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_006820.1 Length=196280 Score E Sequences producing significant alignments: (Bits) Value seq6139 574 6e-159 seq43812 358 8e-94 seq18917 269 3e-67 seq12239 143 3e-29 seq293 84.2 3e-11 >seq6139 Length=10899 Score = 574 bits (636), Expect = 6e-159 Identities = 739/1012 (73%), Gaps = 18/1012 (2%) Strand=Plus/Plus Query 137875 TGGATGACTGGATTAAACGAGATCGCTTTGTATTTGTGGGTTGGTCTGGACTACTACTTT 137934 ||||||||||| | | || ||||| || ||||| ||||||||||| ||| | || | Sbjct 5086 TGGATGACTGGTTACGGAGGGACCGCTTCGTTTTTGTAGGTTGGTCTGGTCTATTGCTCT 5145 Query 137935 TTCCCACTGCTTATTTGGCCCTTGGTGGCTGGCTTACTGGCACAACGTTTGTTACAAGCT 137994 |||| ||| ||||| || | || || ||| | || || ||||| ||||| || | Sbjct 5146 TTCCTTGTGCCTATTTCGCTTTGGGGGGTTGGTTCACAGGTACAACCTTTGTAACTTCAT 5205 Query 137995 GGTACACCCACGGGTTGGCGTCTAGTT---ATCTTGAAGGCGCTAATTTCCTCACAGCAG 138051 |||| || || || ||||| ||||| || | ||||| ||||| | || || | Sbjct 5206 GGTATACTCATGGATTGGC---TAGTTCCTATTTAGAAGGTTGCAATTTTTTAACCGCTG 5262 Query 138052 CTGTTTCGACTCCTGCTGATGCTATGGGTCATTCTCTTCTTCTACTTTGGGGTCCTGAGT 138111 | ||||| ||||||||| || | | | |||||| | | |||| ||||||||||| Sbjct 5263 CAGTTTCTACTCCTGCTAATAGTTTAGCGCATTCTTTGTTGTTACTGTGGGGTCCTGAAG 5322 Query 138112 CTCAAGGAGATATCGTCCGCTGGTTCCAACTTGGGGGACTCTGGACTTTTGTGGCGCTCC 138171 | ||||||||| | || |||| ||| | || || || ||| ||||||| || |||| Sbjct 5323 CACAAGGAGATTTTACTCGTTGGTGTCAATTAGGCGGTCTGTGGGCTTTTGTTGCTCTCC 5382 Query 138172 ACGGGGCCTTTAGTCTGATTGGATTCATGCTTCGCCAGTTTGAGATCTCTCG-TCTGGTA 138230 |||| || || | || || || ||| | || || ||||| | |||| |||| | Sbjct 5383 ACGGTGCTTTCGCATTAATAGGTTTTATGTTACGTCAATTTGAACTTGCTCGATCTGTT- 5441 Query 138231 GGCA--TCCGTCCCTACAACGCAATCGCATTCTCTGGTCCCATCGCTGTGTTCGTCAGCG 138288 || | || || || || |||||||||||||||||||| || ||||| || || | Sbjct 5442 --CAATTGCGACCTTATAATGCAATCGCATTCTCTGGTCCAATTGCTGTTTTTGTTTCTG 5499 Query 138289 TGTTCCTGATGTATCCTTTGGGTCAATCCAGTTGGTTCTTTGCTCCCTCCTTTGGTGTGG 138348 | || || || ||||| | |||||||| ||||||||||||| || |||||||| | Sbjct 5500 TCTTTCTAATTTATCCACTAGGTCAATCGGGTTGGTTCTTTGCGCCTAGTTTTGGTGTAG 5559 Query 138349 CAGCAATCTTCCGAT---TCCTGTTGTTCCTTCAGGGTTTCCATAACTGGACCCTCAACC 