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: Trifolium_20pratense_20[genbank_20GCA_5F900079335.1_202016-04-15] 39,051 sequences; 345,990,850 total letters Query= NC_029997.1 Length=105667 Score E Sequences producing significant alignments: (Bits) Value seq9364 113 3e-20 seq28803 111 1e-19 seq3 107 1e-18 seq4 105 5e-18 seq5139 96.9 2e-15 seq28626 86.0 4e-12 >seq9364 Length=1264 Score = 113 bits (124), Expect = 3e-20 Identities = 153/211 (73%), Gaps = 2/211 (1%) Strand=Plus/Minus Query 23611 ATGCAGATTTTCGTTAAAACCCTCACGGGAAAAACGATCACTCTCGAAGTTGACTCCACG 23670 ||||| || || || || |||||||| || || || || ||||| |||||||| | Sbjct 738 ATGCAAATCTTTGTCAAGACCCTCACTGGTAAGACCATTACTCTTGAAGTTGAGAGTTCC 679 Query 23671 GACACTGTTGA-AATATTAAAACAAAAAATTGCTGACAAAGAAGGTGTACCGCCAGATCA 23729 || || | || ||| |||| | |||| || || || ||||| | || || || || Sbjct 678 GATACCATAGACAATGTTAAGGCCAAAA-TTCAAGATAAGGAAGGGATCCCACCGGACCA 620 Query 23730 ACAGCGTTTAATATTTGCCGGCAAACAACTGGAAGACGAACGCACTTTAGGCGATTACAA 23789 |||||||| || ||||| || ||||| ||||| |||| || || | | ||||||||| Sbjct 619 GCAGCGTTTGATTTTTGCTGGAAAACAGCTGGAGGACGGGCGGACCCTTGCCGATTACAA 560 Query 23790 CATACAAAAAGAGTCCACATTACATTTAGTT 23820 ||| ||||| |||||||| | ||||| ||| Sbjct 559 CATCCAAAAGGAGTCCACCCTCCATTTGGTT 529 Score = 102 bits (112), Expect = 6e-17 Identities = 143/198 (72%), Gaps = 2/198 (1%) Strand=Plus/Minus Query 23611 ATGCAGATTTTCGTTAAAACCCTCACGGGAAAAACGATCACTCTCGAAGTTGACTCCACG 23670 ||||||||||| || || ||||| || || || || || ||| | || ||||| | | Sbjct 282 ATGCAGATTTTTGTGAAGACCCTTACTGGCAAGACTATTACTTTGGAGGTTGAGAGCTCA 223 Query 23671 GACACTGTTGA-AATATTAAAACAAAAAATTGCTGACAAAGAAGGTGTACCGCCAGATCA 23729 |||||| |||| ||| | ||| | || | || ||||| || ||| | || ||||| || Sbjct 222 GACACTATTGACAATGTGAAAGCTAAGA-TTCAGGACAAGGAGGGTATCCCCCCAGACCA 164 Query 23730 ACAGCGTTTAATATTTGCCGGCAAACAACTGGAAGACGAACGCACTTTAGGCGATTACAA 23789 || | || || ||||| || || || || ||||| | || ||||| | ||||||||| Sbjct 163 GCAAAGGTTGATCTTTGCTGGAAAGCAGCTCGAAGATGGGCGAACTTTGGCCGATTACAA 104 Query 23790 CATACAAAAAGAGTCCAC 23807 ||| || || || ||||| Sbjct 103 CATCCAGAAGGAATCCAC 86 >seq28803 Length=52646 Score = 111 bits (122), Expect = 1e-19 Identities = 152/210 (72%), Gaps = 2/210 (1%) Strand=Plus/Minus Query 23611 ATGCAGATTTTCGTTAAAACCCTCACGGGAAAAACGATCACTCTCGAAGTTGACTCCACG 23670 ||||| || |||||||| |||||||| || || || |||||||| |||||||| | Sbjct 33995 ATGCAAATCTTCGTTAAGACCCTCACTGGCAAGACCATCACTCTTGAAGTTGAGAGTTCA 33936 Query 23671 GACACTGTTGA-AATATTAAAACAAAAAATTGCTGACAAAGAAGGTGTACCGCCAGATCA 23729 || || | || ||| |||| | || | || || || ||||| | || || || || Sbjct 33935 GATACCATAGACAATGTTAAGGCCAAGA-TTCAAGATAAGGAAGGGATCCCACCGGACCA 33877 Query 23730 ACAGCGTTTAATATTTGCCGGCAAACAACTGGAAGACGAACGCACTTTAGGCGATTACAA 23789 |||||| | || ||||| || || || ||||| |||| || || | | ||||||||| Sbjct 