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: Raphanus_20raphanistrum_20subsp._20raphanistrum_20[genbank_20GCA_5F0 00769845.1_202014-10-28] 64,732 sequences; 253,833,977 total letters Query= NC_003529.1 Length=155060 Score E Sequences producing significant alignments: (Bits) Value seq7912 109 5e-19 seq11485 107 2e-18 seq7348 107 2e-18 seq3667 105 7e-18 seq1045 105 7e-18 seq25552 104 2e-17 seq37186 102 8e-17 seq806 100 3e-16 seq2054 95.1 1e-14 seq4396 86.0 6e-12 seq3737 86.0 6e-12 >seq7912 Length=9007 Score = 109 bits (120), Expect = 5e-19 Identities = 148/204 (73%), Gaps = 2/204 (1%) Strand=Plus/Plus Query 139562 TGAATCGTAGACTCTTTTTGAATGTTATAATCGCTCATTGTGCTCGAGTCTTCGAGCTGT 139621 |||| ||||||||| ||||| ||||| || || || ||| || |||||||||||| Sbjct 6588 TGAAGCGTAGACTCCTTTTGGATGTTGTAGTCTGCCAATGTTCTGCCGTCTTCGAGCTGC 6647 Query 139622 TTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGTGATTTTT 139681 || || || |||| || | |||||||||||||| || ||||| ||||| ||| | || Sbjct 6648 TTGCCGGCGAAGATGAGCCTCTGCTGATCGGGAGGGATACCTTCCTTGTC-CTGAATCTT 6706 Query 139682 TG-TTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCTTGCCGGT 139740 | ||| | | || | |||||||| | |||||||| | ||| | ||||| || || Sbjct 6707 GGCTTTGACGTTGTCGATTGTGTCGGAGCTTTCCACCTCGAGGGTGATGGTCTTTCCCGT 6766 Query 139741 CAACGTTTTTACGAATATTTGCAT 139764 | || || ||||| || ||||| Sbjct 6767 GAGAGTCTTAACGAAGATCTGCAT 6790 Score = 86.0 bits (94), Expect = 6e-12 Identities = 155/227 (68%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 139538 CCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTC 139597 || || || | |||||| || ||||||| || ||||| ||||| || || || ||| Sbjct 6108 CCACCACGAAGACGCAACACCAAGTGAAGTGTGGACTCCTTTTGGATATTGTAGTCGGCT 6167 Query 139598 ATTGTGCTCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGT 139657 | |||| || || ||||| || ||||| |||| ||||| ||||| || ||||| Sbjct 6168 AAGGTGCGACCATCCTCAAGCTGCTTGCCAGCGAAGATGAGACGCTGCTGGTCCGGAGGG 6227 Query 139658 ATGCCTTCTTTGTCGGTGATTTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACC 139717 || ||||| || || ||| || || | | || | ||||| | | ||||||| Sbjct 6228 ATACCTTCCTTATCCTGGATCTTGGCCTTGACATTGTCAATGGTGTCAGAGCTCTCCACC 6287 Query 139718 TCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCAT 139764 || | || | ||||||||||| | || || || || || ||||| Sbjct 6288 TCCAACGTGATGGTCTTGCCGGTAAGTGTCTTGACAAAGATCTGCAT 6334 >seq11485 Length=6519 Score = 107 bits (118), Expect = 2e-18 Identities = 142/197 (72%), Gaps = 0/197 (0%) Strand=Plus/Minus Query 139568 GTAGACTCTTTTTGAATGTTATAATCGCTCATTGTGCTCGAGTCTTCGAGCTGTTTACCA 139627 || ||||| || || ||||| |||||| || |||| |||||| ||||| || ||| Sbjct 4674 GTTGACTCCTTCTGGATGTTGTAATCGGCCAGGGTGCGTCCGTCTTCTAGCTGCTTCCCA 4615 Query 139628 GCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGTGATTTTTTGTTTT 139687 || |||| || | ||||| |||||||| |||||||| ||||| ||| ||| || Sbjct 4614 GCGAAGATGAGCCTCTGCTGGTCGGGAGGGATGCCTTCCTTGTCCTGGATCTTTGCCTTG 4555 Query 139688 AGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCTTGCCGGTCAACGTT 139747 | | || | ||||||| | ||| ||||| | || | ||||||||||| | ||| Sbjct 4554 ACATTGTCTATAGTGTCGGAGCTCTCGACCTCGAGAGTGATGGTCTTGCCGGTGAGTGTT 4495 Query 139748 TTTACGAATATTTGCAT 139764 || ||||| |||||||| Sbjct 4494 TTCACGAAAATTTGCAT 4478 Score = 102 bits (112), Expect = 8e-17 Identities = 147/205 (72%), Gaps = 2/205 (1%) Strand=Plus/Minus Query 139562 TGAATCGTAGACTCTTTTTGAATGTTATAATCGCTCATTGTGC-TCGAGTCTTCGAGCTG 139620 |||| ||||||||| || ||||| || ||||| | |||| || | || || ||||| Sbjct 4908 TGAAGCGTAGACTCCTTCTGAATATTGTAATCCGCAAGCGTGCGTCCA-TCCTCAAGCTG 4850 Query 139621 TTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGTGATTTT 139680 ||||||||| |||| || | ||||| || ||||| || ||||| ||||| ||| || Sbjct 4849 TTTACCAGCGAAGATGAGTCTCTGCTGGTCCGGAGGAATTCCTTCCTTGTCCTGGATCTT 4790 Query 139681 TTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCTTGCCGGT 139740 | ||| | | || | ||||||| | ||| ||||| | || | |||||||| || Sbjct 4789 TGCTTTCACATTGTCAATAGTGTCGGAGCTCTCAACCTCCAAAGTGATGGTCTTGCCTGT 4730 Query 139741 CAACGTTTTTACGAATATTTGCATA 139765 ||| || || || || || |||||| Sbjct 4729 CAAAGTCTTGACAAAAATCTGCATA 4705 Score = 100 bits (110), Expect = 3e-16 Identities = 161/229 (70%), Gaps = 2/229 (1%) Strand=Plus/Minus Query 139538 CCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTC 139597 || || || | ||| | ||| ||||||| |||||||| || || ||||| ||||| | Sbjct 5160 CCACCACGAAGACGAAGAACCAAGTGAAGAGTAGACTCCTTCTGGATGTTGTAATCAGCC 5101 Query 139598 ATTGTGCTCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGT 139657 | || | || ||||||||||| ||||| |||| || | ||||| || ||||| Sbjct 5100 AAAGTCCGACCATCCTCGAGCTGTTTCCCAGCGAAGATGAGTCTCTGCTGGTCCGGAGGG 5041 Query 139658 ATGCCTTCTTTGTCGGTGATTTTTTG-TTTTAGCTGTTCCACTGTGTCGGTGGGCTCCAC 139716 |||||||| ||||| ||| | || | ||| | | || | ||||| | | |||||| Sbjct 5040 ATGCCTTCCTTGTC-CTGAATCTTCGCTTTCACATTGTCGATCGTGTCAGAGCTCTCCAC 4982 Query 139717 CTCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCATA 139765 |||| ||| | || || ||||| | || || ||||| || |||||| Sbjct 4981 TTCAAGGGTAATGGTTTTACCGGTGAGTGTCTTGACGAAAATCTGCATA 4933 >seq7348 Length=9517 Score = 107 bits (118), Expect = 2e-18 Identities = 150/208 (72%), Gaps = 2/208 (1%) Strand=Plus/Minus Query 139559 AAGTGAATCGTAGACTCTTTTTGAATGTTATAATC-GCTCATTGTGCTCGAGTCTTCGAG 139617 ||||||| || ||||| || || ||||| || || ||| | |||| || || || Sbjct 430 AAGTGAAGGGTCGACTCCTTCTGGATGTTGTAGTCTGCTAAG-GTGCGACCATCCTCAAG 372 Query 139618 CTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGTGAT 139677 ||| || ||||| |||| ||||| |||||||| ||||| |||||||| ||||| ||| Sbjct 371 CTGCTTTCCAGCGAAGATGAGACGCTGCTGATCCGGAGGGATGCCTTCCTTGTCCTGGAT 312 Query 139678 TTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCTTGCC 139737 || |||| | || | ||||| | | ||||||||||| || | ||||| || Sbjct 311 CTTGGCCTTTACGTTGTCAATGGTGTCAGAGCTCTCCACCTCAAGTGTGATGGTCTTACC 252 Query 139738 GGTCAACGTTTTTACGAATATTTGCATA 139765 ||||| || || |||||||| |||||| Sbjct 251 AGTCAAGGTCTTCACGAATATCTGCATA 224 >seq3667 Length=14967 Score = 105 bits (116), Expect = 7e-18 Identities = 160/228 (70%), Gaps = 0/228 (0%) Strand=Plus/Plus Query 139537 GCCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCT 139596 ||| || || | ||| | || | ||| | |||||||| || || ||||| || ||| Sbjct 5494 GCCACCGCGGAGACGGAGGACGAGGTGGAGAGTAGACTCCTTCTGGATGTTGTAGTCGGC 5553 Query 139597 CATTGTGCTCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGG 139656 | |||| | ||| ||||||||||| || || ||||||| || ||||| || ||||| Sbjct 5554 GAGGGTGCGCCCGTCCTCGAGCTGTTTCCCGGCGAAGATCAGCCGCTGCTGGTCCGGAGG 5613 Query 139657 TATGCCTTCTTTGTCGGTGATTTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCAC 139716 |||||||| ||||| ||| || ||| | | || | ||||||| | || || Sbjct 5614 GATGCCTTCCTTGTCCTGGATCTTGGCTTTGACATTGTCGATGGTGTCGGAAGATTCGAC 5673 Query 139717 CTCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCAT 139764 ||| | ||| | |||||| || || | ||||| ||||| || ||||| Sbjct 5674 CTCGAGGGTGATCGTCTTCCCCGTTAGGGTTTTCACGAAGATCTGCAT 5721 >seq1045 Length=26565 Score = 105 bits (116), Expect = 7e-18 Identities = 160/228 (70%), Gaps = 0/228 (0%) Strand=Plus/Plus Query 139537 GCCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCT 139596 ||| || || | ||| | || | ||| | |||||||| || || ||||| || ||| Sbjct 2791 GCCACCGCGGAGACGGAGGACGAGGTGGAGAGTAGACTCCTTCTGGATGTTGTAGTCGGC 2850 Query 139597 CATTGTGCTCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGG 139656 | |||| | ||| ||||||||||| || || ||||||| || ||||| || ||||| Sbjct 2851 GAGGGTGCGCCCGTCCTCGAGCTGTTTCCCGGCGAAGATCAGCCGCTGCTGGTCCGGAGG 2910 Query 139657 TATGCCTTCTTTGTCGGTGATTTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCAC 139716 |||||||| ||||| ||| || || | | || | ||||||| || ||| || Sbjct 2911 GATGCCTTCCTTGTCCTGGATCTTGGCCTTGACGTTGTCGATGGTGTCGGAGGACTCGAC 2970 Query 139717 CTCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCAT 139764 ||| | ||| | ||||| || || | ||||| ||||| || ||||| Sbjct 2971 CTCGAGGGTGATTGTCTTCCCCGTTAGGGTTTTCACGAAGATCTGCAT 3018 >seq25552 Length=2169 Score = 104 bits (114), Expect = 2e-17 Identities = 116/155 (75%), Gaps = 0/155 (0%) Strand=Plus/Minus Query 139610 TCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTG 139669 ||||||||||||||||| || |||||||||| |||||||| ||||| || ||||||||| Sbjct 