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_004062.1 Length=119217 Score E Sequences producing significant alignments: (Bits) Value seq7 104 2e-17 seq6 89.7 4e-13 seq2 87.8 1e-12 seq1 86.0 5e-12 >seq7 Length=17303919 Score = 104 bits (114), Expect = 2e-17 Identities = 162/229 (71%), Gaps = 2/229 (1%) Strand=Plus/Plus Query 42882 GCCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGA 42941 ||| ||||| || | | |||||||| | ||| |||||| || | |||||||| | Sbjct 14231648 GCCACCACGAAGACGAAGAACCAAATGCAGAGTTGACTCCTTCTGGATGTTGTAATCCGC 14231707 Query 42942 CAATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGG 43001 | ||| || | || || | ||| ||||| ||||| || | ||| ||||| || | || Sbjct 14231708 AAGTGTCCGACCATCCTCGAGTTGCTTGCCCGCAAAGATAAGTCGTTGTTGGTCCGGAGG 14231767 Query 43002 CACACCTTCTTTTTCGCTGATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGC-CTCGA 43060 | ||||| || || |||| ||||||| || ||| ||||| ||| ||| | Sbjct 14231768 GATCCCTTCCTTGTCTTGGATCTTGGCTTTGACATTGTCAATGGTGTCAG-AGCTCTCAA 14231826 Query 43061 CGTCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 | |||| || || ||||| ||||| |||||||||||||| |||||||| Sbjct 14231827 CTTCTAGAGTAATGGTTTTGCCGGTGAGAGTTTTCACAAATATTTGCAT 14231875 >seq6 Length=16577294 Score = 89.7 bits (98), Expect = 4e-13 Identities = 158/228 (69%), Gaps = 2/228 (1%) Strand=Plus/Minus Query 42883 CCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGAC 42942 || ||||| || | || ||||| || | || |||||| || | ||||| |||| | Sbjct 14990839 CCACCACGTAGACGCAAGACCAAGTGAAGGGTTGACTCCTTCTGGATGTTGTAGTCGGCC 14990780 Query 42943 AATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGC 43002 || ||||| | || ||||| || || |||||||| ||||| | ||| || || | || Sbjct 14990779 AAGGTACGACCATCCTCCAACTGCTTTCCGGCAAAGATCAACCTCTGCTGGTCCGGTGGG 14990720 Query 43003 ACACCTTCTTTTTCGCTGATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGCCT-CGAC 43061 | ||| ||||| || |||| | || || || | | ||||| | ||| | | || Sbjct 14990719 ATACCCTCTTTGTCCTGGATCTTGGCCTTCACGTTGTCGATGGTGTC-CGAGCTTTCAAC 14990661 Query 43062 GTCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 || | || || || |||||||| ||||||||||| || || ||||| Sbjct 14990660 TTCCAAGGTGATTGTCTTTCCGGTGAGAGTTTTCACGAAGATCTGCAT 14990613 Score = 84.2 bits (92), Expect = 2e-11 Identities = 146/210 (70%), Gaps = 2/210 (1%) Strand=Plus/Plus Query 42901 ACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGACAATGTACGTTCGTCGTCC 42960 ||||| |||| || |||||| || | |||||||| | ||| ||||| | || || Sbjct 735583 ACCAAGTGGAGGGTCGACTCCTTCTGGATGTTGTAATCAGCCAAGGTACGGCCATCTTCG 735642 Query 42961 AATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGCACACCTTCTTTTTCGCTG 43020 | ||||| || || || || |||| ||| ||||| | || | ||||| || || | Sbjct 735643 AGCTGTTTACCAGCGAAGATTAATCTCTGCTGATCCGGAGGAATGCCTTCCTTGTCCTGG 735702 Query 43021 ATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGC-CTCGACGTCTACCGTTATAGTTTT 43079 ||| | || || || | | ||||| ||| |||||| || | || || || || Sbjct 735703 ATCTTTGCCTTCACATTGTCGATGGTGTCTG-AGCTCTCGACCTCGAGAGTGATGGTCTT 735761 Query 43080 TCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 || ||||| |||||||||||||||||||| Sbjct 735762 GCCAGTTAGTGTTTTCACAAAAATTTGCAT 735791 >seq2 Length=14066726 Score = 87.8 bits (96), Expect = 1e-12 Identities = 149/211 (71%), Gaps = 4/211 (2%) Strand=Plus/Plus Query 42901 ACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGACAATGTACGTTCGTCGTCC 42960 ||||| |||| ||| ||||| || | ||||||||| | ||| |||||| | || || Sbjct 7053625 ACCAAGTGGAGAGTTGATTCCTTCTGTATATTGTAATCCGCCAAGGTACGTCCATCCTCA 7053684 Query 42961 AATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGCACACCTTCTTTTTCGCTG 43020 | ||||| |||||||| ||||||| || ||||| | || | ||||| || || ||| Sbjct 7053685 AGCTGTTTACCGGCAAAGATCAATCTTTGCTGATCCGGAGGGATCCCTTCCTTGTC-CTG 7053743 Query 43021 A-TCAACTCTTTGACTCTGCCAACTGTGTCGCCAGC-CTCGACGTCTACCGTTATAGTTT 43078 | || | || || || | | ||||| ||| ||| || || | || || || | Sbjct 7053744 AATCTTTGCCTTAACATTGTCGATAGTGTCAG-AGCTCTCTACCTCAAGAGTAATGGTCT 7053802 Query 43079 TTCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 | || || || |||||||| ||||||||||| Sbjct 7053803 TGCCAGTAAGTGTTTTCACGAAAATTTGCAT 7053833 >seq1 Length=19566579 Score = 86.0 bits (94), Expect = 5e-12 Identities = 157/230 (68%), Gaps = 0/230 (0%) Strand=Plus/Minus Query 42883 CCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGAC 42942 ||||| | ||| | | ||||||||| | || ||| || || | ||||| |||| Sbjct 8289972 CCTCCTCTCAGACGGAGCACCAAATGAAGCGTCGACTCTTTCTGGATGTTGTAGTCGGCG 8289913 Query 42943 AATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGC 43002 | ||| | |||| |||| ||||| ||||| || |||| ||||| || || | || Sbjct 8289912 AGTGTTCTCCCGTCTTCCAGCTGTTTCCCGGCGAAGATCAGACGCTGCTGGTCCGGTGGG 8289853 Query 43003 ACACCTTCTTTTTCGCTGATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGCCTCGACG 43062 | ||||| || || |||| | |||| || || | | ||||| | ||| || Sbjct 8289852 ATCCCTTCCTTGTCTTGGATCTTCGCTTTCACATTGTCGATCGTGTCTGATGACTCTACC 8289793 Query 43063 TCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCATTTT 43112 |||| ||||| || || || |||| ||||||||||| || |||||||| 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: 381366007140834