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_029304.1 Length=111246 Score E Sequences producing significant alignments: (Bits) Value seq6 116 3e-21 seq7 98.7 7e-16 seq2 89.7 4e-13 >seq6 Length=16577294 Score = 116 bits (128), Expect = 3e-21 Identities = 159/220 (72%), Gaps = 4/220 (2%) Strand=Plus/Minus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 ||||||||||| |||||||| || ||||| || || || |||| ||||| ||| | Sbjct 6991108 ATGCAAATTTTCGTGAAAACACTCACTGGTAAGACCATCACTCTTGAGGTCGAGAGCTCT 6991049 Query 27850 GACG--ATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 ||| || ||||| || || ||| || ||||| ||||| |||| ||| | Sbjct 6991048 GACACCATCGACAAT--GTTAAGGCAAAGATCCAGGACAAGGAAGGCATTCCTCCGGACC 6990991 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAGCTTGTCCGATTACA 27967 ||||| | || || || ||||| ||||| | || || | |||| |||| ||||||||| Sbjct 6990990 AGCAAAGATTGATCTTCGCCGGTAAACAGCTTGAAGATGGCCGCACCTTGGCCGATTACA 6990931 Query 27968 ACATCCAAAAAGAGAGCACTTTGCATTTGGTTTTGCGTTT 28007 ||||||| |||||| ||| | ||||||||| | ||||| Sbjct 6990930 ACATCCAGAAAGAGTCCACCCTCCATTTGGTTCTCCGTTT 6990891 Score = 93.3 bits (102), Expect = 3e-14 Identities = 159/229 (69%), Gaps = 4/229 (2%) Strand=Plus/Plus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 ||||| || || ||||||||||| || || || || || | || || |||||| | Sbjct 14990613 ATGCAGATCTTCGTGAAAACTCTCACCGGAAAGACAATCACCTTGGAAGTTGAAAGCTCG 14990672 Query 27850 GACG--ATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 ||| || |||| || || || || |||||||| ||| | || ||| | Sbjct 14990673 GACACCATCGACAAC--GTGAAGGCCAAGATCCAGGACAAAGAGGGTATCCCACCGGACC 14990730 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAGCTTGTCCGATTACA 27967 |||| |||| || ||||||||||| || ||||| || | || | |||| |||| |||| Sbjct 14990731 AGCAGAGGTTGATCTTTGCCGGAAAGCAGTTGGAGGATGGTCGTACCTTGGCCGACTACA 14990790 Query 27968 ACATCCAAAAAGAGAGCACTTTGCATTTGGTTTTGCGTTTGCGTGGCGG 28016 ||||||| || ||| || | || ||||| |||||| | ||||| || Sbjct 14990791 ACATCCAGAAGGAGTCAACCCTTCACTTGGTCTTGCGTCTACGTGGTGG 14990839 Score = 89.7 bits (98), Expect = 4e-13 Identities = 100/134 (75%), Gaps = 0/134 (0%) Strand=Plus/Plus Query 27883 GACAAAGAAGGTGTTCCGATGGAGCAGCAACGGTTAATTTTTGCCGGAAAACAATTGGAC 27942 |||||||| ||| | || ||| ||||| |||| || ||||| ||||| || ||||| Sbjct 14990478 GACAAAGAGGGTATCCCACCGGACCAGCAGAGGTTGATCTTTGCTGGAAAGCAGTTGGAG 14990537 Query 27943 GACGAACGCAGCTTGTCCGATTACAACATCCAAAAAGAGAGCACTTTGCATTTGGTTTTG 28002 |||| | | |||| | || |||||||||||||| ||| || | || ||||| ||| Sbjct 14990538 GACGGCAGAACCTTGGCTGACTACAACATCCAAAAGGAGTCTACCCTTCACTTGGTCTTG 14990597 Query 28003 CGTTTGCGTGGCGG 28016 ||| ||||||| || Sbjct 14990598 CGTCTGCGTGGAGG 14990611 Score = 87.8 bits (96), Expect = 1e-12 Identities = 158/229 (69%), Gaps = 4/229 (2%) Strand=Plus/Minus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 |||||||||||||||||||| || ||||| || || || | || ||||| ||| | Sbjct 735791 ATGCAAATTTTTGTGAAAACACTAACTGGCAAGACCATCACTCTCGAGGTCGAGAGCTCA 735732 Query 27850 GACG--ATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 ||| || ||||| || || ||| || ||||| ||||| |||| ||| | Sbjct 735731 GACACCATCGACAAT--GTGAAGGCAAAGATCCAGGACAAGGAAGGCATTCCTCCGGATC 735674 