138405 | || || || |||| |||| || |||| ||||||| ||||| ||||| | |||| Sbjct 5560 CGGCTATATTTCGATTCATCCTCTTTTTCC--AAGGGTTT-CATAATTGGACATTGAACC 5616 Query 138406 CCTTTCATATGATGGGCGTAGCAGGTATTCTTGGTGGTGCTCTGCTCTGTGCTATTCATG 138465 | |||||||||||||| || || ||| | || || | |||||| | || |||||||||| Sbjct 5617 CATTTCATATGATGGGAGTCGCTGGTGTACTGGGCGCGGCTCTGTTATGCGCTATTCATG 5676 Query 138466 GTGCTACAGTAGAAAATACTTTGTATGAAGATGGCGAACAATCAAATACTTTTAAAGCAT 138525 ||||||| |||||||||||||| | ||||||||| || ||||||| || || | Sbjct 5677 GTGCTACTGTAGAAAATACTTTATTTGAAGATGGTGATGGTGCAAATACATTCCGTGCTT 5736 Query 138526 TTGAACCTACTCAAGAAGAAGAAACCTATTCAATGGTTACTGCTAACCGTTACTGGTCGC 138585 || | || ||||||| |||||||| ||||||||||| || |||||||| | ||||| | Sbjct 5737 TTAACCCAACTCAAGCCGAAGAAACTTATTCAATGGTCACCGCTAACCGCTTTTGGTCAC 5796 Query 138586 AAATCTTTGGAATTGCTTTTAGTAATAAGCGTTGGCTTCACTTCTTTATGCTCTTTGTTC 138645 |||||||||| |||||||| ||||| |||||| | || ||||||||| | ||||| | Sbjct 5797 AAATCTTTGGGGTTGCTTTTTCCAATAAACGTTGGTTACATTTCTTTATGTTATTTGTAC 5856 Query 138646 CCGTCATGGGTCTCTGGACTAGTAGTATTGGTATTATTGGTCTTGCTCTTAACCTACGAG 138705 | || | ||| | |||| ||| | |||| | | ||||| ||| | |||||||| | Sbjct 5857 CAGTAACTGGTTTATGGATGAGTGCTCTTGGAGTAGTCGGTCTAGCTTTGAACCTACGTG 5916 Query 138706 CGTATGATTTCGTATCGCAAGAAATTCGTGCAGCAGAAGATCCTGAATTCGAGACCTTCT 138765 | ||||| ||||| || || ||||| |||||||| |||||||| ||||| ||||| |||| Sbjct 5917 CCTATGACTTCGTTTCCCAGGAAATCCGTGCAGCGGAAGATCCGGAATTTGAGACTTTCT 5976 Query 138766 ACACCAAGAACATTCTTCTGAATGAAGGTCTGCGTGCCTGGATGGCTCCTGTGGATCAAC 138825 | || || || |||||| | || |||||| | || || |||||||| || ||||| | Sbjct 5977 ATACTAAAAATATTCTTTTAAACGAAGGTATTCGCGCTTGGATGGCGGCTCAAGATCAGC 6036 Query 138826 CTCACGAAAACTTTGTTTTTCCTGAAGAAGTATTGCCAAGAGGCAACGCTCT 138877 |||| |||||| || | || ||||| || || | ||| | || |||||||| Sbjct 6037 CTCATGAAAACCTTATATTCCCTGAGGAGGTTCTACCACGTGGAAACGCTCT 6088 >seq43812 Length=736 Score = 358 bits (396), Expect = 8e-94 Identities = 401/536 (75%), Gaps = 0/536 (0%) Strand=Plus/Plus Query 135792 CTGTTTTCCTGGTCTACCCCTTTGGACAAGGTTCTTTCAGTGATGGTATGCCGCTTGGCA 135851 |||||||| || ||||||| |||| ||||| ||| |||||||||||| || || | Sbjct 1 