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_021246.1 Length=281182 Score E Sequences producing significant alignments: (Bits) Value seq6 131 3e-25 seq7 114 2e-20 seq2 113 8e-20 seq5 86.0 1e-11 >seq6 Length=16577294 Score = 131 bits (144), Expect = 3e-25 Identities = 167/230 (73%), Gaps = 0/230 (0%) Strand=Plus/Plus Query 193131 ATACCACCTCTCAATCGAAGTACCAGATGCAATGTAGCCTCTTTAGAAATATTATAGTCG 193190 ||||||||||||| ||||| |||| ||| | || | |||||| || || || || Sbjct 6990423 ATACCACCTCTCAGACGAAGCACCAAATGGAGGGTGGACTCTTTCTGGATGTTGTAATCA 6990482 Query 193191 GATAACGTTCTAGAATCGTCTAATTGTTTTCCGGCAAAAATTAATCTCTGTTGATCAGGA 193250 | || || | | ||| |||| || || |||||||| || | ||||| ||||| || Sbjct 6990483 GCCAAGGTGCGACCATCCTCTAGCTGCTTACCGGCAAAGATAAGCCTCTGCTGATCCGGT 6990542 Query 193251 GGTATTCCTTCTTTATCTTGTATTTTGGTTTTTATATTTAAAATAGTATCGGAAGACTCA 193310 || ||||| ||||||||||| || || | ||| | ||| ||| ||||| || |||| Sbjct 6990543 GGGATTCCCTCTTTATCTTGGATCTTAGCTTTGACATTGTCAATGGTATCTGAGCTCTCA 6990602 Query 193311 ACTTCTAGAGTTATAGTTTTACCTGTTAGCGTTTTTACAAATATTTGCAT 193360 || ||||| || || |||||||| || || || || ||||| || ||||| Sbjct 6990603 ACCTCTAGGGTGATTGTTTTACCAGTGAGAGTCTTCACAAAGATCTGCAT 6990652 Score = 107 bits (118), Expect = 3e-18 Identities = 166/237 (70%), Gaps = 0/237 (0%) Strand=Plus/Minus Query 193124 AATTTATATACCACCTCTCAATCGAAGTACCAGATGCAATGTAGCCTCTTTAGAAATATT 193183 ||||| |||||||| | | ||||| |||| || | || | || || ||||| Sbjct 8339441 AATTTGCATACCACCACGGAGACGAAGAACCAAGTGAAGGGTTGATTCCTTCTGGATATT 8339382 Query 193184 ATAGTCGGATAACGTTCTAGAATCGTCTAATTGTTTTCCGGCAAAAATTAATCTCTGTTG 193243 || || | | || | | ||| ||||||||||| |||||||| || | |||||| || Sbjct 8339381 GTAATCCGCAAGTGTGCGACCATCCTCTAATTGTTTACCGGCAAAGATAAGTCTCTGCTG 8339322 Query 193244 ATCAGGAGGTATTCCTTCTTTATCTTGTATTTTGGTTTTTATATTTAAAATAGTATCGGA 193303 ||| || || ||||| |||||||| || || || | || | ||| |||||| || || Sbjct 8339321 ATCCGGTGGGATTCCCTCTTTATCCTGGATCTTAGCCTTAACATTGTCAATAGTGTCTGA 8339262 Query 193304 AGACTCAACTTCTAGAGTTATAGTTTTACCTGTTAGCGTTTTTACAAATATTTGCAT 193360 | |||||| || || || || ||||| || || | || || ||||| || ||||| Sbjct 8339261 ACTCTCAACCTCAAGGGTGATGGTTTTGCCAGTCAAAGTCTTCACAAAGATCTGCAT 8339205 Score = 100 bits (110), Expect = 5e-16 Identities = 160/230 (70%), Gaps = 0/230 (0%) Strand=Plus/Plus Query 193131 ATACCACCTCTCAATCGAAGTACCAGATGCAATGTAGCCTCTTTAGAAATATTATAGTCG 193190 |||||||||||||| || || |||| || | || | ||| || || || || || Sbjct 735562 ATACCACCTCTCAACCGGAGAACCAAGTGGAGGGTCGACTCCTTCTGGATGTTGTAATCA 735621 Query 193191 GATAACGTTCTAGAATCGTCTAATTGTTTTCCGGCAAAAATTAATCTCTGTTGATCAGGA 193250 | || || | ||| || | ||||| || || || ||||||||||| ||||| ||| Sbjct 735622 GCCAAGGTACGGCCATCTTCGAGCTGTTTACCAGCGAAGATTAATCTCTGCTGATCCGGA 735681 Query 193251 GGTATTCCTTCTTTATCTTGTATTTTGGTTTTTATATTTAAAATAGTATCGGAAGACTCA 193310 || || ||||| || || || || || | || | ||| || || || || ||| Sbjct 735682 GGAATGCCTTCCTTGTCCTGGATCTTTGCCTTCACATTGTCGATGGTGTCTGAGCTCTCG 735741 Query 193311 ACTTCTAGAGTTATAGTTTTACCTGTTAGCGTTTTTACAAATATTTGCAT 193360 || || ||||| || || || || ||||| ||||| ||||| |||||||| Sbjct 735742 ACCTCGAGAGTGATGGTCTTGCCAGTTAGTGTTTTCACAAAAATTTGCAT 735791 Score = 100 bits (110), Expect = 5e-16 Identities = 160/230 (70%), Gaps = 0/230 (0%) Strand=Plus/Minus Query 193131 ATACCACCTCTCAATCGAAGTACCAGATGCAATGTAGCCTCTTTAGAAATATTATAGTCG 193190 ||||||||||||| || || |||| ||| | || | |||||| || || || || Sbjct 8339206 ATACCACCTCTCAGCCGGAGAACCAAATGAAGGGTTGACTCTTTCTGGATGTTGTAATCT 8339147 Query 193191 GATAACGTTCTAGAATCGTCTAATTGTTTTCCGGCAAAAATTAATCTCTGTTGATCAGGA 193250 | || || | ||| |||| ||||| || || || || ||||| || ||||| ||| Sbjct 8339146 GCCAAGGTACGGCCATCTTCTAGCTGTTTACCAGCGAAGATCAATCTTTGCTGATCCGGA 8339087 Query 193251 GGTATTCCTTCTTTATCTTGTATTTTGGTTTTTATATTTAAAATAGTATCGGAAGACTCA 193310 || || ||||| || || || || || | || | ||| ||| || || || |||| Sbjct 8339086 GGAATGCCTTCCTTGTCCTGGATCTTCGCCTTAACATTGTCAATGGTGTCAGAGCTCTCA 8339027 Query 193311 ACTTCTAGAGTTATAGTTTTACCTGTTAGCGTTTTTACAAATATTTGCAT 193360 || || ||||| || || || || || || ||||| || || |||||||| Sbjct 8339026 ACCTCGAGAGTGATGGTCTTGCCAGTGAGTGTTTTCACGAAAATTTGCAT 8338977 Score = 95.1 bits (104), Expect = 2e-14 Identities = 159/230 (69%), Gaps = 0/230 (0%) Strand=Plus/Plus Query 193131 ATACCACCTCTCAATCGAAGTACCAGATGCAATGTAGCCTCTTTAGAAATATTATAGTCG 193190 ||||||||||||| ||||| |||| ||| | || | |||||| || || ||||| Sbjct 735334 ATACCACCTCTCAGACGAAGCACCAAATGAAGGGTGGACTCTTTCTGGATGTTGTAGTCA 735393 Query 193191 GATAACGTTCTAGAATCGTCTAATTGTTTTCCGGCAAAAATTAATCTCTGTTGATCAGGA 193250 | || || | ||| |||| || || |||||||| || | |||||||| || ||| Sbjct 735394 GCTAGTGTACGGCCATCCTCTAGCTGCTTACCGGCAAAGATAAGCCTCTGTTGGTCCGGA 735453 Query 193251 GGTATTCCTTCTTTATCTTGTATTTTGGTTTTTATATTTAAAATAGTATCGGAAGACTCA 193310 || || ||||| || || || || || | || | || ||||| || || |||| Sbjct 735454 GGGATACCTTCCTTGTCCTGGATCTTTGCCTTGACGTTGTCGATAGTGTCAGAGCTCTCA 735513 Query 193311 ACTTCTAGAGTTATAGTTTTACCTGTTAGCGTTTTTACAAATATTTGCAT 193360 || || || || || || || || || || || || ||||| || ||||| Sbjct 735514 ACCTCGAGGGTGATGGTCTTGCCGGTGAGAGTCTTGACAAAGATCTGCAT 735563 Score = 95.1 bits (104), Expect = 2e-14 Identities = 159/230 (69%), Gaps = 0/230 (0%) Strand=Plus/Plus Query 193131 