399 TCTTCGAGCTGTTTACCGGCGAAGATCAGACGCTGCTGATCCGGAGGGATACCTTCTTTG 340 Query 139670 TCGGTGATTTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACC 139729 || ||| || ||| | | || | ||||||| || ||| || || | || | Sbjct 339 TCTTGGATCTTGGCTTTGACATTGTCGATGGTGTCGGAGGACTCGACTTCGAGAGTGATG 280 Query 139730 GTCTTGCCGGTCAACGTTTTTACGAATATTTGCAT 139764 |||||||| || | ||||| ||||| || ||||| Sbjct 279 GTCTTGCCCGTTAGGGTTTTCACGAAGATCTGCAT 245 >seq37186 Length=985 Score = 102 bits (112), Expect = 8e-17 Identities = 143/198 (72%), Gaps = 2/198 (1%) Strand=Plus/Plus Query 139568 GTAGACTCTTTTTGAATGTTATAATCGCTCATTGTGCTCGAGTCTTCGAGCTGTTTACCA 139627 || ||||||||||| ||||| || || || ||| || ||| || | |||||| || Sbjct 470 GTCGACTCTTTTTGGATGTTGTAGTCAGCCAATGTTCTGCCGTCCTCCAACTGTTTCCCG 529 Query 139628 GCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGTGATTTTTTGTTTT 139687 || |||| || | |||||||||||||| || || |||||||| ||| | || | ||| Sbjct 530 GCGAAGATAAGCCTCTGCTGATCGGGAGGGATACCCTCTTTGTC-CTGAATCTTGGCTTT 588 Query 139688 AGC-TGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCTTGCCGGTCAACGT 139746 | | | || | ||||||| | |||||||| | ||| | |||||| || || | || Sbjct 589 AACGTTGTCGATGGTGTCGGAGCTTTCCACCTCGAGGGTGATCGTCTTCCCAGTGAGAGT 648 Query 139747 TTTTACGAATATTTGCAT 139764 || ||||| |||||||| Sbjct 649 CTTAACGAAGATTTGCAT 666 Score = 96.9 bits (106), Expect = 3e-15 Identities = 140/198 (71%), Gaps = 0/198 (0%) Strand=Plus/Plus Query 139568 GTAGACTCTTTTTGAATGTTATAATCGCTCATTGTGCTCGAGTCTTCGAGCTGTTTACCA 139627 |||||||| || || ||||| || || || ||| || |||||| ||||| || || Sbjct 13 GTAGACTCCTTCTGGATGTTGTAGTCCGCCAATGTTCTGCCGTCTTCAAGCTGCTTGCCG 72 Query 139628 GCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGTGATTTTTTGTTTT 139687 || |||||| | ||||| || ||||| || || || ||||| ||| || ||| Sbjct 73 GCGAAGATCAACCTCTGCTGGTCCGGAGGGATACCCTCCTTGTCTTGGATCTTAGCTTTG 132 Query 139688 AGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCTTGCCGGTCAACGTT 139747 | | || | ||||||| | ||||||||| | || | |||||||||||||| || Sbjct 133 ACATTGTCAATGGTGTCGGAGCTCTCCACCTCCAAAGTAATGGTCTTGCCGGTCAATGTC 192 Query 139748 TTTACGAATATTTGCATA 139765 || ||||| || |||||| Sbjct 193 TTAACGAAAATCTGCATA 210 >seq806 Length=29032 Score = 100 bits (110), Expect = 3e-16 Identities = 144/203 (71%), Gaps = 0/203 (0%) Strand=Plus/Plus Query 139562 TGAATCGTAGACTCTTTTTGAATGTTATAATCGCTCATTGTGCTCGAGTCTTCGAGCTGT 139621 |||| ||| ||||| || || ||||| || ||| | ||||| |||||||||||| Sbjct 17974 TGAAGCGTCGACTCCTTCTGGATGTTGTAGTCGGCGAGTGTGCGGCCGTCTTCGAGCTGC 18033 Query 139622 TTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGTGATTTTT 139681 || || || ||||||| || ||||| || || || || ||||| ||||| ||| || Sbjct 18034 TTCCCGGCGAAGATCAGTCGCTGCTGGTCCGGCGGGATCCCTTCCTTGTCCTGGATCTTG 