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_012639.1 Length=141291 Score E Sequences producing significant alignments: (Bits) Value seq28674 161 9e-35 seq28626 134 1e-26 seq9364 120 3e-22 seq3 113 4e-20 seq28803 102 7e-17 seq4 102 7e-17 seq1 100 3e-16 seq5139 93.3 4e-14 >seq28674 Length=75340 Score = 161 bits (178), Expect = 9e-35 Identities = 176/231 (76%), Gaps = 2/231 (1%) Strand=Plus/Minus Query 45111 ATTCCTCCGCGGAGCCTCAACACTAGATGCAGCGTTGATTCCTTTTGGATATTATAATCG 45170 ||||| || || | ||| | || | ||| ||||| || || || |||||||||||||| Sbjct 21045 ATTCCACCACGTAACCTAAGAACCAAATGAAGCGTAGACTCTTTCTGGATATTATAATCA 20986 Query 45171 CTGACGGTTTTAGAATCGTCCAATTGTTTTCCTGCGTATATCAATCGTTGCTGGTCCGGC 45230 | ||| || ||| |||||||| |||||||| | ||||||||||| || || || Sbjct 20985 GCAAGAGTTCTACCATCTTCCAATTGCTTTCCTGCAAAGATCAATCGTTGTTGATCAGGA 20926 Query 45231 GGAATGCCTTCTTTATCTTGAATTTTTTGTTTGATCGCT-TCTACGGTGTCGGAAGACTC 45289 ||||| ||||||||||||||||| ||| || | || | || | ||||| ||||| || Sbjct 20925 GGAATTCCTTCTTTATCTTGAATCTTTGCCTTCA-CGTTGTCGATTGTGTCAGAAGATTC 20867 Query 45290 GACTTCGAGAGTAACCGTTTTGCCGGTTAGAGTTTTTACAAAAATTTGCAT 45340 ||||||||| || | |||||||| ||||| ||||| || || |||||||| Sbjct 20866 GACTTCGAGTGTGATGGTTTTGCCAGTTAGGGTTTTGACGAAGATTTGCAT 20816 Score = 122 bits (134), Expect = 8e-23 Identities = 167/232 (72%), Gaps = 8/232 (3%) Strand=Plus/Minus Query 45111 ATTCCTCCGCGGAGCCTCAACACTAGATGCAGCGTTGATTCCTTTTGGATATTATAATCG 45170 || || |||||||| | | || ||||| ||||||||||| |||||||| |||||| Sbjct 20817 ATGCCGCCGCGGAGACGGAGAACGAGATGGAGCGTTGATTCTTTTTGGATGTTATAANNN 20758 Query 45171 CTGA-CGGTTTTAGAATCGTCCAATTGTTTTCCTGCGTATATCAATCGTTGCTGGTCCGG 45229 ||| | | || | ||||||||| ||| | || | || || ||||| || Sbjct 20757 NNNNNCGGCCGT-----CTTCGAGTTGTTTTCCGGCGAAGATGAGACGCTGTTGGTCTGG 20703 Query 45230 CGGAATGCCTTCTTTATCTTGAATTTTTTGTTTGATCGCT-TCTACGGTGTCGGAAGACT 45288 ||||| ||||| |||||||| ||||| ||||| || | || | ||||||||| || | Sbjct 20702 TGGAATTCCTTCCTTATCTTGGATTTTGGCTTTGA-CGTTGTCGATGGTGTCGGAGGATT 20644 Query 45289 CGACTTCGAGAGTAACCGTTTTGCCGGTTAGAGTTTTTACAAAAATTTGCAT 45340 | || || || || | |||||||||||||| ||||| || || || ||||| Sbjct 20643 CAACCTCTAGGGTTATGGTTTTGCCGGTTAGGGTTTTCACGAAGATCTGCAT 20592 Score = 86.0 bits (94), Expect = 6e-12 Identities = 155/227 (68%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 45114 CCTCCGCGGAGCCTCAACACTAGATGCAGCGTTGATTCCTTTTGGATATTATAATCGCTG 45173 || || |||||||| | || || || ||||| ||||| || || ||||||||||| Sbjct 21270 CCACCACGGAGCCTGAGAACAAGGTGAAGCGTAGATTCTTTCTGAATATTATAATCAGCA 21211 Query 45174 