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_028093.1 Length=182309 Score E Sequences producing significant alignments: (Bits) Value seq13279 134 2e-26 seq521 131 2e-25 seq12321 116 4e-21 seq549 111 2e-19 seq9289 102 9e-17 seq9582 95.1 1e-14 seq2238 93.3 5e-14 >seq13279 Length=5599 Score = 134 bits (148), Expect = 2e-26 Identities = 300/445 (67%), Gaps = 4/445 (1%) Strand=Plus/Minus Query 9524 CGATCAAAGCGACCTGGACGAAGGAGCGCGTCATCAAGGATATCAACGCGATTCGTCGCG 9583 || ||||| |||||||| | || | ||| ||||| |||||| | | ||| || || Sbjct 917 CGGTCAAAACGACCTGGTCTCAGCAAGGCGGAGTCAAGAATATCAGCTCTATTGGTTGCA 858 Query 9584 GCGATGACAACAATACCTGTTTCATTATCAAAACCATCCATCTCTGTCAAAAGTTGGTTA 9643 || | |||| || ||| || | | ||||| ||||||||||| ||||| || || ||| Sbjct 857 GCAACCACAATAACACCAGTGTTACCCTCAAACCCATCCATCTCAGTCAAGAGCTGATTA 798 Query 9644 ATAGTTTGTTCCCGTTCATCATTCGCT-GGCATACCACCAGCACTGCGTTGCTTTCCCAC 9702 | || || || | ||||||||| || | | | |||| | | ||| | || || Sbjct 797 AGCGTCTGCTCTCTCTCATCATTCCCTCCACCGATC-CCAGTCCCTCTCTGCCTACCAAC 739 Query 9703 GGCATCAATCTCATCAATGAAGACGATGCATGGTTGATTTTCGCGAGCGACTTCAAAGAG 9762 ||||||||||| || | ||||| ||||| || ||| || ||| || || || Sbjct 738 AGCATCAATCTCGTCCACAAAGACAATGCAAGGAGCATTCTCCTTAGCCTTTTTGAAAAG 679 Query 9763 ATCCCGTACACGCTTGGCGCCCACACCAACAAACATCTCCACAAAGTTTGCGGCGGAACA 9822 ||| || || | | || || ||||| ||||||||||| || || | | | | | | Sbjct 678 ATCACGGACCCTCGAAGCACCAACACCCACAAACATCTCAACGAACTCAGAACCAG-AGA 620 Query 9823 TTG-GATGAAGGGGACATTAGATTCACCCGCAATGGCTCGGGCGAGAAGAGTCTTACCCG 9881 ||| | ||| || ||| || |||||| |||||||| || | ||||| ||||| | Sbjct 619 TTGAAAAGAAAGGCACACCAGCTTCACCAGCAATGGCCTTTGCTAACAGAGTTTTACCAG 560 Query 9882 TACCTGGCTTACCCGCGAGGAGGGCACCTCGTGGAATCTTGGCGCCACTTCCAAAGTATC 9941 | || || ||| |||||||| ||||| || ||| || ||| || | | | Sbjct 559 TGCCAGGAGGACCAACGAGGAGGACACCTTTCGGGATCCGAGCACCAACCGCAGTGAACC 500 Query 9942 TCTCAGGTTGCTTAAGAAAATCCAC 9966 ||||||| | ||| ||||| ||||| Sbjct 499 TCTCAGGCTTCTTGAGAAACTCCAC 475 >seq521 Length=33513 Score = 131 bits (144), Expect = 2e-25 Identities = 303/452 (67%), Gaps = 6/452 (1%) Strand=Plus/Minus Query 9524 CGATCAAAGCGACCTGGACGAAGGAGCGCGTCATCAAGGATATCAACGCGATTCGTCGCG 9583 || ||||| || ||||| | ||| | ||| ||||| ||||| | | || || || Sbjct 24617 CGGTCAAAACGGCCTGGTCTAAGCAAGGCGGAGTCAAGAATATCTGCTCTGTTGGTTGCA 24558 Query 9584 GCGATGACAACAATACCTGTTTCATTATCAAAACCATCCATCTCTGTCAAAAGTTGGTTA 9643 || | || | | ||| || | | ||||||||||||||||| ||||| || |||||| Sbjct 24557 GCAACTACGATCACACCAGTGTTACCTTCAAAACCATCCATCTCCGTCAAGAGCTGGTTA 24498 Query 9644 ATAGTTTGTTCCCGTTCATCATTCGCTGGCATACCA--CCAGCACTGCGTTGCTTTCCCA 9701 | || ||||| | || |||||| || | | | |||| | | ||| | || | Sbjct 24497 AGCGTCTGTTCTCTCTCGTCATTCCCT--CCACCGATTCCAGTCCCTCTCTGCCTACCGA 24440 Query 9702 CGGCATCAATCTCATCAATGAAGACGATGCATGGTTGATTTTCGCGAGCGACTTCAAAGA 9761 | || ||||||||||||| ||||| ||||| || ||| || || || || | Sbjct 24439 CAGCGTCAATCTCATCAACAAAGACAATGCAGGGAGCATTCTCCTTGGCCTTTTTGAAAA 24380 Query 9762 GATCCCGTACACGCTTGGCGCCCACACCAACAAACATCTCCACAAAGTTTGCGGCGGAAC 9821 |||| || || | | || || ||||| || |||||||| ||||| | | | | | Sbjct 24379 GATCACGGACCCTCGAAGCACCAACACCGACGAACATCTCAACAAACTCAGAACCAG-AG 24321 Query 9822 ATTG-GATGAAGGGGACATTAGATTCACCCGCAATGGCTCGGGCGAGAAGAGTCTTACCC 9880 |||| | || || ||| || |||||| |||||||| || | || || || || Sbjct 24320 ATTGAAAAAAAAGGCACACCAGCTTCACCGGCAATGGCCTTTGCCAAGAGTGTTTTTCCA 24261 Query 9881 GTACCTGGCTTACCCGCGAGGAGGGCACCTCGTGGAATCTTGGCGCCACTTCCAAAGTAT 9940 ||||| || ||| |||||||| ||||| |||||| | |||||| || | | Sbjct 24260 GTACCGGGAGGACCAACGAGGAGGACACCTTTCGGAATCCTCGCGCCAACAGCAGTGAAC 24201 Query 9941 CTCTCAGGTTGCTTAAGAAAATCCACAATTTC 9972 |||||||| | ||| ||||| ||||| | ||| Sbjct 24200 CTCTCAGGCTTCTTGAGAAACTCCACCACTTC 24169 >seq12321 Length=6064 Score = 116 bits (128), Expect = 4e-21 Identities = 143/195 (73%), Gaps = 3/195 (2%) Strand=Plus/Plus Query 94750 AAGAAAGCGGATTGGGCTATGAAGTGGTTTGATACAAAGTCGCGTTCCTTTGCTGAGCGA 94809 ||||| || | ||||| ||||||||| | || | || | | || || ||| | Sbjct 1182 AAGAAGGCCCAATGGGCCATGAAGTGGATCGACGGA---TCTCAGACTTTCGCGGAGAGG 1238 Query 94810 CTCTTCGCATTTGCGTGTGTTGAGGGTATCTTCTTCTCTGGTTCCTTCTGCGCTATTTAT 94869 || |||| || || || || || || ||||||||||| || ||||||| | || | Sbjct 1239 ATCGTCGCCTTCGCCTGCGTCGAAGGGATCTTCTTCTCCGGAAGCTTCTGCTCGATCTTC 1298 Query 94870 TGGCTCAAGAAGCGAGGTCTCATGCCAGGTCTCTGCTTCTCCAACGAGCTTATCTCTCGT 94929 |||||||||||||| || |||||||| ||||| ||||||||||||||| ||||| | Sbjct 1299 TGGCTCAAGAAGCGTGGGCTCATGCCTGGTCTGACCTTCTCCAACGAGCTCATCTCGAGA 1358 Query 94930 GACGAGGGACTCCAC 94944 |||||||| || ||| Sbjct 1359 GACGAGGGGCTTCAC 1373 >seq549 Length=32968 Score = 111 bits (122), Expect = 2e-19 Identities = 114/149 (77%), Gaps = 0/149 (0%) Strand=Plus/Plus Query 94796 CCTTTGCTGAGCGACTCTTCGCATTTGCGTGTGTTGAGGGTATCTTCTTCTCTGGTTCCT 94855 |||| || ||| | || | || || || || || || || ||||||||||| || || Sbjct 20177 CCTTCGCCGAGAGGATCGTGGCGTTCGCTTGCGTGGAAGGGATCTTCTTCTCGGGCAGCT 20236 Query 94856 TCTGCGCTATTTATTGGCTCAAGAAGCGAGGTCTCATGCCAGGTCTCTGCTTCTCCAACG 94915 ||||| | || | ||||| |||||||| || |||||||| |||||| ||||||||||| Sbjct 20237 TCTGCTCGATCTTCTGGCTGAAGAAGCGTGGGCTCATGCCGGGTCTCACCTTCTCCAACG 20296 Query 94916 AGCTTATCTCTCGTGACGAGGGACTCCAC 94944 |||| ||||| | ||||| || |||||| Sbjct 20297 AGCTGATCTCGAGAGACGAAGGCCTCCAC 20325 >seq9289 Length=7890 Score = 102 bits (112), Expect = 9e-17 Identities = 277/418 (66%), Gaps = 16/418 (4%) Strand=Plus/Plus Query 9557 TCAAGGATATCAACGCGATTCGTCGCGGCGATGACAACAATACCTGTTTCATTATCAAAA 9616 ||||| || || | | ||| || || || | || | ||||| || | | ||||| Sbjct 2910 TCAAGAATGTCTGCTCTATTGGTTGCAGCAACAACGATGATACCAGTGTTACCTTCAAAC 2969 Query 9617 CCATCCATCTCTGTCAAAAGTTGGTTAATAGTTTGTTCCCGTTCATCATTCGCTGGCATA 9676 ||||||||||| || | | ||||| | ||| ||||||| |||||||| | | Sbjct 2970 CCATCCATCTCAGTTAGCAACTGGTTCAAAGTCTGTTCCCTCTCATCATTACC------A 3023 Query 9677 CCACC-AGCACTG-----CGTTGCTTTCCCACGGCATCAATCTCATCAATGAAGACGATG 9730 ||||| | ||| | |||| | || || |||||||||||||||| ||||| ||| Sbjct 3024 CCACCGATTCCTGTCCCTCTTTGCCTACCAACAGCATCAATCTCATCAACAAAGACAATG 3083 Query 9731 CATGGTTGATTTTCGCGAG-CGACTTCAAAGAGATCCCGTACACGCTTGGCGCCCACACC 9789 || || || || || | ||| ||| ||||| || || | | ||| || ||||| Sbjct 3084 CAAGGAGCGTTCTCCTTAGCCTTCTTGAAA-AGATCACGAACCCTCGAGGCACCAACACC 3142 Query 9790 AACAAACATCTCCACAAAGTTTGCGGCGGAACATTG-GATGAAGGGGACATTAGATTCAC 9848 ||||||||||| || || | | ||| | || | || ||| || ||| || ||||| Sbjct 3143 GACAAACATCTCAACGAACTCCGACCCGG-AGATGGAGAAGAACGGCACACCAGCTTCAC 3201 Query 9849 CCGCAATGGCTCGGGCGAGAAGAGTCTTACCCGTACCTGGCTTACCCGCGAGGAGGGCAC 9908 | || || ||| || ||||| ||||| || ||||| || ||| || || ||| Sbjct 