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_006639.1 Length=24748 Score E Sequences producing significant alignments: (Bits) Value seq6 174 2e-39 seq3 145 1e-30 seq2 143 4e-30 seq9 140 5e-29 seq4 116 6e-22 seq5 95.1 2e-15 seq8 87.8 3e-13 seq7 80.6 4e-11 >seq6 Length=26286742 Score = 174 bits (192), Expect = 2e-39 Identities = 186/246 (76%), Gaps = 0/246 (0%) Strand=Plus/Plus Query 16454 CTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTATCCGTCGTCTGGCTCGTCGTGGT 16513 ||| |||||||||||||||| ||||||||||| ||||| |||||||| |||||||| ||| Sbjct 2590055 CTTAGAGATAACATCCAAGGTATCACCAAGCCTGCTATTCGTCGTCTTGCTCGTCGAGGT 2590114 Query 16514 GGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGATTCGTGATGTTTTGAAGATCTTC 16573 || ||||||||| || || ||| |||| ||||||| | | || | ||||||||| Sbjct 2590115 GGTGTCAAGCGTATCAGCGGTTTGATCTACGAAGAGACCAGAGGAGTCCTCAAGATCTTC 2590174 Query 16574 CTCAAGACCGTTATCCATGATGCTTTCCACTATACCGAGCACGCTAAACGTAAGACTGTC 16633 ||| ||| || |||| || ||| | ||| ||||||||||| | | ||||||||| Sbjct 2590175 CTCGAGAATGTCATCCGCGACGCTGTTACCTACACCGAGCACGCCAGGAGGAAGACTGTC 2590234 Query 16634 ACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGGCCGTAAGATTTATGGTTTTGGA 16693 || | |||||| | || ||||| ||||| | ||||| || | | || ||||| || Sbjct 2590235 ACTGCTATGGATGTTGTTTATGCTTTGAAGAGGCAAGGTCGCACTCTCTACGGTTTCGGC 2590294 Query 16694 AGTTAA 16699 ||||| Sbjct 2590295 GGTTAA 2590300 Score = 168 bits (186), Expect = 1e-37 Identities = 185/246 (75%), Gaps = 0/246 (0%) Strand=Plus/Minus Query 16454 CTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTATCCGTCGTCTGGCTCGTCGTGGT 16513 ||| |||||||||||||||| ||||||||||| ||||| |||||||| |||||||| ||| Sbjct 2643316 CTTAGAGATAACATCCAAGGTATCACCAAGCCTGCTATTCGTCGTCTTGCTCGTCGAGGT 2643257 Query 16514 GGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGATTCGTGATGTTTTGAAGATCTTC 16573 || ||||||||| | || ||| |||| || |||| | | || | ||||||||| Sbjct 2643256 GGCGTCAAGCGTATAAGCGGTTTGATCTACGAGGAGACCAGAGGAGTCCTCAAGATCTTC 2643197 Query 16574 CTCAAGACCGTTATCCATGATGCTTTCCACTATACCGAGCACGCTAAACGTAAGACTGTC 16633 ||| ||| || || | ||| ||| || ||| ||||||| ||| | | ||||||||| Sbjct 2643196 CTCGAGAATGTCATGCGTGACGCTGTCACCTACACCGAGCCCGCCAGGAGGAAGACTGTC 2643137 Query 16634 ACCTCCATGGATATCGTCTATGCATTGAAACGTCAAGGCCGTAAGATTTATGGTTTTGGA 16693 || | |||||| | || ||||| ||||| | ||||| || | | || ||||| ||| Sbjct 2643136 ACTGCTATGGATGTTGTTTATGCTTTGAAGAGGCAAGGACGCACTCTCTACGGTTTCGGA 2643077 Query 16694 AGTTAA 16699 ||||| Sbjct 2643076 GGTTAA 2643071 Score = 134 bits (148), Expect = 2e-27 Identities = 149/199 (75%), Gaps = 0/199 (0%) Strand=Plus/Minus Query 16458 GAGATAACATCCAAGGAATCACCAAGCCAGCTATCCGTCGTCTGGCTCGTCGTGGTGGAG 16517 |||| ||||||||||||||||||||||| || || |||||| |||||||| | || || | Sbjct 