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_20sativus_20[refseq_20GCF_5F000801105.1_202015-09-29] 10,676 sequences; 426,614,037 total letters Query= NC_006884.2 Length=178249 Score E Sequences producing significant alignments: (Bits) Value seq10676 538 4e-148 seq3 170 2e-37 seq3905 109 6e-19 seq813 84.2 2e-11 seq2 84.2 2e-11 >seq10676 Length=153368 Score = 538 bits (596), Expect = 4e-148 Identities = 723/1001 (72%), Gaps = 4/1001 (0%) Strand=Plus/Minus Query 170666 TTTTGTGAGTGGGTAACATCCACTGACAATCGCATCTACGTTGGTTGGTTTGGTGTCTTA 170725 || ||| | ||| |||| ||||| || || | ||| |||| ||||||||||| || Sbjct 1326 TTCTGTAACTGGATAACTAGTACTGAAAACCGTCTTTACATTGGATGGTTTGGTGTTTTG 1267 Query 170726 ATGATCCCATGTCTTCTA-ACTGCTGCTGCTTGTTTCATTGTAGCATTCATCGCTGCTCC 170784 ||||| || | ||| | || || || | ||| ||| | |||||||| |||||||| Sbjct 1266 ATGATTCC-TACCTTATTGACCGCAACTTCCGTTTTTATTATCGCATTCATTGCTGCTCC 1208 Query 170785 TCCAGTCGATATCGACGGAATCAGAGAACCAGTTGCGGGTTCT-TTCTTATATGGTAACA 170843 |||||| ||||| || || || | ||||| ||| | || ||| ||||| || || |||| Sbjct 1207 TCCAGTAGATATTGATGGTATTCGTGAACCTGTTTCTGGATCTCTTCTT-TACGGAAACA 1149 Query 170844 ACATCATCTCTGGTGCTGTAGTTCCATCTTCAAACGCAATAGGATTACACTTCTATCCCA 170903 | || || || ||||| | |||| |||| || || || || || || ||||| | Sbjct 1148 ATATTATTTCAGGTGCCATTATTCCTACTTCTGCAGCTATTGGTTTGCATTTTTATCCGA 1089 Query 170904 TCTGGGAAGCAGCCACTATGGACGAGTGGTTGTACAACGGAGGTCCTTACCAGTTAGTTA 170963 |||||||||| || | | || || ||| | |||||||| |||||||| | || || Sbjct 1088 TCTGGGAAGCTGCATCCGTTGATGAATGGCTATACAACGGTGGTCCTTATGAACTAATTG 1029 Query 170964 TTTTCCACTTCCTTATTGGAATCTCTGCCTACATGGGTAGACAGTGGGAACTATCATACA 171023 || | ||||| | |||| | || || |||||| | |||||||||| | | Sbjct 1028 TTCTACACTTTTTACTTGGTGTAGCTTGTTATATGGGTCGTGAGTGGGAACTTAGTTTCC 969 Query 171024 GACTAGGAATGAGACCTTGGATATGTGTAGCATACTCAGCACCTGTATCTGCAGCATTTG 171083 | || || ||| | |||||||| ||| ||||| ||||| ||||| | || || || Sbjct 968 GTCTGGGTATGCGTCCTTGGATTGCTGTTGCATATTCAGCTCCTGTTGCAGCTGCTACTG 909 Query 171084 CAGTATTCCTTGTGTATCCATTCGGTCAGGGTTCATTCTCTGATGGTATGCCACTAGGTA 171143 | || ||| | | || ||| | ||||| || || |||||||||||||| ||||| | Sbjct 908 CTGTTTTCTTGATCTACCCAATTGGTCAAGGAAGTTTTTCTGATGGTATGCCTCTAGGAA 849 Query 171144 TCTCAGGTACGTTCAACTTCATGTTCGTGTTCCAAGCAGAACACAACATACTAATGCACC 171203 |||| ||||| |||||||| ||| | || ||||| || || |||||||| || ||||||| Sbjct 848 TCTCTGGTACTTTCAACTTTATGATTGTATTCCAGGCTGAGCACAACATTCTTATGCACC 789 Query 171204 CCTTCCATATGGCAGGTGTAGCAGGTATGTTCGGTGGTAGTCTCTTCAGTGCAATGCACG 171263 | || || ||| ||||||||| ||| | ||||| || || || ||||| ||||| | Sbjct 788 