33876 GCAGCGTCTGATTTTTGCTGGAAAGCAGCTGGAGGACGGGCGTACCCTTGCCGATTACAA 33817 Query 23790 CATACAAAAAGAGTCCACATTACATTTAGT 23819 ||||||||| ||||| || | ||||| || Sbjct 33816 CATACAAAAGGAGTCAACCCTTCATTTGGT 33787 Score = 102 bits (112), Expect = 6e-17 Identities = 161/228 (71%), Gaps = 2/228 (1%) Strand=Plus/Minus Query 23611 ATGCAGATTTTCGTTAAAACCCTCACGGGAAAAACGATCACTCTCGAAGTTGACTCCACG 23670 ||||||||||| || || || || || || || || || ||| | || ||||| | | Sbjct 33539 ATGCAGATTTTTGTGAAGACTCTTACTGGCAAGACAATAACTTTGGAGGTTGAGAGCTCA 33480 Query 23671 GACACTGTTGA-AATATTAAAACAAAAAATTGCTGACAAAGAAGGTGTACCGCCAGATCA 23729 |||||| |||| ||| |||| | || | || ||||| || ||| | || ||||| || Sbjct 33479 GACACTATTGACAATGTTAAGGCTAAGA-TTCAAGACAAGGAGGGTATCCCCCCAGACCA 33421 Query 23730 ACAGCGTTTAATATTTGCCGGCAAACAACTGGAAGACGAACGCACTTTAGGCGATTACAA 23789 || | || || ||||| || || || || ||||| | || ||||| | ||||||||| Sbjct 33420 GCAAAGGTTGATCTTTGCTGGAAAGCAGCTCGAAGATGGGCGAACTTTGGCCGATTACAA 33361 Query 23790 CATACAAAAAGAGTCCACATTACATTTAGTTTTAAGGTTGCGAGGAGG 23837 ||| || || || ||||| | ||| | || | ||||| | ||||| Sbjct 33360 CATCCAGAAGGAATCCACCCTTCATCTTGTCCTTCGGTTGAGGGGAGG 33313 Score = 89.7 bits (98), Expect = 3e-13 Identities = 140/198 (71%), Gaps = 2/198 (1%) Strand=Plus/Minus Query 23611 ATGCAGATTTTCGTTAAAACCCTCACGGGAAAAACGATCACTCTCGAAGTTGACTCCACG 23670 |||||||| || ||||| |||||||| ||||| || ||||| || || || || | Sbjct 33767 ATGCAGATCTTTGTTAAGACCCTCACCGGAAAGACCATCACCCTTGAGGTGGAGAGTTCT 33708 Query 23671 GACACTGTTGA-AATATTAAAACAAAAAATTGCTGACAAAGAAGGTGTACCGCCAGATCA 23729 ||||| | || ||| | || | || | || |||||||| || | || ||||| || Sbjct 33707 GACACCATAGACAATGTCAAGGCCAAGA-TTCAAGACAAAGAGGGAATCCCACCAGACCA 33649 Query 23730 ACAGCGTTTAATATTTGCCGGCAAACAACTGGAAGACGAACGCACTTTAGGCGATTACAA 23789 || | || || ||||| || || || || ||||| | | || |||| |||||||| Sbjct 33648 GCAAAGGTTGATTTTTGCTGGAAAGCAGCTCGAAGATGGCAGGACCTTAGCTGATTACAA 33589 Query 23790 CATACAAAAAGAGTCCAC 23807 ||| || ||||| ||||| Sbjct 33588 CATCCAGAAAGAATCCAC 33571 >seq3 Length=31061273 Score = 107 bits (118), Expect = 1e-18 Identities = 144/198 (73%), Gaps = 2/198 (1%) Strand=Plus/Plus Query 23611 ATGCAGATTTTCGTTAAAACCCTCACGGGAAAAACGATCACTCTCGAAGTTGACTCCACG 23670 |||||||||||||| || || || || ||||| || || || | || || || | | Sbjct 12367088 ATGCAGATTTTCGTGAAGACTCTTACCGGAAAGACTATTACCTTGGAGGTAGAGAGCTCA 12367147 Query 23671 GACACTGTTGA-AATATTAAAACAAAAAATTGCTGACAAAGAAGGTGTACCGCCAGATCA 23729 |||||| |||| ||| | || || || | | |||||||||||| | || ||||| || Sbjct 12367148 GACACTATTGACAATGTGAAGACCAAGA-TACAGGACAAAGAAGGTATTCCCCCAGACCA 12367206 Query 23730 ACAGCGTTTAATATTTGCCGGCAAACAACTGGAAGACGAACGCACTTTAGGCGATTACAA 23789 || | || |||||||| || || || || ||||| | || ||||| | ||||| || Sbjct 12367207 GCAAAGGTTGATATTTGCTGGAAAGCAGCTTGAAGATGGCCGGACTTTGGCTGATTATAA 