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_028093.1 Length=182309 Score E Sequences producing significant alignments: (Bits) Value seq5 129 7e-25 seq4 120 4e-22 seq8 114 2e-20 seq1 105 8e-18 >seq5 Length=13709650 Score = 129 bits (142), Expect = 7e-25 Identities = 392/601 (65%), Gaps = 16/601 (3%) Strand=Plus/Minus Query 94345 GAACCTCTCCTAGCCCCCACACTAAACAGATTTACTGTGTTCCCCCTGAAGTATCCACAC 94404 || || || ||| |||| || | | ||||||| | ||||||| | | || ||||| Sbjct 2138800 GAGCCGCTTCTAACCCCAACCCCAGACAGATTCTGTATGTTCCCAATCCACTACCCACAG 2138741 Query 94405 CTCTGGGAACTCTATAAGAAGGCTCAAATGAGTAAT-TGGACTGCTGAAGAGGTAGATCT 94463 ||||||| | || ||||| || | || | | ||||| |||||||| |||||||| Sbjct 2138740 ATCTGGGAGATGTACAAGAAAGC-CGAAGCATCCTTCTGGACCGCTGAAGAAGTAGATCT 2138682 Query 94464 CTCAAAGGATTTGGACGATTGGAAGAC---TCTAAATGAAAATGAAAAGAAATTCATAAA 94520 |||| | || ||||||| ||| ||| || || ||| | ||||| || Sbjct 2138681 CTCACAAGACAACCGCGATTGGGAGAACAGTCTCAACGACGGCGAACGTCACTTCATCAA 2138622 Query 94521 ATACATCCTGGCATTCTTTGCTGGATCCGATGGAATTGTTTTTGAGAATATCAATAACAA 94580 | || |||| || ||||| |||| |||||| ||||| ||||| |||||| || | Sbjct 2138621 ACACGTCCTCGCTTTCTTCGCTGCATCCGACGGAATCGTTTTAGAGAATCTCGCTT---- 2138566 Query 94581 CTTTGCTGATG----AGGTGCAATCCTCTGAAGCGAGATCCTTCTATGCGTATCAGTGTC 94636 || | | ||| | || ||| ||| || ||| | | ||||| | | ||| Sbjct 2138565 CTCGGTTCATGTCCGATGTCCAAGTCTCGGAGGCGCGTGCTTTCTACGGTTTCCAGATCG 2138506 Query 94637 ATAATGAAATGGTGCATGGGGAGACATACAGTAAACTCATAGACAAGTATATTAAGGATG 94696 | ||| | | ||| |||| || ||| || | || | || || || ||| Sbjct 2138505 CGATTGAGAATATTCATTCTGAGATGTATAGTCTTCTTCTCGATACTTACATCAAAGATA 2138446 Query 94697 GTGCTGAGAAGAAGCAGCTCTTTGAAGCCATCCAAACAGTTCCGTGTATTCAAAAGAAAG 94756 |||| | || ||||| || || | || |||| || | ||||||| Sbjct 2138445 ACAAAGAGAGAGACCATCTCTTCCGCGCGATTGAGACGATTCCTTGCGTCGCGAAGAAAG 2138386 Query 94757 CGGATTGGGCTATGAAGTGGTTTGATACAAAGTCGCGTTCCTTTGCTGAGCGACTCTTCG 94816 | | ||||| ||||| ||| | || | || | |||||||||| ||| || | | Sbjct 2138385 CTCAGTGGGCGATGAAATGGATCGACGGA---TCTCAGACCTTTGCTGAACGAATCGTTG 2138329 Query 94817 CATTTGCGTGTGTTGAGGGTATCTTCTTCTCTGGTTCCTTCTGCGCTATTTATTGGCTCA 94876 | || || |||||||| |||||||||||||| || ||||||| | || | ||||| | Sbjct 2138328 