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_003663.2 Length=224499 Score E Sequences producing significant alignments: (Bits) Value seq12321 170 3e-37 seq27908 114 2e-20 seq20848 113 6e-20 seq20246 113 6e-20 >seq12321 Length=6064 Score = 170 bits (188), Expect = 3e-37 Identities = 407/607 (67%), Gaps = 10/607 (2%) Strand=Plus/Minus Query 49954 ATCAAACATGCGAAATCGCAGTGCAGACCCTCGTCTCTACTAATTAGTTCGTTGGAAAAC 50013 |||| || |||||||||||||| || ||||||||||| || || |||||||| || Sbjct 1393 ATCAGGCAGGCGAAATCGCAGTGAAGCCCCTCGTCTCTCGAGATGAGCTCGTTGGAGAAG 1334 Query 50014 GTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGACGCA-AATGACCCAGA 50072 || || || ||||| || |||||||| || ||||| || || || ||| || || || Sbjct 1333 GTCAGACCAGGCATGAGCCCACGCTTCTTGAGCCAGAAGATCGA-GCAGAAGCTTCCGGA 1275 Query 50073 AAAGAAGATTCCTTCTACTGCGGCAAAGGCAACAAGTCTCTCTCCATAA--CTG-GCGCT 50129 |||||||| ||||| || ||| ||||| || | ||||| | || ||| | | Sbjct 1274 GAAGAAGATCCCTTCGACGCAGGCGAAGGCGACGATCCTCTCCGCGAAAGTCTGAGATCC 1215 Query 50130 GTCATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTAT 50189 ||| |||||||| ||||| | ||||||||| || || || || || || || Sbjct 1214 GTC---GATCCACTTCATGGCCCATTGGGCCTTCTTCGCGACGCAGGGGATGGTCTCGAT 1158 Query 50190 GGCATTAAAGAGATAGtttttttCATTACTATCTTTAACATAAGTATCGATCAAAAGACT 50249 ||| ||||| | || | || || | ||||| | || || |||| || ||||| Sbjct 1157 GGCCCGGAAGAGGTGGTCCCTCTCCTTGTTGTCTTTGATGTAGGTGTCGAGCAGGAGACT 1098 Query 50250 ATACATTTCCGAATGAATGTTTTCAATGGCCATCTGAAATCCGTAGAAACATCTAGCCTC 50309 |||||| || || || ||||| ||||| || ||||| || |||||||| | ||||| Sbjct 1097 ATACATCTCTGAGTGGATGTTCTCAATCGCGATCTGGAAGCCGTAGAAGGCACGCGCCTC 1038 Query 50310 GGTAATCTGCACTTCTGTACA-AAATCGTTCAGCTAAATTTTCATTCACTATTCCGTCAC 50368 || | ||| || || | ||| || || || | ||| || || || ||||| Sbjct 1037 GGAGACCTGGACGTC-GGACATGAACCGGGAGGCGAGATTCTCGAGGACGATCCCGTCGG 979 Query 50369 TGGCTGCAAAAAACGCCAATACATGTTTTATAAAATGTTTTTCGTTGGGTGTTAGTTTAT 50428 ||| || || || |||| || ||||| || || || ||| | | || || | Sbjct 978 AGGCGGCGAAGAAGGCCAGGACGTGTTTGATGAAGTGGCGCTCGCCGTCGTTGAGATTCT 919 Query 50429 TCCAATCATTGATATCTTTAGATATATCTACTTCTTCCACTGTCCAAAATGATGCCTCTG 50488 ||| || | || || | || ||||| || | ||||| || || || || | Sbjct 918 CCCAGTCGCGTGTGTCGCCGGAGAGGTCGACTTCCTCGGCGGTCCAGAAGGAGGCTTCGG 859 Query 50489 CCTTTTTATACATATTCCAGATGTCATGATATTGGATTGGGAAAATAACAAATCTATTTG 50548 |||| || ||||| | |||||| | | |||||||||||||| || ||||| | || Sbjct 858 CCTTCTTGTACATCTCCCAGATCTGTGGGTATTGGATTGGGAACATGCAGAATCTGTCTG 799 Query 50549 GATTTGG 50555 | |||| Sbjct 798 GGGTTGG 792 >seq27908 Length=1802 Score = 114 bits (126), Expect = 2e-20 Identities = 162/228 (71%), Gaps = 0/228 (0%) Strand=Plus/Plus Query 