ATACCACCTCTCAATCGAAGTACCAGATGCAATGTAGCCTCTTTAGAAATATTATAGTCG 193190 ||||||||||| || || || |||| ||| | || | |||||| || || || ||| Sbjct 6990879 ATACCACCTCTTAAACGGAGAACCAAATGGAGGGTGGACTCTTTCTGGATGTTGTAATCG 6990938 Query 193191 GATAACGTTCTAGAATCGTCTAATTGTTTTCCGGCAAAAATTAATCTCTGTTGATCAGGA 193250 | || || | ||| || | ||||| ||||| || || ||||| || || || ||| Sbjct 6990939 GCCAAGGTGCGGCCATCTTCAAGCTGTTTACCGGCGAAGATCAATCTTTGCTGGTCCGGA 6990998 Query 193251 GGTATTCCTTCTTTATCTTGTATTTTGGTTTTTATATTTAAAATAGTATCGGAAGACTCA 193310 || || ||||| || || || || || | || | ||| || || || || ||| Sbjct 6990999 GGAATGCCTTCCTTGTCCTGGATCTTTGCCTTAACATTGTCGATGGTGTCAGAGCTCTCG 6991058 Query 193311 ACTTCTAGAGTTATAGTTTTACCTGTTAGCGTTTTTACAAATATTTGCAT 193360 || || ||||| || || ||||| || || ||||| || || |||||||| Sbjct 6991059 ACCTCAAGAGTGATGGTCTTACCAGTGAGTGTTTTCACGAAAATTTGCAT 6991108 >seq7 Length=17303919 Score = 114 bits (126), Expect = 2e-20 Identities = 167/236 (71%), Gaps = 0/236 (0%) Strand=Plus/Plus Query 193125 ATTTATATACCACCTCTCAATCGAAGTACCAGATGCAATGTAGCCTCTTTAGAAATATTA 193184 |||| || ||||| | | ||||| |||| ||||| || | ||| || || || Sbjct 14231640 ATTTGCATGCCACCACGAAGACGAAGAACCAAATGCAGAGTTGACTCCTTCTGGATGTTG 14231699 Query 193185 TAGTCGGATAACGTTCTAGAATCGTCTAATTGTTTTCCGGCAAAAATTAATCTCTGTTGA 193244 || || | | || | | ||| || | ||| || || ||||| || | || ||||| Sbjct 14231700 TAATCCGCAAGTGTCCGACCATCCTCGAGTTGCTTGCCCGCAAAGATAAGTCGTTGTTGG 14231759 Query 193245 TCAGGAGGTATTCCTTCTTTATCTTGTATTTTGGTTTTTATATTTAAAATAGTATCGGAA 193304 || ||||| || ||||| || ||||| || |||| ||| | ||| ||| || || || Sbjct 14231760 TCCGGAGGGATCCCTTCCTTGTCTTGGATCTTGGCTTTGACATTGTCAATGGTGTCAGAG 14231819 Query 193305 GACTCAACTTCTAGAGTTATAGTTTTACCTGTTAGCGTTTTTACAAATATTTGCAT 193360 ||||||||||||||| || ||||| || || || ||||| |||||||||||||| Sbjct 14231820 CTCTCAACTTCTAGAGTAATGGTTTTGCCGGTGAGAGTTTTCACAAATATTTGCAT 14231875 Score = 111 bits (122), Expect = 3e-19 Identities = 166/236 (70%), Gaps = 0/236 (0%) Strand=Plus/Plus Query 193125 ATTTATATACCACCTCTCAATCGAAGTACCAGATGCAATGTAGCCTCTTTAGAAATATTA 193184 |||| || ||||||||||| | ||| |||| || | ||| | ||| || |||||| Sbjct 14232324 ATTTGCATGCCACCTCTCAACCTAAGAACCAAGTGAAGTGTTGACTCCTTCTGAATATTG 14232383 Query 193185 TAGTCGGATAACGTTCTAGAATCGTCTAATTGTTTTCCGGCAAAAATTAATCTCTGTTGA 193244 || || | | |||| | ||| || | ||| || || ||| || | ||| || || Sbjct 14232384 TAATCAGCAAGGGTTCGACCATCCTCGAGTTGCTTGCCCGCATGGATAAGTCTTTGCTGG 14232443 Query 193245 TCAGGAGGTATTCCTTCTTTATCTTGTATTTTGGTTTTTATATTTAAAATAGTATCGGAA 193304 || || | |||||| | || ||||| || |||| || | ||| ||| || || || Sbjct 14232444 TCCGGTAGGATTCCTACCTTGTCTTGGATCTTGGCCTTGACATTGTCAATGGTGTCAGAG 