CTGTTTTCTTGATCTACCCAATTGGTCAAGGAAGTTTTTCTGATGGTATGCCTCTAGGAA 60 Query 135852 TTTCTGGAACTTTTAACTACATGCTTGTTTTCCAGGCAGAACACAACATTCTCATGCATC 135911 | ||||| ||||| |||| ||| |||| |||||||| || ||||||||||| ||||| | Sbjct 61 TCTCTGGTACTTTCAACTTTATGATTGTATTCCAGGCTGAGCACAACATTCTTATGCACC 120 Query 135912 CTTTCCACATGTTGGGAGTTGCTGGGGTCTTCGGTGGTTCTCTGTTCTCTGCTATGCATG 135971 | || |||||||| || || ||||| || ||||| || || || || ||||||||||| Sbjct 121 CATTTCACATGTTAGGTGTAGCTGGTGTATTCGGCGGCTCCCTATTTAGTGCTATGCATG 180 Query 135972 GATCTCTTGTCACCTCTAGTCTTGTACGTGAGACGACTGAGGTAGAATCCCAGAACTATG 136031 | ||| | || || |||||| | | | || || || || ||||| || | | Sbjct 181 GTTCTTTGGTAACTTCTAGTTTGATCAGGGAAACCACAGAAAATGAATCTGCTAATGAAG 240 Query 136032 GTTACAAGTTCGGTCAAGAAGAAGAGACTTACAACATTGTTGCTGCTCATGGTTACTTCG 136091 | |||| ||||||||||||||||| |||||||||||||| |||||||| ||||| || | Sbjct 241 GGTACAGATTCGGTCAAGAAGAAGAAACTTACAACATTGTAGCTGCTCACGGTTATTTTG 300 Query 136092 GTCGTCTGATCTTCCAATATGCGTCGTTCAACAACTCTCGTTCGCTACACTTTTTCCTTG 136151 | || |||||||||||||||| |||||||| |||||||| |||| || ||| | | Sbjct 301 GCCGATTGATCTTCCAATATGCTAGTTTCAACAATTCTCGTTCTTTACATTTCTTCTTAG 360 Query 136152 CTGCTTGGCCTGTTGTCGGTATCTGGTTTGCTGCCCTGGGCGTATCTACGATGGCGTTCA 136211 | |||||||| || || ||||| |||||| |||| | || | ||| ||||| |||| Sbjct 361 CGGCTTGGCCGGTAGTAGGTATTTGGTTTACTGCTTTAGGTATTAGTACTATGGCTTTCA 420 Query 136212 ACCTCAATGGATTCAACTTCAACCAGTCCATTGTATCTTCTGAAGGTCGTGTACTCAACA 136271 |||| ||||| ||||| |||||||| || | || | | |||| ||||| | || | Sbjct 421 ACCTAAATGGTTTCAATTTCAACCAATCAGTAGTTGATAGTCAAGGACGTGTTATTAATA 480 Query 136272 CCTGGGCAGATGTGCTGAATCGTGCTGGTCTGGGTATGGAGGTGATGCACGAGCGT 136327 | ||||| ||| | | || |||||| || |||||||| || ||||| || ||| Sbjct 481 CTTGGGCTGATATTATTAACCGTGCTAACCTTGGTATGGAAGTTATGCATGAACGT 536 >seq18917 Length=3610 Score = 269 bits (298), Expect = 3e-67 Identities = 315/421 (75%), Gaps = 6/421 (1%) Strand=Plus/Plus Query 135374 TTCTGCGAGTGGGTTACCAGCACCGACAACCGCCTCTATGTGGGTTGGTTTGGAACGCTG 135433 ||||| | ||| | || || ||||| ||||| || || | || |||||||| || Sbjct 3193 TTCTGTAACTGGATAACTAGTACCGAAAACCGTCTTTACATTGGATGGTTTGGTGTTTTG 3252 Query 135434 ATGATTCCTACTCTTCTCG-CAGCTGCTATCTGCTTTATTGTTGCTTTCATCGCTGCACC 