80334 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGACAGTAGATT 80393 |||||| | ||||| | || |||||||| || ||||||||| | ||||| || || Sbjct 1026 AGTTCCTGAGTTAAAGAGAGTGGGAGAAGCATGAGTAAACCATCGCTGAGACATTAAATG 1085 Query 80394 GTACGTCTCAATAGCTGATTCTATATCCCATTGATGAATTCCTACCGCGACACGCATTAA 80453 ||| || | || || ||||| || || || ||||| || || | ||| | ||| | Sbjct 1086 GTAAGTTTGGATTGCAGATTCAATGTCTTCTTTGTGAATCCCAACAGAGACCCTCATGAG 1145 Query 80454 CATGTGCTGAGGTCTTTCAACGATCTTGTTATTTATTTTCAACAAGTAAGATTTTTCCAA 80513 |||||||||||| |||||||||| ||| || | |||||| | ||| || | || | Sbjct 1146 CATGTGCTGAGGCCTTTCAACGACTTTGCCATGGACTTTCAAGAGGTATGACCTCTCAAG 1205 Query 80514 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 80561 |||||| || ||||| |||| ||| ||| || || || || || || Sbjct 1206 AGTTTTGAATCCAAAGTAGTCATATTCAAAATCACGATCATAGATGAT 1253 Score = 98.7 bits (108), Expect = 1e-15 Identities = 155/222 (70%), Gaps = 0/222 (0%) Strand=Plus/Plus Query 80094 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 80153 |||||| || || | || | ||| || | ||| |||| | || |||||||| |||||| Sbjct 708 TCCTCCTTGGTCGACATAACGAGCAGTATCATTGAAAACCCGCAGCATTGGAACAATACC 767 Query 80154 ATTGGATGTACCATTGGTCCCGGAGATATAGCTTCCACTGGCACGAATATTACTAATTGA 80213 ||| ||| ||||| || || ||| || |||||| ||||| || || || || Sbjct 768 ATTTGATTCTCCATTAGTGCCACGGATGTAACTTCCAGAAGCACGGATGTTGTGAACCGA 827 Query 80214 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGAT 80273 | |||||| ||||| || |||| || | ||| || ||| || |||||||| || Sbjct 828 AACACCTATACCCCCAGCTGATTTACTAATAACTGCACACTCTTTCAATGTATCATATAT 887 Query 80274 GCCCTCTATGCTATCATCAATCATGTTAAGTAGAAAACAGCT 80315 || || ||||||||||| ||||| | ||||| ||||| Sbjct 888 TCCTTCAATGCTATCATCCTTCATGCAGATCAGAAAGCAGCT 929 >seq20848 Length=3109 Score = 113 bits (124), Expect = 6e-20 Identities = 148/205 (72%), Gaps = 0/205 (0%) Strand=Plus/Plus Query 80094 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 80153 |||||| || || | ||| | ||| |||| ||| | || | || |||||||| |||||| Sbjct 2273 TCCTCCTTGGTCAACGTAGCGAGCAGTGTCATTGAATACCCGCAGCATTGGAACAATACC 2332 Query 80154 ATTGGATGTACCATTGGTCCCGGAGATATAGCTTCCACTGGCACGAATATTACTAATTGA 80213 ||| ||||| ||||| || || || |||||||| | ||||| || || || || Sbjct 2333 ATTCGATGTTCCATTTGTGCCACGAATGTAGCTTCCTGTTGCACGGATGTTGTGAACAGA 2392 Query 80214 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGAT 80273 | |||||||||||| || |||| || | ||| || ||| || || ||||| || Sbjct 2393 AACACCTATTCCCCCAGCTGATTTACTAATAACTGCACACTCTTTCAATGTTTCATATAT 2452 Query 80274 GCCCTCTATGCTATCATCAATCATG 80298 ||||| ||||||||||| ||||| Sbjct 2453 TCCCTCAATGCTATCATCCTTCATG 2477 Score = 87.8 bits (96), Expect = 3e-12 Identities = 156/228 (68%), Gaps = 0/228 (0%) Strand=Plus/Plus Query 80334 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGACAGTAGATT 80393 |||||| | ||| || | || ||||| || || |||||||| | ||||| | || Sbjct 2603 AGTTCCTGAATTGAAGAGAGTCGGAGACGCATGAGTAAACCACCGCTGAGACATCAAATG 2662 Query 80394 GTACGTCTCAATAGCTGATTCTATATCCCATTGATGAATTCCTACCGCGACACGCATTAA 80453 ||| || | || || || || | ||| || ||||| || || | || | ||| | Sbjct 2663 GTAAGTTTTGATTGCGGAATCAACATCTTCTTTGTGAATGCCGACAGAAACCCTCATGAG 2722 Query 80454 CATGTGCTGAGGTCTTTCAACGATCTTGTTATTTATTTTCAACAAGTAAGATTTTTCCAA 80513 |||||||||||| |||||||| | || || | ||| || | ||| ||| | || | Sbjct 2723 CATGTGCTGAGGCCTTTCAACCACTTTCCCATGGACTTTTAAGAGGTACGATCTCTCGAG 2782 Query 80514 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 80561 |||||| |||||||| |||| || ||| ||||| || || || || Sbjct 2783 AGTTTTGAAACCAAAGTAGTCATACTCAAAATCTCGATCATAGATGAT 2830 >seq20246 Length=3254 Score = 113 bits (124), Expect = 6e-20 Identities = 148/205 (72%), Gaps = 0/205 (0%) Strand=Plus/Minus Query 80094 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 80153 |||||| || || | ||| | ||| |||| ||| | || | || |||||||| |||||| Sbjct 2443 TCCTCCTTGGTCAACGTAGCGAGCAGTGTCATTGAATACCCGCAGCATTGGAACAATACC 2384 Query 80154 ATTGGATGTACCATTGGTCCCGGAGATATAGCTTCCACTGGCACGAATATTACTAATTGA 80213 ||| ||||| ||||| || || || |||||||| | ||||| || || || || Sbjct 2383 ATTCGATGTTCCATTTGTGCCACGAATGTAGCTTCCTGTTGCACGGATGTTGTGAACAGA 2324 Query 80214 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGAT 80273 | |||||||||||| || |||| || | ||| || ||| || || ||||| || Sbjct 2323 AACACCTATTCCCCCAGCTGATTTACTAATAACTGCACACTCTTTCAATGTTTCATATAT 2264 Query 80274 GCCCTCTATGCTATCATCAATCATG 80298 ||||| ||||||||||| ||||| Sbjct 2263 TCCCTCAATGCTATCATCCTTCATG 2239 Score = 87.8 bits (96), Expect = 3e-12 Identities = 156/228 (68%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 80334 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGACAGTAGATT 80393 |||||| | ||| || | || ||||| || || |||||||| | ||||| | || Sbjct 2113 AGTTCCTGAATTGAAGAGAGTCGGAGACGCATGAGTAAACCACCGCTGAGACATCAAATG 2054 Query 80394 GTACGTCTCAATAGCTGATTCTATATCCCATTGATGAATTCCTACCGCGACACGCATTAA 80453 ||| || | || || || || | ||| || ||||| || || | || | ||| | Sbjct 2053 GTAAGTTTTGATTGCGGAATCAACATCTTCTTTGTGAATGCCGACAGAAACCCTCATGAG 1994 Query 80454 CATGTGCTGAGGTCTTTCAACGATCTTGTTATTTATTTTCAACAAGTAAGATTTTTCCAA 80513 |||||||||||| |||||||| | || || | ||| || | ||| ||| | || | Sbjct 1993 CATGTGCTGAGGCCTTTCAACCACTTTCCCATGGACTTTTAAGAGGTACGATCTCTCGAG 1934 Query 80514 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 80561 |||||| |||||||| |||| || ||| ||||| || || || || 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: 717687612800480