14232503 Query 193305 GACTCAACTTCTAGAGTTATAGTTTTACCTGTTAGCGTTTTTACAAATATTTGCAT 193360 ||||||||||||| | || ||||| || || || ||||| |||||||||||||| Sbjct 14232504 CTCTCAACTTCTAGAATAATGGTTTTGCCGGTGAGAGTTTTCACAAATATTTGCAT 14232559 Score = 102 bits (112), Expect = 1e-16 Identities = 164/236 (69%), Gaps = 0/236 (0%) Strand=Plus/Plus Query 193125 ATTTATATACCACCTCTCAATCGAAGTACCAGATGCAATGTAGCCTCTTTAGAAATATTA 193184 |||| || ||||||||||| | ||| |||| || | || | ||| || |||||| Sbjct 14232552 ATTTGCATGCCACCTCTCAACCTAAGAACCAAGTGTAGAGTTGACTCCTTTTGAATATTG 14232611 Query 193185 TAGTCGGATAACGTTCTAGAATCGTCTAATTGTTTTCCGGCAAAAATTAATCTCTGTTGA 193244 ||||| | || || | | ||| || | ||| || || ||||| || | ||||| || Sbjct 14232612 TAGTCAGCCAATGTACGACCATCTTCAAGTTGCTTGCCTGCAAAGATAAGCCTCTGCTGG 14232671 Query 193245 TCAGGAGGTATTCCTTCTTTATCTTGTATTTTGGTTTTTATATTTAAAATAGTATCGGAA 193304 || |||| || ||||| |||||||| || || | || | ||| ||| || || || Sbjct 14232672 TCCGGAGTAATACCTTCCTTATCTTGGATCTTAGCCTTGACATTGTCAATCGTGTCAGAG 14232731 Query 193305 GACTCAACTTCTAGAGTTATAGTTTTACCTGTTAGCGTTTTTACAAATATTTGCAT 193360 ||||| || |||||||| || || || || || || || ||||| || ||||| Sbjct 14232732 CTTTCAACCTCAAGAGTTATGGTCTTCCCGGTAAGAGTCTTAACAAAGATCTGCAT 14232787 >seq2 Length=14066726 Score = 113 bits (124), Expect = 8e-20 Identities = 163/230 (71%), Gaps = 0/230 (0%) Strand=Plus/Plus Query 193131 ATACCACCTCTCAATCGAAGTACCAGATGCAATGTAGCCTCTTTAGAAATATTATAGTCG 193190 ||||||||||| | ||||| || ||||| | |||| ||| || || || || || Sbjct 7053376 ATACCACCTCTGAGACGAAGCACAAGATGGAGAGTAGACTCCTTTTGGATGTTGTAATCA 7053435 Query 193191 GATAACGTTCTAGAATCGTCTAATTGTTTTCCGGCAAAAATTAATCTCTGTTGATCAGGA 193250 | | || | | ||| ||||| || || || ||||| || | ||||| ||||| ||| Sbjct 7053436 GCAAGTGTGCGACCATCCTCTAACTGCTTACCAGCAAAGATAAGCCTCTGCTGATCCGGA 7053495 Query 193251 GGTATTCCTTCTTTATCTTGTATTTTGGTTTTTATATTTAAAATAGTATCGGAAGACTCA 193310 || || ||||| || || || || || | ||| | ||| ||||||||| || |||| Sbjct 7053496 GGAATCCCTTCCTTGTCCTGAATCTTAGCTTTAACATTGTCAATAGTATCAGAGCTCTCA 7053555 Query 193311 ACTTCTAGAGTTATAGTTTTACCTGTTAGCGTTTTTACAAATATTTGCAT 193360 || || | ||| || ||||| ||||| | ||| || ||||| || ||||| Sbjct 7053556 ACCTCCAAAGTAATGGTTTTTCCTGTCAACGTCTTCACAAAGATCTGCAT 7053605 Score = 95.1 bits (104), Expect = 2e-14 Identities = 159/230 (69%), Gaps = 0/230 (0%) Strand=Plus/Plus Query 193131 ATACCACCTCTCAATCGAAGTACCAGATGCAATGTAGCCTCTTTAGAAATATTATAGTCG 193190 ||||||||||| | |||||||| ||||| | |||| ||| || || || || || Sbjct 7053148 ATACCACCTCTGAGACGAAGTACAAGATGGAGAGTAGACTCCTTTTGGATGTTGTAATCA 7053207 Query 193191 GATAACGTTCTAGAATCGTCTAATTGTTTTCCGGCAAAAATTAATCTCTGTTGATCAGGA 