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: Brassica_20rapa_20[refseq_20GCF_5F000309985.1_202012-11-07] 40,249 sequences; 284,129,391 total letters Query= NC_018875.1 Length=119082 Score E Sequences producing significant alignments: (Bits) Value seq6 140 2e-28 seq9 105 5e-18 seq3 105 5e-18 seq8 95.1 9e-15 seq5 95.1 9e-15 seq1 82.4 6e-11 >seq6 Length=26286742 Score = 140 bits (154), Expect = 2e-28 Identities = 167/227 (74%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 48540 CCGCCCCTTAGCCGCAACACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGAT 48599 || || | ||| ||||| ||||| || || || |||||| ||||| ||||| |||| | Sbjct 15797410 CCTCCACGTAGACGCAAGACCAAGTGGAGAGTCGACTCTTTCTGAATGTTGTAGTCAGCT 15797351 Query 48600 AGACTTCGATCGTCGTCCAACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGA 48659 ||| | | | || ||||||||||| ||||||||||||| | ||| || |||| || Sbjct 15797350 AGAGTCCTTCCATCCTCCAACTGCTTGCCGGCAAATATCAACCTCTGCTGGTCCGGTGGG 15797291 Query 48660 ACGCCCTCCTTGTCGCTAATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCACC 48719 | |||||||| || |||||| || ||| | | | || || || ||||||| Sbjct 15797290 ATTCCCTCCTTATCCTGAATCTTGGCCTTGACATTATCAATAGTGTCAGAGCTCTCCACC 15797231 Query 48720 TCCACCGTAATCGTTTTTCCCGTCAAAGTTTTTACAAAAATCTGCAT 48766 |||| |||||||| || ||||||||||| || |||||||| ||||| Sbjct 15797230 TCCAAAGTAATCGTCTTCCCCGTCAAAGTCTTGACAAAAATTTGCAT 15797184 Score = 104 bits (114), Expect = 2e-17 Identities = 138/192 (72%), Gaps = 0/192 (0%) Strand=Plus/Minus Query 48575 CTCTTTTTGAATATTGTAATCAGATAGACTTCGATCGTCGTCCAACTGCTTACCGGCAAA 48634 ||| || || || ||||| |||| ||| | | | || |||| |||||| |||||||| Sbjct 15797147 CTCCTTCTGGATGTTGTAGTCAGCAAGAGTCCTTCCATCCTCCAGCTGCTTGCCGGCAAA 15797088 Query 48635 TATCAGTCGCTGTTGATCCGTGGGAACGCCCTCCTTGTCGCTAATCTTTTGTTTTACAGA 48694 || || | ||| || |||| || | |||||||| || |||||| || ||| Sbjct 15797087 GATGAGCCTCTGCTGGTCCGGTGGGATTCCCTCCTTATCCTGAATCTTGGCCTTGACATT 15797028 Query 48695 ACCCACAGACTCTGACGCCTCCACCTCCACCGTAATCGTTTTTCCCGTCAAAGTTTTTAC 48754 | | | || || || ||||||||||| |||||||| || ||||||||||| || || Sbjct 15797027 ATCAATAGTGTCAGAGCTCTCCACCTCCAAAGTAATCGTCTTCCCCGTCAAAGTCTTGAC 15796968 Query 48755 AAAAATCTGCAT 48766 |||||| ||||| Sbjct 15796967 AAAAATTTGCAT 15796956 Score = 98.7 bits (108), Expect = 8e-16 Identities = 159/229 (69%), Gaps = 0/229 (0%) Strand=Plus/Minus Query 48539 GCCGCCCCTTAGCCGCAACACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGA 48598 ||| || | ||| ||||| |||| || ||||| ||| || || ||||||||||||| Sbjct 15796499 GCCTCCACGTAGACGCAAGACCAGGTGAAGCGTAGACTCCTTCTGGATATTGTAATCAGC 15796440 Query 48599 TAGACTTCGATCGTCGTCCAACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGG 48658 | | | |||| ||||||||||| ||||| || || || | ||| ||||| | || Sbjct 15796439 CAAGGTCCTGCCGTCTTCCAACTGCTTTCCGGCGAAGATGAGCCTCTGCTGATCAGGAGG 15796380 Query 48659 AACGCCCTCCTTGTCGCTAATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCAC 48718 || ||| |||||||| |||||| ||| || | | | || || ||||| Sbjct 15796379 AATGCCTTCCTTGTCCTGAATCTTGGCTTTAACGTTGTCGATGGTGTCAGAGCTTTCCAC 15796320 Query 48719 CTCCACCGTAATCGTTTTTCCCGTCAAAGTTTTTACAAAAATCTGCATC 48767 ||| | || || || ||||| || | ||||| ||||| ||||||||| Sbjct 15796319 CTCAAGGGTGATGGTCTTTCCGGTGAGGGTTTTCACAAAGATCTGCATC 15796271 Score = 84.2 bits (92), Expect = 2e-11 Identities = 144/209 (69%), Gaps = 0/209 (0%) Strand=Plus/Minus Query 48558 ACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGATAGACTTCGATCGTCGTCC 48617 ||||| || |||||| ||| || || || ||||| || | || | ||| | || || Sbjct 15797848 ACCAAGTGAAGCGTGGACTCCTTCTGGATGTTGTAGTCGGCTAAGGTGCGACCATCCTCG 15797789 Query 48618 AACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGAACGCCCTCCTTGTCGCTA 48677 | |||||| || || || || || ||||| || |||| || | ||| |||||||| Sbjct 15797788 AGCTGCTTTCCAGCGAAGATGAGACGCTGCTGGTCCGGAGGGATGCCTTCCTTGTCTTGG 15797729 Query 48678 ATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCACCTCCACCGTAATCGTTTTT 48737 ||||| || || | | || || || ||||||||| | ||| ||||| || Sbjct 15797728 ATCTTGGCCTTCACGTTGTCAATAGTGTCGGAGCTCTCCACCTCAAGCGTGATCGTCTTG 15797669 Query 48738 CCCGTCAAAGTTTTTACAAAAATCTGCAT 48766 || ||||| || || || ||||||||||| Sbjct 15797668 CCGGTCAATGTCTTAACGAAAATCTGCAT 15797640 >seq9 Length=37155481 Score = 105 bits (116), Expect = 5e-18 Identities = 154/218 (71%), Gaps = 0/218 (0%) Strand=Plus/Plus Query 48549 AGCCGCAACACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGATAGACTTCGA 48608 || ||||| ||||| || || || ||| || || ||||||||||||| || ||| Sbjct 16984481 AGACGCAAGACCAAGTGGAGAGTAGACTCCTTCTGGATATTGTAATCAGCGAGGGTTCTG 16984540 Query 48609 TCGTCGTCCAACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGAACGCCCTCC 48668 |||| || | ||||||||| ||||| |||| ||||| || || | |||| |||||| Sbjct 16984541 CCGTCCTCGAGCTGCTTACCAGCAAAGATCAAACGCTGCTGGTCGGGAGGAATACCCTCC 16984600 Query 48669 TTGTCGCTAATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCACCTCCACCGTA 48728 ||||| ||||| ||| || | | | || || ||||||||| | ||| Sbjct 16984601 TTGTCTTGGATCTTAGCTTTAACGTTGTCGATGGTGTCGGAGCTCTCCACCTCGAGCGTG 16984660 Query 48729 ATCGTTTTTCCCGTCAAAGTTTTTACAAAAATCTGCAT 48766 ||||| ||||| || | ||| || ||||| |||||||| Sbjct 16984661 ATCGTCTTTCCGGTGAGAGTCTTAACAAAGATCTGCAT 16984698 Score = 95.1 bits (104), Expect = 9e-15 Identities = 