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_002816.1 Length=123500 Score E Sequences producing significant alignments: (Bits) Value seq3 104 2e-17 seq9364 102 6e-17 seq28803 95.1 1e-14 seq4 89.7 4e-13 seq1 89.7 4e-13 seq28626 86.0 5e-12 seq28674 82.4 6e-11 >seq3 Length=31061273 Score = 104 bits (114), Expect = 2e-17 Identities = 138/192 (72%), Gaps = 0/192 (0%) Strand=Plus/Minus Query 45145 CTCCTTCTGAATGTTGTAGTCGTTCAGTTGGCGATCGTCGTCCAGTTGTTTTCCGGCGAA 45204 ||||||||||||||||||||| || | | || |||| ||| || || || || Sbjct 12367507 CTCCTTCTGAATGTTGTAGTCAGCAAGAGTCCTTCCATCCTCCAATTGCTTCCCAGCAAA 12367448 Query 45205 TATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCAATTTTTTGCTTAACCGC 45264 ||||||| ||| || || || || | |||||||| ||| |||||| ||| || Sbjct 12367447 GATCAACCTCTGCTGATCTGGTGGGATTCCCTCCTTATCCTGTATTTTTGCCTTCACGTT 12367388 Query 45265 CGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTCTTGCCCGTCAGAGTCTTCAC 45324 | | |||| || || ||||||| |||||| ||||| || ||||| |||||||| Sbjct 12367387 ATCAATTGTGTCTGAACTTTCTACCTCCAAGGTAATGGTCTTTCCGGTCAGCGTCTTCAC 12367328 Query 45325 AAAGATTTGCAT 45336 |||||||||||| Sbjct 12367327 AAAGATTTGCAT 12367316 Score = 86.0 bits (94), Expect = 5e-12 Identities = 136/193 (70%), Gaps = 4/193 (2%) Strand=Plus/Minus Query 45146 TCCTTCTGAATGTTGTAGTCGTTCA--GTTGGCGATCGTCGTCCAGTTGTTTTCCGGCGA 45203 |||||||| |||||||| ||| || ||| || | || ||||| || ||||| || | Sbjct 12366594 TCCTTCTGGATGTTGTAATCGGCCAAGGTT--CGGCCATCTTCCAGCTGCTTTCCAGCAA 12366537 Query 45204 ATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCAATTTTTTGCTTAACCG 45263 | |||| || || ||||| || || | |||||||||||| ||| || |||||| Sbjct 12366536 AAATCAGCCTTTGCTGGTCTGGGGGAATACCCTCCTTGTCTTGAATCTTGGCCTTAACAT 12366477 Query 45264 CCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTCTTGCCCGTCAGAGTCTTCA 45323 | | | || | ||| ||||||| |||||||| ||||| || || ||||| | Sbjct 12366476 TGTCAATAGTATCTGAGCTCTCAACCTCCAAAGTAATCGTTTTGCCTGTAAGCGTCTTAA 12366417 Query 45324 CAAAGATTTGCAT 45336 |||| || ||||| Sbjct 12366416 CAAAAATCTGCAT 12366404 >seq9364 Length=1264 Score = 102 bits (112), Expect = 6e-17 Identities = 148/209 (71%), Gaps = 0/209 (0%) Strand=Plus/Plus Query 45128 ACCAAGTGCAGCGTGCTCTCCTTCTGAATGTTGTAGTCGTTCAGTTGGCGATCGTCGTCC 45187 ||||| || || ||| |||||| || |||||||| ||| || || |||| ||| Sbjct 530 ACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCGGCAAGGGTCCGCCCGTCCTCC 589 Query 45188 AGTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCA 45247 || |||||||| || || ||||| ||||| ||||| || || | || ||||| || | Sbjct 590 AGCTGTTTTCCAGCAAAAATCAAACGCTGCTGGTCCGGTGGGATCCCTTCCTTATCTTGA 649 Query 45248 ATTTTTTGCTTAACCGCCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTCTTG 45307 ||||| |||||| | | | | || || ||| || || | ||||| ||||| Sbjct 650 