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_028091.1 Length=196300 Score E Sequences producing significant alignments: (Bits) Value seq4 149 8e-31 seq1 145 1e-29 seq8 104 3e-17 seq5 100 4e-16 >seq4 Length=14994381 Score = 149 bits (164), Expect = 8e-31 Identities = 282/414 (68%), Gaps = 6/414 (1%) Strand=Plus/Minus Query 11482 ATCAAGGATATCCACGCGATTAGTGGCCGCAATAACCACAATGCCAGTCTCATTGTCAAA 11541 |||||| || || | | ||| || || |||| || | || ||||| | | ||||| Sbjct 7884089 ATCAAGAATGTCTGCTCTATTGGTTGCAGCAACTACGATAACACCAGTGTTACCTTCAAA 7884030 Query 11542 GCCATCCATCTCGGTGAGTAATTGATTAATTGTTTGTTCTCTCTCATCATTTGCTGGCAT 11601 ||||||||||| || || | ||||| | || |||||||| |||||||| || Sbjct 7884029 ACCATCCATCTCAGTTAGGAGCTGATTGAGGGTCTGTTCTCTTTCATCATTACCTCC--- 7883973 Query 11602 ACCA---CCAGCACTGCGTTGCTTGCCCACCGCATCAATCTCATCAATGAAGACAATACA 11658 |||| || | | | |||| |||| || ||||| || ||||| | |||||||| || Sbjct 7883972 ACCAATTCCGGTCCCTCTTTGCCTGCCGACAGCATCTATTTCATCTACAAAGACAATGCA 7883913 Query 11659 TGGTTGATTTTCGCGGGCGATTTCAAAGAGATCGCGAACCCTTTTGGCACCCACACCAAC 11718 || ||| || ||| | | || ||||| || || ||| |||||| ||||| || Sbjct 7883912 AGGAGCATTCTCCTTGGCTTTCTTGAAAAGATCACGGACTCTTGAGGCACCGACACCGAC 7883853 Query 11719 AAACATCTCCACAAAGTTTGCGGCAGAGCACTGGATGAATGGGACATTTGATTCACCCGC 11778 ||||||||| ||||| | | ||||| || ||| || ||| | |||||| || Sbjct 7883852 AAACATCTCAACAAACTCAGAACCAGAGATGGAGAAGAAAGGCACACCAGCTTCACCAGC 7883793 Query 11779 GATGGCTCGGGCGAGGAGGGTCTTTCCCGTACCTGGCTTACCCGCGAGAAGGGCGCCTCG 11838 |||||| || | ||||| || || ||||| || ||| || || | ||| Sbjct 7883792 AATGGCTTTTGCCAAAAGGGTTTTCCCGGTACCAGGAGGACCAATCAGGAGAACACCTTT 7883733 Query 11839 GGGGATCTTGGCACCACTTCCAAAATATCTCTCGGGTTGCTTGAGAAAATCCAC 11892 |||||||||||||||| || |||||||||||| ||| ||||| ||||| Sbjct 7883732 GGGGATCTTGGCACCAACCGCAGTGAATCTCTCGGGTTTCTTCAGAAACTCCAC 7883679 >seq1 Length=19566579 Score = 145 bits (160), Expect = 1e-29 Identities = 203/281 (72%), Gaps = 8/281 (3%) Strand=Plus/Plus Query 11539 AAAGCCATCCATCTCGGTGAGTAATTGATTAATTGTTTGTTCTCTCTCATCATTTGCTGG 11598 ||| ||||||||||| || | || |||||||| || |||||||||||||||||| || Sbjct 17296151 AAATCCATCCATCTCTGTCAACAACTGATTAATGGTCTGTTCTCTCTCATCATTTCCT-- 17296208 Query 11599 CATACCA--CCAGCACTGCGTTGCTTGCCCACCGCATCAATCTCATCAATGAAGACAATA 