18093 Query 139682 TGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCTTGCCGGTC 139741 || | | || | ||||||| || ||| ||||| | ||| | |||||| || || Sbjct 18094 GCCTTGACGTTGTCGATGGTGTCGGAGGACTCGACCTCGAGGGTTATCGTCTTCCCCGTT 18153 Query 139742 AACGTTTTTACGAATATTTGCAT 139764 | ||||| ||||| || ||||| Sbjct 18154 AGGGTTTTCACGAAGATCTGCAT 18176 >seq2054 Length=20018 Score = 95.1 bits (104), Expect = 1e-14 Identities = 114/155 (74%), Gaps = 0/155 (0%) Strand=Plus/Plus Query 139610 TCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTG 139669 ||||||||||||||||| || |||||| | |||||||| ||||| || ||||||||| Sbjct 3239 TCTTCGAGCTGTTTACCGGCGAAGATCAATCTCTGCTGATCTGGAGGGATACCTTCTTTG 3298 Query 139670 TCGGTGATTTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACC 139729 || ||| || || | | || | ||||||| || ||| ||||| | ||| | Sbjct 3299 TCTTGGATCTTGGCCTTGACATTGTCGATGGTGTCGGAGGACTCGACCTCGAGGGTGATG 3358 Query 139730 GTCTTGCCGGTCAACGTTTTTACGAATATTTGCAT 139764 ||||| ||||| | ||||| ||||| || ||||| Sbjct 3359 GTCTTTCCGGTTAGGGTTTTCACGAAGATCTGCAT 3393 >seq4396 Length=13502 Score = 86.0 bits (94), Expect = 6e-12 Identities = 143/204 (70%), Gaps = 2/204 (1%) Strand=Plus/Minus Query 139562 TGAATCGTAGACTCTTTTTGAATGTTATAATCGCTCATTGTGCTCGAGTCTTCGAGCTGT 139621 |||| || ||||||||||| ||||| || || | || | | ||||| || || Sbjct 12033 TGAAGGGTCGACTCTTTTTGGATGTTGTAGTCAGCGAGAGTACGCCCATCTTCAAGTTGC 11974 Query 139622 TTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGTGATTTTT 139681 || || || |||| || | |||||||| || || |||||||| ||||| ||| | || Sbjct 11973 TTCCCGGCGAAGATAAGCCTCTGCTGATCCGGGGGAATGCCTTCCTTGTC-CTGAATCTT 11915 Query 139682 TGTTTTAGC-TGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCTTGCCGGT 139740 | |||| | | || | ||||| | | |||||||| | ||| | |||||| ||||| Sbjct 11914 GGCTTTAACGTTGTCGATGGTGTCTGAGCTTTCCACCTCGAGGGTGATCGTCTTTCCGGT 11855 Query 139741 CAACGTTTTTACGAATATTTGCAT 139764 | || || |||||||| ||||| Sbjct 11854 GAGAGTCTTAACGAATATCTGCAT 11831 >seq3737 Length=14779 Score = 86.0 bits (94), Expect = 6e-12 Identities = 112/155 (72%), Gaps = 0/155 (0%) Strand=Plus/Plus Query 139610 TCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTG 139669 ||||||||||| ||||| || |||||| | |||||||||||||| || ||||| || Sbjct 9355 TCTTCGAGCTGCTTACCGGCGAAGATCAACCTCTGCTGATCGGGAGGGATACCTTCCTTA 9414 Query 139670 TCGGTGATTTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACC 139729 ||| ||| || | | | | || | ||||||| | || ||||| | ||| | | Sbjct 9415 TCGTGGATCTTGGCTGTAACGTTGTCGATCGTGTCGGAGCTTTCAACCTCGAGGGTGATC 9474 Query 139730 GTCTTGCCGGTCAACGTTTTTACGAATATTTGCAT 139764 ||||| ||||| | || || |||||||| ||||| Sbjct 9475 GTCTTTCCGGTAAGAGTCTTAACGAATATCTGCAT 9509 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 495662609814400