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_003310.1 Length=196858 Score E Sequences producing significant alignments: (Bits) Value seq12321 158 2e-33 seq27908 100 4e-16 seq20848 95.1 2e-14 seq20246 95.1 2e-14 >seq12321 Length=6064 Score = 158 bits (174), Expect = 2e-33 Identities = 405/606 (67%), Gaps = 8/606 (1%) Strand=Plus/Minus Query 33576 ATCAAACATGCGAAATCGCAGTGCAGACCCTCGTCTCTACTAATTAATTCGTTAGAAAAC 33635 |||| || |||||||||||||| || ||||||||||| || | ||||| || || Sbjct 1393 ATCAGGCAGGCGAAATCGCAGTGAAGCCCCTCGTCTCTCGAGATGAGCTCGTTGGAGAAG 1334 Query 33636 GTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGAAGCGAATGATCCGGAA 33695 || || || ||||| || |||||||| || ||||| || || || ||| |||||| Sbjct 1333 GTCAGACCAGGCATGAGCCCACGCTTCTTGAGCCAGAAGATCGAGCAGAAGCTTCCGGAG 1274 Query 33696 AAGAAGATTCCTTCTACTGCA-GCAAAGGCAATAAGTCTCT-CTCCATAACCGGCGCTGT 33753 |||||||| ||||| || ||| || ||||| | | |||| | | | | | | | | Sbjct 1273 AAGAAGATCCCTTCGAC-GCAGGCGAAGGCGACGATCCTCTCCGCGAAAGTCTGAGAT-C 1216 Query 33754 CATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTATGG 33813 | | |||||||| ||||| | ||||||||| || || || || || || |||| Sbjct 1215 CGTCGATCCACTTCATGGCCCATTGGGCCTTCTTCGCGACGCAGGGGATGGTCTCGATGG 1156 Query 33814 CATTAAAGAGATAGtttttttCATTACTATCTTTAACATAAGTATCGATCAAAAGACTAT 33873 | ||||| | || | || || | ||||| | || || |||| || ||||||| Sbjct 1155 CCCGGAAGAGGTGGTCCCTCTCCTTGTTGTCTTTGATGTAGGTGTCGAGCAGGAGACTAT 1096 Query 33874 ACATTTCCGAATGAATGTTTTCAATGGCCATCTGAAATCCGTAGAAACATCTAGCCTCGG 33933 |||| || || || ||||| ||||| || ||||| || |||||||| | ||||||| Sbjct 1095 ACATCTCTGAGTGGATGTTCTCAATCGCGATCTGGAAGCCGTAGAAGGCACGCGCCTCGG 1036 Query 33934 TAATCTGCACTTCTGTACA-AAATCGTTCTGCTAAATTTTCATTCACTATTCCATCACTG 33992 | ||| || || | ||| || || || | ||| || || || || || | Sbjct 1035 AGACCTGGACGTC-GGACATGAACCGGGAGGCGAGATTCTCGAGGACGATCCCGTCGGAG 977 Query 33993 GCTGCAAAAAACGCCAATACATGTTTTATAAAATATTTTTCGTC-TGGTGTTAGTTTATT 34051 || || || || |||| || ||||| || || | ||| | | || | || || | Sbjct 976 GCGGCGAAGAAGGCCAGGACGTGTTTGATGAAGTGGCGCTCGCCGTCGT-TGAGATTCTC 918 Query 34052 CCAATCATTGATATCTTTAGATATATCCACTTCTTCCACTGTCCAAAATGATGCCTCTGC 34111 ||| || | || || | || ||||| || | ||||| || || || || || Sbjct 917 CCAGTCGCGTGTGTCGCCGGAGAGGTCGACTTCCTCGGCGGTCCAGAAGGAGGCTTCGGC 858 Query 34112 CTTTTTATACATATTCCAGATGTCATGATATTGGATTGGGAAAATAACAAATCTATTTGG 34171 ||| || ||||| | |||||| | | |||||||||||||| || ||||| | ||| Sbjct 857 CTTCTTGTACATCTCCCAGATCTGTGGGTATTGGATTGGGAACATGCAGAATCTGTCTGG 798 Query 34172 ATTTGG 34177 |||| Sbjct 797 GGTTGG 792 >seq27908 Length=1802 Score = 100 bits (110), Expect = 4e-16 Identities = 159/228 (70%), Gaps = 0/228 (0%) Strand=Plus/Plus Query 63662 