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_008168.1 Length=104710 Score E Sequences producing significant alignments: (Bits) Value seq1 111 1e-19 seq3 107 1e-18 seq7 105 4e-18 seq28674 100 2e-16 seq28803 98.7 7e-16 seq38941 87.8 1e-12 seq38476 82.4 5e-11 >seq1 Length=28142018 Score = 111 bits (122), Expect = 1e-19 Identities = 164/230 (71%), Gaps = 2/230 (1%) Strand=Plus/Plus Query 38089 TACCACCTCTCAAACGCAACACCAAATGAAGAGTGCTCTCCTTTTGAATATTGTAATCAG 38148 ||||||| |||||||||| ||| | ||||||||| |||||| || ||||||||||| | Sbjct 1586409 TACCACCCCTCAAACGCAGCACAAGGTGAAGAGTGGACTCCTTCTGGATATTGTAATCCG 1586468 Query 38149 ACAAAACACGTT-CGTCGTCTAATTGTTTTCCGGCAAATATTAGGCGTTGTTGATCGGAG 38207 ||| | || | || || |||||||| || ||||| || | | || ||||| | | Sbjct 1586469 -CAAGGGTCCTTCCATCTTCCAATTGTTTGCCTGCAAAGATCAACCTCTGCTGATCTGGG 1586527 Query 38208 GGGACGCCTTCTTTGTCCATAATTTTTTGCTTCACATTCTGGACAGTATCTCCACTTTCA 38267 || | ||||| || ||| || || ||| ||||| | | || ||| || || Sbjct 1586528 GGAATACCTTCCTTATCCTGGATCTTAGCCTTGACATTGTCAATGGTGTCTGAGCTCTCC 1586587 Query 38268 ACTTCTAATGTAATAGTTTTACCCGTCAAGGTTTTCACGAATATCTGCAT 38317 || || || || || || ||||| ||||| || || || ||||||||||| Sbjct 1586588 ACCTCCAAGGTTATGGTCTTACCGGTCAAAGTCTTGACAAATATCTGCAT 1586637 Score = 93.3 bits (102), Expect = 3e-14 Identities = 158/229 (69%), Gaps = 0/229 (0%) Strand=Plus/Plus Query 38089 TACCACCTCTCAAACGCAACACCAAATGAAGAGTGCTCTCCTTTTGAATATTGTAATCAG 38148 ||||||| | | ||||||||| | || || || |||||| || ||||||||||| | Sbjct 1586931 TACCACCACGAAGACGCAACACAAGGTGGAGGGTTGACTCCTTCTGGATATTGTAATCGG 1586990 Query 38149 ACAAAACACGTTCGTCGTCTAATTGTTTTCCGGCAAATATTAGGCGTTGTTGATCGGAGG 38208 |||| ||| |||| || | || ||||||||||| || | | || || || | || Sbjct 1586991 CCAAAGTACGGCCGTCCTCAAGCTGCTTTCCGGCAAAGATCAACCTCTGCTGGTCTGGGG 1587050 Query 38209 GGACGCCTTCTTTGTCCATAATTTTTTGCTTCACATTCTGGACAGTATCTCCACTTTCAA 38268 ||| ||||| |||||| || || ||| || || | || || || ||||||| Sbjct 1587051 GGATTCCTTCCTTGTCCTGGATCTTGGCCTTGACGTTGTCGATGGTGTCAGAGCTTTCAA 1587110 Query 38269 CTTCTAATGTAATAGTTTTACCCGTCAAGGTTTTCACGAATATCTGCAT 38317 | || | || || || || || || | || || ||||| |||||||| Sbjct 1587111 CCTCAAGGGTGATGGTCTTTCCTGTGAGAGTCTTGACGAAGATCTGCAT 1587159 Score = 87.8 bits (96), Expect = 1e-12 Identities = 159/230 (69%), Gaps = 2/230 (1%) Strand=Plus/Plus Query 38089 TACCACCTCTCAAACGCAACACCAAATGAAGAGTGCTCTCCTTTTGAATATTGTAATCAG 38148 |||| || | || ||| | || | |||||| ||| |||||| |||||||||||||||| Sbjct 1587159 TACCTCCACGCAGACGGAGAACAAGATGAAGCGTGGACTCCTTCTGAATATTGTAATCAG 