CTTTCGCTTGTGTTGAAGGTATCTTCTTCTCCGGAAGCTTCTGCTCCATCTTCTGGCTTA 2138269 Query 94877 AGAAGCGAGGTCTCATGCCAGGTCTCTGCTTCTCCAACGAGCTTATCTCTCGTGACGAGG 94936 |||| ||||| |||||||| || | ||||| ||||| | |||||||| ||||| | Sbjct 2138268 AGAAACGAGGACTCATGCCTGGGTTAACTTTCTCAAACGAATTGATCTCTCGAGACGAAG 2138209 Query 94937 G 94937 | Sbjct 2138208 G 2138208 >seq4 Length=14994381 Score = 120 bits (132), Expect = 4e-22 Identities = 303/454 (67%), Gaps = 10/454 (2%) Strand=Plus/Minus Query 9524 CGATCAAAGCGACCTGGACGAAGGAGCGCGTCATCAAGGATATCAACGCGATTCGTCGCG 9583 |||||||| || ||||| | | | || |||||| || || | | ||| || || Sbjct 7884121 CGATCAAACCGTCCTGGCCTCAACAAAGCAGAATCAAGAATGTCTGCTCTATTGGTTGCA 7884062 Query 9584 GCGATGACAACAATACCTGTTTCATTATCAAAACCATCCATCTCTGTCAAAAGTTGGTTA 9643 || | || | || ||| || | | ||||||||||||||||| || | || || || Sbjct 7884061 GCAACTACGATAACACCAGTGTTACCTTCAAAACCATCCATCTCAGTTAGGAGCTGATTG 7884002 Query 9644 ATAGTTTGTTCCCGTTCATCATTCGCTGGCATACCA---CCAGCACTGCGTTGCTTTCCC 9700 | || ||||| | ||||||||| || |||| || | | | |||| | || Sbjct 7884001 AGGGTCTGTTCTCTTTCATCATTACCT---CCACCAATTCCGGTCCCTCTTTGCCTGCCG 7883945 Query 9701 ACGGCATCAATCTCATCAATGAAGACGATGCATGGTTGATTTTCGCGAGC-GACTTCAAA 9759 || ||||| || ||||| | ||||| ||||| || ||| || || ||| ||| Sbjct 7883944 ACAGCATCTATTTCATCTACAAAGACAATGCAAGGAGCATTCTCCTTGGCTTTCTTGAAA 7883885 Query 9760 GAGATCCCGTACACGCTTGGCGCCCACACCAACAAACATCTCCACAAAGTTTGCGGCGGA 9819 ||||| || || | ||| || ||||| ||||||||||| ||||| | | | | Sbjct 7883884 -AGATCACGGACTCTTGAGGCACCGACACCGACAAACATCTCAACAAACTCAGAACCAG- 7883827 Query 9820 ACATTG-GATGAAGGGGACATTAGATTCACCCGCAATGGCTCGGGCGAGAAGAGTCTTAC 9878 | || | || ||| || ||| || |||||| ||||||||| || | ||| || || | Sbjct 7883826 AGATGGAGAAGAAAGGCACACCAGCTTCACCAGCAATGGCTTTTGCCAAAAGGGTTTTCC 7883767 Query 9879 CCGTACCTGGCTTACCCGCGAGGAGGGCACCTCGTGGAATCTTGGCGCCACTTCCAAAGT 9938 | ||||| || ||| ||||| ||||| || |||||||| ||| || | Sbjct 7883766 CGGTACCAGGAGGACCAATCAGGAGAACACCTTTGGGGATCTTGGCACCAACCGCAGTGA 7883707 Query 9939 ATCTCTCAGGTTGCTTAAGAAAATCCACAATTTC 9972 ||||||| |||| ||| ||||| ||||| | ||| Sbjct 7883706 ATCTCTCGGGTTTCTTCAGAAACTCCACCACTTC 7883673 >seq8 Length=13324298 Score = 114 bits (126), Expect = 2e-20 Identities = 199/282 (71%), Gaps = 12/282 (4%) Strand=Plus/Plus Query 9613 AAAACCATCCATCTCTGTCAAAAGTTGGTTAATAGTTTGTTCCCGTTCATCATTCGCTGG 9672 ||| ||||||||||| |||||||| || ||||| || ||||||| |||||||| | Sbjct 3556070 AAATCCATCCATCTCAGTCAAAAGCTGATTAATCGTCTGTTCCCTCTCATCATTTCC--A 3556127 Query 9673 CATACCA--CCAGCACTGCGTTGCTTTCCCACGGCATCAATCTCATCAATGAAGACGATG 9730 | | ||| ||||| | | |||| | || || ||||||||||||||||| || || ||| Sbjct 3556128 CCTCCCATCCCAGCTCCTCTTTGCCTACCAACAGCATCAATCTCATCAATAAACACAATG 3556187 Query 9731 CATGGTTGATTTTCGCGAGCGACT--TCAAAGAGATCCCGTACACGCTTG--GCGCCCAC 9786 || || ||||| || || ||||| | ||||| || || || | || ||||| Sbjct 3556188 CAAGG--AGCTTTCGACTTCGCCTTCTCAAACAAATCCC-TA-ACTCTAGACGCACCCAC 3556243 Query 9787 ACCAACAAACATCTCCACAAAGTTTGCGGCGGAACATTGGATGAAGGGGACATTAGATTC 9846 ||||||||| | ||| ||||| | | || | ||| | ||| || || || ||| Sbjct 3556244 ACCAACAAAAAGCTCAACAAACTCCGAAGCAGCACAAGAAAAGAACGGCACTCCAGCTTC 3556303 Query 9847 ACCCGCAATGGCTCGGGCGAGAAGAGTCTTACCCGTACCTGG 9888 || || | |||| || | ||| ||||| |||||||| || Sbjct 3556304 TCCAGCCACAGCTCTAGCCAAAAGCGTCTTCCCCGTACCCGG 3556345 >seq1 Length=19566579 Score = 105 bits (116), Expect = 8e-18 Identities = 253/375 (67%), Gaps = 12/375 (3%) Strand=Plus/Plus Query 9613 AAAACCATCCATCTCTGTCAAAAGTTGGTTAATAGTTTGTTCCCGTTCATCATTCGCTGG 9672 ||| ||||||||||||||||| | || ||||| || ||||| | |||||||| || Sbjct 17296151 AAATCCATCCATCTCTGTCAACAACTGATTAATGGTCTGTTCTCTCTCATCATTTCCT-- 17296208 Query 9673 CATACCA--CCAGCACTGCGTTGCTTTCCCACGGCATCAATCTCATCAATGAAGACGATG 9730 | | ||| ||||| | | ||| | ||||| || ||||||||||||||||| || || Sbjct 17296209 CCTCCCATCCCAGCTCCTCTCTGCCTCCCCACAGCGTCAATCTCATCAATGAATACAATA 17296268 Query 9731 CATGGTTGATTTTCG--CGAGCGACTTCAAAGAGATCCCGTACACGCTTG--GCGCCCAC 9786 || || | ||||| ||| || || | ||||| || || || | || ||||| Sbjct 17296269 CAAGG--GGCTTTCGACTTAGCCTTCTCGAACAAATCCC-TA-ACTCTAGATGCACCCAC 17296324 Query 9787 ACCAACAAACATCTCCACAAAGTTTGCGGCGGAACATTGGATGAAGGGGACATTAGATTC 9846 ||| || || | ||||||||| | || ||| | || || ||| || || | ||| Sbjct 17296325 ACCCACGAAAAGCTCCACAAACTCTGAGGCCGCGCAAGAGAAGAACGGTACTCCTGCTTC 17296384 Query 9847 ACCCGCAATGGCTCGGGCGAGAAGAGTCTTACCCGTACCTGGCTTACCCGCGAGGAGGGC 9906 || || | || | ||| | || |||||||||||||| ||| || | || | Sbjct 17296385 