135492 ||||||||||| ||| | | | || || | |||||| | || ||||| ||||| || Sbjct 3253 ATGATTCCTAC-CTTATTGACCGCAACTTCCGTTTTTATTATCGCATTCATTGCTGCTCC 3311 Query 135493 TCCCGTCGATATTGACGGCATCCGCGAACCTGTTGCTGGTTCTCTAATGTACGGAAATAA 135552 ||| || |||||||| || || || ||||||||| |||| ||||| | |||||||| || Sbjct 3312 TCCAGTAGATATTGATGGTATTCGTGAACCTGTTTCTGGATCTCTTCTTTACGGAAACAA 3371 Query 135553 CATCATCTCTGGTGCTGTTATCCCTTCTA--GCAACGCCATCGGCCTTCACTTCTATCCC 135610 || || || ||||| |||| ||| || ||| || || || | || || ||||| Sbjct 3372 TATTATTTCAGGTGCCATTATTCCTACTTCTGCA--GCTATTGGTTTGCATTTTTATCCG 3429 Query 135611 ATCTGGGAAGCTGCTTCTCTTGATGAGTGGCTATATAATGGTGGTCCTTATCAACTAGTG 135670 |||||||||||||| || ||||||| |||||||| || |||||||||||| ||||| | Sbjct 3430 ATCTGGGAAGCTGCATCCGTTGATGAATGGCTATACAACGGTGGTCCTTATGAACTAATT 3489 Query 135671 GTCTTCCACTTCCTTATCGGTGTCTTCTCTTACATGGGTCGCGAGTGGGAACTCTCTTAC 135730 || | ||||| | | ||||| | ||| |||||||| ||||||||||| || | Sbjct 3490 GTTCTACACTTTTTACTTGGTGTAGCTTGTTATATGGGTCGTGAGTGGGAACTTAGTTTC 3549 Query 135731 CGACTGGGTATGCGCCCTTGGATTTGTGTCGCTTACTCAGCCCCTGTTGCCGCTGCTACT 135790 || ||||||||||| ||||||||| ||| || || ||||| |||||||| ||||||||| Sbjct 3550 CGTCTGGGTATGCGTCCTTGGATTGCTGTTGCATATTCAGCTCCTGTTGCAGCTGCTACT 3609 Query 135791 G 135791 | Sbjct 3610 G 3610 >seq12239 Length=6102 Score = 143 bits (158), Expect = 3e-29 Identities = 370/554 (67%), Gaps = 20/554 (4%) Strand=Plus/Minus Query 137877 GATGACTGGATTAAACGAGATCGCTTTGTATTTGTGGGTTGGTCTGGACTACTACTTTTT 137936 ||||||||| | | || ||||| || ||||| ||||||||||| ||| | || ||| Sbjct 611 GATGACTGGTTACGGAGGGACCGCTTCGTTTTTGTAGGTTGGTCTGGTCTATTGCTCTTT 552 Query 137937 CCCACTGCTTATTTGGCCCTTGGTGGCTGGCTTACTGGCACAACGTTTGTTACAAGCTGG 137996 || ||| ||||| || | || || ||| | || || ||||| ||||| || ||| Sbjct 551 CCTTGTGCCTATTTCGCTTTGGGGGGTTGGTTCACAGGTACAACCTTTGTAACTTCATGG 492 Query 137997 TACACCCACGGGTTGGCGTCTAGT---TATCTTGAAGGCGCTAATTTCCTCACAGCAGCT 138053 || | || || |||| ||||| ||| | ||||| | | | | || | || Sbjct 491 TATATTCATGGATTGG---CTAGTTTCTATTTAGAAGGTTGCAGTCTTTTAACCGATGCA 435 Query 138054 GTTTCGACTCCTGCTGATGCTATGGGTCATTCTCTTCTTCTACTTTGGGGTCCTGAGTCT 138113 ||||| ||||||||| || | | | |||||| | | |||| | ||||| ||| | Sbjct 434 GTTTCTACTCCTGCTAATAGTTTAGCGCATTCTTTGTTATTACTGT-GGGTCATGAAGCA 376 Query 138114 CAAGGAGATATCGTCCGCTGGTTCCAACTTGGGGGACTCTGGACTTTTGTGGCGCTCCAC 138173 ||||||||| | || |||| ||| | || || ||| |||||| | |||||| Sbjct 375 CAAGGAGATTTTAGTCGTTGGTGTCAATTAAACGGCCTGTGGGTTTTTGTTTCTCTCCAC 316 Query 138174 GGGGCCTTTAGTCTGATTGGATTCATGCTTCGCCAGTTTGAGATCTCTCG-TCTGGTAGG 138232 | || || | || || || ||| | || || ||||| | |||| |||| | Sbjct 315 AGTGCTTTCGCATTAATAGGTTTTATGTTACGTCAATTTGAACTTGCTCGATCTGTT--- 259 Query 138233 CA--TCCGTCCCTACAACGCAATCGCATTCTCTGGTCCCATCGCTGTGTTCGTCAGCGTG 138290 || | | || || || |||||||||||||||||||| || |||| || | | Sbjct 258 CAATTGTGACCTTATAATGCAATCGCATTCTCTGGTCCAATTGCTGGTTTTATTCCTGCC 199 Query 138291 TTCCTGATGTATCCTTTGGGTCAATCCAGTTGGTTCTTTGCTCCCTCCTTTGGTGTGGCA 138350 || || || ||||| | |||||||| ||||||||||||| || |||||||| || Sbjct 198 TTTCTAATTTATCC-TCAGGTCAATCTGGTTGGTTCTTTGCACCTAGTTTTGGTGTAGCG 140 Query 138351 GCAATCTTCCGAT---TCCTGTTGTTCCTTCAGGGTTTCCATAACTGGACCCTCAACCCC 138407 | || || || | |||| || |||| || |||| |||| ||||| | |||| Sbjct 139 GTTATATTTCGGTTCATCCTCTTTTTCC--AAGAGTTT-TATAATTGGACATTGAACCAT 83 Query 138408 TTTCATATGATGGG 138421 | ||||||||||| Sbjct 82 CTACATATGATGGG 69 >seq293 Length=39549 Score = 84.2 bits (92), Expect = 3e-11 Identities = 132/186 (71%), Gaps = 6/186 (3%) Strand=Plus/Plus Query 135467 TTTATTGTTGCTTTCATCGCTGCACCTCCCGTCGATATTGACGGCATCCGCGAACCTGTT 135526 |||||| | || ||||| ||||| ||| || ||||||| || || | |||||| || Sbjct 26001 TTTATTATCGCATTCATTGCTGCTCCTTTAGTAGATATTGGTGGTATTTGTGAACCTATT 26060 Query 135527 GCTGGTTCTCTAATGTACGGAAATAACATCATCTCTGGTGCTGTTATCC---CTTCTAGC 135583 || | | ||| | || ||||| | || || || ||||| |||| | |||||| | Sbjct 26061 TCTCGATATCTTCTTTATGGAAACGATATTATTTCAGGTGCCATTATTCATACTTCTA-C 26119 Query 135584 AACGCCATCGGCCTTCACTTCTATCCCATCTGGGAAGCTGCTTCTCTTGATGAGTGGCTA 135643 | || || || | || || ||| | |||||||||||||| | | ||| ||| |||||| Sbjct 26120 A--GCTATTGGTTTGCATTTTTATTCAATCTGGGAAGCTGCATTTGTTGGTGAATGGCTA 26177 Query 135644 TATAAT 135649 || ||| Sbjct 26178 TACAAT 26183 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 627459879692800