157/227 (69%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 48540 CCGCCCCTTAGCCGCAACACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGAT 48599 || || | ||| ||||| ||||| || || || ||| || ||||| || || |||| Sbjct 16960701 CCTCCACGTAGACGCAAGACCAAGTGGAGAGTAGACTCCTTCTGAATGTTATAGTCAGCC 16960760 Query 48600 AGACTTCGATCGTCGTCCAACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGA 48659 | | ||| | || || | |||||| |||||||| |||| | ||| ||||||| ||| Sbjct 16960761 AAGGTACGACCATCCTCGAGCTGCTTGCCGGCAAAGATCAACCTCTGCTGATCCGGAGGA 16960820 Query 48660 ACGCCCTCCTTGTCGCTAATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCACC 48719 | ||||||||||| ||||| || || | | || ||||| ||||||| Sbjct 16960821 ATACCCTCCTTGTCCTGGATCTTAGCCTTGACGTTGTCAATAGTATCTGAACTCTCCACC 16960880 Query 48720 TCCACCGTAATCGTTTTTCCCGTCAAAGTTTTTACAAAAATCTGCAT 48766 |||| ||||| || ||||| || || || || || || || ||||| Sbjct 16960881 TCCAAAGTAATAGTCTTTCCGGTTAATGTCTTAACGAAGATTTGCAT 16960927 Score = 86.0 bits (94), Expect = 5e-12 Identities = 142/205 (69%), Gaps = 0/205 (0%) Strand=Plus/Minus Query 48563 ATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGATAGACTTCGATCGTCGTCCAACTG 48622 ||| ||||| ||| || || | ||||| || | || | || |||| |||| ||| Sbjct 30362448 ATGAAGCGTCGACTCCTTCTGGGTGTTGTAGTCGGCGAGCGTGCGTCCGTCTTCCAGCTG 30362389 Query 48623 CTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGAACGCCCTCCTTGTCGCTAATCTT 48682 ||| ||||| || ||||||||||| || || | || | ||| |||||||| ||||| Sbjct 30362388 CTTCCCGGCGAAAATCAGTCGCTGCTGGTCGGGAGGGATGCCTTCCTTGTCCTGGATCTT 30362329 Query 48683 TTGTTTTACAGAACCCACAGACTCTGACGCCTCCACCTCCACCGTAATCGTTTTTCCCGT 48742 || ||| | | | || || | ||| ||||| | || || ||||||||||| Sbjct 30362328 GGCCTTGACATTGTCGATGGTGTCGGAGGACTCGACCTCGAGGGTGATTGTTTTTCCCGT 30362269 Query 48743 CAAAGTTTTTACAAAAATCTGCATC 48767 | ||||| ||||| ||||||||| Sbjct 30362268 AAGGGTTTTCACAAAGATCTGCATC 30362244 >seq3 Length=31725688 Score = 105 bits (116), Expect = 5e-18 Identities = 160/228 (70%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 48539 GCCGCCCCTTAGCCGCAACACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGA 48598 ||| || | ||| ||||| ||||| || || || |||||| ||||| |||||||| | Sbjct 13311199 GCCTCCACGTAGACGCAAGACCAAGTGAAGAGTTGACTCTTTCTGAATGTTGTAATCCGC 13311140 Query 48599 TAGACTTCGATCGTCGTCCAACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGG 48658 | | ||| | || ||||||||||| |||||||| |||| | ||| || |||| || Sbjct 13311139 CAAGGTGCGACCATCTTCCAACTGCTTTCCGGCAAAGATCAACCTCTGCTGGTCCGGTGG 13311080 Query 48659 AACGCCCTCCTTGTCGCTAATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCAC 48718 | |||||||| || ||||| || ||| | | || || || ||| || Sbjct 