ATTTTGGCCTTAACATTGTCTATGGTATCGGAACTCTCAACTTCAAGAGTAATGGTCTTA 709 Query 45308 CCCGTCAGAGTCTTCACAAAGATTTGCAT 45336 || || || ||||| |||||||||||||| Sbjct 710 CCAGTGAGGGTCTTGACAAAGATTTGCAT 738 Score = 89.7 bits (98), Expect = 4e-13 Identities = 138/194 (71%), Gaps = 6/194 (3%) Strand=Plus/Plus Query 45146 TCCTTCTGAATGTTGTAGTC-GTTCAGTTG--GCGATCGTCGTCCAGTTGTTTTCCGGCG 45202 || ||||| |||||||| || | | || | || ||| ||| || || ||||| || Sbjct 320 TCTTTCTGGATGTTGTAATCAGCTAAGGTCCTGCCATCTTCG---AGCTGCTTTCCAGCA 376 Query 45203 AATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCAATTTTTTGCTTAACC 45262 || ||||||| || ||||| || || | ||||| ||||| ||| || ||| || Sbjct 377 AAAATCAACCTTTGCTGGTCTGGTGGGATTCCCTCTTTGTCTTGAATCTTGGCCTTGACA 436 Query 45263 GCCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTCTTGCCCGTCAGAGTCTTC 45322 | | | |||| || ||||||||| | ||| || ||||| || || ||||||||| Sbjct 437 TTGTCTATGGTGTCAGAACTCTCCACCTCGAGGGTGATGGTCTTTCCAGTGAGAGTCTTC 496 Query 45323 ACAAAGATTTGCAT 45336 |||||||||||||| Sbjct 497 ACAAAGATTTGCAT 510 >seq28803 Length=52646 Score = 95.1 bits (104), Expect = 1e-14 Identities = 138/193 (72%), Gaps = 4/193 (2%) Strand=Plus/Plus Query 45146 TCCTTCTGAATGTTGTAGTCGTTCA--GTTGGCGATCGTCGTCCAGTTGTTTTCCGGCGA 45203 |||||||| |||||||| ||| || ||| || | || || || || ||||| || | Sbjct 33349 TCCTTCTGGATGTTGTAATCGGCCAAAGTTCGCC--CATCTTCGAGCTGCTTTCCAGCAA 33406 Query 45204 ATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCAATTTTTTGCTTAACCG 45263 | ||||||| || ||||| || || | |||||||||||| ||| || |||||| Sbjct 33407 AGATCAACCTTTGCTGGTCTGGGGGGATACCCTCCTTGTCTTGAATCTTAGCCTTAACAT 33466 Query 45264 CCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTCTTGCCCGTCAGAGTCTTCA 45323 | | |||| | ||| ||||||| || || |||||||| || |||||||||| Sbjct 33467 TGTCAATAGTGTCTGAGCTCTCAACCTCCAAAGTTATTGTCTTGCCAGTAAGAGTCTTCA 33526 Query 45324 CAAAGATTTGCAT 45336 |||| || ||||| Sbjct 33527 CAAAAATCTGCAT 33539 Score = 87.8 bits (96), Expect = 1e-12 Identities = 135/193 (70%), Gaps = 0/193 (0%) Strand=Plus/Plus Query 45145 CTCCTTCTGAATGTTGTAGTCGTTCAGTTGGCGATCGTCGTCCAGTTGTTTTCCGGCGAA 45204 ||||||||||||||||||||| || | | || |||| ||| || || || || Sbjct 38781 CTCCTTCTGAATGTTGTAGTCAGCAAGGGTCCTTCCATCCTCCAATTGCTTCCCAGCAAA 38840 Query 45205 TATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCAATTTTTTGCTTAACCGC 45264 ||||||| ||| || || || || | || ||||||||| |||||| ||| || Sbjct 38841 GATCAACCTCTGCTGATCTGGTGGGATTCCTTCCTTGTCCTGTATTTTTGCCTTGACATT 38900 Query 45265 CGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTCTTGCCCGTCAGAGTCTTCAC 45324 | | | || || || ||||||| ||||| ||||| || |||| |||||||| Sbjct 38901 ATCGATTGTATCAGAACTTTCTACCTCCAATGTAATGGTCTTCCCTGTCAACGTCTTCAC 38960 Query 45325 AAAGATTTGCATG 45337 |||||| |||||| Sbjct 38961 AAAGATCTGCATG 38973 Score = 86.0 bits (94), Expect = 5e-12 