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 63721 |||||| | ||||| | || |||||||| || ||||||||| | ||| | || || Sbjct 1026 AGTTCCTGAGTTAAAGAGAGTGGGAGAAGCATGAGTAAACCATCGCTGAGACATTAAATG 1085 Query 63722 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 63781 ||| || | || || || || || || || ||||| || || | ||| | ||| | Sbjct 1086 GTAAGTTTGGATTGCAGATTCAATGTCTTCTTTGTGAATCCCAACAGAGACCCTCATGAG 1145 Query 63782 CATGTGCTGAGGTCTTTCAACAATTTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 63841 |||||||||||| |||||||| | |||| | | |||||| | ||| || | || | Sbjct 1146 CATGTGCTGAGGCCTTTCAACGACTTTGCCATGGACTTTCAAGAGGTATGACCTCTCAAG 1205 Query 63842 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 63889 |||||| || ||||| |||| ||| ||| || || || || || || Sbjct 1206 AGTTTTGAATCCAAAGTAGTCATATTCAAAATCACGATCATAGATGAT 1253 Score = 95.1 bits (104), Expect = 2e-14 Identities = 154/222 (69%), Gaps = 0/222 (0%) Strand=Plus/Plus Query 63422 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 63481 |||||| || || | || | ||| || | ||| |||| | || |||||||| |||||| Sbjct 708 TCCTCCTTGGTCGACATAACGAGCAGTATCATTGAAAACCCGCAGCATTGGAACAATACC 767 Query 63482 GTTTGATATACCATTGGTACCGGAGATATAGCCTCCACTGGCACGAATATTACTAATTGA 63541 |||||| ||||| || || ||| || | |||| ||||| || || || || Sbjct 768 ATTTGATTCTCCATTAGTGCCACGGATGTAACTTCCAGAAGCACGGATGTTGTGAACCGA 827 Query 63542 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTGTCATAGAT 63601 | |||||| ||||| || |||| || | ||| || ||| || || ||||| || Sbjct 828 AACACCTATACCCCCAGCTGATTTACTAATAACTGCACACTCTTTCAATGTATCATATAT 887 Query 63602 GCCTTCTATGCTATCATCGATCATGTTAAGTAGAAAACAGCT 63643 ||||| ||||||||||| ||||| | ||||| ||||| Sbjct 888 TCCTTCAATGCTATCATCCTTCATGCAGATCAGAAAGCAGCT 929 >seq20848 Length=3109 Score = 95.1 bits (104), Expect = 2e-14 Identities = 144/205 (70%), Gaps = 0/205 (0%) Strand=Plus/Plus Query 63422 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 63481 |||||| || || | ||| | ||| |||| ||| | || | || |||||||| |||||| Sbjct 2273 TCCTCCTTGGTCAACGTAGCGAGCAGTGTCATTGAATACCCGCAGCATTGGAACAATACC 2332 Query 63482 GTTTGATATACCATTGGTACCGGAGATATAGCCTCCACTGGCACGAATATTACTAATTGA 63541 || ||| | ||||| || || || |||| ||| | ||||| || || || || Sbjct 2333 ATTCGATGTTCCATTTGTGCCACGAATGTAGCTTCCTGTTGCACGGATGTTGTGAACAGA 2392 Query 63542 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTGTCATAGAT 63601 | |||||||||||| || |||| || | ||| || ||| || || ||||| || Sbjct 2393 AACACCTATTCCCCCAGCTGATTTACTAATAACTGCACACTCTTTCAATGTTTCATATAT 2452 Query 63602 GCCTTCTATGCTATCATCGATCATG 63626 || || ||||||||||| ||||| Sbjct 2453 TCCCTCAATGCTATCATCCTTCATG 2477 Score = 82.4 bits (90), Expect = 1e-10 Identities = 155/228 (68%), Gaps = 0/228 (0%) Strand=Plus/Plus Query 63662 