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_029996.1 Length=134272 Score E Sequences producing significant alignments: (Bits) Value seq9364 96.9 3e-15 seq28803 93.3 4e-14 seq4 93.3 4e-14 seq1 89.7 4e-13 seq5139 87.8 2e-12 seq28626 84.2 2e-11 >seq9364 Length=1264 Score = 96.9 bits (106), Expect = 3e-15 Identities = 154/216 (71%), Gaps = 4/216 (2%) Strand=Plus/Plus Query 39076 ACCAAATGTAGCGTGCTCTCTTTTTGTATATTATAATCGGCAAGTGTTCGTTCGTCATCA 39135 |||||||| || ||| ||| ||||| || || ||||||||||| || || |||| || Sbjct 530 ACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCGGCAAGGGTCCGCCCGTCCTCC 589 Query 39136 AGCTGTTTGCCCGCAAATATAAGACGCTGCTGGT-CGGTGGGCACGCTCTCTTTGTCCAT 39194 |||||||| || ||||| || | ||||||||||| ||||||| | || || || | | | Sbjct 590 AGCTGTTTTCCAGCAAAAATCAAACGCTGCTGGTCCGGTGGGATCCCT-TCCTTAT-CTT 647 Query 39195 GATTTTCTGTTTGAGCGTCG-CCACCGTATCGCTCGACTCCACGTCCACCGTGATACTTT 39253 || ||| | | | | | | | | |||||| ||| || || | || || | | Sbjct 648 GAATTTTGGCCTTAACATTGTCTATGGTATCGGAACTCTCAACTTCAAGAGTAATGGTCT 707 Query 39254 TTCCCGTCAGCGTTTTAACAAAGATTTGCATCTTTA 39289 | || || || || || |||||||||||||||| || Sbjct 708 TACCAGTGAGGGTCTTGACAAAGATTTGCATCTATA 743 >seq28803 Length=52646 Score = 93.3 bits (102), Expect = 4e-14 Identities = 154/217 (71%), Gaps = 4/217 (2%) Strand=Plus/Plus Query 39075 CACCAAATGTAGCGTGCTCTCTTTTTGTATATTATAATCGGCAAGTGTTCGTTCGTCATC 39134 ||||||||| || || ||| |||||||| || ||||||||||| || || |||| || Sbjct 33786 CACCAAATGAAGGGTTGACTCCTTTTGTATGTTGTAATCGGCAAGGGTACGCCCGTCCTC 33845 Query 39135 AAGCTGTTTGCCCGCAAATATAAGACGCTGCTGGT-CGGTGGGCACGCTCTCTTTGTCCA 39193 ||||| || || ||||| || ||||||||||||| ||||||| | || || || | | Sbjct 33846 CAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGGATCCCT-TCCTTAT-CT 33903 Query 39194 TGATTTTCTGTTTGAGCGTCG-CCACCGTATCGCTCGACTCCACGTCCACCGTGATACTT 39252 ||| | | | | | | | | | | ||||| ||| || || | ||||| | Sbjct 33904 TGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCAACTTCAAGAGTGATGGTC 33963 Query 39253 TTTCCCGTCAGCGTTTTAACAAAGATTTGCATCTTTA 39289 || || || || || ||||| ||||||||||||| || Sbjct 33964 TTGCCAGTGAGGGTCTTAACGAAGATTTGCATCTATA 34000 >seq4 Length=28907061 Score = 93.3 bits (102), Expect = 4e-14 Identities = 154/217 (71%), Gaps = 4/217 (2%) Strand=Plus/Minus Query 39075 CACCAAATGTAGCGTGCTCTCTTTTTGTATATTATAATCGGCAAGTGTTCGTTCGTCATC 39134 ||||||||| || || ||| ||||| || || ||||||||||| || || |||| || Sbjct 27565208 CACCAAATGGAGGGTAGACTCCTTTTGGATGTTGTAATCGGCAAGGGTACGCCCGTCCTC 27565149 Query 39135 AAGCTGTTTGCCCGCAAATATAAGACGCTGCTGGT-CGGTGGGCACGCTCTCTTTGTCCA 39193 ||||| || || ||||| || ||||||||||||| ||||||| | || || || | | Sbjct 27565148 CAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGGATCCCT-TCCTTAT-CT 27565091 Query 39194 TGATTTTCTGTTTGAGCGTCG-CCACCGTATCGCTCGACTCCACGTCCACCGTGATACTT 