13311079 GATTCCCTCCTTATCCTGGATCTTGGCCTTAACATTGTCAATAGTGTCAGAGCTCTCAAC 13311020 Query 48719 CTCCACCGTAATCGTTTTTCCCGTCAAAGTTTTTACAAAAATCTGCAT 48766 ||||| || || || ||||| ||||| || || ||||| |||||||| Sbjct 13311019 CTCCAAAGTGATAGTCTTTCCGGTCAAGGTCTTGACAAAGATCTGCAT 13310972 >seq8 Length=21613650 Score = 95.1 bits (104), Expect = 9e-15 Identities = 153/220 (70%), Gaps = 0/220 (0%) Strand=Plus/Minus Query 48549 AGCCGCAACACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGATAGACTTCGA 48608 || ||||||||||| || || | |||| || || || ||||| |||| ||| ||| | Sbjct 12585009 AGACGCAACACCAAGTGGAGATTAGTCTCCTTCTGGATGTTGTAGTCAGCGAGAGTTCTA 12584950 Query 48609 TCGTCGTCCAACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGAACGCCCTCC 48668 |||| || | |||||| ||||| || |||| | ||| ||||||| ||||| ||| ||| Sbjct 12584949 CCGTCTTCAAGCTGCTTTCCGGCGAAGATCAACCTCTGCTGATCCGGGGGAATGCCTTCC 12584890 Query 48669 TTGTCGCTAATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCACCTCCACCGTA 48728 || || ||||| ||| || | | | || || |||||||| | || Sbjct 12584889 TTATCCTGGATCTTGGCTTTGACGTTGTCGATGGTGTCGGAGCTTTCCACCTCGAGGGTG 12584830 Query 48729 ATCGTTTTTCCCGTCAAAGTTTTTACAAAAATCTGCATCG 48768 ||||| || || || | ||| || || || |||||||||| Sbjct 12584829 ATCGTCTTCCCGGTGAGAGTCTTAACGAAGATCTGCATCG 12584790 Score = 87.8 bits (96), Expect = 1e-12 Identities = 150/218 (69%), Gaps = 0/218 (0%) Strand=Plus/Minus Query 48549 AGCCGCAACACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGATAGACTTCGA 48608 || ||||||||||| || || || ||| || || || ||||| |||| ||| ||| | Sbjct 12585237 AGACGCAACACCAAGTGGAGAGTAGACTCCTTCTGGATGTTGTAGTCAGCCAGAGTTCTA 12585178 Query 48609 TCGTCGTCCAACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGAACGCCCTCC 48668 |||| || | |||||| ||||| || |||| | ||| || |||| || | || ||| Sbjct 12585177 CCGTCTTCAAGCTGCTTGCCGGCGAAGATCAACCTCTGCTGGTCCGGAGGGATCCCTTCC 12585118 Query 48669 TTGTCGCTAATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCACCTCCACCGTA 48728 ||||| ||||| ||| || | | | || || ||| ||||| | || Sbjct 12585117 TTGTCTTGGATCTTGGCTTTCACGTTGTCGATTGTGTCGGAACTCTCGACCTCAAGGGTG 12585058 Query 48729 ATCGTTTTTCCCGTCAAAGTTTTTACAAAAATCTGCAT 48766 ||||| ||||| ||||| || || || || |||||||| Sbjct 12585057 ATCGTCTTTCCGGTCAAGGTCTTGACGAAGATCTGCAT 12585020 >seq5 Length=23960834 Score = 95.1 bits (104), Expect = 9e-15 Identities = 144/205 (70%), Gaps = 0/205 (0%) Strand=Plus/Minus Query 48563 ATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGATAGACTTCGATCGTCGTCCAACTG 48622 |||||| || ||| || || || |||||||| | ||| ||| |||| || | ||| Sbjct 16975051 ATGTAGAGTCGACTCCTTCTGGATGTTGTAATCGGCTAGGGTTCTCCCGTCCTCGAGCTG 