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAGCTTGTCCGATTACA 27967 |||| | ||||| || || || ||||| | || || | || | |||| | ||||||| Sbjct 735673 AGCAGAGATTAATCTTCGCTGGTAAACAGCTCGAAGATGGCCGTACCTTGGCTGATTACA 735614 Query 27968 ACATCCAAAAAGAGAGCACTTTGCATTTGGTTTTGCGTTTGCGTGGCGG 28016 ||||||| || ||| || | || |||||| | || ||| | || || Sbjct 735613 ACATCCAGAAGGAGTCGACCCTCCACTTGGTTCTCCGGTTGAGAGGTGG 735565 Score = 87.8 bits (96), Expect = 1e-12 Identities = 158/229 (69%), Gaps = 4/229 (2%) Strand=Plus/Minus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 ||||| || |||||||| ||||| ||||| ||| || || | || || || ||| | Sbjct 6990652 ATGCAGATCTTTGTGAAGACTCTCACTGGTAAAACAATCACCCTAGAGGTTGAGAGCTCA 6990593 Query 27850 GA--CGATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 || | || ||||| |||||| || || || ||||| || | || ||| | Sbjct 6990592 GATACCATTGACAAT--GTCAAAGCTAAGATCCAAGATAAAGAGGGAATCCCACCGGATC 6990535 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAGCTTGTCCGATTACA 27967 |||| || | || |||||||| || || | || || | |||| |||| | ||||||| Sbjct 6990534 AGCAGAGGCTTATCTTTGCCGGTAAGCAGCTAGAGGATGGTCGCACCTTGGCTGATTACA 6990475 Query 27968 ACATCCAAAAAGAGAGCACTTTGCATTTGGTTTTGCGTTTGCGTGGCGG 28016 ||||||| |||||| ||| | |||||||| | ||| || | || || Sbjct 6990474 ACATCCAGAAAGAGTCCACCCTCCATTTGGTGCTTCGTCTGAGAGGTGG 6990426 >seq7 Length=17303919 Score = 98.7 bits (108), Expect = 7e-16 Identities = 163/231 (71%), Gaps = 6/231 (3%) Strand=Plus/Minus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 |||||||| |||||||||||||| || || ||| ||||| | || || || ||| | Sbjct 14231875 ATGCAAATATTTGTGAAAACTCTCACCGGCAAAACCATTACTCTAGAAGTTGAGAGCTCT 14231816 Query 27850 GACG--ATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 ||| || ||||| |||||| || || ||||| ||||| | || ||| | Sbjct 14231815 GACACCATTGACAAT--GTCAAAGCCAAGATCCAAGACAAGGAAGGGATCCCTCCGGACC 14231758 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAG-CTTGTCCGATTAC 27966 | ||||| | || ||||| || || ||| | || || | || | |||| | |||||| Sbjct 14231757 AACAACGACTTATCTTTGCGGGCAAGCAACTCGAGGATGGTCGGACACTTG-CGGATTAC 14231699 Query 27967 AACATCCAAAAAGAGAGCACTTTGCATTTGGTTTTGCGTTTGCGTGGCGGC 28017 |||||||| || ||| ||| ||||||||||| | ||| | ||||| ||| Sbjct 14231698 AACATCCAGAAGGAGTCAACTCTGCATTTGGTTCTTCGTCTTCGTGGTGGC 14231648 >seq2 Length=14066726 Score = 89.7 bits (98), Expect = 4e-13 Identities = 148/212 (70%), Gaps = 4/212 (2%) Strand=Plus/Minus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 ||||||||||| |||||||| |||||||| || ||||| |||| || || ||| | Sbjct 7053833 ATGCAAATTTTCGTGAAAACACTTACTGGCAAGACCATTACTCTTGAGGTAGAGAGCTCT 7053774 Query 27850 G--ACGATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 | || || ||||| || || ||| || ||||| ||||| | || ||| | Sbjct 7053773 GACACTATCGACAAT--GTTAAGGCAAAGATTCAGGACAAGGAAGGGATCCCTCCGGATC 7053716 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAGCTTGTCCGATTACA 27967 ||||| | || || |||||||| ||||| | || || | ||| | |||| | ||||||| Sbjct 7053715 AGCAAAGATTGATCTTTGCCGGTAAACAGCTTGAGGATGGACGTACCTTGGCGGATTACA 7053656 Query 27968 ACATCCAAAAAGAGAGCACTTTGCATTTGGTT 27999 | || || || || ||| | || |||||| Sbjct 7053655 ATATACAGAAGGAATCAACTCTCCACTTGGTT 7053624 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 355859047442571