39252 ||| | | | | | | | | | | ||||| ||| || |||| ||||| | Sbjct 27565090 TGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCAACTTCCAGAGTGATGGTC 27565031 Query 39253 TTTCCCGTCAGCGTTTTAACAAAGATTTGCATCTTTA 39289 || || || || || ||||| ||||||||||||| || Sbjct 27565030 TTGCCAGTGAGGGTCTTAACGAAGATTTGCATCTATA 27564994 >seq1 Length=28142018 Score = 89.7 bits (98), Expect = 4e-13 Identities = 148/210 (70%), Gaps = 8/210 (4%) Strand=Plus/Plus Query 39081 ATGTAGCGTGCTCTCTTTTTGTATATTATAATCGGCAAGTGTTCGTTCGTCATCAAGCTG 39140 ||| |||||| ||| || || ||||| ||||| ||||| || | | |||| || | ||| Sbjct 1587184 ATGAAGCGTGGACTCCTTCTGAATATTGTAATCAGCAAGAGTCCTTCCGTCTTCCAACTG 1587243 Query 39141 TTTGCCCGCAAATATAAGACGCTGCTGGTCGGTGGGCACGCTCTCTTTGTCCATGATTTT 39200 || || || || || ||||| |||||||| | || | | || |||||| ||| || Sbjct 1587244 CTTTCCGGCGAAGATGAGACGTTGCTGGTCCGGAGGAATTCCTTCCTTGTCCTGGATCTT 1587303 Query 39201 CTGTTTGAGCGTCGCC-ACCGTATC---GCTCGACTCCACGTCCACCGTGATACTTTTTC 39256 ||||| ||| | | | || || |||| ||||| || | ||||| | |||| Sbjct 1587304 GGCTTTGA-CGTTGTCGATGGTGTCAGAGCTC---TCCACCTCAAGGGTGATGGTCTTTC 1587359 Query 39257 CCGTCAGCGTTTTAACAAAGATTTGCATCT 39286 | || || ||||| || ||||||||||||| Sbjct 1587360 CGGTGAGTGTTTTCACGAAGATTTGCATCT 1587389 >seq5139 Length=1344 Score = 87.8 bits (96), Expect = 2e-12 Identities = 82/103 (80%), Gaps = 1/103 (1%) Strand=Plus/Minus Query 39075 CACCAAATGTAGCGTGCTCTCTTTTTGTATATTATAATCGGCAAGTGTTCGTTCGTCATC 39134 ||||||||| || ||| ||| ||||| || || ||||||||||| || || | || || Sbjct 1306 CACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCGGCAAGGGTACGCCCATCCTC 1247 Query 39135 AAGCTGTTTGCCCGCAAATATAAGACGCTGCTGGT-CGGTGGG 39176 ||||| || || ||||| || ||||||||||||| ||||||| Sbjct 1246 CAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGG 1204 >seq28626 Length=87040 Score = 84.2 bits (92), Expect = 2e-11 Identities = 146/210 (70%), Gaps = 2/210 (1%) Strand=Plus/Plus Query 39076 ACCAAATGTAGCGTGCTCTCTTTTTGTATATTATAATCGGCAAGTGTTCGTTCGTCATCA 39135 |||||||||||||| |||||| || ||||||||||| ||||| || | | || || Sbjct 42383 ACCAAATGTAGCGTAGACTCTTTCTGGATATTATAATCCGCAAGAGTCCTCCCATCTTCC 42442 Query 39136 AGCTGTTTGCCCGCAAATATAAGACGCTGCTGGTCGGTGGGCACGCTCTCTTTGTCCATG 39195 | || || || ||||| || | |||||||| || | || | | || ||||| | Sbjct 42443 AATTGCTTCCCTGCAAAGATCAATCGCTGCTGATCAGGAGGAATTCCTTCCTTGTCTTGG 42502 Query 39196 ATTTTCTGTTTGAGCGTCG-CCACCGTATCGCTCGACTCCACGTCCACCGTGATACTTTT 39254 ||||| ||||| ||| | | | |||||| || || || || | || || |||| Sbjct 42503 ATTTTGGCTTTGA-CGTTGTCGATGGTATCGGAGGATTCTACCTCTAGGGTTATGGTTTT 42561 Query 39255 TCCCGTCAGCGTTTTAACAAAGATTTGCAT 39284 || || || ||||| || ||||| ||||| Sbjct 42562 GCCGGTTAGGGTTTTCACGAAGATCTGCAT 42591 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 429341164617563