ACGGTTTTAGAATCGTCCAATTGTTTTCCTGCGTATATCAATCGTTGCTGGTCCGGCGGA 45233 | || | ||| || | ||||| || || | |||||||| ||||| || || ||| Sbjct 21210 AGAGTCCTTCCATCTTCAAGCTGTTTACCAGCAAAGATCAATCGCTGCTGATCAGGTGGA 21151 Query 45234 ATGCCTTCTTTATCTTGAATTTTTTGTTTGATCGCTTCTACGGTGTCGGAAGACTCGACT 45293 || || || ||||| ||||| || || | || | || || ||| ||| || Sbjct 21150 ATCCCCTCCTTATCCTGAATCTTCGCCTTCACATTATCAATAGTATCAGAACTCTCCACC 21091 Query 45294 TCGAGAGTAACCGTTTTGCCGGTTAGAGTTTTTACAAAAATTTGCAT 45340 || | ||||| ||| || || || | || || |||||||| ||||| Sbjct 21090 TCCAAAGTAATCGTCTTTCCCGTCAACGTCTTCACAAAAATCTGCAT 21044 >seq28626 Length=87040 Score = 134 bits (148), Expect = 1e-26 Identities = 170/231 (74%), Gaps = 2/231 (1%) Strand=Plus/Plus Query 45111 ATTCCTCCGCGGAGCCTCAACACTAGATGCAGCGTTGATTCCTTTTGGATATTATAATCG 45170 ||||| ||||| | ||| | || | ||| ||||| || || || |||||||||||||| Sbjct 42362 ATTCCACCGCGCAACCTAAGAACCAAATGTAGCGTAGACTCTTTCTGGATATTATAATCC 42421 Query 45171 CTGACGGTTTTAGAATCGTCCAATTGTTTTCCTGCGTATATCAATCGTTGCTGGTCCGGC 45230 | || | ||| |||||||| || ||||| | |||||||| ||||| || || Sbjct 42422 GCAAGAGTCCTCCCATCTTCCAATTGCTTCCCTGCAAAGATCAATCGCTGCTGATCAGGA 42481 Query 45231 GGAATGCCTTCTTTATCTTGAATTTTTTGTTTGATCGCT-TCTACGGTGTCGGAAGACTC 45289 ||||| ||||| || ||||| ||||| ||||| || | || | ||| ||||| || || Sbjct 42482 GGAATTCCTTCCTTGTCTTGGATTTTGGCTTTGA-CGTTGTCGATGGTATCGGAGGATTC 42540 Query 45290 GACTTCGAGAGTAACCGTTTTGCCGGTTAGAGTTTTTACAAAAATTTGCAT 45340 || || || || | |||||||||||||| ||||| || || || ||||| Sbjct 42541 TACCTCTAGGGTTATGGTTTTGCCGGTTAGGGTTTTCACGAAGATCTGCAT 42591 >seq9364 Length=1264 Score = 120 bits (132), Expect = 3e-22 Identities = 165/231 (71%), Gaps = 0/231 (0%) Strand=Plus/Plus Query 45111 ATTCCTCCGCGGAGCCTCAACACTAGATGCAGCGTTGATTCCTTTTGGATATTATAATCG 45170 || || || ||||| | | || | ||| || || || ||||||||||| || |||||| Sbjct 509 ATACCACCACGGAGACGGAGAACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCG 568 Query 45171 CTGACGGTTTTAGAATCGTCCAATTGTTTTCCTGCGTATATCAATCGTTGCTGGTCCGGC 45230 | ||| || |||| |||||||| || | ||||| || ||||||||||| Sbjct 569 GCAAGGGTCCGCCCGTCCTCCAGCTGTTTTCCAGCAAAAATCAAACGCTGCTGGTCCGGT 628 Query 45231 GGAATGCCTTCTTTATCTTGAATTTTTTGTTTGATCGCTTCTACGGTGTCGGAAGACTCG 45290 || || ||||| |||||||||||||| || | |||| ||| |||||| ||| Sbjct 629 GGGATCCCTTCCTTATCTTGAATTTTGGCCTTAACATTGTCTATGGTATCGGAACTCTCA 688 Query 45291 ACTTCGAGAGTAACCGTTTTGCCGGTTAGAGTTTTTACAAAAATTTGCATC 45341 ||||| ||||||| || || || || || || || ||||| ||||||||| Sbjct 689 ACTTCAAGAGTAATGGTCTTACCAGTGAGGGTCTTGACAAAGATTTGCATC 739 >seq3 Length=31061273 Score = 113 bits (124), Expect = 