1587218 Query 38149 ACAAAACACGTT-CGTCGTCTAATTGTTTTCCGGCAAATATTAGGCGTTGTTGATCGGAG 38207 ||| | | || |||| || || || |||||||| || || || ||||| || || | Sbjct 1587219 -CAAGAGTCCTTCCGTCTTCCAACTGCTTTCCGGCGAAGATGAGACGTTGCTGGTCCGGA 1587277 Query 38208 GGGACGCCTTCTTTGTCCATAATTTTTTGCTTCACATTCTGGACAGTATCTCCACTTTCA 38267 || | ||||| |||||| || || || || || | || || || || || Sbjct 1587278 GGAATTCCTTCCTTGTCCTGGATCTTGGCTTTGACGTTGTCGATGGTGTCAGAGCTCTCC 1587337 Query 38268 ACTTCTAATGTAATAGTTTTACCCGTCAAGGTTTTCACGAATATCTGCAT 38317 || || | || || || || || || | ||||||||||| || ||||| Sbjct 1587338 ACCTCAAGGGTGATGGTCTTTCCGGTGAGTGTTTTCACGAAGATTTGCAT 1587387 >seq3 Length=31061273 Score = 107 bits (118), Expect = 1e-18 Identities = 161/229 (70%), Gaps = 0/229 (0%) Strand=Plus/Minus Query 38089 TACCACCTCTCAAACGCAACACCAAATGAAGAGTGCTCTCCTTTTGAATATTGTAATCAG 38148 |||| || |||| ||| | || | ||||| ||| ||| || ||||| || ||||||| Sbjct 12367316 TACCTCCCCTCAGACGAAGGACAAGGTGAAGCGTGGACTCTTTCTGAATGTTATAATCAG 12367257 Query 38149 ACAAAACACGTTCGTCGTCTAATTGTTTTCCGGCAAATATTAGGCGTTGTTGATCGGAGG 38208 |||| || | || || | || ||||| |||||||| | | ||| || || | || Sbjct 12367256 CCAAAGTCCGGCCATCTTCAAGCTGCTTTCCAGCAAATATCAACCTTTGCTGGTCTGGGG 12367197 Query 38209 GGACGCCTTCTTTGTCCATAATTTTTTGCTTCACATTCTGGACAGTATCTCCACTTTCAA 38268 | | |||||||||||| || || ||||||||| | | ||| ||| || || | Sbjct 12367196 GAATACCTTCTTTGTCCTGTATCTTGGTCTTCACATTGTCAATAGTGTCTGAGCTCTCTA 12367137 Query 38269 CTTCTAATGTAATAGTTTTACCCGTCAAGGTTTTCACGAATATCTGCAT 38317 | || || |||||||| || || || | || |||||||| |||||||| Sbjct 12367136 CCTCCAAGGTAATAGTCTTTCCGGTAAGAGTCTTCACGAAAATCTGCAT 12367088 >seq7 Length=30551617 Score = 105 bits (116), Expect = 4e-18 Identities = 69/76 (91%), Gaps = 0/76 (0%) Strand=Plus/Minus Query 19947 CTCTCTCTTCAAAGTTCTTTTCAACTTTCCCTCACGGTACTTGTTCGCTATCGGTCTCGC 20006 |||||| |||||||| ||||||| ||||||||| |||||||||||||||||||||||| | Sbjct 13433380 CTCTCTTTTCAAAGTCCTTTTCATCTTTCCCTCGCGGTACTTGTTCGCTATCGGTCTCTC 13433321 Query 20007 GGTAATATTTAGCCTT 20022 | ||||||||||||| Sbjct 13433320 GCCAATATTTAGCCTT 13433305 >seq28674 Length=75340 Score = 100 bits (110), Expect = 2e-16 Identities = 152/214 (71%), Gaps = 8/214 (4%) Strand=Plus/Minus Query 38109 ACCAAATGAAGAGTGCTCTCCTTTTGAATATTGTAATCAGACAAAACACGTTCG----TC 38164 ||||||||||| || ||| || || ||||| ||||||| ||| | |||| || Sbjct 21024 ACCAAATGAAGCGTAGACTCTTTCTGGATATTATAATCAG-CAAGA---GTTCTACCATC 20969 Query 38165 GTCTAATTGTTTTCCGGCAAATATTAGGCGTTGTTGATCGGAGGGGACGCCTTCTTTGTC 