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_033780.1 Length=144510 Score E Sequences producing significant alignments: (Bits) Value seq5 143 2e-29 seq4 125 7e-24 seq6 113 4e-20 seq1 86.0 6e-12 seq2 84.2 2e-11 >seq5 Length=13709650 Score = 143 bits (158), Expect = 2e-29 Identities = 174/232 (75%), Gaps = 4/232 (2%) Strand=Plus/Minus Query 41636 CCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAG 41695 || || || ||||| | ||||||||| ||||| |||||||| ||||| ||||||| Sbjct 13270598 CCACCACGGAGACGGAGCACCAGATGAAGCGTCGATTCCTTCTGGATGTTGTAGTCGGCC 13270539 Query 41696 AGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCC-GCGGG 41754 || ||||| |||| || |||||||| ||||||||||||| ||||| |||||| | ||| Sbjct 13270538 AGAGTGCGGCCGTCTTCCAGCTGCTTCCCGGCGAATATCAACCGCTGCTGGTCCGGTGGG 13270479 Query 41755 AACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTCGCTCGACTCCA 41813 | | || ||||||| | || | || |||| || | | | ||||| |||||||| Sbjct 13270478 ATCCCT-TCCTTGT-CTTGGATCTTCGCTTTCACATTGTCGATCGTGTCTGACGACTCCA 13270421 Query 41814 CCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCATGTT 41865 |||| | ||||| || || ||||| || || || ||||| |||||||| || Sbjct 13270420 CCTCTAGGGTTATGGTCTTCCCCGTTAGGGTTTTCACGAAGATCTGCATCTT 13270369 >seq4 Length=14994381 Score = 125 bits (138), Expect = 7e-24 Identities = 170/232 (73%), Gaps = 4/232 (2%) Strand=Plus/Minus Query 41636 CCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAG 41695 || || || ||||| | || || || ||||| ||||||||| ||||| ||||||| Sbjct 14616824 CCACCACGGAGACGGAGGACAAGGTGAAGCGTTGACTCCTTCTGGATGTTGTAGTCGGCT 14616765 Query 41696 AGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCC-GCGGG 41754 | ||| || |||| ||||||||||| |||||||| |||| ||||| |||||| ||||| Sbjct 14616764 AAGGTTCGTCCGTCCTCGAGCTGCTTTCCGGCGAAAATCAATCGCTGCTGGTCCGGCGGG 14616705 Query 41755 AACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTCGCTCGACTCCA 41813 | || ||||||||| ||| || |||| || | | | ||||| ||||| | Sbjct 14616704 ATTCCT-TCCTTGTCCTGGATCTTGGCCTTC-ACATTGTCGATGGTGTCAGATGACTCTA 14616647 Query 41814 CCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCATGTT 41865 |||| | || ||||| || ||||| || || || ||||| |||||||| || Sbjct 14616646 CCTCGAGGGTGATCGTCTTCCCCGTTAGGGTTTTCACGAAGATCTGCATCTT 14616595 >seq6 Length=16577294 Score = 113 bits (124), Expect = 4e-20 Identities = 168/232 (72%), Gaps = 10/232 (4%) Strand=Plus/Plus Query 41636 CCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAG 41695 || || || ||||| | ||||| || || || ||||||||| ||||| || || | Sbjct 735109 CCACCACGGAGACGAAGCACCAAGTGAAGGGTAGACTCCTTCTGGATGTTGTAATCCGCT 735168 Query 41696 AGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTC-CGCGGG 41754 |||||||| | || ||||||||||| || ||||| || || | ||| ||||| | ||| Sbjct 735169 AGGGTGCGTCCATCTTCGAGCTGCTTCCCAGCGAAGATGAGTCTCTGCTGGTCTGGTGGG 735228 Query 41755 AACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTC---GCTCGACT 41810 | | || ||||||||| ||| | || |||| ||| | | | ||||| ||| || Sbjct 735229 ATCCCT-TCCTTGTCC-TGAATCTTGGCTTTGACGTTGTCGATTGTGTCAGAGCT---CT 735283 Query 41811 CCACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 ||||||||| || || || || || || || ||||| || ||||||||||| Sbjct 735284 CCACCTCCAAAGTGATGGTCTTGCCGGTTAGGGTCTTGACAAAAATCTGCAT 735335 Score = 111 bits (122), Expect = 1e-19 Identities = 152/210 (72%), Gaps = 2/210 (1%) Strand=Plus/Minus Query 41654 ACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAGAGGGTGCGCTCGTCGTCG 41713 || ||||| || ||| ||||||||| ||||| || |||| ||||| | |||| ||| Sbjct 