11656 | | ||| ||||| | | ||| | ||||| || ||||||||||||||||| |||||| Sbjct 17296209 CCTCCCATCCCAGCTCCTCTCTGCCTCCCCACAGCGTCAATCTCATCAATGAATACAATA 17296268 Query 11657 CATGGTTGATTTTCGCGG--GCGATTTCAAAGAGATCGCGAACCCTTTTGGCACCCACAC 11714 || || | ||||| || | || || | ||| | ||| || |||||||||| Sbjct 17296269 CAAGG--GGCTTTCGACTTAGCCTTCTCGAACAAATCCCTAACTCTAGATGCACCCACAC 17296326 Query 11715 CAACAAACATCTCCACAAAGTTTGCGGCAGAGCACTGGATGAATGGGACATTTGATTCAC 11774 | || || | ||||||||| | || ||| | ||| || ||| || || || ||| | Sbjct 17296327 CCACGAAAAGCTCCACAAACTCTGAGGCCGCGCAAGAGAAGAACGGTACTCCTGCTTCCC 17296386 Query 11775 CCGCGATGGCTCGGGCGAGGAGGGTCTTTCCCGTACCTGGC 11815 | || | || | ||| | ||||||||| |||||||| ||| Sbjct 17296387 CAGCTACAGCCCTGGCCAAGAGGGTCTTACCCGTACCAGGC 17296427 Score = 100 bits (110), Expect = 4e-16 Identities = 273/415 (66%), Gaps = 10/415 (2%) Strand=Plus/Plus Query 11483 TCAAGGATATCCACGCGATTAGTGGCCGCAATAACCACAATGCCAGTCTCATTGTCAAAG 11542 ||||| || || | | || || || |||| || | || ||||| | | ||||| Sbjct 2023599 TCAAGAATGTCTGCTCTGTTGGTTGCAGCAACTACAATAACACCAGTGTTACCCTCAAAA 2023658 Query 11543 CCATCCATCTCGGTGAGTAATTGATTAATTGTTTGTTCTCTCTCATCATTTGCTGGCATA 11602 ||||||||||| || || | ||||||| || |||||||| |||||||| || | Sbjct 2023659 CCATCCATCTCAGTCAGAAGCTGATTAAGGGTCTGTTCTCTTTCATCATTACCTCC---A 2023715 Query 11603 CCA---CCAGCACTGCGTTGCTTGCCCACCGCATCAATCTCATCAATGAAGACAATACAT 11659 ||| || | | | |||| | || || ||||| || ||||| | || || || || Sbjct 2023716 CCAATTCCGGTTCCTCTTTGCCTACCAACAGCATCTATTTCATCCACAAAAACTATGCAC 2023775 Query 11660 GGTTGATTTTCGCGGGCGATTTCAAAGAGATCGCGAACCCTTTTGGCACCCACACCAACA 11719 || ||| || || ||| || ||||| || |||||| ||||| ||||||||| Sbjct 2023776 GGAGCATTCTCTTTTGCTTTTTTGAAAAGATCACGGACCCTTGATGCACCAACACCAACA 2023835 Query 11720 AACATCTCCACAAAGTTTGCGGCAGAGCACTGG--ATGAATGGGACATTTGATTCACCCG 11777 |||||||| ||||| | | | ||| ||| | ||| || ||| | |||||| | Sbjct 2023836 AACATCTCAACAAACTCAGAACCCGAG--ATGGAAAAGAAGGGTACACCAGCTTCACCAG 2023893 Query 11778 CGATGGCTCGGGCGAGGAGGGTCTTTCCCGTACCTGGCTTACCCGCGAGAAGGGCGCCTC 11837 | || ||| || | ||||| || || ||||| || ||| || || | || Sbjct 2023894 CAATAGCTTTTGCCAACAGGGTTTTACCAGTACCAGGAGGACCTATAAGGAGAACACCCT 2023953 Query 11838 GGGGGATCTTGGCACCACTTCCAAAATATCTCTCGGGTTGCTTGAGAAAATCCAC 