CATTTCACATGTTAGGTGTAGCTGGTGTATTCGGCGGCTCCCTATTTAGTGCTATGCATG 729 Query 171264 GTTCTCTAGTGACATCTTCTCTAATCAGAGAGACAACTGAGAACGAGAGTCAAAACTACG 171323 ||||| | || || ||| | | ||||| || || || || || || | || | | Sbjct 728 GTTCTTTGGTAACTTCTAGTTTGATCAGGGAAACCACAGAAAATGAATCTGCTAATGAAG 669 Query 171324 GCTATAAGTTCGGACAAGAAGAAGAAACATATAACATTGTTGCTGCTCATGGATACTTCG 171383 | || | ||||| |||||||||||||| || |||||||| |||||||| || || || | Sbjct 668 GGTACAGATTCGGTCAAGAAGAAGAAACTTACAACATTGTAGCTGCTCACGGTTATTTTG 609 Query 171384 GTAGATTAATCTTCCAGTATGCATCATTCAACAACTCTCGTTCATTACACTTCTTCCTCG 171443 | |||| |||||||| ||||| |||||||| |||||||| ||||| |||||| | | Sbjct 608 GCCGATTGATCTTCCAATATGCTAGTTTCAACAATTCTCGTTCTTTACATTTCTTCTTAG 549 Query 171444 CTGTATTCCCTGTAGTCTGTGTATGGTTAACCTCTATGGGTATCTGTACAATGGCATTCA 171503 | | | || ||||| || | ||||| || || | ||||| |||| ||||| |||| Sbjct 548 CGGCTTGGCCGGTAGTAGGTATTTGGTTTACTGCTTTAGGTATTAGTACTATGGCTTTCA 489 Query 171504 ACCTTAACGGATTCAACTTCAACCAATCAGTTGTAGATGCAAACGGAAAGATTGTACCAA 171563 |||| || || ||||| |||||||||||||| || ||| | ||| || | | Sbjct 488 ACCTAAATGGTTTCAATTTCAACCAATCAGTAGTTGATAGTCAAGGACGTGTTATTAATA 429 Query 171564 CATGGGGAGATGTTCTTAACAGAGCAAACCTTGGAATGGAAGTTATGCATGAAAGAAATG 171623 | |||| ||| || ||||| | || |||||||| |||||||||||||||||| | |||| Sbjct 428 CTTGGGCTGATATTATTAACCGTGCTAACCTTGGTATGGAAGTTATGCATGAACGTAATG 369 Query 171624 CACACAACTTCCCACTAGACCTAGCATCTGCTGAGTCTACA 171664 | ||||||||||| ||||||||||| ||| ||||||| || Sbjct 368 CTCACAACTTCCCTCTAGACCTAGCTGCTGTTGAGTCTCCA 328 Score = 387 bits (428), Expect = 2e-102 Identities = 715/1049 (68%), Gaps = 21/1049 (2%) Strand=Plus/Plus Query 171784 AAAGAGAATGGTTTGACGTTCTTGATGATTGGTTAAAGAGAGATCGTTTCGTATTCATCG 171843 ||| ||| | ||||| || | ||||| |||||| ||| || || ||||| || | | Sbjct 31969 AAAAAGATTTATTTGATATTATGGATGACTGGTTACGGAGGGACCGCTTCGTTTTTGTAG 32028 Query 171844 GATGGTCTGGTCTTTTACTTTTACCTTGTGCTTACCTAGCAATCGGAGGTTGGTTCGTAG 171903 | ||||||||||| || || || |||||||| || | || | || ||||||||| || Sbjct 32029 GTTGGTCTGGTCTATTGCTCTTTCCTTGTGCCTATTTCGCTTTGGGGGGTTGGTTCACAG 32088 Query 171904 GAACTACTTTCGTGACCTCATGGTACACACATGGTATTGCATCCTCATATCTTGAGGGAG 171963 | || || || || || |||||||| || ||||| | || || ||| | || || Sbjct 32089 GTACAACCTTTGTAACTTCATGGTATACTCATGGATTGGCTAGTTCCTATTTAGAAGGTT 32148 Query 171964 CAAACTTTTTAACTGCAGCAGTATCAACACCTGGTGATGCTATGGGTCATAGTCTATTGT 172023 || |||||||| || ||||| || || |||| | || | | | ||| | | |||| Sbjct 32149 GCAATTTTTTAACCGCTGCAGTTTCTACTCCTGCTAATAGTTTAGCGCATTCTTTGTTGT 32208 Query 172024 TCCTATGGGGACCTGAGGCACAAGGAGATCTTGTACGATGGTTTCAATTAGGTGGACTAT 172083 | || ||||| ||||| |||||||||||| || || |||| ||||||||| || || | Sbjct 