12367266 Query 23790 CATACAAAAAGAGTCCAC 23807 ||| || ||||||||||| Sbjct 12367267 CATTCAGAAAGAGTCCAC 12367284 Score = 102 bits (112), Expect = 6e-17 Identities = 143/198 (72%), Gaps = 2/198 (1%) Strand=Plus/Plus Query 23611 ATGCAGATTTTCGTTAAAACCCTCACGGGAAAAACGATCACTCTCGAAGTTGACTCCACG 23670 ||||||||||| ||||| || || || || |||||||| ||| | || ||||| | | Sbjct 12366404 ATGCAGATTTTTGTTAAGACGCTTACAGGCAAAACGATTACTTTGGAGGTTGAGAGCTCA 12366463 Query 23671 GACACTGTTGA-AATATTAAAACAAAAAATTGCTGACAAAGAAGGTGTACCGCCAGATCA 23729 || ||| |||| ||| |||| | || ||| ||||| || ||| | || ||||| || Sbjct 12366464 GATACTATTGACAATGTTAAGGC-CAAGATTCAAGACAAGGAGGGTATTCCCCCAGACCA 12366522 Query 23730 ACAGCGTTTAATATTTGCCGGCAAACAACTGGAAGACGAACGCACTTTAGGCGATTACAA 23789 || | | || ||||| || || || |||||||| | || || || | ||||||||| Sbjct 12366523 GCAAAGGCTGATTTTTGCTGGAAAGCAGCTGGAAGATGGCCGAACCTTGGCCGATTACAA 12366582 Query 23790 CATACAAAAAGAGTCCAC 23807 ||| || || || ||||| Sbjct 12366583 CATCCAGAAGGAATCCAC 12366600 Score = 89.7 bits (98), Expect = 3e-13 Identities = 140/198 (71%), Gaps = 2/198 (1%) Strand=Plus/Plus Query 23611 ATGCAGATTTTCGTTAAAACCCTCACGGGAAAAACGATCACTCTCGAAGTTGACTCCACG 23670 ||||||||||| ||||| || || || || || || || ||| | || || || | | Sbjct 12366632 ATGCAGATTTTTGTTAAGACGCTTACAGGCAAGACCATTACTTTGGAGGTAGAAAGCTCA 12366691 Query 23671 GACACTGTTGA-AATATTAAAACAAAAAATTGCTGACAAAGAAGGTGTACCGCCAGATCA 23729 ||||| |||| ||| | || | || | | ||||| || ||| | || ||||| || Sbjct 12366692 GACACAATTGACAATGTGAAGGCCAAGA-TACAAGACAAGGAGGGTATTCCTCCAGACCA 12366750 Query 23730 ACAGCGTTTAATATTTGCCGGCAAACAACTGGAAGACGAACGCACTTTAGGCGATTACAA 23789 || | || || |||||||| || || |||||||| | || || || | ||||||||| Sbjct 12366751 GCAAAGGTTGATTTTTGCCGGAAAGCAGCTGGAAGATGGCCGAACCTTGGCCGATTACAA 12366810 Query 23790 CATACAAAAAGAGTCCAC 23807 ||| || || || ||||| Sbjct 12366811 CATCCAGAAGGAATCCAC 12366828 >seq4 Length=28907061 Score = 105 bits (116), Expect = 5e-18 Identities = 151/210 (72%), Gaps = 2/210 (1%) Strand=Plus/Plus Query 23611 ATGCAGATTTTCGTTAAAACCCTCACGGGAAAAACGATCACTCTCGAAGTTGACTCCACG 23670 ||||| || |||||||| |||||||| || || || |||||||| |||||||| | Sbjct 27564999 ATGCAAATCTTCGTTAAGACCCTCACTGGCAAGACCATCACTCTGGAAGTTGAGAGTTCA 27565058 Query 23671 GACACTGTTGA-AATATTAAAACAAAAAATTGCTGACAAAGAAGGTGTACCGCCAGATCA 23729 || || | || ||| |||| | || | || || || ||||| | || || || || Sbjct 27565059 GATACCATAGACAATGTTAAGGCCAAGA-TTCAAGATAAGGAAGGGATCCCACCGGACCA 27565117 Query 23730 ACAGCGTTTAATATTTGCCGGCAAACAACTGGAAGACGAACGCACTTTAGGCGATTACAA 23789 |||||| | || ||||| || || || ||||| |||| || || | | ||||||||| Sbjct 27565118 GCAGCGTCTGATTTTTGCTGGAAAGCAGCTGGAGGACGGGCGTACCCTTGCCGATTACAA 27565177 Query 23790 CATACAAAAAGAGTCCACATTACATTTAGT 23819 ||| ||||| ||||| || | ||||| || Sbjct 27565178 CATCCAAAAGGAGTCTACCCTCCATTTGGT 27565207 Score = 93.3 