11892 ||||||| ||| ||| || | | ||||| || | ||| ||||| ||||| Sbjct 2023954 TGGGGATCCGGGCTCCAACCGCAGTAAACCTCTCAGGCTTCTTCAGAAACTCCAC 2024008 >seq8 Length=13324298 Score = 104 bits (114), Expect = 3e-17 Identities = 193/279 (69%), Gaps = 6/279 (2%) Strand=Plus/Plus Query 11539 AAAGCCATCCATCTCGGTGAGTAATTGATTAATTGTTTGTTCTCTCTCATCATTTGCTGG 11598 ||| ||||||||||| || | | |||||||| || ||||| |||||||||||| | Sbjct 3556070 AAATCCATCCATCTCAGTCAAAAGCTGATTAATCGTCTGTTCCCTCTCATCATTTCC--A 3556127 Query 11599 CATACCA--CCAGCACTGCGTTGCTTGCCCACCGCATCAATCTCATCAATGAAGACAATA 11656 | | ||| ||||| | | |||| | || || ||||||||||||||||| || ||||| Sbjct 3556128 CCTCCCATCCCAGCTCCTCTTTGCCTACCAACAGCATCAATCTCATCAATAAACACAATG 3556187 Query 11657 CATGGTTGATTTTCGC-GGGCGATTTCAAAGAGATCGCGAACCCTTTTGGCACCCACACC 11715 || || | ||| | || | ||||| | ||| | ||| || ||||||||||| Sbjct 3556188 CAAGG-AGCTTTCGACTTCGCCTTCTCAAACAAATCCCTAACTCTAGACGCACCCACACC 3556246 Query 11716 AACAAACATCTCCACAAAGTTTGCGGCAGAGCACTGGATGAATGGGACATTTGATTCACC 11775 |||||| | ||| ||||| | | |||| || | ||| || || | ||| || Sbjct 3556247 AACAAAAAGCTCAACAAACTCCGAAGCAGCACAAGAAAAGAACGGCACTCCAGCTTCTCC 3556306 Query 11776 CGCGATGGCTCGGGCGAGGAGGGTCTTTCCCGTACCTGG 11814 || | |||| || | || ||||| |||||||| || Sbjct 3556307 AGCCACAGCTCTAGCCAAAAGCGTCTTCCCCGTACCCGG 3556345 >seq5 Length=13709650 Score = 100 bits (110), Expect = 4e-16 Identities = 136/189 (72%), Gaps = 3/189 (2%) Strand=Plus/Plus Query 122677 CCCTCATCTCGGGAAATAAGTTCATTTGAGAAGCATAGACCTGGCATGAGACCCCGCTTC 122736 || || ||||| || || | ||| |||||||| || || |||||||| || || ||| Sbjct 2138208 CCTTCGTCTCGAGAGATCAATTCGTTTGAGAAAGTTAACCCAGGCATGAGTCCTCGTTTC 2138267 Query 122737 TTCAACCAATAAATAGCGCAGAATGACCCGGAGAAGAAGATACCCTCCACACACGCAAAC 122796 || | ||| | || | |||||| ||||||||||||||||| || ||||| || || Sbjct 2138268 TTAAGCCAGAAGATGGAGCAGAAGCTTCCGGAGAAGAAGATACCTTCAACACAAGCGAAA 2138327 Query 122797 GCAAAAAGGCGTTCGGCGAAGGAGCGAGACTTTGCATCAAACCATTTCATTGCCCATTTC 122856 |||| | ||||| || |||| |||| | | || | ||||||||| ||||| | Sbjct 2138328 GCAACGATTCGTTCAGCAAAGGTCTGAGA---TCCGTCGATCCATTTCATCGCCCACTGA 2138384 Query 122857 GCCTTCTTC 122865 || |||||| Sbjct 2138385 GCTTTCTTC 2138393 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 628025931640800