32209 TACTGTGGGGTCCTGAAGCACAAGGAGATTTTACTCGTTGGTGTCAATTAGGCGGTCTGT 32268 Query 172084 GGAACTTTGTAGCATTACATGGAGTCTTTGGACTCATAGGTTTCATGCTTAGACAGTTTG 172143 || ||||| || | || || | || | | | |||||||| ||| | | || |||| Sbjct 32269 GGGCTTTTGTTGCTCTCCACGGTGCTTTCGCATTAATAGGTTTTATGTTACGTCAATTTG 32328 Query 172144 AGATTGCAGGACTTGTTGGGATACGTCCTTACAACGCACTAGCATTCTCAGCAGTTATTG 172203 | |||| || |||| | || ||||| || ||| | |||||||| | |||| Sbjct 32329 AACTTGCTCGATCTGTTCAATTGCGACCTTATAATGCAATCGCATTCTCTGGTCCAATTG 32388 Query 172204 CAGTATTCACGAGCATCTTTCTAATATATCCATTAGGTCAGCATAGTTGGTTCTTCGCAC 172263 | || || |||||||||| |||||| ||||||| | |||||||||| || | Sbjct 32389 CTGTTTTTGTTTCTGTCTTTCTAATTTATCCACTAGGTCAATCTGGTTGGTTCTTTGCGC 32448 Query 172264 CTTCATTTGGTGTCGCAGCAATCTTTCGTTATATTTTATTCATACAGGGTTTCCACAATA 172323 || |||||||| || || || ||||| | || | || | || || || || ||| Sbjct 32449 CTAGTTTTGGTGTAGCGGCTATATTTCGATTCATCCTCTTTTTCCAAGGGTTTCATAATT 32508 Query 172324 TAACTCTTAATCCATTTCATATGATGGGTGTAGCAGGTATACTTGGTGGAGCATTACTAT 172383 || | || ||||||||||||||||| || || ||| |||| || | || | ||| Sbjct 32509 GGACATTGAACCCATTTCATATGATGGGAGTCGCTGGTGTACTGGGCGCGGCTCTGTTAT 32568 Query 172384 GTGCCATACATGGTGCAACAGTACAGAACACATTGTATGAAGACACATCACAATACACTG 172443 | || || |||||||| || ||| | || || || | |||||| || Sbjct 32569 GCGCTATTCATGGTGCTACTGTAGAAAATACTTTATTTGAAGA---------------TG 32613 Query 172444 AAGGTAAGATTCAATCTACAACTTTCAGAGCATTCGATCCTACACAGGAAGAAGAAACTT 172503 | | | | ||| |||| ||| | || || | || || || | |||||||||| Sbjct 32614 --GTGATGGTGCAA-ATACA---TTCCGTGCTTTTAACCCAACTCAAGCCGAAGAAACTT 32667 Query 172504 ATAGTATGATTACTGCTAACAGATTCTGGTCACAGATATTTGGTATAGCATTTTCAAACA 172563 || ||| | || |||||| | || |||||||| || ||||| | || ||||| || | Sbjct 32668 ATTCAATGGTCACCGCTAACCGCTTTTGGTCACAAATCTTTGGGGTTGCTTTTTCCAATA 32727 Query 172564 AAAGATTCTTACACTTCCTTATGTTGTTCGTACCTGTCATGGGTATGTGGACATCATCTA 172623 || | | ||||| ||| ||||||| || ||||| || | ||| | |||| || Sbjct 32728 AACGTTGGTTACATTTCTTTATGTTATTTGTACCAGTAACTGGTTTATGGATGAGTGCTC 32787 Query 172624 TAGGTATCGTAGGTCTTGCACTTAACCTCAGAGCATACGACTTTGTATCTCAAGAGATAA 172683 | || | || ||||| || | ||||| | || || ||||| || || || || || Sbjct 32788 TTGGAGTAGTCGGTCTAGCTTTGAACCTACGTGCCTATGACTTCGTTTCCCAGGAAATCC 32847 Query 172684 GAGCAGCAGAAGACCCAGAGTTTGAAACCTTCTACACTAAGAACATTCTTCTTAATGAAG 172743 | ||||| ||||| || || ||||| || ||||| ||||| || |||||| | || |||| Sbjct 32848 GTGCAGCGGAAGATCCGGAATTTGAGACTTTCTATACTAAAAATATTCTTTTAAACGAAG 32907 Query 172744 GTATGAGAGCATGGATGTCATCTGTCGATCAACCCCATGAGAACTTTGTGTTCCCAGAAG 172803 |||| | || |||||| | || ||||| || ||||| ||| || | ||||| || | Sbjct 32908 GTATTCGCGCTTGGATGGCGGCTCAAGATCAGCCTCATGAAAACCTTATATTCCCTGAGG 32967 Query 172804 AAGTCTTGCCACGAGGCAACGCACTATAA 172832 | || | ||||| || ||||| || ||| Sbjct 32968 AGGTTCTACCACGTGGAAACGCTCTTTAA 32996 >seq3 Length=29132933 Score = 170 bits (188), Expect = 2e-37 Identities = 374/553 (68%), Gaps = 8/553 (1%) Strand=Plus/Plus Query 171802 TTCTTGATGATTGGTTAAAGAGAGATCGTTTCGTATTCATCGGATGGTCTGGTCTTTTAC 171861 || || |||| |||||| ||| || || || || || | || ||||||||||| || | Sbjct 2931751 TTATTAATGACTGGTTACGGAGGGACCGCTTTGTTTTTGTAGGTTGGTCTGGTCTATTGC 2931810 Query 171862 TTTTACCTTGTGCTTACCTAGCAATCGGAGGTTGGTTCGTAGGAACTACTTTCGTGACCT 171921 | || |||||||| || | | | || ||||||||| ||| || ||||| || || | Sbjct 2931811 TCTTTCCTTGTGCCTATTTCTCTTTGGGGGGTTGGTTCACAGGTACAACTTTTGTAACTT 2931870 Query 171922 CATGGTACACACATGGTATTGCATCCTCATATCTTG-AGGGAGCAAACTTTTTAACTGCA 171980 ||||||| || ||||| | || || ||| | | ||| ||| | ||||||| | Sbjct 2931871 CATGGTATACTCATGGATTGGCTAGTTCCTATTTAGAAGGTTGCAGTC-TTTTAACCGAT 2931929 Query 171981 GCAGTATCAACACCTGGTGATGCTATGGGTCATAGTCTATTGTTCCTAT--GGGGACCTG 172038 ||||| || || |||| | || | | ||| ||| ||||| ||| ||| |||| Sbjct 2931930 GCAGTTTCTACTCCTGCTAATAGTTTAACGCAT--TCT-TTGTTATTATTGTGGGTCCTG 2931986 Query 172039 AGGCACAAGGAGATCTTGTACGATGGTTTCAATTAGGTGGACTATGGAACTTTGTAGCAT 172098 | |||||||||||| || || |||| |||||||| || || ||| ||||| || Sbjct 2931987 AAGCACAAGGAGATTTTAGTCGTTGGTGTCAATTAGACGGTCTGTGGGGTTTTGTTGCTC 2932046 Query 172099 TACATGGAGTCTTTGGACTCATAGGTTTCATGCTTAGACAGTTTGAGATTGCAGGACTTG 172158 | || | | || | | | ||| |||| ||| | | || ||||| |||| || || Sbjct 2932047 TCCACAGTGCTTTCGAATTAATAAGTTTTATGTTACGTCAATTTGAACTTGCTCGATCTG 2932106 Query 172159 TTGGGATACGTCCTTACAACGCACTAGCATTCTCAGCAGTTATTGCAGTATTCACGAGCA 172218 || | || ||||| || ||| || ||||||| | ||||| || || | Sbjct 2932107 TTCAATTGCGACCTTATAATGCAATAACATTCTCTGGTCCAATTGCTGTTTTTATTTCTG 2932166 Query 172219 TCTTTCTAATATATCCATTAGGTCAGCATAGTTGGTTCTTCGCACCTTCATTTGGTGTCG 172278 |||||||||| ||||| | |||||| | |||||||||| |||||| |||||||| | Sbjct 2932167 TCTTTCTAATTTATCC-TCAGGTCAATCTGGTTGGTTCTTTGCACCTAGTTTTGGTGTAG 2932225 Query 172279 CAGCAATCTTTCGTTATATTTTATTCATACAGGGTTTCCACAATATAACTCTTAATCCAT 172338 | || || ||||| | || | || | || || || || ||| | | || || Sbjct 2932226 CGGCTATATTTCGGTTCATCATCTTTTTCCAAGGGTTTCATAATTGGAAATTGAACCCTC 2932285 Query 172339 TTCATATGATGGG 172351 ||||||||||||| Sbjct 2932286 TTCATATGATGGG 2932298 >seq3905 Length=4339 Score = 109 bits (120), Expect = 6e-19 Identities = 209/308 (68%), Gaps = 0/308 (0%) Strand=Plus/Plus Query 172119 