14990365 ACAAGATGAAGGGTGGACTCCTTCTGGATGTTGTAATCGGCAAGGGTTCTGCCGTCCTCG 14990306 Query 41714 AGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGAACGCTCTCCTTGTCCATG 41773 || ||||| |||||||| |||| | ||| ||||||| || | | ||||||||| | Sbjct 14990305 AGTTGCTTTCCGGCGAAGATCAACCTCTGCTGGTCCGGAGGGATACCCTCCTTGTCTTGG 14990246 Query 41774 ATTTTTTGCTTCAACGACGAC-ACAGTGTCGCTCGACTCCACCTCCACCGTTATCGTTTT 41832 || || |||| |||| | | | ||||| ||||||||| | || ||||| || Sbjct 14990245 ATCTTG-GCTTTAACGTTGTCGATGGTGTCAGAACTCTCCACCTCGAGAGTAATCGTCTT 14990187 Query 41833 ACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 || || || || || |||||||||||||| Sbjct 14990186 TCCGGTTAGGGTTTTGACGAAAATCTGCAT 14990157 Score = 107 bits (118), Expect = 2e-18 Identities = 162/228 (71%), Gaps = 2/228 (1%) Strand=Plus/Plus Query 41636 CCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAG 41695 || || || ||||| | |||| || || || |||||||||||||| ||||| | Sbjct 2562610 CCACCACGGAGACGGAGGACCAAGTGAAGGGTCGATTCCTTCTGAATGTTGTAGTCTGCC 2562669 Query 41696 AGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGA 41755 || ||||| |||| || |||||||| || ||||| || || ||||| ||||||| || Sbjct 2562670 AGTGTGCGACCGTCCTCAAGCTGCTTTCCAGCGAAGATGAGACGCTGCTGGTCCGGAGGG 2562729 Query 41756 ACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTCGCTCGACTCCAC 41814 | || ||||| ||| ||| || |||| ||| | | | |||||| ||| || Sbjct 2562730 ATGCCTTCCTTATCCTGGATCTTGGCCTTC-ACGTTGTCAATGGTGTCGGAGCTCTCAAC 2562788 Query 41815 CTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 ||| | || || || || || |||| |||||| || ||||||||||| Sbjct 2562789 CTCAAGGGTGATGGTCTTCCCGGTCAACGTCTTCACAAAAATCTGCAT 2562836 Score = 105 bits (116), Expect = 6e-18 Identities = 151/210 (72%), Gaps = 2/210 (1%) Strand=Plus/Plus Query 41654 ACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAGAGGGTGCGCTCGTCGTCG 41713 || ||||| || || ||||||||| ||||| ||||| | | || | |||| ||| Sbjct 2563312 ACAAGATGAAGGGTCGACTCCTTCTGGATGTTGTAGTCAGCCAAAGTCCTGCCGTCCTCG 2563371 Query 41714 AGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGAACGCTCTCCTTGTCCATG 41773 || ||||| |||||||| ||||| | ||| ||||||| ||| | | |||||| ||| | Sbjct 2563372 AGTTGCTTTCCGGCGAAGATCAGCCTCTGCTGGTCCGGGGGGATTCCCTCCTTATCCTGG 2563431 Query 41774 ATTTTTTGCTTCAACGACGAC-ACAGTGTCGCTCGACTCCACCTCCACCGTTATCGTTTT 41832 || || ||| |||| | | | ||||| ||||||||||| || || || || Sbjct 2563432 ATCTTGGCCTT-AACGTTGTCGATGGTGTCAGAACTCTCCACCTCCAAAGTGATAGTCTT 2563490 Query 41833 ACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 || ||||||||||| ||||| || ||||| Sbjct 2563491 TCCGGTCAGCGTCTTGACGAAGATTTGCAT 2563520 Score = 98.7 bits (108), Expect = 9e-16 Identities = 165/232 (71%), Gaps = 10/232 (4%) Strand=Plus/Plus Query 41636 CCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAG 41695 || || || ||||| | |||| || || || ||||||||| ||||| || || | Sbjct 734881 CCACCACGAAGACGAAGGACCAAGTGAAGAGTCGACTCCTTCTGGATGTTGTAATCCGCT 734940 Query 41696 AGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTC-CGCGGG 41754 |||||||| | || ||||||||||| || ||||| || || | ||| ||||| | ||| Sbjct 734941 AGGGTGCGTCCATCTTCGAGCTGCTTCCCAGCGAAGATGAGTCTCTGCTGGTCTGGTGGG 735000 Query 41755 AACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTC---GCTCGACT 41810 | | || ||||||||| ||| |||| |||| ||| | | | ||||| ||| || Sbjct 735001 ATCCCT-TCCTTGTCC-TGAATTTTAGCTTTGACGTTGTCGATTGTGTCTGAGCT---CT 735055 Query 41811 CCACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 | ||||||| || || || || || || || ||||| || || || ||||| Sbjct 735056 CAACCTCCAAAGTGATGGTCTTTCCGGTGAGGGTCTTCACAAAGATTTGCAT 735107 Score = 98.7 bits (108), Expect = 9e-16 Identities = 165/232 (71%), Gaps = 10/232 (4%) Strand=Plus/Plus Query 41636 CCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAG 41695 || || || ||||| | ||| |||||||| || ||| || || ||||| || || | | Sbjct 6990198 CCACCACGGAGACGAAGCACGAGATGCAGGGTAGACTCTTTTTGGATGTTGTAATCAGCG 6990257 Query 41696 AGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGC-GGG 41754 ||||| || |||| || ||||| || ||||| || || || | ||| ||||| | ||| Sbjct 6990258 AGGGTACGTCCGTCTTCAAGCTGTTTCCCGGCAAAGATGAGTCTCTGCTGGTCTGGTGGG 6990317 Query 41755 AACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTC---GCTCGACT 41810 | | || |||||||| ||| | ||||| | ||| | | ||||| |||| | Sbjct 6990318 ATCCCT-TCCTTGTCT-TGAATCTTTGCCTTGACGTTATCGATTGTGTCTGAGCTC---T 6990372 Query 41811 CCACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 | ||||||| || || || || || || || |||||||| ||||||||||| Sbjct 6990373 CAACCTCCAAAGTGATAGTCTTGCCGGTTAGGGTCTTTACAAAAATCTGCAT 6990424 Score = 96.9 bits (106), Expect = 3e-15 Identities = 157/222 (71%), Gaps = 8/222 (4%) Strand=Plus/Plus Query 41645 AGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAGAGGGTGCGC 41704 ||||| | ||||| ||| || ||| ||| ||||| ||||| ||||| | || || || Sbjct 735346 AGACGAAGCACCAAATGAAGGGTGGACTCTTTCTGGATGTTGTAGTCAGCTAGTGTACGG 735405 Query 41705 TCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGAACGCTCTCC 41764 | || || |||||||| ||||| || || || | ||||||||||| || | | ||| Sbjct 735406 CCATCCTCTAGCTGCTTACCGGCAAAGATAAGCCTCTGTTGGTCCGGAGGGATACCTTCC 735465 Query 41765 TTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTC---GCTCGACTCCACCTCCAC 41820 |||||| || | ||||| | ||| | | | |||||| ||| ||| ||||| | Sbjct 735466 TTGTCC-TGGATCTTTGCCTTGACGTTGTCGATAGTGTCAGAGCT---CTCAACCTCGAG 735521 Query 41821 CGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 || || || || || || || ||||| || || |||||||| Sbjct 735522 GGTGATGGTCTTGCCGGTGAGAGTCTTGACAAAGATCTGCAT 735563 Score = 89.7 bits (98), Expect = 5e-13 Identities = 150/213 (70%), Gaps = 8/213 (4%) Strand=Plus/Plus Query 41654 ACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAGAGGGTGCGCTCGTCGTCG 41713 || ||||| || || ||||||||| ||||| ||||| | | ||||| | || || Sbjct 2562856 ACAAGATGAAGGGTCGACTCCTTCTGGATGTTGTAGTCAGCCAATGTGCGACCATCCTCA 2562915 Query 41714 AGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGAACGCTCTCCTTGTCCATG 41773 ||||| ||||| ||||| || || | ||| ||||||| || | | ||||||||| | Sbjct 2562916 AGCTGTTTGCCAGCGAAGATGAGCCTCTGCTGGTCCGGAGGGATTCCTTCCTTGTCCTGG 2562975 Query 41774 ATTTTTTGCTTCAACGACGACACAG-TGTC---GCTCGACTCCACCTCCACCGTTATCGT 41829 || || ||||| || || | |||| |||| || ||||||| ||||| || Sbjct 2562976 ATCTTGGCCTTCA-CGTTATCAATGGTGTCTGAGCTC---TCAACCTCCAAGGTTATTGT 2563031 Query 41830 TTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 || || || || ||||| || ||||||||||| Sbjct 2563032 CTTGCCGGTGAGAGTCTTGACAAAAATCTGCAT 2563064 Score = 89.7 bits (98), Expect = 5e-13 Identities = 158/228 (69%), Gaps = 2/228 (1%) Strand=Plus/Minus Query 41636 CCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAG 41695 || || || || | || ||||| || || || ||||||||| ||||| ||||| | Sbjct 14991067 CCACCACGGAGCCTTAGCACCAAGTGAAGGGTCGACTCCTTCTGGATGTTGTAGTCAGCC 14991008 Query 41696 AGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGA 41755 | |||||| | || || ||||| || || ||||| || || ||||| ||||| | ||| Sbjct 