CCCAGCTACAGCCCTGGCCAAGAGGGTCTTACCCGTACCAGGCGGTCCAACAAGCAAACA 17296444 Query 9907 ACCTCGTGGAATCTTGGCGCCACTTCCAAAGTATCTCTCAGGTTGCTTAAGAAAATCCAC 9966 ||| ||||||||||| || | ||| | ||||| | ||| | |||||||| Sbjct 17296445 CCCTTTAGGAATCTTGGCACCCAAGGCTGTGTACTTATCAGGATTCTTCAAGAAATCCAC 17296504 Query 9967 AATTTCTTCCAATTC 9981 || ||| | ||||| Sbjct 17296505 AACTTCCTGTAATTC 17296519 Score = 104 bits (114), Expect = 3e-17 Identities = 302/457 (66%), Gaps = 16/457 (4%) Strand=Plus/Plus Query 9524 CGATCAAAGCGACCTGGACGAAGGAGCGCGTCATCAAGGATATCAACGCGATTCGTCGCG 9583 || || || || ||||| | || | ||| ||||| || || | | || || || Sbjct 2023566 CGGTCGAACCGCCCTGGTCTTAGCAAAGCGGAGTCAAGAATGTCTGCTCTGTTGGTTGCA 2023625 Query 9584 GCGATGACAACAATACCTGTTTCATTATCAAAACCATCCATCTCTGTCAAAAGTTGGTTA 9643 || | |||| || ||| || | | ||||||||||||||||| |||| ||| || ||| Sbjct 2023626 GCAACTACAATAACACCAGTGTTACCCTCAAAACCATCCATCTCAGTCAGAAGCTGATTA 2023685 Query 9644 ATAGTTTGTTCCCGTTCATCATTCGCTGGCATACCA---CCAGCACTGCGTTGCTTTCCC 9700 | || ||||| | ||||||||| || |||| || | | | |||| | || Sbjct 2023686 AGGGTCTGTTCTCTTTCATCATTACCT---CCACCAATTCCGGTTCCTCTTTGCCTACCA 2023742 Query 9701 ACGGCATCAATCTCATCAATGAAGACGATGCATGGTTGATTTTCGCGAGCGACTTCAAAG 9760 || ||||| || ||||| | || || ||||| || ||| || || || || Sbjct 2023743 ACAGCATCTATTTCATCCACAAAAACTATGCACGGAGCATTCTCTTTTGCTTTTTTGAAA 2023802 Query 9761 AGATCCCGTACACGCTTG--GCGCCCACACCAACAAACATCTCCACAAAGTTTGCGGCGG 9818 ||||| || || |||| || || ||||||||||||||||| ||||| | | | | Sbjct 2023803 AGATCACG--GACCCTTGATGCACCAACACCAACAAACATCTCAACAAACTCAGAACCCG 2023860 Query 9819 AACATTG-GATGAAGGGGACATTAGATTCACCCGCAATGGCTCGGGCGAGAAGAGTCTTA 9877 | || | | |||||| ||| || |||||| ||||| ||| || | || || ||| Sbjct 2023861 -AGATGGAAAAGAAGGGTACACCAGCTTCACCAGCAATAGCTTTTGCCAACAGGGTTTTA 2023919 Query 9878 CCCGTACCTGGCTTACCCGCGAGGAGGGCACCTCGTGGAATCTTGGCGCCACTTCCAAAG 9937 || ||||| || ||| ||||| |||| || ||| ||| ||| || || Sbjct 2023920 CCAGTACCAGGAGGACCTATAAGGAGAACACCCTTGGGGATCCGGGCTCCA--ACCGCAG 2023977 Query 9938 T--ATCTCTCAGGTTGCTTAAGAAAATCCACAATTTC 9972 | | |||||||| | ||| ||||| ||||| | ||| Sbjct 2023978 TAAACCTCTCAGGCTTCTTCAGAAACTCCACCACTTC 2024014 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 583255164242520