ATAGGTTTCATGCTTAGACAGTTTGAGATTGCAGGACTTGTTGGGATACGTCCTTACAAC 172178 |||||||| ||| | | || ||||| |||| || |||| | || ||||| || Sbjct 1195 ATAGGTTTTATGTTACGTCAATTTGAACTTGCTCGATCTGTTCAATTGCGACCTTATAAT 1254 Query 172179 GCACTAGCATTCTCAGCAGTTATTGCAGTATTCACGAGCATCTTTCTAATATATCCATTA 172238 ||| | ||||||| | ||||| || || |||||||||| |||||| || Sbjct 1255 GCAATCGCATTCTTTGGTCCAATTGCTGTTTTTGTTTCTGTCTTTCTAATTTATCCACTA 1314 Query 172239 GGTCAGCATAGTTGGTTCTTCGCACCTTCATTTGGTGTCGCAGCAATCTTTCGTTATATT 172298 ||||| | |||||||||| || ||| |||||||| || | || ||||| | || Sbjct 1315 GGTCAATCTGGTTGGTTCTTTGCGCCTAGTTTTGGTGTAGCGGTTATATTTCGATTCATC 1374 Query 172299 TTATTCATACAGGGTTTCCACAATATAACTCTTAATCCATTTCATATGATGGGTGTAGCA 172358 | || | || || || || ||| | | || ||||||||||||||||| || || Sbjct 1375 CTCTTTTTCCAAGGGTTTCATAATTGGATATTGAACCCATTTCATATGATGGGAGTCGCT 1434 Query 172359 GGTATACTTGGTGGAGCATTACTATGTGCCATACATGGTGCAACAGTACAGAACACATTG 172418 ||| |||| || | || | |||| || || |||||||| || ||| | || || || Sbjct 1435 GGTGTACTGGGCGCGGCTCTGTTATGCGCTATTCATGGTGCTACTGTAGAAAATACTTTA 1494 Query 172419 TATGAAGA 172426 | |||||| Sbjct 1495 TTTGAAGA 1502 >seq813 Length=20179 Score = 84.2 bits (92), Expect = 2e-11 Identities = 58/66 (88%), Gaps = 0/66 (0%) Strand=Plus/Minus Query 171599 ATGGAAGTTATGCATGAAAGAAATGCACACAACTTCCCACTAGACCTAGCATCTGCTGAG 171658 |||||||||||||||||| | ||||| ||||||||||| ||||||||||| ||| |||| Sbjct 10706 ATGGAAGTTATGCATGAACGTAATGCTCACAACTTCCCTCTAGACCTAGCTGCTGTTGAG 10647 Query 171659 TCTACA 171664 ||| || Sbjct 10646 TCTCCA 10641 >seq2 Length=43799612 Score = 84.2 bits (92), Expect = 2e-11 Identities = 164/237 (69%), Gaps = 4/237 (2%) Strand=Plus/Plus Query 170706 TTGGTTGGTTTGGTGTCTTAATGATCCCATGTCTT-CTAACTGCTGCTGCTTGTTTCATT 170764 |||| ||||||||||| || ||||| || | |||| | || | | | || ||| ||| Sbjct 8463553 TTGGATGGTTTGGTGTTTTGATGAT-CCTTATCTTATTGACCGTAGTTTCTGTTTTTATT 8463611 Query 170765 GTAGCATTCATCGCTGCTCCTCCAGTCGATATCGACGGAATCAGAGAACCAGTTGCGGGT 170824 | |||||||| |||| ||||||||| ||| | || || || | ||||| || | | Sbjct 8463612 ATCGCATTCATTGCTGTTCCTCCAGTAGATTTTGATGGTATTTGTGAACCTATTTCTCGA 8463671 Query 170825 TCT-TTCTTATATGGTAACAACATCATCTCTGGTGCTGTAGTTCCATCTTCAAACGCAAT 170883 ||| ||||| ||||| ||| | || || || ||||| | ||| |||| || || Sbjct 8463672 TCTCTTCTT-TATGGAAACGATATTATTTCAGGTGCCATTATTCATACTTCTGCAGCTAT 8463730 Query 170884 AGGATTACACTTCTATCCCATCTGGGAAGCAGCCACTATGGACGAGTGGTTGTACAA 170940 || || || || ||| | | ||||||||| || | | || || ||| | ||||| Sbjct 8463731 TGGTTTGCATTTTTATTCAAACTGGGAAGCTGCATTTGTTGATGAATGGCTATACAA 8463787 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 570192697628640