14991007 AAGGTGCGACCATCCTCAAGCTGTTTTCCAGCGAAGATGAGACGCTGCTGGTCTGGAGGA 14990948 Query 41756 ACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGACACAG-TGTCGCTCGACTCCAC 41814 | | ||||| ||| ||| || ||||| || | || | |||| |||||| Sbjct 14990947 ATACCTTCCTTATCCTGGATCTTGGCCTTCA-CGTTGTCAATGGTGTCAGAACTCTCCAC 14990889 Query 41815 CTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 ||||| || || || || || |||| ||||| || || |||||||| Sbjct 14990888 CTCCAAGGTGATAGTCTTCCCGGTCAAGGTCTTGACAAAGATCTGCAT 14990841 Score = 82.4 bits (90), Expect = 7e-11 Identities = 161/231 (70%), Gaps = 8/231 (3%) Strand=Plus/Minus Query 41636 CCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAG 41695 || || || ||||| ||||| || || || || ||||||||||||||| || || | Sbjct 8339659 CCACCACGAAGACGCAACACAAGGTGAAGGGTTGACTCCTTCTGAATGTTGTAATCCGCT 8339600 Query 41696 AGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTC-CGCGGG 41754 || ||||| | || || ||||| || || ||||| || || | |||||||| | ||| Sbjct 8339599 AGTGTGCGACCATCCTCAAGCTGTTTACCAGCGAAGATGAGTCTTTGTTGGTCTGGTGGG 8339540 Query 41755 AACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGACACAGTGTCGCTCGA---CTC 41811 | | || ||||| ||| ||| | || || | ||| || | ||| || || ||| Sbjct 8339539 ATCCCT-TCCTTTTCC-TGAATCTTAGCCTTGACGTTATCA-ATTGTGTCT-GAGCTCTC 8339484 Query 41812 CACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 || |||| || || || || || |||| ||||| || ||||| ||||| Sbjct 8339483 AACTTCCAAGGTGATAGTCTTGCCAGTCAAAGTCTTCACAAAAATTTGCAT 8339433 >seq1 Length=19566579 Score = 86.0 bits (94), Expect = 6e-12 Identities = 138/193 (72%), Gaps = 4/193 (2%) Strand=Plus/Minus Query 41672 TCCTTCTGAATGTTATAGTCGGAGAGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAAT 41731 || ||||| ||||| || || || || || || | || |||||||||||||| || ||| Sbjct 19037176 TCTTTCTGGATGTTGTAATCTGAAAGCGTTCGACCATCTTCGAGCTGCTTGCCTGCAAAT 19037117 Query 41732 ATCAGGCGCTGTTGGTC-CGCGGGAACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGA 41790 || || | ||||||||| | ||| | || ||||||| | ||| | || |||| ||| Sbjct 19037116 ATGAGTCTCTGTTGGTCTGGTTGGATCCCT-TCCTTGT-CTTGAATCTTAGCTTTAACAT 19037059 Query 41791 CGAC-ACAGTGTCGCTCGACTCCACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTA 41849 | | | ||||| ||| || || | || || |||||||| || || ||||| | Sbjct 19037058 TGTCAATGGTGTCTGAACTCTCGACTTCTAGGGTAATGGTTTTACCGGTAAGGGTCTTGA 19036999 Query 41850 CGAAAATCTGCAT 41862 |||| |||||||| Sbjct 19036998 CGAATATCTGCAT 19036986 >seq2 Length=14066726 Score = 84.2 bits (92), Expect = 2e-11 Identities = 154/221 (70%), Gaps = 6/221 (3%) Strand=Plus/Plus Query 41645 AGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAGAGGGTGCGC 41704 ||||| | || ||||| || || |||||| || ||||| || || | |||||||| Sbjct 7053160 AGACGAAGTACAAGATGGAGAGTAGACTCCTTTTGGATGTTGTAATCAGCAAGGGTGCGA 7053219 Query 41705 TCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGAACGCTCTCC 41764 | || || ||||| || || || || || || | ||||||||| | || | | ||| Sbjct 7053220 CCATCTTCAAGCTGTTTCCCAGCAAAGATGAGTCTCTGTTGGTCTGGTGGGATTCCTTCC 7053279 Query 41765 TTGTCCATGATTTTTTGCTTCAACGACGACACAGTGTCGCTCGA---CTCCACCTCCACC 41821 |||||| ||| | || || | ||| || | ||| || || ||| ||||||| Sbjct 7053280 TTGTCC-TGAATCTTAGCCTTGACGTTATCA-ATTGTGTCT-GAGCTCTCAACCTCCAAA 7053336 Query 41822 GTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 ||||| || || || || || ||||| || ||||||||||| Sbjct 7053337 GTTATGGTCTTTCCGGTAAGGGTCTTCACAAAAATCTGCAT 7053377 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 462299532987600