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_001993.1 Length=236120 Score E Sequences producing significant alignments: (Bits) Value seq28674 131 3e-25 seq3 122 1e-22 seq4 113 7e-20 seq28626 105 1e-17 seq1 102 1e-16 seq9364 100 4e-16 seq28803 98.7 1e-15 >seq28674 Length=75340 Score = 131 bits (144), Expect = 3e-25 Identities = 167/230 (73%), Gaps = 0/230 (0%) Strand=Plus/Plus Query 124539 ATGCAAATATTTATAAAGACACTAACAGGCAAAACTATAACTATAGAGATTGAAGCAAAT 124598 |||||||| || | || || ||||| |||||||| || || | || | ||| | | Sbjct 20816 ATGCAAATCTTCGTCAAAACCCTAACTGGCAAAACCATCACACTCGAAGTCGAATCTTCT 20875 Query 124599 GATACAATTTCTAATTTAAAACAGAAAATTCAAGATAAAGAAGGTATACCACCTGATCAA 124658 || ||||| || | || || ||||||||||||||||| || || ||||||||| Sbjct 20876 GACACAATCGACAACGTGAAGGCAAAGATTCAAGATAAAGAAGGAATTCCTCCTGATCAA 20935 Query 124659 CAAAGGCTTATTTTTGCAGGAAAACAATTAGAGGATAGTCGAACATTAGAAGATTATAAT 124718 ||| | | || ||||||||||| ||||| || ||| || |||| | | ||||||||| Sbjct 20936 CAACGATTGATCTTTGCAGGAAAGCAATTGGAAGATGGTAGAACTCTTGCTGATTATAAT 20995 Query 124719 ATTCAAAAAGAATCAACTTTGCATTTGGTTTTACGTTTACGAGGTGGTAT 124768 || || ||||| || || | ||||||||| | | ||||| ||||| || Sbjct 20996 ATCCAGAAAGAGTCTACGCTTCATTTGGTTCTTAGGTTACGTGGTGGAAT 21045 Score = 87.8 bits (96), Expect = 3e-12 Identities = 156/230 (68%), Gaps = 4/230 (2%) Strand=Plus/Plus Query 124539 ATGCAAATATTTATAAAGACACTAACAGGCAAAACTATAACTATAGAGATTGAAGCAAAT 124598 ||||| || || | || || ||||| |||||||| ||||| ||||| ||||| | Sbjct 20592 ATGCAGATCTTCGTGAAAACCCTAACCGGCAAAACCATAACCCTAGAGGTTGAATCCTCC 20651 Query 124599 GATACAATTTCTAATTTAAAACAGAAAATTCAAGATAAAGAAGGTATACCACCTGATCAA 124658 || || || || | ||| ||||| |||||||| ||||| || ||||| || ||| Sbjct 20652 GACACCATCGACAACGTCAAAGCCAAAATCCAAGATAAGGAAGGAATTCCACCAGACCAA 20711 Query 124659 CAAAGGCTTATTTTTGCAGGAAAACAATTAGAGGATAGTCGAACATTAGAAGATTATAAT 124718 || | || || || || ||||||||| | || || | || |||||| Sbjct 20712 CAGCGTCTCATCTTCGCCGGAAAACAACTCGAAGACGGCCGNNNNNNNN----TTATAAC 20767 Query 124719 ATTCAAAAAGAATCAACTTTGCATTTGGTTTTACGTTTACGAGGTGGTAT 124768 || |||||||||||||| | ||| | ||| | ||| | || || || || Sbjct 20768 ATCCAAAAAGAATCAACGCTCCATCTCGTTCTCCGTCTCCGCGGCGGCAT 20817 Score = 87.8 bits (96), Expect = 3e-12 Identities = 138/198 (70%), Gaps = 0/198 (0%) Strand=Plus/Plus Query 124538 AATGCAAATATTTATAAAGACACTAACAGGCAAAACTATAACTATAGAGATTGAAGCAAA 124597 |||||| || ||| | ||||| | || || || || || ||| | ||| | || Sbjct 21043 AATGCAGATTTTTGTGAAGACGTTGACGGGAAAGACGATTACTTTGGAGGTGGAGAGTTC 21102 