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_004062.1 Length=119217 Score E Sequences producing significant alignments: (Bits) Value seq5 113 3e-20 seq9 105 5e-18 seq8 86.0 5e-12 >seq5 Length=23960834 Score = 113 bits (124), Expect = 3e-20 Identities = 166/230 (72%), Gaps = 4/230 (2%) Strand=Plus/Minus Query 42882 GCCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGA 42941 |||||||||||| | |||||| | ||| | ||| |||||| || | ||||| |||| Sbjct 16975303 GCCTCCACGCAGACGTAACACGAGATGAAGAGTCGACTCCTTCTGAATGTTGTAGTCGGC 16975244 Query 42942 CAATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGG 43001 ||||||||| | || ||||| || ||||||||||| ||||| ||||| || |||| ||| Sbjct 16975243 CAATGTACGACCATCCTCCAACTGCTTGCCGGCAAAGATCAAACGCTGCTGGTCGGGCGG 16975184 Query 43002 CACACCTTCTTTTTCGCTG-ATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGC-CTCG 43059 | || || || || ||| ||| | ||||| | | | |||||| ||| ||| Sbjct 16975183 GATTCCCTCCTTGTC-CTGTATCTTAGCCTTGACGTTATCGATGGTGTCG-GAGCTCTCC 16975126 Query 43060 ACGTCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 || || | || || || ||||| |||| || || ||||| || ||||| Sbjct 16975125 ACCTCGAGTGTGATCGTCTTTCCCGTTAAGGTCTTGACAAAGATCTGCAT 16975076 >seq9 Length=37155481 Score = 105 bits (116), Expect = 5e-18 Identities = 160/228 (70%), Gaps = 0/228 (0%) Strand=Plus/Plus Query 42882 GCCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGA 42941 ||| |||||||| | |||||||||||| | ||| |||||| || | ||||| || | Sbjct 16984243 GCCACCACGCAGACGTAACACCAAATGAAGAGTCGACTCCTTCTGAATGTTGTAGTCAGC 16984302 Query 42942 CAATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGG 43001 ||| ||||| | || || | || ||||||||||| ||||| | ||| || || | || Sbjct 16984303 CAAGGTACGACCATCCTCGAGCTGCTTGCCGGCAAAGATCAACCTCTGCTGGTCTGGAGG 16984362 Query 43002 CACACCTTCTTTTTCGCTGATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGCCTCGAC 43061 | ||||| || || |||| | || || || ||| |||||| | ||| || Sbjct 16984363 AATGCCTTCCTTGTCCTGGATCTTAGCCTTAACGTTGTCAATGGTGTCGGAACTCTCCAC 16984422 Query 43062 GTCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 |||| || || || || ||||| ||||| || ||||| || ||||| Sbjct 16984423 CTCTAGAGTAATGGTCTTACCGGTAAGAGTCTTGACAAAGATCTGCAT 16984470 Score = 98.7 bits (108), Expect = 8e-16 Identities = 160/228 (70%), Gaps = 2/228 (1%) Strand=Plus/Plus Query 42883 CCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGAC 42942 ||||||||||| | || ||||| |||| ||| |||||| || | ||||||||| | Sbjct 16984472 CCTCCACGCAGACGCAAGACCAAGTGGAGAGTAGACTCCTTCTGGATATTGTAATCAGCG 16984531 Query 42943 AATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGC 43002 | || | |||| || | || || || ||||| ||||| ||||| || |||| || Sbjct 16984532 AGGGTTCTGCCGTCCTCGAGCTGCTTACCAGCAAAGATCAAACGCTGCTGGTCGGGAGGA 16984591 Query 43003 ACACCTTCTTTTTCGCTGATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGC-CTCGAC 43061 | ||| || || || |||| |||| || || | | |||||| ||| ||| || Sbjct 16984592 ATACCCTCCTTGTCTTGGATCTTAGCTTTAACGTTGTCGATGGTGTCG-GAGCTCTCCAC 16984650 Query 43062 GTCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 || | ||| || || |||||||| ||||| || ||||| || ||||| Sbjct 16984651 CTCGAGCGTGATCGTCTTTCCGGTGAGAGTCTTAACAAAGATCTGCAT 16984698 Score = 95.1 bits (104), Expect = 9e-15 Identities = 157/227 (69%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 42883 CCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGAC 42942 |||||||| || | || ||||| |||| ||| |||||| || | || || || | | Sbjct 16960473 CCTCCACGTAGACGCAAGACCAAGTGGAGAGTAGACTCCTTCTGAATGTTATAGTCAGCC 16960532 Query 42943 AATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGC 43002 || ||||| | || || | || ||||||||||| ||||| ||||| || || | || Sbjct 16960533 AAGGTACGACCATCCTCGAGCTGCTTGCCGGCAAAGATCAAACGCTGCTGGTCCGGAGGA 16960592 Query 43003 ACACCTTCTTTTTCGCTGATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGCCTCGACG 43062 | |||||||| || ||| |||| || || ||| |||||| | ||| || Sbjct 16960593 ATGCCTTCTTTGTCTTGGATTTTGGCTTTCACGTTGTCAATGGTGTCGGAACTCTCCACC 16960652 Query 43063 TCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 |||| || || || || ||||| || || || ||||| || ||||| Sbjct 16960653 TCTAGAGTAATGGTCTTCCCGGTCAGTGTCTTGACAAAGATCTGCAT 16960699 Score = 95.1 bits (104), Expect = 9e-15 Identities = 142/199 (71%), Gaps = 2/199 (1%) Strand=Plus/Plus Query 42918 CTCCTTTTGCACATTGTAATCGGACAATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAA 42977 |||||| || | |||||||| | | ||| | | |||| |||| || || ||||| || Sbjct 24150887 CTCCTTCTGGATGTTGTAATCCGCGAGTGTCCTTCCGTCTTCCAGCTGCTTCCCGGCGAA 24150946 Query 42978 AATCAATCGCTGTTGATCGGCCGGCACACCTTCTTTTTCGCTGA-TCAACTCTTTGACTC 43036 |||| ||||| || || | ||| | |||||| || || |||| || | || || Sbjct 24150947 GATCAGACGCTGCTGGTCCGGCGGGATACCTTCCTTGTC-CTGAATCTTGGCCTTCACAT 24151005 Query 43037 TGCCAACTGTGTCGCCAGCCTCGACGTCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCA 43096 || | | |||||| | ||||| |||| ||||| || || || ||||| ||||||| Sbjct 24151006 TGTCGATCGTGTCGGATGATTCGACCTCTAAGGTTATCGTCTTCCCCGTTAGGGTTTTCA 24151065 Query 43097 CAAAAATTTGCATTTTCTT 43115 |||| || ||||||||||| Sbjct 24151066 CAAAGATCTGCATTTTCTT 24151084 Score = 91.5 bits (100), Expect = 1e-13 Identities = 137/195 (70%), Gaps = 0/195 (0%) Strand=Plus/Minus Query 42918 CTCCTTTTGCACATTGTAATCGGACAATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAA 42977 |||||| || ||||| |||| | || ||| |||| |||| || || ||||| || Sbjct 30362436 CTCCTTCTGGGTGTTGTAGTCGGCGAGCGTGCGTCCGTCTTCCAGCTGCTTCCCGGCGAA 30362377 Query 42978 AATCAATCGCTGTTGATCGGCCGGCACACCTTCTTTTTCGCTGATCAACTCTTTGACTCT 43037 ||||| |||||| || |||| || | ||||| || || |||| | ||||| | Sbjct 30362376 AATCAGTCGCTGCTGGTCGGGAGGGATGCCTTCCTTGTCCTGGATCTTGGCCTTGACATT 30362317 Query 43038 GCCAACTGTGTCGCCAGCCTCGACGTCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCAC 43097 | | | |||||| | |||||| || | || || |||||||| || || |||||||| Sbjct 30362316 GTCGATGGTGTCGGAGGACTCGACCTCGAGGGTGATTGTTTTTCCCGTAAGGGTTTTCAC 30362257 Query 43098 AAAAATTTGCATTTT 43112 ||| || ||||| || Sbjct 30362256 AAAGATCTGCATCTT 30362242 Score = 89.7 bits (98), Expect = 4e-13 Identities = 156/227 (69%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 42883 CCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGAC 42942 |||||||| || | || ||||| |||| ||| |||||| || | || || || | | Sbjct 16960701 CCTCCACGTAGACGCAAGACCAAGTGGAGAGTAGACTCCTTCTGAATGTTATAGTCAGCC 16960760 Query 42943 AATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGC 43002 || ||||| | || || | || ||||||||||| ||||| | ||| ||||| | || Sbjct 16960761 AAGGTACGACCATCCTCGAGCTGCTTGCCGGCAAAGATCAACCTCTGCTGATCCGGAGGA 16960820 Query 43003 ACACCTTCTTTTTCGCTGATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGCCTCGACG 43062 | ||| || || || |||| | ||||| || ||| || || | ||| || Sbjct 16960821 ATACCCTCCTTGTCCTGGATCTTAGCCTTGACGTTGTCAATAGTATCTGAACTCTCCACC 16960880 Query 43063 TCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 || | || ||||| |||||||||| || || || || |||||||| Sbjct 16960881 TCCAAAGTAATAGTCTTTCCGGTTAATGTCTTAACGAAGATTTGCAT 16960927 >seq8 Length=21613650 Score = 86.0 bits (94), Expect = 5e-12 Identities = 155/227 (68%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 42883 CCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGAC 42942 ||||||||||| | |||||||| |||| ||| |||||| || | ||||| || | | Sbjct 12585246 CCTCCACGCAGACGCAACACCAAGTGGAGAGTAGACTCCTTCTGGATGTTGTAGTCAGCC 12585187 Query 42943 AATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGC 43002 | || | |||| || | || |||||||| || ||||| | ||| || || | || Sbjct 12585186 AGAGTTCTACCGTCTTCAAGCTGCTTGCCGGCGAAGATCAACCTCTGCTGGTCCGGAGGG 12585127 Query 43003 ACACCTTCTTTTTCGCTGATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGCCTCGACG 43062 | ||||| || || |||| |||| || || | | ||||||| | |||||| Sbjct 12585126 ATCCCTTCCTTGTCTTGGATCTTGGCTTTCACGTTGTCGATTGTGTCGGAACTCTCGACC 12585067 Query 43063 TCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 || | || || || |||||||| | || || || || || ||||| Sbjct 12585066 TCAAGGGTGATCGTCTTTCCGGTCAAGGTCTTGACGAAGATCTGCAT 12585020 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 381182524982442