Identities = 134/192 (70%), Gaps = 0/192 (0%) Strand=Plus/Plus Query 45146 TCCTTCTGAATGTTGTAGTCGTTCAGTTGGCGATCGTCGTCCAGTTGTTTTCCGGCGAAT 45205 |||||||||||||||||||| || | | || |||| ||| || || || || Sbjct 32569 TCCTTCTGAATGTTGTAGTCAGCAAGGGTCCTTCCATCCTCCAATTGCTTCCCAGCAAAG 32628 Query 45206 ATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCAATTTTTTGCTTAACCGCC 45265 ||||||| ||| || || || || | || ||||||||| |||||| ||| || Sbjct 32629 ATCAACCTCTGCTGATCTGGTGGGATTCCTTCCTTGTCCTGTATTTTTGCCTTGACATTA 32688 Query 45266 GCCACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTCTTGCCCGTCAGAGTCTTCACA 45325 | | | || || || ||||||| ||||| ||||| || |||| ||||||||| Sbjct 32689 TCGATTGTATCAGAACTTTCTACCTCCAAAGTAATGGTCTTCCCTGTCAAGGTCTTCACA 32748 Query 45326 AAGATTTGCATG 45337 ||||| |||||| Sbjct 32749 AAGATCTGCATG 32760 Score = 84.2 bits (92), Expect = 2e-11 Identities = 112/156 (72%), Gaps = 0/156 (0%) Strand=Plus/Minus Query 45182 TCGTCCAGTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTG 45241 || |||| ||| || || || || ||||||| ||| || || || || | || |||||| Sbjct 8817 TCCTCCAATTGCTTCCCAGCAAAGATCAACCTCTGCTGATCTGGTGGGATTCCTTCCTTG 8758 Query 45242 TCCGCAATTTTTTGCTTAACCGCCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATC 45301 ||| |||||| |||||| | | | || || || ||||||| ||||| Sbjct 8757 TCCTGTATTTTTGCCTTAACATTATCGATTGTATCTGAACTTTCTACCTCCAAAGTAATG 8698 Query 45302 GTCTTGCCCGTCAGAGTCTTCACAAAGATTTGCATG 45337 ||||| || |||| ||||||||||||||| |||||| Sbjct 8697 GTCTTCCCTGTCAAAGTCTTCACAAAGATCTGCATG 8662 Score = 82.4 bits (90), Expect = 6e-11 Identities = 111/155 (72%), Gaps = 0/155 (0%) Strand=Plus/Plus Query 45182 TCGTCCAGTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTG 45241 || || || || ||||| || || ||||||| || ||||| ||||| | ||||||||| Sbjct 33157 TCTTCAAGCTGCTTTCCAGCAAAAATCAACCTTTGCTGGTCTGGAGGAATGCCCTCCTTG 33216 Query 45242 TCCGCAATTTTTTGCTTAACCGCCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATC 45301 ||| ||| || || || | | | |||| | ||| ||||||| ||||| Sbjct 33217 TCCTGAATCTTAGCTTTTACATTGTCAATGGTGTCTGAGCTCTCAACCTCCAAAGTAATG 33276 Query 45302 GTCTTGCCCGTCAGAGTCTTCACAAAGATTTGCAT 45336 ||||| || |||| |||||||||||||| ||||| Sbjct 33277 GTCTTCCCTGTCAATGTCTTCACAAAGATCTGCAT 33311 >seq4 Length=28907061 Score = 89.7 bits (98), Expect = 4e-13 Identities = 135/192 (70%), Gaps = 0/192 (0%) Strand=Plus/Minus Query 45145 CTCCTTCTGAATGTTGTAGTCGTTCAGTTGGCGATCGTCGTCCAGTTGTTTTCCGGCGAA 45204 ||||||||||||||||||||| || | | || |||| ||| || || || || Sbjct 27566102 CTCCTTCTGAATGTTGTAGTCAGCAAGGGTCCTTCCATCCTCCAATTGCTTGCCAGCAAA 27566043 Query 45205 TATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCAATTTTTTGCTTAACCGC 45264 ||||||| ||| || || || || | ||||||||||| |||||| ||| || Sbjct 27566042 GATCAACCTCTGCTGATCTGGTGGGATTCCCTCCTTGTCTTGTATTTTTGCCTTGACATT 