Query 124598 TGATACAATTTCTAATTTAAAACAGAAAATTCAAGATAAAGAAGGTATACCACCTGATCA 124657 |||||| ||| |||| | || ||| ||||| ||||| || || || ||||||||||| Sbjct 21103 TGATACTATTGATAATGTGAAGGCGAAGATTCAGGATAAGGAGGGGATTCCACCTGATCA 21162 Query 124658 ACAAAGGCTTATTTTTGCAGGAAAACAATTAGAGGATAGTCGAACATTAGAAGATTATAA 124717 || | | || ||||| || ||||| | || ||| | | || | | |||||||| Sbjct 21163 GCAGCGATTGATCTTTGCTGGTAAACAGCTTGAAGATGGAAGGACTCTTGCTGATTATAA 21222 Query 124718 TATTCAAAAAGAATCAAC 124735 |||||| |||||||| || Sbjct 21223 TATTCAGAAAGAATCTAC 21240 >seq3 Length=31061273 Score = 122 bits (134), Expect = 1e-22 Identities = 167/231 (72%), Gaps = 2/231 (1%) Strand=Plus/Plus Query 124539 ATGCAAATATTTATAAAGACACTAACAGGCAAAACTATAACTATAGAGATTGA-AGCAAA 124597 ||||| || ||| | ||||| || ||||||||||| || ||| | ||| |||| ||| | Sbjct 12366404 ATGCAGATTTTTGTTAAGACGCTTACAGGCAAAACGATTACTTTGGAGGTTGAGAGCTCA 12366463 Query 124598 TGATACAATTTCTAATTTAAAACAGAAAATTCAAGATAAAGAAGGTATACCACCTGATCA 124657 ||||| ||| ||| | || || |||||||| || || ||||| || || || || Sbjct 12366464 -GATACTATTGACAATGTTAAGGCCAAGATTCAAGACAAGGAGGGTATTCCCCCAGACCA 12366522 Query 124658 ACAAAGGCTTATTTTTGCAGGAAAACAATTAGAGGATAGTCGAACATTAGAAGATTATAA 124717 |||||||| |||||||| ||||| || | || ||| | ||||| || | ||||| || Sbjct 12366523 GCAAAGGCTGATTTTTGCTGGAAAGCAGCTGGAAGATGGCCGAACCTTGGCCGATTACAA 12366582 Query 124718 TATTCAAAAAGAATCAACTTTGCATTTGGTTTTACGTTTACGAGGTGGTAT 124768 || || || ||||| || | ||| | || || || | || |||||||| Sbjct 12366583 CATCCAGAAGGAATCCACCCTTCATCTTGTCTTGCGACTTCGTGGTGGTAT 12366633 Score = 95.1 bits (104), Expect = 2e-14 Identities = 161/231 (70%), Gaps = 2/231 (1%) Strand=Plus/Plus Query 124539 ATGCAAATATTTATAAAGACACTAACAGGCAAAACTATAACTATAGAGATTGA-AGCAAA 124597 |||||||| ||| | ||| | || |||||||| || | ||| | || |||| || | Sbjct 12365948 ATGCAAATCTTTGTTAAGGCGCTTACAGGCAAGACCGTTACTCTCGAAGTTGAGAGTTCA 12366007 Query 124598 TGATACAATTTCTAATTTAAAACAGAAAATTCAAGATAAAGAAGGTATACCACCTGATCA 124657 ||||| || ||| | || || ||||||||||| ||||| || ||| | || || Sbjct 12366008 -GATACCATAGACAATGTTAAGGCCAAGATTCAAGATAAGGAAGGGATCCCATCAGACCA 12366066 Query 124658 ACAAAGGCTTATTTTTGCAGGAAAACAATTAGAGGATAGTCGAACATTAGAAGATTATAA 124717 || | || |||||||| ||||| || | |||||| | || || | | ||||| || Sbjct 12366067 GCAGCGTCTGATTTTTGCTGGAAAGCAGCTGGAGGATGGGCGTACCCTTGCTGATTACAA 12366126 Query 124718 TATTCAAAAAGAATCAACTTTGCATTTGGTTTTACGTTTACGAGGTGGTAT 124768 || ||||| || || || | |||||||| | ||| | || |||||||| Sbjct 12366127 CATCCAAAAGGAGTCCACCCTCCATTTGGTGCTCCGTCTTCGTGGTGGTAT 