16974992 Query 48623 CTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGAACGCCCTCCTTGTCGCTAATCTT 48682 ||| ||||| || || || | ||| ||||||| |||| |||||||||||| |||||| Sbjct 16974991 CTTTCCGGCGAAGATGAGCCTCTGCTGATCCGGAGGAATGCCCTCCTTGTCTTGAATCTT 16974932 Query 48683 TTGTTTTACAGAACCCACAGACTCTGACGCCTCCACCTCCACCGTAATCGTTTTTCCCGT 48742 ||| ||| | | | || || |||||||| | || ||||| |||||||| Sbjct 16974931 GGCTTTAACATTGTCGATGGTGTCAGAGCTTTCCACCTCAAGGGTGATCGTCTTTCCCGT 16974872 Query 48743 CAAAGTTTTTACAAAAATCTGCATC 48767 || || || | ||| || |||||| Sbjct 16974871 TAAGGTCTTGAAAAAGATATGCATC 16974847 Score = 91.5 bits (100), Expect = 1e-13 Identities = 151/218 (69%), Gaps = 0/218 (0%) Strand=Plus/Minus Query 48549 AGCCGCAACACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGATAGACTTCGA 48608 || || ||||| | ||| || || ||| || ||||| ||||| || | | | ||| Sbjct 16975293 AGACGTAACACGAGATGAAGAGTCGACTCCTTCTGAATGTTGTAGTCGGCCAATGTACGA 16975234 Query 48609 TCGTCGTCCAACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGGAACGCCCTCC 48668 | || ||||||||||| |||||||| |||| ||||| || || | || | |||||| Sbjct 16975233 CCATCCTCCAACTGCTTGCCGGCAAAGATCAAACGCTGCTGGTCGGGCGGGATTCCCTCC 16975174 Query 48669 TTGTCGCTAATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCACCTCCACCGTA 48728 ||||| ||||| || || | | | | || || ||||||||| | || Sbjct 16975173 TTGTCCTGTATCTTAGCCTTGACGTTATCGATGGTGTCGGAGCTCTCCACCTCGAGTGTG 16975114 Query 48729 ATCGTTTTTCCCGTCAAAGTTTTTACAAAAATCTGCAT 48766 ||||| |||||||| || || || ||||| |||||||| Sbjct 16975113 ATCGTCTTTCCCGTTAAGGTCTTGACAAAGATCTGCAT 16975076 >seq1 Length=28635137 Score = 82.4 bits (90), Expect = 6e-11 Identities = 155/228 (68%), Gaps = 0/228 (0%) Strand=Plus/Plus Query 48539 GCCGCCCCTTAGCCGCAACACCAAATGTAGCGTGCTCTCTTTTTGAATATTGTAATCAGA 48598 ||| || | ||| ||||| ||||| || ||||| ||| || || || |||||||| | Sbjct 22221647 GCCTCCACGTAGACGCAAGACCAAGTGAAGCGTAGACTCCTTCTGGATGTTGTAATCTGC 22221706 Query 48599 TAGACTTCGATCGTCGTCCAACTGCTTACCGGCAAATATCAGTCGCTGTTGATCCGTGGG 48658 | | ||| | || |||| |||||| || ||||| |||| | ||| || || | || Sbjct 22221707 CAAGGTGCGACCATCCTCCAGCTGCTTTCCAGCAAAGATCAACCTCTGCTGGTCTGGTGG 22221766 Query 48659 AACGCCCTCCTTGTCGCTAATCTTTTGTTTTACAGAACCCACAGACTCTGACGCCTCCAC 48718 | ||||| ||||| ||||| ||| || | | || || || || || Sbjct 22221767 GATACCCTCTTTGTCTTGGATCTTGGCTTTGACGTTGTCAATAGTGTCGGAGCTTTCAAC 22221826 Query 48719 CTCCACCGTAATCGTTTTTCCCGTCAAAGTTTTTACAAAAATCTGCAT 48766 ||||| || || || |||||||||||||| || || || || ||||| Sbjct 22221827 CTCCAAAGTGATAGTCTTTCCCGTCAAAGTCTTAACGAAGATTTGCAT 22221874 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 380750736893427