27565983 Query 45265 CGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTCTTGCCCGTCAGAGTCTTCAC 45324 | | | || || || ||||||| ||||| ||||| || |||| ||||||||| Sbjct 27565982 ATCGATCGTATCTGAACTTTCTACCTCCAATGTAATGGTCTTTCCAGTCAAAGTCTTCAC 27565923 Query 45325 AAAGATTTGCAT 45336 |||||| ||||| Sbjct 27565922 AAAGATCTGCAT 27565911 Score = 84.2 bits (92), Expect = 2e-11 Identities = 144/209 (69%), Gaps = 0/209 (0%) Strand=Plus/Minus Query 45128 ACCAAGTGCAGCGTGCTCTCCTTCTGAATGTTGTAGTCGTTCAGTTGGCGATCGTCGTCC 45187 ||||| || || || |||||| || |||||||| ||| || || |||| ||| Sbjct 27565207 ACCAAATGGAGGGTAGACTCCTTTTGGATGTTGTAATCGGCAAGGGTACGCCCGTCCTCC 27565148 Query 45188 AGTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCA 45247 || || ||||| || || |||| ||||| ||||| || || | || ||||| || | Sbjct 27565147 AGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGGATCCCTTCCTTATCTTGA 27565088 Query 45248 ATTTTTTGCTTAACCGCCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTCTTG 45307 || || |||||| | | | | || || ||| || |||| || || |||||| Sbjct 27565087 ATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCAACTTCCAGAGTGATGGTCTTG 27565028 Query 45308 CCCGTCAGAGTCTTCACAAAGATTTGCAT 45336 || || || ||||| || ||||||||||| Sbjct 27565027 CCAGTGAGGGTCTTAACGAAGATTTGCAT 27564999 >seq1 Length=28142018 Score = 89.7 bits (98), Expect = 4e-13 Identities = 142/204 (70%), Gaps = 0/204 (0%) Strand=Plus/Plus Query 45133 GTGCAGCGTGCTCTCCTTCTGAATGTTGTAGTCGTTCAGTTGGCGATCGTCGTCCAGTTG 45192 ||| || ||| ||||||||||||||||||||| || | | || |||| || Sbjct 1586206 GTGAAGGGTGGACTCCTTCTGAATGTTGTAGTCAGCAAGGGTCCTTCCATCCTCCAACTG 1586265 Query 45193 TTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCAATTTT 45252 ||| || ||||| |||| || ||| || || || || | ||| ||||| ||| |||||| Sbjct 1586266 TTTCCCTGCGAAGATCAGCCTCTGCTGATCAGGTGGGATACCTTCCTTATCCTGAATTTT 1586325 Query 45253 TTGCTTAACCGCCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTCTTGCCCGT 45312 ||| || | | | | || | ||||||||||| ||| || ||||| || || Sbjct 1586326 GGCCTTCACATTATCAATGGTATCTGAGCTCTCCACCTCCAAGGTTATGGTCTTACCAGT 1586385 Query 45313 CAGAGTCTTCACAAAGATTTGCAT 45336 || ||||| ||||| || ||||| Sbjct 1586386 CAAGGTCTTGACAAAAATCTGCAT 1586409 Score = 87.8 bits (96), Expect = 1e-12 Identities = 147/209 (70%), Gaps = 3/209 (1%) Strand=Plus/Plus Query 45130 CAAG-TGCAGCGTGCTCTCCTTCTGAATGTTGTAGTCGTTCAGTTGGCGATCGTCGTCCA 45188 |||| || |||||| |||||||||||| ||||| || || | |||| |||| Sbjct 1587180 CAAGATGAAGCGTGGACTCCTTCTGAATATTGTAATCAGCAAGAGTCCTTCCGTCTTCCA 1587239 Query 45189 GTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCAA 45248 || ||||||||||| || | || || ||||| ||||| | || ||||||||| | Sbjct 1587240 ACTGCTTTCCGGCGAAGATGAGACGTTGCTGGTCCGGAGGAATTCCTTCCTTGTCCTGGA 1587299 Query 45249 TTTTTTGCTTAACCGCCGCC-ACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTCTTG 45307 | || |||| || | | | | |||| | ||||||||| | ||| || ||||| Sbjct 1587300 TCTTG-GCTTTGACGTTGTCGATGGTGTCAGAGCTCTCCACCTCAAGGGTGATGGTCTTT 1587358 Query 45308 CCCGTCAGAGTCTTCACAAAGATTTGCAT 45336 || || || || ||||| ||||||||||| Sbjct 1587359 CCGGTGAGTGTTTTCACGAAGATTTGCAT 1587387 Score = 86.0 bits (94), Expect = 5e-12 Identities = 155/227 (68%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 45110 CCACCTCTCAATCTTAATACCAAGTGCAGCGTGCTCTCCTTCTGAATGTTGTAGTCGTTC 45169 ||||| ||||| | | || | ||| || ||| ||||||||| || ||||| || Sbjct 1586411 CCACCCCTCAAACGCAGCACAAGGTGAAGAGTGGACTCCTTCTGGATATTGTAATCCGCA 1586470 Query 45170 AGTTGGCGATCGTCGTCCAGTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGC 45229 || | | || |||| |||||| || || || ||||||| ||| || || || || Sbjct 1586471 AGGGTCCTTCCATCTTCCAATTGTTTGCCTGCAAAGATCAACCTCTGCTGATCTGGGGGA 1586530 Query 45230 ACACCCTCCTTGTCCGCAATTTTTTGCTTAACCGCCGCCACGCTGTCCCCACCCTCCACC 45289 | ||| ||||| ||| || || ||| || | | | |||| | ||||||| Sbjct 1586531 ATACCTTCCTTATCCTGGATCTTAGCCTTGACATTGTCAATGGTGTCTGAGCTCTCCACC 1586590 Query 45290 TCCACGGTAATCGTCTTGCCCGTCAGAGTCTTCACAAAGATTTGCAT 45336 |||| ||| || ||||| || |||| |||||| ||||| || ||||| Sbjct 1586591 TCCAAGGTTATGGTCTTACCGGTCAAAGTCTTGACAAATATCTGCAT 1586637 >seq28626 Length=87040 Score = 86.0 bits (94), Expect = 5e-12 Identities = 112/155 (72%), Gaps = 0/155 (0%) Strand=Plus/Plus Query 45182 TCGTCCAGTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTG 45241 || || || ||||| ||||| || ||||| |||||||| || || || | |||||||| Sbjct 42209 TCCTCAAGCTGTTTACCGGCAAAGATCAATCGCTGTTGATCAGGTGGAATCCCCTCCTTA 42268 Query 45242 TCCGCAATTTTTTGCTTAACCGCCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATC 45301 ||| ||| || ||| || | | | || || ||||||||| | |||||| Sbjct 42269 TCCTGAATCTTGGCCTTCACATTATCAATAGTATCAGAACTCTCCACCTCAAGAGTAATC 42328 Query 45302 GTCTTGCCCGTCAGAGTCTTCACAAAGATTTGCAT 45336 ||||| ||||||| ||||||||||| || ||||| Sbjct 42329 GTCTTCCCCGTCAACGTCTTCACAAAAATCTGCAT 42363 >seq28674 Length=75340 Score = 82.4 bits (90), Expect = 6e-11 Identities = 111/155 (72%), Gaps = 0/155 (0%) Strand=Plus/Minus Query 45182 TCGTCCAGTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTG 45241 || || || ||||| || || || ||||| ||||| || || || || | |||||||| Sbjct 21198 TCTTCAAGCTGTTTACCAGCAAAGATCAATCGCTGCTGATCAGGTGGAATCCCCTCCTTA 21139 Query 45242 TCCGCAATTTTTTGCTTAACCGCCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATC 45301 ||| ||| || ||| || | | | || || ||||||||||| |||||| Sbjct 21138 TCCTGAATCTTCGCCTTCACATTATCAATAGTATCAGAACTCTCCACCTCCAAAGTAATC 21079 Query 45302 GTCTTGCCCGTCAGAGTCTTCACAAAGATTTGCAT 45336 ||||| ||||||| ||||||||||| || ||||| Sbjct 21078 GTCTTTCCCGTCAACGTCTTCACAAAAATCTGCAT 21044 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 394887170255071