3202 CAGCGATAGCTTTCGCCAGAAGCGTCTTCCCAGTACCGGGAGGACCGATAAGCAGAACAC 3261 Query 9909 CTCGTGGAATCTTGGCGCCACTTCCAAAGTATCTCTCAGGTTGCTTAAGAAAATCCAC 9966 || || ||| || ||| || | | |||||||| | ||| ||||| || || Sbjct 3262 CTTTCGGGATCCGAGCACCAACCGCAGTGAACCTCTCAGGCTTCTTCAGAAACTCAAC 3319 >seq9582 Length=7681 Score = 95.1 bits (104), Expect = 1e-14 Identities = 218/322 (68%), Gaps = 16/322 (5%) Strand=Plus/Plus Query 9614 AAACCATCCATCTCTGTCAAAAGTTGGTTAATAGTTTGTTCCCGTTCATCATTCGCTGGC 9673 || ||||||||||| ||||| || || ||||| || || |||| ||||||||| || | Sbjct 7100 AACCCATCCATCTCAGTCAAGAGCTGATTAATCGTCTGCTCCCTCTCATCATTCCCT--C 7157 Query 9674 ATACCA--CCAGCACTGCGTTGCTTTCCCACGGCATCAATCTCATCAATGAAGACGATGC 9731 | ||| ||||| | | ||| | ||||| |||||||||||||| || || || |||| Sbjct 7158 CTCCCATCCCAGCTCCTCTCTGCCTCCCCACAGCATCAATCTCATCGATAAAAACAATGC 7217 Query 9732 ATGG----TTGATTTTCGCGAGCGACTTCAAAGAGATCCCGTACACGCTTG--GCGCCCA 9785 | || ||| ||||| | || || | ||||| || || || | || |||| Sbjct 7218 AAGGCGCCTTGGCCTTCGCCTTC----TCGAACAAATCCC-TA-ACCCTAGACGCACCCA 7271 Query 9786 CACCAACAAACATCTCCACAAAGTTTGCGGCGGAACATTGGATGAAGGGGACATTAGATT 9845 |||| || || | ||| ||||| | | || | || || ||| || || | | Sbjct 7272 CACCGACGAAAAGCTCAACAAACTCAGAAGCCGCGCAGGAGAAGAACGGCACTCCCGCCT 7331 Query 9846 CACCCGCAATGGCTCGGGCGAGAAGAGTCTTACCCGTACCTGGCTTACCCGCGAGGAGGG 9905 | || |||| |||| || | ||||||||||| ||||| || || | ||||| Sbjct 7332 CTCCAGCAACAGCTCTAGCTAACAGAGTCTTACCAGTACCAGGAGGCCCAACAAGGAGAC 7391 Query 9906 CACCTCGTGGAATCTTGGCGCC 9927 ||| |||||||||||||| Sbjct 7392 ACCCTTTGGGAATCTTGGCGCC 7413 >seq2238 Length=19260 Score = 93.3 bits (102), Expect = 5e-14 Identities = 90/116 (78%), Gaps = 0/116 (0%) Strand=Plus/Minus Query 94822 GCGTGTGTTGAGGGTATCTTCTTCTCTGGTTCCTTCTGCGCTATTTATTGGCTCAAGAAG 94881 || |||| || || ||||||||||| ||| ||||||| | || | ||||||||||| Sbjct 11497 GCCTGTGCCGAAGGGATCTTCTTCTCCGGTAGCTTCTGCTCGATCTTCTGGCTCAAGAAA 11438 Query 94882 CGAGGTCTCATGCCAGGTCTCTGCTTCTCCAACGAGCTTATCTCTCGTGACGAGGG 94937 ||||| ||||| || ||| | ||||||||| ||| | |||||||| ||||| || Sbjct 11437 CGAGGGCTCATACCTGGTTTGACCTTCTCCAATGAGTTGATCTCTCGAGACGACGG 11382 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 582788854523680