCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGG 139656 | || | || | || || ||||||||||| ||| |||||| | ||||||||| ||||| Sbjct 7053667 AAGGTACGTCCA-TCCTCAAGCTGTTTACCGGCAAAGATCAATCTTTGCTGATCCGGAGG 7053725 Query 139657 TATGCCTTCTTTGTCGGTGATTTTTTGTTTTAGC-TGTTCCACTGTGTCGGTGGGCTCCA 139715 || ||||| ||||| ||| | |||| ||| | | || | ||||| | | ||| | Sbjct 7053726 GATCCCTTCCTTGTC-CTGAATCTTTGCCTTAACATTGTCGATAGTGTCAGAGCTCTCTA 7053784 Query 139716 CCTCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCAT 139764 |||||| || | |||||||| || | ||||| ||||| |||||||| Sbjct 7053785 CCTCAAGAGTAATGGTCTTGCCAGTAAGTGTTTTCACGAAAATTTGCAT 7053833 Score = 95.1 bits (104), Expect = 1e-14 Identities = 160/229 (70%), Gaps = 2/229 (1%) Strand=Plus/Plus Query 139538 CCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTC 139597 || || || | ||| | ||| ||||| | || || || ||||| ||||||||||| | Sbjct 7052695 CCACCACGAAGACGAAGAACCAAGTGGAGAGTTGATTCCTTTTGGATGTTATAATCAGCC 7052754 Query 139598 ATTGTGCTCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGT 139657 | || | || || |||||||| |||||| |||| || | ||||| || || || Sbjct 7052755 AAAGTCCGACCATCCTCAAGCTGTTTCCCAGCAAAGATGAGTCTCTGCTGGTCTGGTGGG 7052814 Query 139658 ATGCCTTCTTTGTCGGTGATTTTTTG-TTTTAGCTGTTCCACTGTGTCGGTGGGCTCCAC 139716 || || |||||||| ||| | || | || | | || | |||||| | | ||| || Sbjct 7052815 ATCCCCTCTTTGTC-CTGAATCTTAGCCTTGACGTTATCAATTGTGTCTGAGCTCTCAAC 7052873 Query 139717 CTCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCATA 139765 ||| | ||| | ||||| || ||||| ||||| || || ||||||||| Sbjct 7052874 CTCCAAGGTAATAGTCTTACCTGTCAATGTTTTCACAAAGATTTGCATA 7052922 >seq5 Length=13709650 Score = 82.4 bits (90), Expect = 8e-11 Identities = 146/212 (69%), Gaps = 1/212 (0%) Strand=Plus/Plus Query 139555 AACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTCATTGTGCTCGAGTCTTC 139614 ||| || || | || |||||||| ||||| | ||||| || || | || || Sbjct 4166043 AACCAAATGGAGAGTTGACTCTTTCGGAATGCTGTAATCAGCCAAGGTACGACCATCCTC 4166102 Query 139615 GAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGT 139674 |||||||||||| ||| |||||| ||||||| || |||| || |||||||| || Sbjct 4166103 GAGCTGTTTACCGGCAAAGATCATTTGTTGCTGGTCAAGAGGGATTCCTTCTTTATCTTG 4166162 Query 139675 GATTTTTTGTTTTAGCTGT-TCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCT 139733 ||| ||||| ||| || | | | |||||| | || |||| || || || |||| Sbjct 4166163 GATCTTTTGCCTTAACTTTGTGGATCATGTCGGAGCTTTCGACCTTAAGAGTTACGGTCT 4166222 Query 139734 TGCCGGTCAACGTTTTTACGAATATTTGCATA 139765 |||| || | |||| || || || |||||| Sbjct 4166223 TGCCTGTAAGACTTTTGACAAAGATCTGCATA 4166254 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 496059206781600