4e-20 Identities = 153/211 (73%), Gaps = 2/211 (1%) Strand=Plus/Minus Query 45132 ACTAGATGCAGCGTTGATTCCTTTTGGATATTATAATCGCTGACGGTTTTAGAATCGTCC 45191 || || || || |||||||| || ||||| || || ||| || || ||| ||| Sbjct 8017651 ACAAGGTGAAGAGTTGATTCTTTCTGGATGTTGTAGTCGGCGAGAGTGCGGCCATCTTCC 8017592 Query 45192 AATTGTTTTCCTGCGTATATCAATCGTTGCTGGTCCGGCGGAATGCCTTCTTTATCTTGA 45251 || || ||||| ||| | || | ||||||||||| || ||||| ||||| || ||||| Sbjct 8017591 AACTGCTTTCCGGCGAAGATGAGACGTTGCTGGTCAGGTGGAATTCCTTCCTTGTCTTGG 8017532 Query 45252 ATTTTTTGTTTGATCGCT-TCTACGGTGTCGGAAGACTCGACTTCGAGAGTAACCGTTTT 45310 || || ||||| || | || | ||||| |||||||| || ||||| || | ||| || Sbjct 8017531 ATCTTGGCTTTGA-CGTTGTCGATTGTGTCTGAAGACTCAACCTCGAGGGTTATCGTCTT 8017473 Query 45311 GCCGGTTAGAGTTTTTACAAAAATTTGCATC 45341 || ||||| ||||| || || || |||||| Sbjct 8017472 CCCTGTTAGGGTTTTCACGAAGATCTGCATC 8017442 Score = 102 bits (112), Expect = 7e-17 Identities = 149/211 (71%), Gaps = 0/211 (0%) Strand=Plus/Minus Query 45131 CACTAGATGCAGCGTTGATTCCTTTTGGATATTATAATCGCTGACGGTTTTAGAATCGTC 45190 ||| | ||| || || || ||||||||||| || ||||| | ||| ||| || Sbjct 12366157 CACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCAGCAAGGGTACGCCCATCCTC 12366098 Query 45191 CAATTGTTTTCCTGCGTATATCAATCGTTGCTGGTCCGGCGGAATGCCTTCTTTATCTTG 45250 || || ||||| || | |||| || |||||||| | || || ||||| |||||||| Sbjct 12366097 CAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCTGATGGGATCCCTTCCTTATCTTG 12366038 Query 45251 AATTTTTTGTTTGATCGCTTCTACGGTGTCGGAAGACTCGACTTCGAGAGTAACCGTTTT 45310 ||| || || | |||| ||| || ||| ||| |||||||||||||| || || Sbjct 12366037 AATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCAACTTCGAGAGTAACGGTCTT 12365978 Query 45311 GCCGGTTAGAGTTTTTACAAAAATTTGCATC 45341 ||| || || | || ||||| ||||||||| Sbjct 12365977 GCCTGTAAGCGCCTTAACAAAGATTTGCATC 12365947 >seq28803 Length=52646 Score = 102 bits (112), Expect = 7e-17 Identities = 161/231 (70%), Gaps = 0/231 (0%) Strand=Plus/Plus Query 45111 ATTCCTCCGCGGAGCCTCAACACTAGATGCAGCGTTGATTCCTTTTGGATATTATAATCG 45170 || || || ||||| | | ||| | ||| || ||||| |||||||| || || |||||| Sbjct 33766 ATACCACCACGGAGACGGAGCACCAAATGAAGGGTTGACTCCTTTTGTATGTTGTAATCG 33825 Query 45171 CTGACGGTTTTAGAATCGTCCAATTGTTTTCCTGCGTATATCAATCGTTGCTGGTCCGGC 45230 | ||| || |||| || ||||| || | |||| || ||||||||||| Sbjct 33826 GCAAGGGTACGCCCGTCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGT 33885 Query 45231 GGAATGCCTTCTTTATCTTGAATTTTTTGTTTGATCGCTTCTACGGTGTCGGAAGACTCG 45290 || || ||||| ||||||||||| || || | |||| ||| || ||| ||| Sbjct 33886 GGGATCCCTTCCTTATCTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCA 33945 Query 45291 ACTTCGAGAGTAACCGTTTTGCCGGTTAGAGTTTTTACAAAAATTTGCATC 45341 ||||| ||||| | || ||||| || || || || || || ||||||||| Sbjct 33946 ACTTCAAGAGTGATGGTCTTGCCAGTGAGGGTCTTAACGAAGATTTGCATC 33996 >seq4 Length=28907061 Score = 102 bits (112), Expect = 7e-17 Identities = 161/231 (70%), Gaps = 0/231 (0%) Strand=Plus/Minus Query 45111 ATTCCTCCGCGGAGCCTCAACACTAGATGCAGCGTTGATTCCTTTTGGATATTATAATCG 45170 || || || ||||| | | ||| | ||| || || || ||||||||||| || |||||| Sbjct 27565228 ATACCACCACGGAGACGGAGCACCAAATGGAGGGTAGACTCCTTTTGGATGTTGTAATCG 27565169 Query 45171 CTGACGGTTTTAGAATCGTCCAATTGTTTTCCTGCGTATATCAATCGTTGCTGGTCCGGC 45230 | ||| || |||| || ||||| || | |||| || ||||||||||| Sbjct 27565168 GCAAGGGTACGCCCGTCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGT 27565109 Query 45231 GGAATGCCTTCTTTATCTTGAATTTTTTGTTTGATCGCTTCTACGGTGTCGGAAGACTCG 45290 || || ||||| ||||||||||| || || | |||| ||| || ||| ||| Sbjct 27565108 GGGATCCCTTCCTTATCTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCA 27565049 Query 45291 ACTTCGAGAGTAACCGTTTTGCCGGTTAGAGTTTTTACAAAAATTTGCATC 45341 ||||| ||||| | || ||||| || || || || || || ||||||||| Sbjct 27565048 ACTTCCAGAGTGATGGTCTTGCCAGTGAGGGTCTTAACGAAGATTTGCATC 27564998 Score = 95.1 bits (104), Expect = 1e-14 Identities = 159/230 (69%), Gaps = 0/230 (0%) Strand=Plus/Minus Query 45111 ATTCCTCCGCGGAGCCTCAACACTAGATGCAGCGTTGATTCCTTTTGGATATTATAATCG 45170 || || || || || | ||| || || || || ||||| || || ||||| |||||||| Sbjct 27565684 ATACCACCACGAAGACGCAAGACAAGGTGAAGAGTTGACTCTTTCTGGATGTTATAATCA 27565625 Query 45171 CTGACGGTTTTAGAATCGTCCAATTGTTTTCCTGCGTATATCAATCGTTGCTGGTCCGGC 45230 | |||| | ||| || | || ||||| || | ||||| | ||||| || || Sbjct 27565624 GCCAGGGTTCTGCCATCTTCGAGCTGCTTTCCGGCAAAAATCAACCTCTGCTGATCTGGG 27565565 Query 45231 GGAATGCCTTCTTTATCTTGAATTTTTTGTTTGATCGCTTCTACGGTGTCGGAAGACTCG 45290 ||||| |||||||||||||| || || |||| |||| |||||| ||| ||| Sbjct 27565564 GGAATACCTTCTTTATCTTGTATCTTGGCCTTGACATTGTCTATGGTGTCAGAACTCTCC 27565505 Query 45291 ACTTCGAGAGTAACCGTTTTGCCGGTTAGAGTTTTTACAAAAATTTGCAT 45340 || || || || | || || || || || || || ||||| || ||||| Sbjct 27565504 ACCTCAAGGGTGATGGTCTTTCCAGTGAGGGTCTTAACAAAGATCTGCAT 27565455 >seq1 Length=28142018 Score = 100 bits (110), Expect = 3e-16 Identities = 163/232 (70%), Gaps = 2/232 (1%) Strand=Plus/Plus Query 45111 ATTCCTCCGCGGAGCCTCAACACTAGATGCAGCGTTGATTCCTTTTGGATATTATAATCG 45170 || ||||| || || | | || ||||| ||||| || ||||| || ||||| ||||| Sbjct 1587158 ATACCTCCACGCAGACGGAGAACAAGATGAAGCGTGGACTCCTTCTGAATATTGTAATCA 