12366177 >seq4 Length=28907061 Score = 113 bits (124), Expect = 7e-20 Identities = 165/231 (71%), Gaps = 2/231 (1%) Strand=Plus/Plus Query 124539 ATGCAAATATTTATAAAGACACTAACAGGCAAAACTATAACTATAGAGATTGA-AGCAAA 124597 |||||||||||| | ||||| || || || || || || || | ||| | || ||| Sbjct 27565227 ATGCAAATATTTGTTAAGACCCTCACCGGAAAGACAATCACCCTTGAGGTGGAGAGC-TC 27565285 Query 124598 TGATACAATTTCTAATTTAAAACAGAAAATTCAAGATAAAGAAGGTATACCACCTGATCA 124657 |||||| ||| ||| | || || |||||||| ||||| || || ||||| || || Sbjct 27565286 TGATACCATTGACAATGTCAAGGCCAAGATTCAAGACAAAGAGGGAATCCCACCAGACCA 27565345 Query 124658 ACAAAGGCTTATTTTTGCAGGAAAACAATTAGAGGATAGTCGAACATTAGAAGATTATAA 124717 |||||| | |||||||| ||||| || | || ||| | || || |||| ||||| || Sbjct 27565346 GCAAAGGTTGATTTTTGCTGGAAAGCAGCTCGAAGATGGCCGGACCTTAGCTGATTACAA 27565405 Query 124718 TATTCAAAAAGAATCAACTTTGCATTTGGTTTTACGTTTACGAGGTGGTAT 124768 || || |||||||| ||| | || | || || || | || |||||||| Sbjct 27565406 CATCCAGAAAGAATCCACTCTTCACCTTGTCTTGCGACTTCGTGGTGGTAT 27565456 Score = 96.9 bits (106), Expect = 5e-15 Identities = 109/146 (75%), Gaps = 0/146 (0%) Strand=Plus/Plus Query 124623 AAAATTCAAGATAAAGAAGGTATACCACCTGATCAACAAAGGCTTATTTTTGCAGGAAAA 124682 || || ||||||||||||||||| || || ||||| || ||| | |||||||| ||||| Sbjct 27565539 AAGATACAAGATAAAGAAGGTATTCCCCCAGATCAGCAGAGGTTGATTTTTGCCGGAAAG 27565598 Query 124683 CAATTAGAGGATAGTCGAACATTAGAAGATTATAATATTCAAAAAGAATCAACTTTGCAT 124742 || | || ||| | |||| | | |||||||| || || ||||| |||||| | || Sbjct 27565599 CAGCTCGAAGATGGCAGAACCCTGGCTGATTATAACATCCAGAAAGAGTCAACTCTTCAC 27565658 Query 124743 TTGGTTTTACGTTTACGAGGTGGTAT 124768 | || || ||| | || |||||||| Sbjct 27565659 CTTGTCTTGCGTCTTCGTGGTGGTAT 27565684 Score = 95.1 bits (104), Expect = 2e-14 Identities = 161/231 (70%), Gaps = 2/231 (1%) Strand=Plus/Plus Query 124539 ATGCAAATATTTATAAAGACACTAACAGGCAAAACTATAACTATAGAGATTGA-AGCAAA 124597 |||||||| || | ||||| || || ||||| || || ||| | || |||| || | Sbjct 27564999 ATGCAAATCTTCGTTAAGACCCTCACTGGCAAGACCATCACTCTGGAAGTTGAGAGTTCA 27565058 Query 124598 TGATACAATTTCTAATTTAAAACAGAAAATTCAAGATAAAGAAGGTATACCACCTGATCA 124657 ||||| || ||| | || || ||||||||||| ||||| || ||||| || || Sbjct 27565059 -GATACCATAGACAATGTTAAGGCCAAGATTCAAGATAAGGAAGGGATCCCACCGGACCA 27565117 Query 124658 ACAAAGGCTTATTTTTGCAGGAAAACAATTAGAGGATAGTCGAACATTAGAAGATTATAA 124717 || | || |||||||| ||||| || | ||||| | || || | | ||||| || Sbjct 27565118 GCAGCGTCTGATTTTTGCTGGAAAGCAGCTGGAGGACGGGCGTACCCTTGCCGATTACAA 27565177 Query 124718 