bits (102), Expect = 3e-14 Identities = 141/198 (71%), Gaps = 2/198 (1%) Strand=Plus/Plus Query 23611 ATGCAGATTTTCGTTAAAACCCTCACGGGAAAAACGATCACTCTCGAAGTTGACTCCACG 23670 ||||| || || ||||| |||||||| ||||| || ||||| || || || || | | Sbjct 27565227 ATGCAAATATTTGTTAAGACCCTCACCGGAAAGACAATCACCCTTGAGGTGGAGAGCTCT 27565286 Query 23671 GACACTGTTGA-AATATTAAAACAAAAAATTGCTGACAAAGAAGGTGTACCGCCAGATCA 23729 || || |||| ||| | || | || | || |||||||| || | || ||||| || Sbjct 27565287 GATACCATTGACAATGTCAAGGCCAAGA-TTCAAGACAAAGAGGGAATCCCACCAGACCA 27565345 Query 23730 ACAGCGTTTAATATTTGCCGGCAAACAACTGGAAGACGAACGCACTTTAGGCGATTACAA 23789 || | || || ||||| || || || || ||||| | || || |||| |||||||| Sbjct 27565346 GCAAAGGTTGATTTTTGCTGGAAAGCAGCTCGAAGATGGCCGGACCTTAGCTGATTACAA 27565405 Query 23790 CATACAAAAAGAGTCCAC 23807 ||| || ||||| ||||| Sbjct 27565406 CATCCAGAAAGAATCCAC 27565423 >seq5139 Length=1344 Score = 96.9 bits (106), Expect = 2e-15 Identities = 149/210 (71%), Gaps = 2/210 (1%) Strand=Plus/Plus Query 23611 ATGCAGATTTTCGTTAAAACCCTCACGGGAAAAACGATCACTCTCGAAGTTGACTCCACG 23670 || || || |||||||| |||||||| || || || ||| ||||||||||||| | Sbjct 1097 ATACAAATCTTCGTTAAGACCCTCACTGGCAAGACCATCGCTCTCGAAGTTGAGAGTTCA 1156 Query 23671 GACACTGTTGA-AATATTAAAACAAAAAATTGCTGACAAAGAAGGTGTACCGCCAGATCA 23729 || || | || ||| |||| | || | || || || ||||| || || || || Sbjct 1157 GATACCATAGACAATGTTAAGGCCAAGA-TTCAAGATAAGGAAGGGAACCCACCGGACCA 1215 Query 23730 ACAGCGTTTAATATTTGCCGGCAAACAACTGGAAGACGAACGCACTTTAGGCGATTACAA 23789 |||||| | || ||||| || || || ||||| || | || || | | ||||||||| Sbjct 1216 GCAGCGTCTGATTTTTGCTGGAAAGCAGCTGGAGGATGGGCGTACCCTTGCCGATTACAA 1275 Query 23790 CATACAAAAAGAGTCCACATTACATTTAGT 23819 ||| ||||| |||||||| | ||||| || Sbjct 1276 CATCCAAAAGGAGTCCACCCTCCATTTGGT 1305 >seq28626 Length=87040 Score = 86.0 bits (94), Expect = 4e-12 Identities = 158/229 (69%), Gaps = 2/229 (1%) Strand=Plus/Minus Query 23610 AATGCAGATTTTCGTTAAAACCCTCACGGGAAAAACGATCACTCTCGAAGTTGACTCCAC 23669 |||||||||||| || || || | ||||| || ||||| ||||| || || || | Sbjct 42364 AATGCAGATTTTTGTGAAGACGTTGACGGGGAAGACGATTACTCTTGAGGTGGAGAGTTC 42305 Query 23670 GGACACTGTTGA-AATATTAAAACAAAAAATTGCTGACAAAGAAGGTGTACCGCCAGATC 23728 || ||| |||| ||| | || | || | || || || || || | || || |||| Sbjct 42304 TGATACTATTGATAATGTGAAGGCCAAGA-TTCAGGATAAGGAGGGGATTCCACCTGATC 42246 Query 23729 AACAGCGTTTAATATTTGCCGGCAAACAACTGGAAGACGAACGCACTTTAGGCGATTACA 23788 ||||||| || || |||||||| ||||| || || || | | | ||| | | ||||| | Sbjct 42245 AACAGCGATTGATCTTTGCCGGTAAACAGCTTGAGGATGGATGAACTCTTGCTGATTATA 42186 Query 23789 ACATACAAAAAGAGTCCACATTACATTTAGTTTTAAGGTTGCGAGGAGG 23837 | || || ||||| || ||| | || | ||| | ||| | || || || Sbjct 42185 ATATTCAGAAAGAATCTACACTTCACCTTGTTCTCAGGCTCCGTGGTGG 42137 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 337848729717908