1587217 Query 45171 CTGACGGTTTTAGAATCGTCCAATTGTTTTCCTGCGTATATCAATCGTTGCTGGTCCGGC 45230 | || | || ||||| || ||||| ||| | || | |||||||||||||| Sbjct 1587218 GCAAGAGTCCTTCCGTCTTCCAACTGCTTTCCGGCGAAGATGAGACGTTGCTGGTCCGGA 1587277 Query 45231 GGAATGCCTTCTTTATCTTGAATTTTTTGTTTGATCGCT-TCTACGGTGTCGGAAGACTC 45289 ||||| ||||| || || || || || ||||| || | || | |||||| || ||| Sbjct 1587278 GGAATTCCTTCCTTGTCCTGGATCTTGGCTTTGA-CGTTGTCGATGGTGTCAGAGCTCTC 1587336 Query 45290 GACTTCGAGAGTAACCGTTTTGCCGGTTAGAGTTTTTACAAAAATTTGCATC 45341 || || || || | || || ||||| || ||||| || || ||||||||| Sbjct 1587337 CACCTCAAGGGTGATGGTCTTTCCGGTGAGTGTTTTCACGAAGATTTGCATC 1587388 Score = 87.8 bits (96), Expect = 2e-12 Identities = 147/213 (69%), Gaps = 0/213 (0%) Strand=Plus/Plus Query 45128 CAACACTAGATGCAGCGTTGATTCCTTTTGGATATTATAATCGCTGACGGTTTTAGAATC 45187 || ||| || || || || || ||||| |||||||| ||||| | ||| | ||| Sbjct 1586425 CAGCACAAGGTGAAGAGTGGACTCCTTCTGGATATTGTAATCCGCAAGGGTCCTTCCATC 1586484 Query 45188 GTCCAATTGTTTTCCTGCGTATATCAATCGTTGCTGGTCCGGCGGAATGCCTTCTTTATC 45247 ||||||||||| ||||| | ||||| | ||||| || || ||||| ||||| ||||| Sbjct 1586485 TTCCAATTGTTTGCCTGCAAAGATCAACCTCTGCTGATCTGGGGGAATACCTTCCTTATC 1586544 Query 45248 TTGAATTTTTTGTTTGATCGCTTCTACGGTGTCGGAAGACTCGACTTCGAGAGTAACCGT 45307 || || || |||| || | |||||| || ||| || || | || | || Sbjct 1586545 CTGGATCTTAGCCTTGACATTGTCAATGGTGTCTGAGCTCTCCACCTCCAAGGTTATGGT 1586604 Query 45308 TTTGCCGGTTAGAGTTTTTACAAAAATTTGCAT 45340 || ||||| | ||| || ||||| || ||||| Sbjct 1586605 CTTACCGGTCAAAGTCTTGACAAATATCTGCAT 1586637 >seq5139 Length=1344 Score = 93.3 bits (102), Expect = 4e-14 Identities = 147/211 (70%), Gaps = 0/211 (0%) Strand=Plus/Minus Query 45131 CACTAGATGCAGCGTTGATTCCTTTTGGATATTATAATCGCTGACGGTTTTAGAATCGTC 45190 ||| | ||| || || || ||||||||||| || |||||| | ||| ||| || Sbjct 1306 CACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCGGCAAGGGTACGCCCATCCTC 1247 Query 45191 CAATTGTTTTCCTGCGTATATCAATCGTTGCTGGTCCGGCGGAATGCCTTCTTTATCTTG 45250 || || ||||| || | |||| || ||||||||||| || | ||||| |||||||| Sbjct 1246 CAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGGTTCCCTTCCTTATCTTG 1187 Query 45251 AATTTTTTGTTTGATCGCTTCTACGGTGTCGGAAGACTCGACTTCGAGAGTAACCGTTTT 45310 ||| || || | |||| ||| || ||| ||| |||||||||| | || || Sbjct 1186 AATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCAACTTCGAGAGCGATGGTCTT 1127 Query 45311 GCCGGTTAGAGTTTTTACAAAAATTTGCATC 45341 ||| || || || || || || ||||| ||| Sbjct 1126 GCCAGTGAGGGTCTTAACGAAGATTTGTATC 1096 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 451782560287960