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_004778.3 Length=129593 Score E Sequences producing significant alignments: (Bits) Value seq7 104 2e-17 seq6 98.7 8e-16 seq2 89.7 4e-13 seq1 82.4 6e-11 >seq7 Length=17303919 Score = 104 bits (114), Expect = 2e-17 Identities = 92/115 (80%), Gaps = 0/115 (0%) Strand=Plus/Plus Query 18815 CCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCGCC 18874 ||||||| |||||| | |||| ||| | || |||||||| |||||||||||||||||| Sbjct 14232105 CCTCCTCTCAACCTAAGAACCAAGTGTAGAGTTGACTCCTTCTGAATATTGTAATCCGCC 14232164 Query 18875 ATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCA 18929 | || | | ||||| || || || |||||||| |||||||||||||| |||| Sbjct 14232165 AAAGTACGGCCATCCTCAAGTTGCTTCCCCGCATAGATAAGTCTCTGCTGGTCCA 14232219 >seq6 Length=16577294 Score = 98.7 bits (108), Expect = 8e-16 Identities = 158/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 18815 CCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCGCC 18874 ||||| |||| | || |||| ||| | |||||||||||||| || ||||| || ||| Sbjct 14990611 CCTCCACGCAGACGCAAGACCAAGTGAAGGGTAGACTCCTTTTGGATGTTGTAGTCAGCC 14990552 Query 18875 ATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGGGC 18934 | ||| || ||||||||| ||| || || ||| | || | |||||||| ||| || Sbjct 14990551 AAGGTTCTGCCGTCCTCCAACTGCTTTCCAGCAAAGATCAACCTCTGCTGGTCCGGTGGG 14990492 Query 18935 ACGCCCTCTTTGTCGGCAATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCGTT 18994 | ||||||||||| || || || || | | ||| || || | |||| Sbjct 14990491 ATACCCTCTTTGTCCTGGATCTTGGCCTTCACGTTGTCGATGGTGTCAGAACTCTCCACC 14990432 Query 18995 TCGACGGTAATGGTTTTACCTGTTAAAGTTTTGACAAAAATTTGCAT 19041 || | ||| || || || || || || || |||||||| |||||||| Sbjct 14990431 TCCAAGGTGATAGTCTTCCCGGTCAACGTCTTGACAAAGATTTGCAT 14990385 Score = 89.7 bits (98), Expect = 4e-13 Identities = 145/209 (69%), Gaps = 0/209 (0%) Strand=Plus/Minus Query 18833 ACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCGCCATTGTTTTGGCGTCCTCC 18892 |||| ||| | || || ||||| || |||||||||||||| | ||| | ||||| Sbjct 8339413 ACCAAGTGAAGGGTTGATTCCTTCTGGATATTGTAATCCGCAAGTGTGCGACCATCCTCT 8339354 Query 18893 AGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGGGCACGCCCTCTTTGTCGGCA 18952 | |||||||| ||| | |||||||||||||||||| || | |||||||| || Sbjct 8339353 AATTGTTTACCGGCAAAGATAAGTCTCTGCTGATCCGGTGGGATTCCCTCTTTATCCTGG 8339294 Query 18953 ATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCGTTTCGACGGTAATGGTTTTA 19012 || || || || | | | | ||| || | ||| || | ||| |||||||| Sbjct 8339293 ATCTTAGCCTTAACATTGTCAATAGTGTCTGAACTCTCAACCTCAAGGGTGATGGTTTTG 8339234 Query 19013 CCTGTTAAAGTTTTGACAAAAATTTGCAT 19041 || || ||||| || ||||| || ||||| Sbjct 8339233 CCAGTCAAAGTCTTCACAAAGATCTGCAT 8339205 >seq2 Length=14066726 Score = 89.7 bits (98), Expect = 4e-13 Identities = 138/197 (70%), Gaps = 0/197 (0%) Strand=Plus/Plus Query 18845 GTAGACTCCTTTTGAATATTGTAATCCGCCATTGTTTTGGCGTCCTCCAGCTGTTTACCC 18904 |||||||||||||| || |||||||| || | ||| | ||||| | ||| ||||| Sbjct 7053409 GTAGACTCCTTTTGGATGTTGTAATCAGCAAGTGTGCGACCATCCTCTAACTGCTTACCA 7053468 Query 18905 GCATAAATAAGTCTCTGCTGATCCACGGGCACGCCCTCTTTGTCGGCAATTTTCTGTTTT 18964 ||| | ||||| |||||||||||| || | || || ||||| ||| || ||| Sbjct 7053469 GCAAAGATAAGCCTCTGCTGATCCGGAGGAATCCCTTCCTTGTCCTGAATCTTAGCTTTA 7053528 Query 18965 ACCTGGCCGACAGTATCGCCAGGCTCCGTTTCGACGGTAATGGTTTTACCTGTTAAAGTT 19024 || | | | | |||||| ||| || | ||||||||||| ||||| || || Sbjct 7053529 ACATTGTCAATAGTATCAGAGCTCTCAACCTCCAAAGTAATGGTTTTTCCTGTCAACGTC 7053588 Query 19025 TTGACAAAAATTTGCAT 19041 || ||||| || ||||| Sbjct 7053589 TTCACAAAGATCTGCAT 7053605 Score = 87.8 bits (96), Expect = 1e-12 Identities = 159/230 (69%), Gaps = 6/230 (3%) Strand=Plus/Plus Query 18815 CCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCGCC 18874 || |||| ||||| | |||| ||| | || || ||||| || ||||||||||||||| Sbjct 7053607 CCACCTCTTAACCTGAGAACCAAGTGGAGAGTTGATTCCTTCTGTATATTGTAATCCGCC 7053666 Query 18875 ATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGGGC 18934 | || | ||||| ||||||||||| ||| | || | ||| ||||||||| || Sbjct 7053667 AAGGTACGTCCATCCTCAAGCTGTTTACCGGCAAAGATCAATCTTTGCTGATCCGGAGGG 7053726 Query 18935 ACGCCCTCTTTGTCGGCAATTTTCTGTTTTACCTGGCCGACAGTATCGCCAG-GCTCCGT 18993 | || || ||||| ||| || || || | | ||| ||| | ||| |||| | Sbjct 7053727 ATCCCTTCCTTGTCCTGAATCTTTGCCTTAACATTGTCGATAGT---GTCAGAGCTCTCT 7053783 Query 18994 --TTCGACGGTAATGGTTTTACCTGTTAAAGTTTTGACAAAAATTTGCAT 19041 || | |||||||| || || || | ||||| || ||||||||||| Sbjct 7053784 ACCTCAAGAGTAATGGTCTTGCCAGTAAGTGTTTTCACGAAAATTTGCAT 7053833 >seq1 Length=19566579 Score = 82.4 bits (90), Expect = 6e-11 Identities = 156/230 (68%), Gaps = 0/230 (0%) Strand=Plus/Minus Query 18815 CCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCGCC 18874 ||||||| || | | ||||| || | ||| ||||| || || || ||||| || || Sbjct 8289972 CCTCCTCTCAGACGGAGCACCAAATGAAGCGTCGACTCTTTCTGGATGTTGTAGTCGGCG 8289913 Query 18875 ATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGGGC 18934 | |||| | |||| ||||||||||| || || | || || | |||||| ||| || Sbjct 8289912 AGTGTTCTCCCGTCTTCCAGCTGTTTCCCGGCGAAGATCAGACGCTGCTGGTCCGGTGGG 8289853 Query 18935 ACGCCCTCTTTGTCGGCAATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCGTT 18994 | || || ||||| || ||| ||| || | | ||| || || | ||| Sbjct 8289852 ATCCCTTCCTTGTCTTGGATCTTCGCTTTCACATTGTCGATCGTGTCTGATGACTCTACC 8289793 Query 18995 TCGACGGTAATGGTTTTACCTGTTAAAGTTTTGACAAAAATTTGCATTTT 19044 || | ||| || || || || ||||| ||||| ||||| || |||||||| Sbjct 8289792 TCTAGGGTTATTGTCTTCCCCGTTAAGGTTTTCACAAAGATCTGCATTTT 8289743 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 414568894335562