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_003529.1 Length=155060 Score E Sequences producing significant alignments: (Bits) Value seq1 107 2e-18 seq28626 100 3e-16 seq28674 95.1 1e-14 seq3 95.1 1e-14 seq4 91.5 1e-13 seq28803 84.2 2e-11 >seq1 Length=28142018 Score = 107 bits (118), Expect = 2e-18 Identities = 160/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 139538 CCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTC 139597 || || || | ||| | ||| | |||| ||| ||||| || ||||| || ||||| Sbjct 1587161 CCTCCACGCAGACGGAGAACAAGATGAAGCGTGGACTCCTTCTGAATATTGTAATCAGCA 1587220 Query 139598 ATTGTGCTCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGT 139657 | || || |||||| | ||| || || || |||| ||||||||||| || ||||| Sbjct 1587221 AGAGTCCTTCCGTCTTCCAACTGCTTTCCGGCGAAGATGAGACGTTGCTGGTCCGGAGGA 1587280 Query 139658 ATGCCTTCTTTGTCGGTGATTTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACC 139717 || ||||| ||||| ||| || ||| | | || | ||||| | | ||||||| Sbjct 1587281 ATTCCTTCCTTGTCCTGGATCTTGGCTTTGACGTTGTCGATGGTGTCAGAGCTCTCCACC 1587340 Query 139718 TCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCAT 139764 |||| ||| | ||||| ||||| | ||||| ||||| |||||||| Sbjct 1587341 TCAAGGGTGATGGTCTTTCCGGTGAGTGTTTTCACGAAGATTTGCAT 1587387 >seq28626 Length=87040 Score = 100 bits (110), Expect = 3e-16 Identities = 148/210 (70%), Gaps = 0/210 (0%) Strand=Plus/Plus Query 139555 AACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTCATTGTGCTCGAGTCTTC 139614 ||| || || | |||||||||||| || || |||||||| | || ||| ||||| Sbjct 42382 AACCAAATGTAGCGTAGACTCTTTCTGGATATTATAATCCGCAAGAGTCCTCCCATCTTC 42441 Query 139615 GAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGT 139674 | || || || ||| |||||| || |||||||| ||||| || ||||| ||||| Sbjct 42442 CAATTGCTTCCCTGCAAAGATCAATCGCTGCTGATCAGGAGGAATTCCTTCCTTGTCTTG 42501 Query 139675 GATTTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCTT 139734 |||||| ||| | | || | || |||| || || ||||| | ||| | || || Sbjct 42502 GATTTTGGCTTTGACGTTGTCGATGGTATCGGAGGATTCTACCTCTAGGGTTATGGTTTT 42561 Query 139735 GCCGGTCAACGTTTTTACGAATATTTGCAT 139764 |||||| | ||||| ||||| || ||||| Sbjct 42562 GCCGGTTAGGGTTTTCACGAAGATCTGCAT 42591 >seq28674 Length=75340 Score = 95.1 bits (104), Expect = 1e-14 Identities = 149/211 (71%), Gaps = 2/211 (1%) Strand=Plus/Minus Query 139555 AACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTCATTGTGCTCGAGTCTTC 139614 ||| | ||||| |||||| ||||| ||||| |||||||| | || || ||||| Sbjct 21253 AACAAGGTGAAGCGTAGATTCTTTCTGAATATTATAATCAGCAAGAGTCCTTCCATCTTC 21194 Query 139615 GAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGT 139674 ||||||||||||||| |||||| || |||||||| || || || || || || || | Sbjct 21193 AAGCTGTTTACCAGCAAAGATCAATCGCTGCTGATCAGGTGGAATCCCCTCCTTATC-CT 21135 Query 139675 GATTTTTTG-TTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCT 139733 || | || | || | | || | || || | ||||||||| | || | ||||| Sbjct 21134 GAATCTTCGCCTTCACATTATCAATAGTATCAGAACTCTCCACCTCCAAAGTAATCGTCT 21075 Query 139734 TGCCGGTCAACGTTTTTACGAATATTTGCAT 139764 | || |||||||| || || || || ||||| Sbjct 21074 TTCCCGTCAACGTCTTCACAAAAATCTGCAT 21044 Score = 89.7 bits (98), Expect = 5e-13 Identities = 158/228 (69%), Gaps = 2/228 (1%) Strand=Plus/Minus Query 139538 CCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTC 139597 || || ||||| | | ||| || |||| |||||||||||| || || |||||||| Sbjct 21042 CCACCACGTAACCTAAGAACCAAATGAAGCGTAGACTCTTTCTGGATATTATAATCAGCA 20983 Query 139598 ATTGTGCTCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGT 139657 | || || ||||| | || || || ||| |||||| ||||| ||||| ||||| Sbjct 20982 AGAGTTCTACCATCTTCCAATTGCTTTCCTGCAAAGATCAATCGTTGTTGATCAGGAGGA 20923 Query 139658 ATGCCTTCTTTGTCGGTGATTTTTTG-TTTTAGCTGTTCCACTGTGTCGGTGGGCTCCAC 139716 || |||||||| || ||| | |||| || | | || | |||||| | | || || Sbjct 20922 ATTCCTTCTTTATC-TTGAATCTTTGCCTTCACGTTGTCGATTGTGTCAGAAGATTCGAC 20864 Query 139717 CTCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCAT 139764 || | || | || ||||| || | ||||| ||||| |||||||| Sbjct 20863 TTCGAGTGTGATGGTTTTGCCAGTTAGGGTTTTGACGAAGATTTGCAT 20816 >seq3 Length=31061273 Score = 95.1 bits (104), Expect = 1e-14 Identities = 146/206 (71%), Gaps = 2/206 (1%) Strand=Plus/Minus Query 139561 GTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTCATTGTGCTCGAGTCTTCGAGCTG 139620 ||||| ||| |||||||| |||||||||||||| || || | ||||| ||||| Sbjct 12367291 GTGAAGCGTGGACTCTTTCTGAATGTTATAATCAGCCAAAGTCCGGCCATCTTCAAGCTG 12367232 Query 139621 TTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGTGATTTT 139680 || |||||| | |||| | |||||| || || || || ||||||||||| || | | Sbjct 12367231 CTTTCCAGCAAATATCAACCTTTGCTGGTCTGGGGGAATACCTTCTTTGTC-CTGTATCT 12367173 Query 139681 TTGT-TTTAGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCTTGCCGG 139739 | || || | | || | ||||| | | ||| ||||| | ||| | ||||| |||| Sbjct 12367172 TGGTCTTCACATTGTCAATAGTGTCTGAGCTCTCTACCTCCAAGGTAATAGTCTTTCCGG 12367113 Query 139740 TCAACGTTTTTACGAATATTTGCATA 139765 | | || || ||||| || |||||| Sbjct 12367112 TAAGAGTCTTCACGAAAATCTGCATA 12367087 Score = 86.0 bits (94), Expect = 6e-12 Identities = 145/210 (69%), Gaps = 0/210 (0%) Strand=Plus/Minus Query 139555 AACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTCATTGTGCTCGAGTCTTC 139614 ||| | ||||| || || ||||| || ||||| || ||| | |||| ||||| Sbjct 8017652 AACAAGGTGAAGAGTTGATTCTTTCTGGATGTTGTAGTCGGCGAGAGTGCGGCCATCTTC 8017593 Query 139615 GAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGT 139674 | ||| || || || |||| ||||||||||| || || || || ||||| ||||| Sbjct 8017592 CAACTGCTTTCCGGCGAAGATGAGACGTTGCTGGTCAGGTGGAATTCCTTCCTTGTCTTG 8017533 Query 139675 GATTTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCTT 139734 ||| || ||| | | || | |||||| | | ||| ||||| | ||| | |||||| Sbjct 8017532 GATCTTGGCTTTGACGTTGTCGATTGTGTCTGAAGACTCAACCTCGAGGGTTATCGTCTT 8017473 Query 139735 GCCGGTCAACGTTTTTACGAATATTTGCAT 139764 || || | ||||| ||||| || ||||| Sbjct 8017472 CCCTGTTAGGGTTTTCACGAAGATCTGCAT 8017443 >seq4 Length=28907061 Score = 91.5 bits (100), Expect = 1e-13 Identities = 154/218 (71%), Gaps = 4/218 (2%) Strand=Plus/Minus Query 139550 CGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATC-GCTCATTGTGCTCGA 139608 ||||| || | ||||| || || ||||| || ||||| ||||| ||| | || | Sbjct 27565441 CGCAAGACAAGGTGAAGAGTGGATTCTTTCTGGATGTTGTAATCAGCTAAG-GTCCGGCC 27565383 Query 139609 GTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTT 139668 ||||||||||| || |||||| | |||| | |||||| || || || || || ||||| Sbjct 27565382 ATCTTCGAGCTGCTTTCCAGCAAAAATCAACCTTTGCTGGTCTGGTGGGATTCCCTCTTT 27565323 Query 139669 GTCGGTGATTTTTTG-TTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCA 139727 ||| ||| | || | || | | || | || || | | ||||||||||| ||| | Sbjct 27565322 GTC-TTGAATCTTGGCCTTGACATTGTCAATGGTATCAGAGCTCTCCACCTCAAGGGTGA 27565264 Query 139728 CCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCATA 139765 ||||| ||||| | || || || |||||||||||| Sbjct 27565263 TTGTCTTTCCGGTGAGGGTCTTAACAAATATTTGCATA 27565226 Score = 87.8 bits (96), Expect = 2e-12 Identities = 156/228 (68%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 139538 CCGCCTCGTAAACGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATCGCTC 139597 || || || | |||||| || | ||||| || |||||||| || ||||||||||| | Sbjct 27565681 CCACCACGAAGACGCAAGACAAGGTGAAGAGTTGACTCTTTCTGGATGTTATAATCAGCC 27565622 Query 139598 ATTGTGCTCGAGTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGT 139657 | || || ||||||||||| || || ||| | |||| | |||||||| || || Sbjct 27565621 AGGGTTCTGCCATCTTCGAGCTGCTTTCCGGCAAAAATCAACCTCTGCTGATCTGGGGGA 27565562 Query 139658 ATGCCTTCTTTGTCGGTGATTTTTTGTTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACC 139717 || |||||||| || || || || | | || | ||||| | ||||||| Sbjct 27565561 ATACCTTCTTTATCTTGTATCTTGGCCTTGACATTGTCTATGGTGTCAGAACTCTCCACC 27565502 Query 139718 TCAACGGTCACCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCATA 139765 |||| ||| | ||||| || || | || || || || || |||||| Sbjct 27565501 TCAAGGGTGATGGTCTTTCCAGTGAGGGTCTTAACAAAGATCTGCATA 27565454 >seq28803 Length=52646 Score = 84.2 bits (92), Expect = 2e-11 Identities = 145/208 (70%), Gaps = 2/208 (1%) Strand=Plus/Plus Query 139562 TGAATCGTAGACTCTTTTTGAATGTTATAATCGCTCATTGTGCTCGAGTCTTCGAGCTGT 139621 |||| || || || || || ||||||||||| || || || ||||| ||||| Sbjct 33109 TGAAGGGTGGATTCCTTCTGGATGTTATAATCAGCCAAGGTTCTGCCATCTTCAAGCTGC 33168 Query 139622 TTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTTGTCGGTGATTTTT 139681 || |||||| | |||| | |||||| || ||||| ||||| || ||||| ||| | || Sbjct 33169 TTTCCAGCAAAAATCAACCTTTGCTGGTCTGGAGGAATGCCCTCCTTGTC-CTGAATCTT 33227 Query 139682 TG-TTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCACCGTCTTGCCGGT 139740 | ||||| | || | ||||| | | ||| ||||| | || | ||||| || || Sbjct 33228 AGCTTTTACATTGTCAATGGTGTCTGAGCTCTCAACCTCCAAAGTAATGGTCTTCCCTGT 33287 Query 139741 CAACGTTTTTACGAATATTTGCATAGCT 139768 ||| || || || || || |||||| || Sbjct 33288 CAATGTCTTCACAAAGATCTGCATACCT 33315 Score = 82.4 bits (90), Expect = 8e-11 Identities = 152/218 (70%), Gaps = 4/218 (2%) Strand=Plus/Plus Query 139550 CGCAAAACTAAGTGAATCGTAGACTCTTTTTGAATGTTATAATC-GCTCATTGTGCTCGA 139608 ||||| || | |||| || || ||||| || ||||| ||||| ||| | || || Sbjct 33553 CGCAAGACAAGATGAAGAGTGGATTCTTTCTGGATGTTGTAATCAGCTAAG-GTCCTGCC 33611 Query 139609 GTCTTCGAGCTGTTTACCAGCATAGATCAGACGTTGCTGATCGGGAGGTATGCCTTCTTT 139668 ||||||||||| || |||||| | |||| | |||||| || || || || || ||||| Sbjct 33612 ATCTTCGAGCTGCTTTCCAGCAAAAATCAACCTTTGCTGGTCTGGTGGGATTCCCTCTTT 33671 Query 139669 GTCGGTGATTTTTTG-TTTTAGCTGTTCCACTGTGTCGGTGGGCTCCACCTCAACGGTCA 139727 ||| ||| | || | || | | || | ||||| | ||||||||||| ||| | Sbjct 33672 GTC-TTGAATCTTGGCCTTGACATTGTCTATGGTGTCAGAACTCTCCACCTCAAGGGTGA 33730 Query 139728 CCGTCTTGCCGGTCAACGTTTTTACGAATATTTGCATA 139765 ||||| ||||| | || || || || || |||||| Sbjct 33731 TGGTCTTTCCGGTGAGGGTCTTAACAAAGATCTGCATA 33768 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 495821852559200