TATTCAAAAAGAATCAACTTTGCATTTGGTTTTACGTTTACGAGGTGGTAT 124768 || ||||| || || || | |||||||| | ||| | || |||||||| Sbjct 27565178 CATCCAAAAGGAGTCTACCCTCCATTTGGTGCTCCGTCTCCGTGGTGGTAT 27565228 >seq28626 Length=87040 Score = 105 bits (116), Expect = 1e-17 Identities = 163/233 (70%), Gaps = 0/233 (0%) Strand=Plus/Minus Query 124536 ACAATGCAAATATTTATAAAGACACTAACAGGCAAAACTATAACTATAGAGATTGAAGCA 124595 || ||||| || || | || || ||||| |||||||| ||||| ||||| | ||| | Sbjct 42594 ACCATGCAGATCTTCGTGAAAACCCTAACCGGCAAAACCATAACCCTAGAGGTAGAATCC 42535 Query 124596 AATGATACAATTTCTAATTTAAAACAGAAAATTCAAGATAAAGAAGGTATACCACCTGAT 124655 ||||| || || | ||| ||||| ||||| || ||||| || || |||||| Sbjct 42534 TCCGATACCATCGACAACGTCAAAGCCAAAATCCAAGACAAGGAAGGAATTCCTCCTGAT 42475 Query 124656 CAACAAAGGCTTATTTTTGCAGGAAAACAATTAGAGGATAGTCGAACATTAGAAGATTAT 124715 || || | | || |||||||| || ||||| || ||| | | || | | |||||| Sbjct 42474 CAGCAGCGATTGATCTTTGCAGGGAAGCAATTGGAAGATGGGAGGACTCTTGCGGATTAT 42415 Query 124716 AATATTCAAAAAGAATCAACTTTGCATTTGGTTTTACGTTTACGAGGTGGTAT 124768 ||||| || ||||| || || | ||||||||| | | || || ||||| || Sbjct 42414 AATATCCAGAAAGAGTCTACGCTACATTTGGTTCTTAGGTTGCGCGGTGGAAT 42362 Score = 96.9 bits (106), Expect = 5e-15 Identities = 140/198 (71%), Gaps = 0/198 (0%) Strand=Plus/Minus Query 124538 AATGCAAATATTTATAAAGACACTAACAGGCAAAACTATAACTATAGAGATTGAAGCAAA 124597 |||||| || ||| | ||||| | || || || || || ||| | ||| | || Sbjct 42364 AATGCAGATTTTTGTGAAGACGTTGACGGGGAAGACGATTACTCTTGAGGTGGAGAGTTC 42305 Query 124598 TGATACAATTTCTAATTTAAAACAGAAAATTCAAGATAAAGAAGGTATACCACCTGATCA 124657 |||||| ||| |||| | || || ||||| ||||| || || || ||||||||||| Sbjct 42304 TGATACTATTGATAATGTGAAGGCCAAGATTCAGGATAAGGAGGGGATTCCACCTGATCA 42245 Query 124658 ACAAAGGCTTATTTTTGCAGGAAAACAATTAGAGGATAGTCGAACATTAGAAGATTATAA 124717 ||| | | || ||||| || ||||| | |||||| | |||| | | |||||||| Sbjct 42244 ACAGCGATTGATCTTTGCCGGTAAACAGCTTGAGGATGGATGAACTCTTGCTGATTATAA 42185 Query 124718 TATTCAAAAAGAATCAAC 124735 |||||| |||||||| || Sbjct 42184 TATTCAGAAAGAATCTAC 42167 >seq1 Length=28142018 Score = 102 bits (112), Expect = 1e-16 Identities = 165/235 (70%), Gaps = 2/235 (1%) Strand=Plus/Minus Query 124539 ATGCAAATATTTATAAAGACACTAACAGGCAAAACTATAACTATAGAGATTGA-AGCAAA 124597 ||||| || ||| | ||||| | || || || || ||||| | ||| | || ||| | Sbjct 1586409 ATGCAGATTTTTGTCAAGACCTTGACTGGTAAGACCATAACCTTGGAGGTGGAGAGCTCA 1586350 Query 124598 TGATACAATTTCTAATTTAAAACAGAAAATTCAAGATAAAGAAGGTATACCACCTGATCA 124657 ||||| ||| |||| | || |||||||| ||||| |||||||| ||||||||||| Sbjct 