38224 || ||||| ||||| ||||| || | ||||||||||| | || | |||||||| || Sbjct 20968 TTCCAATTGCTTTCCTGCAAAGATCAATCGTTGTTGATCAGGAGGAATTCCTTCTTTATC 20909 Query 38225 CATAATTTTTTGCTTCACATTCTGGACAGTATCTCCACTTTCAACTTCTAATGTAATAGT 38284 ||| ||| |||||| || | || || || | ||| ||||| | ||| || || Sbjct 20908 TTGAATCTTTGCCTTCACGTTGTCGATTGTGTCAGAAGATTCGACTTCGAGTGTGATGGT 20849 Query 38285 TTTACCCGTCAAGGTTTTCACGAATATCTGCATG 38318 ||| || || | |||||| ||||| || |||||| Sbjct 20848 TTTGCCAGTTAGGGTTTTGACGAAGATTTGCATG 20815 >seq28803 Length=52646 Score = 98.7 bits (108), Expect = 7e-16 Identities = 159/229 (69%), Gaps = 0/229 (0%) Strand=Plus/Plus Query 38089 TACCACCTCTCAAACGCAACACCAAATGAAGAGTGCTCTCCTTTTGAATATTGTAATCAG 38148 ||||||| | | ||| | |||||||||||| || ||||||||| || |||||||| | Sbjct 33767 TACCACCACGGAGACGGAGCACCAAATGAAGGGTTGACTCCTTTTGTATGTTGTAATCGG 33826 Query 38149 ACAAAACACGTTCGTCGTCTAATTGTTTTCCGGCAAATATTAGGCGTTGTTGATCGGAGG 38208 | ||| |||| || | || ||||| ||||| || || || || || || | | Sbjct 33827 CAAGGGTACGCCCGTCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTG 33886 Query 38209 GGACGCCTTCTTTGTCCATAATTTTTTGCTTCACATTCTGGACAGTATCTCCACTTTCAA 38268 ||| ||||| || || ||| || ||| ||||| | | |||||| ||| |||| Sbjct 33887 GGATCCCTTCCTTATCTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCAA 33946 Query 38269 CTTCTAATGTAATAGTTTTACCCGTCAAGGTTTTCACGAATATCTGCAT 38317 |||| | || || || || || || | ||| || ||||| || ||||| Sbjct 33947 CTTCAAGAGTGATGGTCTTGCCAGTGAGGGTCTTAACGAAGATTTGCAT 33995 >seq38941 Length=8647 Score = 87.8 bits (96), Expect = 1e-12 Identities = 74/91 (81%), Gaps = 5/91 (5%) Strand=Plus/Minus Query 25901 TAAGCCCGTTCCCTTGGCTGTGGTTTCGCTAGATAGTAGATAGGG-----GGTAATCTCG 25955 |||||| ||| |||| ||||||||||| | ||||||||| | || || ||||||| Sbjct 7672 TAAGCCTGTTTTCTTGACTGTGGTTTCGTTGGATAGTAGACACGGACAGTGGAAATCTCG 7613 Query 25956 TTAATCCTTTCATGCGCGTCACTAATTAGAT 25986 |||||| || |||||||||||||||||||| Sbjct 7612 TTAATCAATTAATGCGCGTCACTAATTAGAT 7582 >seq38476 Length=283411 Score = 82.4 bits (90), Expect = 5e-11 Identities = 72/90 (80%), Gaps = 5/90 (6%) Strand=Plus/Minus Query 25902 AAGCCCGTTCCCTTGGCTGTGGTTTCGCTAGATAGTAGATAGGG-----GGTAATCTCGT 25956 ||||||||| |||| |||| ||||||| ||||||||| | || || |||||||| Sbjct 52622 AAGCCCGTTTTCTTGATTGTGATTTCGCTGGATAGTAGACATGGACAGTGGGAATCTCGT 52563 Query 25957 TAATCCTTTCATGCGCGTCACTAATTAGAT 25986 ||||| |||||| ||||||||||||||| Sbjct 52562 TAATCAATTCATGTACGTCACTAATTAGAT 52533 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 334787787218381