11290740 GAGACAACATCCAAGGAATCACCAAGCCTGCGATTCGTCGTTTGGCTCGTAGAGGAGGCG 11290681 Query 16518 TCAAGCGTGTCTCTGGATTGGTCTATGAAGAGATTCGTGATGTTTTGAAGATCTTCCTCA 16577 | |||||| || || || |||| || |||| ||||| | | |||||||| | Sbjct 11290680 TGAAGCGTATCAGCGGTCTGATCTACGAGGAGACTCGTGGCGGCCTCAAGATCTTTTTGG 11290621 Query 16578 AGACCGTTATCCATGATGCTTTCCACTATACCGAGCACGCTAAACGTAAGACTGTCACCT 16637 ||| |||||||| ||| || || ||| ||||||||||| || ||||| || || Sbjct 11290620 AGAACGTTATCCGTGACGCCGTCACCTACACCGAGCACGCGCGGCGGAAGACGGTGACGG 11290561 Query 16638 CCATGGATATCGTCTATGC 16656 |||||||| | || ||||| Sbjct 11290560 CCATGGATGTGGTGTATGC 11290542 >seq3 Length=31725688 Score = 145 bits (160), Expect = 1e-30 Identities = 155/205 (76%), Gaps = 0/205 (0%) Strand=Plus/Minus Query 16458 GAGATAACATCCAAGGAATCACCAAGCCAGCTATCCGTCGTCTGGCTCGTCGTGGTGGAG 16517 |||| ||||||||||| ||||||||||| || || || | |||||||| | ||||||| Sbjct 4696918 GAGACAACATCCAAGGGATCACCAAGCCGGCGATTCGGAGATTGGCTCGTAGAGGTGGAG 4696859 Query 16518 TCAAGCGTGTCTCTGGATTGGTCTATGAAGAGATTCGTGATGTTTTGAAGATCTTCCTCA 16577 |||||||| || ||| | |||| || |||| |||| || | |||||||| | Sbjct 4696858 TCAAGCGTATCAGTGGTCTTATCTACGAGGAGACACGTGGCGTACTCAAGATCTTTTTGG 4696799 Query 16578 AGACCGTTATCCATGATGCTTTCCACTATACCGAGCACGCTAAACGTAAGACTGTCACCT 16637 ||| |||||||| ||| ||| | ||| ||||||||||||| | ||||| || ||| Sbjct 4696798 AGAACGTTATCCGTGACGCTGTTACCTACACCGAGCACGCTAGGAGGAAGACGGTGACCG 4696739 Query 16638 CCATGGATATCGTCTATGCATTGAA 16662 ||||||| |||||||||| |||| Sbjct 4696738 CCATGGACGTCGTCTATGCTCTGAA 4696714 Score = 116 bits (128), Expect = 6e-22 Identities = 157/219 (72%), Gaps = 0/219 (0%) Strand=Plus/Plus Query 16458 GAGATAACATCCAAGGAATCACCAAGCCAGCTATCCGTCGTCTGGCTCGTCGTGGTGGAG 16517 |||| |||||||||||||| |||||||| || ||| | ||||| ||||| | || || | Sbjct 11331597 GAGACAACATCCAAGGAATTACCAAGCCTGCGATCAGGCGTCTTGCTCGCAGAGGAGGCG 11331656 Query 16518 TCAAGCGTGTCTCTGGATTGGTCTATGAAGAGATTCGTGATGTTTTGAAGATCTTCCTCA 16577 | ||||| || || ||| |||| ||||| | | | ||| |||||||||| ||| Sbjct 11331657 TTAAGCGAATCAGCGGTTTGATCTACGAAGAAACGAGAGGAGTTCTGAAGATCTTTCTCG 11331716 Query 16578 AGACCGTTATCCATGATGCTTTCCACTATACCGAGCACGCTAAACGTAAGACTGTCACCT 16637 ||| || ||| || || || || ||||||||||| | | ||||| || || Sbjct 11331717 AGAATGTGATCAGAGACGCCGTCACTTACACCGAGCACGCGAGGAGGAAGACGGTGACGG 11331776 Query 16638 CCATGGATATCGTCTATGCATTGAAACGTCAAGGCCGTA 16676 | |||||| | || ||||| ||||| | ||||| |||| Sbjct 11331777 CAATGGATGTGGTTTATGCTTTGAAGAGACAAGGACGTA 11331815 >seq2 Length=27864329 Score = 143 bits (158), Expect = 4e-30 Identities = 177/242 (73%), Gaps = 0/242 (0%) Strand=Plus/Minus Query 16458 GAGATAACATCCAAGGAATCACCAAGCCAGCTATCCGTCGTCTGGCTCGTCGTGGTGGAG 16517 |||| ||||||| |||||||||||||| || || || | ||||| ||| | ||||||| Sbjct 6089092 GAGACAACATCCGGGGAATCACCAAGCCGGCGATTCGGAGGCTGGCACGTAGAGGTGGAG 6089033 Query 16518 TCAAGCGTGTCTCTGGATTGGTCTATGAAGAGATTCGTGATGTTTTGAAGATCTTCCTCA 16577 |||||||| || ||| ||| |||| || |||| |||| || | |||||||| | Sbjct 6089032 TCAAGCGTATCAGTGGTTTGATCTACGAGGAGACACGTGGCGTCCTCAAGATCTTTTTGG 6088973 Query 16578 AGACCGTTATCCATGATGCTTTCCACTATACCGAGCACGCTAAACGTAAGACTGTCACCT 16637 ||| |||||| | ||| ||| | ||| || |||||||| | | | |||||||| || Sbjct 6088972 AGAACGTTATTCGTGACGCTGTGACCTACACTGAGCACGCCAGAAGGAAGACTGTGACTG 6088913 Query 16638 CCATGGATATCGTCTATGCATTGAAACGTCAAGGCCGTAAGATTTATGGTTTTGGAAGTT 16697 | |||||| | ||||| || ||||| | ||||| | | | |||| || || || ||| Sbjct 6088912 CGATGGATGTGGTCTACGCGTTGAAGAGGCAAGGGAGGACGCTTTACGGATTCGGCGGTT 6088853 Query 16698 AA 16699 || Sbjct 6088852 AA 6088851 >seq9 Length=37155481 Score = 140 bits (154), Expect = 5e-29 Identities = 176/242 (73%), Gaps = 0/242 (0%) Strand=Plus/Plus Query 16460 GATAACATCCAAGGAATCACCAAGCCAGCTATCCGTCGTCTGGCTCGTCGTGGTGGAGTC 16519 |||||||||||||| ||||||||||| || ||||||||||| ||||| | || || ||| Sbjct 35696106 GATAACATCCAAGGTATCACCAAGCCTGCCATCCGTCGTCTTGCTCGCAGAGGAGGTGTC 35696165 Query 16520 AAGCGTGTCTCTGGATTGGTCTATGAAGAGATTCGTGATGTTTTGAAGATCTTCCTCAAG 16579 |||||| | ||| | |||| || |||| | | || | |||||||| ||| || Sbjct 35696166 AAGCGTATTAGCGGACTCATCTACGAGGAGACAAGAGGAGTCCTCAAGATCTTTCTCGAG 35696225 Query 16580 ACCGTTATCCATGATGCTTTCCACTATACCGAGCACGCTAAACGTAAGACTGTCACCTCC 16639 | || |||| || ||| | ||| ||||||||||||| | |||||||| || | Sbjct 35696226 AATGTCATCCGCGACGCTGTTACCTACACCGAGCACGCTAGGAGGAAGACTGTTACGGCT 35696285 Query 16640 ATGGATATCGTCTATGCATTGAAACGTCAAGGCCGTAAGATTTATGGTTTTGGAAGTTAA 16699 |||||| | || || || ||||| | ||||| |||| | || ||||| || ||||| Sbjct 35696286 ATGGATGTGGTTTACGCGTTGAAGAGGCAAGGACGTACTCTCTACGGTTTCGGCGGTTAA 35696345 Query 16700 TC 16701 || Sbjct 35696346 TC 35696347 Score = 125 bits (138), Expect = 1e-24 Identities = 162/224 (72%), Gaps = 0/224 (0%) Strand=Plus/Minus Query 16433 GCTAAGCGTCATCGCAGATCTCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTATC 16492 || ||| | ||||| | | ||| ||||| |||||||||||||||||||| ||||| ||| Sbjct 26902290 GCCAAGAGGCATCGGAAAGTTCTCCGAGACAACATCCAAGGAATCACCAAACCAGCGATC 26902231 Query 16493 CGTCGTCTGGCTCGTCGTGGTGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGATT 16552 |||||||| || | | || || || |||||| || || ||| |||| ||||||| | Sbjct 26902230 CGTCGTCTAGCGAGAAGAGGAGGTGTGAAGCGTATCAGCGGTTTGATCTACGAAGAGACT 26902171 Query 16553 CGTGATGTTTTGAAGATCTTCCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGAG 16612 || | ||| | |||||||| || ||| ||| || | || || | || || ||| Sbjct 26902170 CGCGGCGTTCTCAAGATCTTTCTAGAGAACGTGATTCGCGACGCCGTTACGTACACGGAG 