1586349 -GATACCATTGATAATGTGAAGGCCAAAATTCAGGATAAGGAAGGTATCCCACCTGATCA 1586291 Query 124658 ACAAAGGCTTATTTTTGCAGGAAAACAATTAGAGGATAGTCGAACATTAGAAGATTATAA 124717 || ||||| || || ||||| ||||| || |||||| | | || | | || || || Sbjct 1586290 GCAGAGGCTGATCTTCGCAGGGAAACAGTTGGAGGATGGAAGGACCCTTGCTGACTACAA 1586231 Query 124718 TATTCAAAAAGAATCAACTTTGCATTTGGTTTTACGTTTACGAGGTGGTATTAAA 124772 ||||| || || || || | || | || | ||| | || |||||| || || Sbjct 1586230 CATTCAGAAGGAGTCCACCCTTCACCTTGTGCTCCGTCTTCGTGGTGGTTTTTAA 1586176 >seq9364 Length=1264 Score = 100 bits (110), Expect = 4e-16 Identities = 160/230 (70%), Gaps = 0/230 (0%) Strand=Plus/Minus Query 124539 ATGCAAATATTTATAAAGACACTAACAGGCAAAACTATAACTATAGAGATTGAAGCAAAT 124598 |||||||| ||| | ||||| || || || || || || ||| | || |||| Sbjct 738 ATGCAAATCTTTGTCAAGACCCTCACTGGTAAGACCATTACTCTTGAAGTTGAGAGTTCC 679 Query 124599 GATACAATTTCTAATTTAAAACAGAAAATTCAAGATAAAGAAGGTATACCACCTGATCAA 124658 ||||| || ||| | || |||||||||||||| ||||| || ||||| || || Sbjct 678 GATACCATAGACAATGTTAAGGCCAAAATTCAAGATAAGGAAGGGATCCCACCGGACCAG 619 Query 124659 CAAAGGCTTATTTTTGCAGGAAAACAATTAGAGGATAGTCGAACATTAGAAGATTATAAT 124718 || | | |||||||| |||||||| | ||||| | || || | | ||||| || Sbjct 618 CAGCGTTTGATTTTTGCTGGAAAACAGCTGGAGGACGGGCGGACCCTTGCCGATTACAAC 559 Query 124719 ATTCAAAAAGAATCAACTTTGCATTTGGTTTTACGTTTACGAGGTGGTAT 124768 || ||||| || || || | ||||||||| | ||| | || |||||||| Sbjct 558 ATCCAAAAGGAGTCCACCCTCCATTTGGTTCTCCGTCTCCGTGGTGGTAT 509 >seq28803 Length=52646 Score = 98.7 bits (108), Expect = 1e-15 Identities = 162/231 (70%), Gaps = 2/231 (1%) Strand=Plus/Minus Query 124539 ATGCAAATATTTATAAAGACACTAACAGGCAAAACTATAACTATAGAGATTGA-AGCAAA 124597 |||||||| || | ||||| || || ||||| || || ||| | || |||| || | Sbjct 33995 ATGCAAATCTTCGTTAAGACCCTCACTGGCAAGACCATCACTCTTGAAGTTGAGAGTTCA 33936 Query 124598 TGATACAATTTCTAATTTAAAACAGAAAATTCAAGATAAAGAAGGTATACCACCTGATCA 124657 ||||| || ||| | || || ||||||||||| ||||| || ||||| || || Sbjct 33935 -GATACCATAGACAATGTTAAGGCCAAGATTCAAGATAAGGAAGGGATCCCACCGGACCA 33877 Query 124658 ACAAAGGCTTATTTTTGCAGGAAAACAATTAGAGGATAGTCGAACATTAGAAGATTATAA 124717 || | || |||||||| ||||| || | ||||| | || || | | ||||| || Sbjct 33876 GCAGCGTCTGATTTTTGCTGGAAAGCAGCTGGAGGACGGGCGTACCCTTGCCGATTACAA 33817 Query 124718 TATTCAAAAAGAATCAACTTTGCATTTGGTTTTACGTTTACGAGGTGGTAT 124768 || ||||| || ||||| | |||||||| | ||| | || |||||||| Sbjct 33816 CATACAAAAGGAGTCAACCCTTCATTTGGTGCTCCGTCTCCGTGGTGGTAT 33766 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 755087233596800