193250 | | || | | ||| || | ||||| || ||||| || | ||||||||| || || Sbjct 7053208 GCAAGGGTGCGACCATCTTCAAGCTGTTTCCCAGCAAAGATGAGTCTCTGTTGGTCTGGT 7053267 Query 193251 GGTATTCCTTCTTTATCTTGTATTTTGGTTTTTATATTTAAAATAGTATCGGAAGACTCA 193310 || |||||||| || || || || || | || | || ||| || || || |||| Sbjct 7053268 GGGATTCCTTCCTTGTCCTGAATCTTAGCCTTGACGTTATCAATTGTGTCTGAGCTCTCA 7053327 Query 193311 ACTTCTAGAGTTATAGTTTTACCTGTTAGCGTTTTTACAAATATTTGCAT 193360 || || | |||||| || || || || || || || ||||| || ||||| Sbjct 7053328 ACCTCCAAAGTTATGGTCTTTCCGGTAAGGGTCTTCACAAAAATCTGCAT 7053377 Score = 86.0 bits (94), Expect = 1e-11 Identities = 157/230 (68%), Gaps = 0/230 (0%) Strand=Plus/Plus Query 193131 ATACCACCTCTCAATCGAAGTACCAGATGCAATGTAGCCTCTTTAGAAATATTATAGTCG 193190 ||||||||||| || | || |||| || | || | || || ||||| || || Sbjct 7053604 ATACCACCTCTTAACCTGAGAACCAAGTGGAGAGTTGATTCCTTCTGTATATTGTAATCC 7053663 Query 193191 GATAACGTTCTAGAATCGTCTAATTGTTTTCCGGCAAAAATTAATCTCTGTTGATCAGGA 193250 | || || | ||| || | ||||| |||||||| || ||||| || ||||| ||| Sbjct 7053664 GCCAAGGTACGTCCATCCTCAAGCTGTTTACCGGCAAAGATCAATCTTTGCTGATCCGGA 7053723 Query 193251 GGTATTCCTTCTTTATCTTGTATTTTGGTTTTTATATTTAAAATAGTATCGGAAGACTCA 193310 || || ||||| || || || || || | || | ||| ||||| || || ||| Sbjct 7053724 GGGATCCCTTCCTTGTCCTGAATCTTTGCCTTAACATTGTCGATAGTGTCAGAGCTCTCT 7053783 Query 193311 ACTTCTAGAGTTATAGTTTTACCTGTTAGCGTTTTTACAAATATTTGCAT 193360 || || ||||| || || || || || || ||||| || || |||||||| Sbjct 7053784 ACCTCAAGAGTAATGGTCTTGCCAGTAAGTGTTTTCACGAAAATTTGCAT 7053833 >seq5 Length=13709650 Score = 86.0 bits (94), Expect = 1e-11 Identities = 162/237 (68%), Gaps = 1/237 (0%) Strand=Plus/Plus Query 193125 ATTTATATACCACCTCTCAATCGAAGTACCAGATGCAATGTAGCCTCTTTAGAAATATTA 193184 |||| |||||||||||||| || |||| ||| | || | |||||| | ||| | Sbjct 4166017 ATTTGCATACCACCTCTCAACTTTAGAACCAAATGGAGAGTTGACTCTTTCGGAATGCTG 4166076 Query 193185 TAGTCGGATAACGTTCTAGAATCGTCTAATTGTTTTCCGGCAAAAATTAATCTCTGTTGA 193244 || || | || || | | ||| || | ||||| |||||||| || | | || || Sbjct 4166077 TAATCAGCCAAGGTACGACCATCCTCGAGCTGTTTACCGGCAAAGATCATTTGTTGCTGG 4166136 Query 193245 TCAGGAGGTATTCCTTCTTTATCTTGTAT-TTTGGTTTTTATATTTAAAATAGTATCGGA 193303 ||| |||| ||||||||||||||||| || ||| | || | || || | ||||| Sbjct 4166137 TCAAGAGGGATTCCTTCTTTATCTTGGATCTTTTGCCTTAACTTTGTGGATCATGTCGGA 4166196 Query 193304 AGACTCAACTTCTAGAGTTATAGTTTTACCTGTTAGCGTTTTTACAAATATTTGCAT 193360 || || | ||||||| || || ||||| || |||| ||||| || ||||| Sbjct 4166197 GCTTTCGACCTTAAGAGTTACGGTCTTGCCTGTAAGACTTTTGACAAAGATCTGCAT 4166253 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 899645707089360