26902111 Query 16613 CACGCTAAACGTAAGACTGTCACCTCCATGGATATCGTCTATGC 16656 |||||| || || || ||||| ||||||| | ||||| || Sbjct 26902110 CACGCTCGCCGAAAAACAGTCACGGCCATGGACGTTGTCTACGC 26902067 Score = 91.5 bits (100), Expect = 2e-14 Identities = 61/68 (90%), Gaps = 0/68 (0%) Strand=Plus/Plus Query 16458 GAGATAACATCCAAGGAATCACCAAGCCAGCTATCCGTCGTCTGGCTCGTCGTGGTGGAG 16517 |||||||||||||||| ||||||||||| || ||||||||||| |||||||| || || | Sbjct 35742345 GAGATAACATCCAAGGTATCACCAAGCCTGCCATCCGTCGTCTTGCTCGTCGAGGAGGTG 35742404 Query 16518 TCAAGCGT 16525 |||||||| Sbjct 35742405 TCAAGCGT 35742412 >seq4 Length=18984343 Score = 116 bits (128), Expect = 6e-22 Identities = 171/242 (71%), Gaps = 0/242 (0%) Strand=Plus/Minus Query 16458 GAGATAACATCCAAGGAATCACCAAGCCAGCTATCCGTCGTCTGGCTCGTCGTGGTGGAG 16517 |||| ||||||||||||||||||||||| || ||| | ||||| |||||| | || || | Sbjct 12928936 GAGACAACATCCAAGGAATCACCAAGCCTGCGATCAGGCGTCTCGCTCGTAGAGGAGGCG 12928877 Query 16518 TCAAGCGTGTCTCTGGATTGGTCTATGAAGAGATTCGTGATGTTTTGAAGATCTTCCTCA 16577 | ||| | || || ||| |||| ||||||| | | ||| |||||||||| ||| Sbjct 12928876 TGAAGAGAATCAGCGGGTTGATCTACGAAGAGACCAGAGGAGTTCTGAAGATCTTTCTCG 12928817 Query 16578 AGACCGTTATCCATGATGCTTTCCACTATACCGAGCACGCTAAACGTAAGACTGTCACCT 16637 ||| || || || || | || || |||||||| | | ||||| || || Sbjct 12928816 AGAATGTGATTAGAGACGCCGTGACGTACACGGAGCACGCGAGGAGGAAGACGGTTACGG 12928757 Query 16638 CCATGGATATCGTCTATGCATTGAAACGTCAAGGCCGTAAGATTTATGGTTTTGGAAGTT 16697 | ||||| | || ||||| ||||| | ||||| |||| ||||||| || || ||| Sbjct 12928756 CGATGGACGTTGTTTATGCTTTGAAGAGGCAAGGGCGTACTCTTTATGGATTCGGTGGTT 12928697 Query 16698 AA 16699 || Sbjct 12928696 AA 12928695 Score = 107 bits (118), Expect = 3e-19 Identities = 149/209 (71%), Gaps = 0/209 (0%) Strand=Plus/Minus Query 16454 CTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTATCCGTCGTCTGGCTCGTCGTGGT 16513 || || || ||||||||||| ||||| ||||| || || |||||| | || | | || Sbjct 16200068 CTCCGCGACAACATCCAAGGGATCACGAAGCCTGCGATTCGTCGTTTAGCGAGGAGAGGC 16200009 Query 16514 GGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGATTCGTGATGTTTTGAAGATCTTC 16573 || || |||||| || || ||| | || || |||| ||| | ||| | ||||||||| Sbjct 16200008 GGTGTGAAGCGTATCAGCGGTTTGATATACGAGGAGACTCGCGGCGTTCTCAAGATCTTC 16199949 Query 16574 CTCAAGACCGTTATCCATGATGCTTTCCACTATACCGAGCACGCTAAACGTAAGACTGTC 16633 ||| ||| || || | ||| ||| | || || |||||||||| | |||||||| Sbjct 16199948 CTCGAGAATGTGATTCGTGACGCTGTGACTTACACTGAGCACGCTAGGAGGAAGACTGTG 16199889 Query 16634 ACCTCCATGGATATCGTCTATGCATTGAA 16662 || | |||||| | || || || ||||| Sbjct 16199888 ACGGCGATGGATGTTGTGTACGCGTTGAA 16199860 >seq5 Length=23960834 Score = 95.1 bits (104), Expect = 2e-15 Identities = 147/210 (70%), Gaps = 0/210 (0%) Strand=Plus/Plus