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 63721 |||||| | ||| || | || ||||| || || |||||||| | ||| | | || Sbjct 2603 AGTTCCTGAATTGAAGAGAGTCGGAGACGCATGAGTAAACCACCGCTGAGACATCAAATG 2662 Query 63722 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 63781 ||| || | || || || || | ||| || ||||| || || | || | ||| | Sbjct 2663 GTAAGTTTTGATTGCGGAATCAACATCTTCTTTGTGAATGCCGACAGAAACCCTCATGAG 2722 Query 63782 CATGTGCTGAGGTCTTTCAACAATTTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 63841 |||||||||||| |||||||| | ||| | | ||| || | ||| ||| | || | Sbjct 2723 CATGTGCTGAGGCCTTTCAACCACTTTCCCATGGACTTTTAAGAGGTACGATCTCTCGAG 2782 Query 63842 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 63889 |||||| |||||||| |||| || ||| ||||| || || || || Sbjct 2783 AGTTTTGAAACCAAAGTAGTCATACTCAAAATCTCGATCATAGATGAT 2830 >seq20246 Length=3254 Score = 95.1 bits (104), Expect = 2e-14 Identities = 144/205 (70%), Gaps = 0/205 (0%) Strand=Plus/Minus Query 63422 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 63481 |||||| || || | ||| | ||| |||| ||| | || | || |||||||| |||||| Sbjct 2443 TCCTCCTTGGTCAACGTAGCGAGCAGTGTCATTGAATACCCGCAGCATTGGAACAATACC 2384 Query 63482 GTTTGATATACCATTGGTACCGGAGATATAGCCTCCACTGGCACGAATATTACTAATTGA 63541 || ||| | ||||| || || || |||| ||| | ||||| || || || || Sbjct 2383 ATTCGATGTTCCATTTGTGCCACGAATGTAGCTTCCTGTTGCACGGATGTTGTGAACAGA 2324 Query 63542 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTGTCATAGAT 63601 | |||||||||||| || |||| || | ||| || ||| || || ||||| || Sbjct 2323 AACACCTATTCCCCCAGCTGATTTACTAATAACTGCACACTCTTTCAATGTTTCATATAT 2264 Query 63602 GCCTTCTATGCTATCATCGATCATG 63626 || || ||||||||||| ||||| Sbjct 2263 TCCCTCAATGCTATCATCCTTCATG 2239 Score = 82.4 bits (90), Expect = 1e-10 Identities = 155/228 (68%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 63662 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATT 63721 |||||| | ||| || | || ||||| || || |||||||| | ||| | | || Sbjct 2113 AGTTCCTGAATTGAAGAGAGTCGGAGACGCATGAGTAAACCACCGCTGAGACATCAAATG 2054 Query 63722 GTACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAA 63781 ||| || | || || || || | ||| || ||||| || || | || | ||| | Sbjct 2053 GTAAGTTTTGATTGCGGAATCAACATCTTCTTTGTGAATGCCGACAGAAACCCTCATGAG 1994 Query 63782 CATGTGCTGAGGTCTTTCAACAATTTTGTTGTTTATTTTCAACAAGTAGGATTTTTCCAA 63841 |||||||||||| |||||||| | ||| | | ||| || | ||| ||| | || | Sbjct 1993 CATGTGCTGAGGCCTTTCAACCACTTTCCCATGGACTTTTAAGAGGTACGATCTCTCGAG 1934 Query 63842 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 63889 |||||| |||||||| |||| || ||| ||||| || || || || Sbjct 1933 AGTTTTGAAACCAAAGTAGTCATACTCAAAATCTCGATCATAGATGAT 1886 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 629307983088960