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: Brassica_20rapa_20[refseq_20GCF_5F000309985.1_202012-11-07] 40,249 sequences; 284,129,391 total letters Query= NC_009127.1 Length=295146 Score E Sequences producing significant alignments: (Bits) Value seq2 242 7e-59 seq6 237 3e-57 >seq2 Length=27864329 Score = 242 bits (268), Expect = 7e-59 Identities = 447/652 (69%), Gaps = 19/652 (3%) Strand=Plus/Plus Query 42300 ATCTGGTCCATGTACAAGAAGGCGCAGTTCTCCAACTGGACCGCCGAGGAGATTGACCTG 42359 |||||| ||||||||||| || | |||| ||||||||||||||| | ||||| Sbjct 22153031 ATCTGGGAGATGTACAAGAAAGCCGAAGCCTCCTTCTGGACCGCCGAGGAAGTCGACCTC 22153090 Query 42360 GCCAAGGACACGGCCGGCTGGGAG-------TCACTGTCTGAGAACGAAAAGTTTTTCCT 42412 || | ||||| || ||||||| ||| | | | || || | ||| | Sbjct 22153091 TCCCAAGACACCCGCGACTGGGAGACCAACCTCAACGACGGCGAGCGCCAC----TTCAT 22153146 Query 42413 CAAAAACATACTGGCCTTCTTCGCCGCCTCTGACGGCATAGTCAATGAGAACCTGGCCAC 42472 |||| || | || ||||||||||||||||| ||||| || ||| ||||| || ||| | Sbjct 22153147 CAAACACGTCCTCGCCTTCTTCGCCGCCTCCGACGGAATCGTCCTCGAGAATCTCGCCTC 22153206 Query 42473 CAGGTTCATGAAAGAGGTGCAGTACTTTGAGGCGCGCTGCTTCTACGGCTTCCAGATAGC 42532 | |||||||| || |||||| || |||||||| ||||||||| |||||||| || Sbjct 22153207 CCGGTTCATGTCCGACGTGCAGGTCTCCGAGGCGCGTGCCTTCTACGGGTTCCAGATCGC 22153266 Query 42533 CATAGAGAACGTGCACTCTGAGGTGTACGCCAAACTGCTCAACACGTACATCCTGGATCC 42592 || ||||| | ||||| ||| ||||| | |||| | || |||||| ||| Sbjct 22153267 GATTGAGAATATCCACTCGGAGATGTACAGCCTCTTGCTAGATACCTACATCAAGGACAA 22153326 Query 42593 CGTCGAGCGTAACGGGCTGTTCAAGGCCATGGAGACGATGCCCTGCATCAAGAAGAAGGC 42652 | ||| | || || ||| || || ||||| || || ||| || ||||||||| Sbjct 22153327 CAAGGAGAGGGACCATCTCTTCCGCGCGATTGAGACCATCCCTTGCGTCGCGAAGAAGGC 22153386 Query 42653 GGACTGGGCGCTCAACTGGATCGAGAGTCCCGACGCAACGTTCGGCGAGAGGCTGGTAGC 42712 | ||||| | || |||||||| | | | || |||| |||||| | || || Sbjct 22153387 CCAATGGGCCTTGAAGTGGATCGATGGATCTCA---GACTTTCGCAGAGAGGATCGTGGC 22153443 Query 42713 CTTTACCGCCGTCGAGGGCATCTTCTTCTCGGGCGCCTTCGCCTCCATCTTCTGGCTCAA 42772 ||| | ||| || || ||||||||||| || |||| |||||||||||||||||| Sbjct 22153444 CTTCGCGTGCGTGGAAGGGATCTTCTTCTCCGGAAGCTTCTGCTCCATCTTCTGGCTCAA 22153503 Query 42773 GCAG-AAGGTGTCGATGCCCGGACTCACCTTCTCGAACGAACTCATCAGCAGGGACGAGG 42831 | || ||| || ||||| || ||||||||||| ||||| || ||| ||||||| | Sbjct 22153504 GAAGCGAGGGCTC-ATGCCGGGGCTCACCTTCTCCAACGAGCTGATCTCGCGGGACGAAG 22153562 Query 42832 GGCTGCATAGGGACTTTGCCTGCCTCCTGTTCTCGAGCCACCTCAGGCACAAGCCCTCGA 42891 | || || | ||||| || || |||| ||| | | | ||| |||| ||| Sbjct 22153563 GCCTTCACTGCGACTTCGCGTG---CCTGATCTATACCTTGTTGAGGACGAAGCTATCGG 22153619 Query 42892 AGGAGCGGGTCCGGGCCATCATCACGGAGGCCGTGGAGATCGAGAAGGAGTT 42943 ||||||| || | | ||| | || || ||||||||||||| |||||| Sbjct 22153620 AGGAGCGCGTGAAGTCGATCGTGTGCGACGCGGTGGAGATCGAGAGGGAGTT 22153671 >seq6 Length=26286742 Score = 237 bits (262), Expect = 3e-57 Identities = 447/651 (69%), Gaps = 20/651 (3%) Strand=Plus/Plus Query 42300 ATCTGGTCCATGTACAAGAAGGCGCAGTTCTCCAACTGGACCGCCGAGGAGATTGACCTG 42359 |||||| |||||||||||||| || ||| |||||||||||| || | || || Sbjct 22599108 ATCTGGGAGATGTACAAGAAGGCCGAGGCCTCTTTCTGGACCGCCGAAGAAGTCGATCTC 22599167 Query 42360 GCCAAGGACACGGCCGGCTGGGAG----TCACTGTCTGAGAACGAAAAGTTTTTCCTCAA 42415 | | ||||| || ||||||| ||| | | |||| || | ||| |||| Sbjct 22599168 TCGCAAGACACTCGCGACTGGGAGAATCTCAACGACGGAGAGCGCCAC----TTCATCAA 22599223 Query 42416 AAACATACTGGCCTTCTTCGCCGCCTCTGACGGCATAGTCAATGAGAACCTGGCCACCAG 42475 | || | || ||||||||||||||||| ||||| || || ||||| || ||| || | Sbjct 22599224 ACACGTCCTCGCCTTCTTCGCCGCCTCCGACGGAATCGTTTTAGAGAATCTCGCCTCCCG 22599283 Query 42476 GTTCATGAAAGAGGTGCAGTACTTTGAGGCGCGCTGCTTCTACGGCTTCCAGATAGCCAT 42535 ||||||| || ||||| || |||||||| ||||||||| |||||||| || || Sbjct 22599284 GTTCATGTCCGACGTGCAAGTCTCCGAGGCGCGTGCCTTCTACGGGTTCCAGATCGCGAT 22599343 Query 42536 AGAGAACGTGCACTCTGAGGTGTACGCCAAACTGCTCAACACGTACATCCTGGATCCCGT 42595 ||||| | ||||| ||| ||||| | |||||| ||||||||||| ||| | Sbjct 22599344 TGAGAATATCCACTCAGAGATGTACAGCCTCCTGCTCGACACGTACATCAAGGACAACAA 22599403 Query 42596 CGAGCGTAACGGGCTGTTCAAGGCCATGGAGACGATGCCCTGCATCAAGAAGAAGGCGGA 42655 ||| | || || ||| || || || || || || ||| || ||||||||| | Sbjct 22599404 AGAGAGGGACCACCTCTTCCGCGCGATTGAAACCATCCCTTGCGTCGCGAAGAAGGCCCA 22599463 Query 42656 CTGGGCGCTCAACTGGATCGAGAGTCCCGA-CGCA-ACGTTCGGCGAGAGGCTGGTAGCC 42713 ||||| | || |||||||| | || | || || |||| ||||||| | || || Sbjct 22599464 ATGGGCCATGAAGTGGATCGA-----CGGATCTCAGACTTTCGCCGAGAGGATCGTGGCG 22599518 Query 42714 TTTACCGCCGTCGAGGGCATCTTCTTCTCGGGCGCCTTCGCCTCCATCTTCTGGCTCAAG 42773 ||| | ||| || || ||||||||||| || |||| ||||||||||||||| ||| Sbjct 22599519 TTTGCTTGCGTGGAAGGGATCTTCTTCTCCGGAAGCTTCTGCTCCATCTTCTGGCTGAAG 22599578 Query 42774 CAG-AAGGTGTCGATGCCCGGACTCACCTTCTCGAACGAACTCATCAGCAGGGACGAGGG 42832 || ||| || ||||| || | |||||||| ||||| | ||| | ||||| || Sbjct 22599579 AAGCGAGGGCTC-ATGCCGGGTTTAACCTTCTCCAACGAGTTGATCTCTCGAGACGAAGG 22599637 Query 42833 GCTGCATAGGGACTTTGCCTGCCTCCTGTTCTCGAGCCACCTCAGGCACAAGCCCTCGAA 42892 || || | ||||| ||||| |||| ||| | | | ||| |||| | || | Sbjct 22599638 CCTTCACTGCGACTTCGCCTG---CCTGATCTATACTCTATTGAGGACGAAGCTCACGGA 22599694 Query 42893 GGAGCGGGTCCGGGCCATCATCACGGAGGCCGTGGAGATCGAGAAGGAGTT 42943 |||||| || | | || || || || ||||||||||||| |||||| Sbjct 22599695 GGAGCGCGTGAAGTCGATTGTCTGCGACGCGGTGGAGATCGAGAGGGAGTT 22599745 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 943864091144240