Query 16453 TCTTCGAGATAACATCCAAGGAATCACCAAGCCAGCTATCCGTCGTCTGGCTCGTCGTGG 16512 ||| || || |||||||| || ||||||||||| || || || ||| | || | | || Sbjct 3884021 TCTCCGCGACAACATCCAGGGCATCACCAAGCCGGCGATTCGCCGTTTAGCGAGAAGAGG 3884080 Query 16513 TGGAGTCAAGCGTGTCTCTGGATTGGTCTATGAAGAGATTCGTGATGTTTTGAAGATCTT 16572 || || |||||| || || ||| |||| || |||| ||| | ||| | |||||||| Sbjct 3884081 CGGCGTGAAGCGTATCAGCGGGTTGATCTACGAGGAGACTCGCGGCGTTCTCAAGATCTT 3884140 Query 16573 CCTCAAGACCGTTATCCATGATGCTTTCCACTATACCGAGCACGCTAAACGTAAGACTGT 16632 ||| ||| || || | || ||| | || || |||||||| | | |||||||| Sbjct 3884141 TCTCGAGAATGTGATTCGCGACGCTGTGACTTACACTGAGCACGCGAGGAGGAAGACTGT 3884200 Query 16633 CACCTCCATGGATATCGTCTATGCATTGAA 16662 || | |||||| | || || || ||||| Sbjct 3884201 GACGGCGATGGATGTTGTGTACGCGTTGAA 3884230 >seq8 Length=21613650 Score = 87.8 bits (96), Expect = 3e-13 Identities = 141/203 (69%), Gaps = 0/203 (0%) Strand=Plus/Plus Query 16460 GATAACATCCAAGGAATCACCAAGCCAGCTATCCGTCGTCTGGCTCGTCGTGGTGGAGTC 16519 ||||||||||| || |||||| |||| || |||||||| ||||| | || || || Sbjct 20749797 GATAACATCCAGGGCATCACCGAGCCGTGGATTCGTCGTCTTGCTCGCAGAGGAGGCGTG 20749856 Query 16520 AAGCGTGTCTCTGGATTGGTCTATGAAGAGATTCGTGATGTTTTGAAGATCTTCCTCAAG 16579 |||| | | || || |||| || |||| | | || | |||||||||||| || Sbjct 20749857 AAGCTTATAAGCGGTCTGATCTACGAGGAGACCAGAGGAGTCCTCAAGATCTTCCTCGAG 20749916 Query 16580 ACCGTTATCCATGATGCTTTCCACTATACCGAGCACGCTAAACGTAAGACTGTCACCTCC 16639 | || |||| || || | || ||||||||||||| | ||||| || || | Sbjct 20749917 AATGTCATCCGCGACGCCGTTACTTACACCGAGCACGCTAGGAGGAAGACGGTTACTGCT 20749976 Query 16640 ATGGATATCGTCTATGCATTGAA 16662 |||||| | || ||||| ||||| Sbjct 20749977 ATGGATGTGGTTTATGCTTTGAA 20749999 >seq7 Length=22597724 Score = 80.6 bits (88), Expect = 4e-11 Identities = 148/217 (68%), Gaps = 0/217 (0%) Strand=Plus/Minus Query 16458 GAGATAACATCCAAGGAATCACCAAGCCAGCTATCCGTCGTCTGGCTCGTCGTGGTGGAG 16517 |||| ||||||||||| ||||| || || || || | || || ||||| | || || | Sbjct 11260939 GAGACAACATCCAAGGGATCACGAAACCTGCGATTAGGCGACTCGCTCGCAGAGGAGGCG 11260880 Query 16518 TCAAGCGTGTCTCTGGATTGGTCTATGAAGAGATTCGTGATGTTTTGAAGATCTTCCTCA 16577 | ||||| || || ||| |||| ||||||| | | | |||||||||||| ||| Sbjct 11260879 TGAAGCGGATCAGCGGCTTGATCTACGAAGAGACGAGAGGAGGTTTGAAGATCTTTCTCG 11260820 Query 16578 AGACCGTTATCCATGATGCTTTCCACTATACCGAGCACGCTAAACGTAAGACTGTCACCT 16637 ||| || ||| || || | || || |||||||| | | ||||| || || Sbjct 11260819 AGAATGTGATCAGAGACGCCGTGACTTACACTGAGCACGCGAGGAGGAAGACGGTTACGG 11260760 Query 16638 CCATGGATATCGTCTATGCATTGAAACGTCAAGGCCG 16674 | |||||| | || || || |||| | ||||| || Sbjct 11260759 CGATGGATGTTGTTTACGCTCTGAAGAGGCAAGGTCG 11260723 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 79038400057557