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_004117.1 Length=158482 Score E Sequences producing significant alignments: (Bits) Value seq6 113 5e-20 seq7 89.7 5e-13 seq4 86.0 6e-12 >seq6 Length=16577294 Score = 113 bits (124), Expect = 5e-20 Identities = 161/227 (71%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 142958 CCTCCTCGTAAACGCAAAACTAAATGAATTGTAGATTCTTTTTGTATGTTGTAATCGCTC 143017 || |||| |||||| | ||| ||||| | || || ||||| || |||||||||||| | Sbjct 6990882 CCACCTCTTAAACGGAGAACCAAATGGAGGGTGGACTCTTTCTGGATGTTGTAATCGGCC 6990941 Query 143018 ATTGTGCTCGAGTCTTCGAGTTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGT 143077 | |||| ||||| || |||||||| || |||||| | |||||| || ||||| Sbjct 6990942 AAGGTGCGGCCATCTTCAAGCTGTTTACCGGCGAAGATCAATCTTTGCTGGTCCGGAGGA 6991001 Query 143078 ATGCCTTCTTTGTCGGTAATTTTTTGTTTTAGCTGTTCCACCGTGTCCGTGGGTTCTACT 143137 |||||||| ||||| || ||| || | | || | ||||| | | || || Sbjct 6991002 ATGCCTTCCTTGTCCTGGATCTTTGCCTTAACATTGTCGATGGTGTCAGAGCTCTCGACC 6991061 Query 143138 TCAACAGTCACCGTCTTGCCGGTCAATGTTTTTACGAATATTTGCAT 143184 |||| ||| | ||||| || || | |||||| ||||| |||||||| Sbjct 6991062 TCAAGAGTGATGGTCTTACCAGTGAGTGTTTTCACGAAAATTTGCAT 6991108 Score = 100 bits (110), Expect = 3e-16 Identities = 148/210 (70%), Gaps = 0/210 (0%) Strand=Plus/Minus Query 142975 AACTAAATGAATTGTAGATTCTTTTTGTATGTTGTAATCGCTCATTGTGCTCGAGTCTTC 143034 ||| ||||||| || || ||||| || ||||||||||| || || | ||||| Sbjct 8339186 AACCAAATGAAGGGTTGACTCTTTCTGGATGTTGTAATCTGCCAAGGTACGGCCATCTTC 8339127 Query 143035 GAGTTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGT 143094 || ||||||||||| |||||| | ||||||||| ||||| |||||||| ||||| Sbjct 8339126 TAGCTGTTTACCAGCGAAGATCAATCTTTGCTGATCCGGAGGAATGCCTTCCTTGTCCTG 8339067 Query 143095 AATTTTTTGTTTTAGCTGTTCCACCGTGTCCGTGGGTTCTACTTCAACAGTCACCGTCTT 143154 || || || | | || | ||||| | | || || || | ||| | ||||| Sbjct 8339066 GATCTTCGCCTTAACATTGTCAATGGTGTCAGAGCTCTCAACCTCGAGAGTGATGGTCTT 8339007 Query 143155 GCCGGTCAATGTTTTTACGAATATTTGCAT 143184 ||| || | |||||| ||||| |||||||| Sbjct 8339006 GCCAGTGAGTGTTTTCACGAAAATTTGCAT 8338977 Score = 86.0 bits (94), Expect = 6e-12 Identities = 155/227 (68%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 142958 CCTCCTCGTAAACGCAAAACTAAATGAATTGTAGATTCTTTTTGTATGTTGTAATCGCTC 143017 || |||| || || | ||| || || | || || || || || ||||||||||| | Sbjct 735565 CCACCTCTCAACCGGAGAACCAAGTGGAGGGTCGACTCCTTCTGGATGTTGTAATCAGCC 735624 Query 143018 ATTGTGCTCGAGTCTTCGAGTTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGT 143077 | || | |||||||| ||||||||||| |||| | | |||||||| ||||| Sbjct 735625 AAGGTACGGCCATCTTCGAGCTGTTTACCAGCGAAGATTAATCTCTGCTGATCCGGAGGA 735684 Query 143078 ATGCCTTCTTTGTCGGTAATTTTTTGTTTTAGCTGTTCCACCGTGTCCGTGGGTTCTACT 143137 |||||||| ||||| || ||| || | | || | ||||| | | || || Sbjct 735685 ATGCCTTCCTTGTCCTGGATCTTTGCCTTCACATTGTCGATGGTGTCTGAGCTCTCGACC 735744 Query 143138 TCAACAGTCACCGTCTTGCCGGTCAATGTTTTTACGAATATTTGCAT 143184 || | ||| | |||||||| || | |||||| || || |||||||| Sbjct 735745 TCGAGAGTGATGGTCTTGCCAGTTAGTGTTTTCACAAAAATTTGCAT 735791 >seq7 Length=17303919 Score = 89.7 bits (98), Expect = 5e-13 Identities = 160/230 (70%), Gaps = 4/230 (2%) Strand=Plus/Plus Query 142957 GCCTCCTCGTAAACGCAAAACTAAATGAATTGTAGATTCTTTTTGTATGTTGTAATCGCT 143016 ||| || || | ||| | ||| ||||| | || || || || || ||||||||||| | Sbjct 14231648 GCCACCACGAAGACGAAGAACCAAATGCAGAGTTGACTCCTTCTGGATGTTGTAATC-CG 14231706 Query 143017 CATTGTGCTCGAG--TCTTCGAGTTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGA 143074 || ||| ||| || |||||||| || || ||| |||| || ||||| || || ||| Sbjct 14231707 CAA-GTGTCCGACCATCCTCGAGTTGCTTGCCCGCAAAGATAAGTCGTTGTTGGTCCGGA 14231765 Query 143075 GGTATGCCTTCTTTGTCGGTAATTTTTTGTTTTAGCTGTTCCACCGTGTCCGTGGGTTCT 143134 || || ||||| ||||| || || ||| | | || | ||||| | | || Sbjct 14231766 GGGATCCCTTCCTTGTCTTGGATCTTGGCTTTGACATTGTCAATGGTGTCAGAGCTCTCA 14231825 Query 143135 ACTTCAACAGTCACCGTCTTGCCGGTCAATGTTTTTACGAATATTTGCAT 143184 ||||| | ||| | || |||||||| | ||||| || ||||||||||| Sbjct 14231826 ACTTCTAGAGTAATGGTTTTGCCGGTGAGAGTTTTCACAAATATTTGCAT 14231875 >seq4 Length=14994381 Score = 86.0 bits (94), Expect = 6e-12 Identities = 91/120 (76%), Gaps = 0/120 (0%) Strand=Plus/Minus Query 142972 CAAAACTAAATGAATTGTAGATTCTTTTTGTATGTTGTAATCGCTCATTGTGCTCGAGTC 143031 ||| || | ||||| ||||| ||||| || ||||||||||| || || | || Sbjct 9871031 CAAGACAAGATGAAGAGTAGACTCTTTCTGGATGTTGTAATCAGCCAAGGTTCGGCCATC 9870972 Query 143032 TTCGAGTTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTC 143091 ||||||||| ||||||||| |||| || | ||| ||||| || ||||| || |||||||| Sbjct 9870971 TTCGAGTTGCTTACCAGCAAAGATGAGCCTTTGTTGATCAGGTGGTATACCCTCTTTGTC 9870912 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 507009500973360