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_013953.1 Length=156344 Score E Sequences producing significant alignments: (Bits) Value seq4 114 1e-20 seq28803 111 2e-19 seq28674 111 2e-19 seq9364 107 2e-18 seq5139 107 2e-18 seq3 107 2e-18 seq28626 89.7 5e-13 >seq4 Length=28907061 Score = 114 bits (126), Expect = 1e-20 Identities = 155/216 (72%), Gaps = 0/216 (0%) Strand=Plus/Plus Query 38244 aTGCAAATATTCGTAAAAACGCTCACGGGCAAAACCATCACCGTCGACGTCGAGGCCACC 38303 |||||||| ||||| || || ||||| ||||| |||||||| | || || ||| | Sbjct 27564999 ATGCAAATCTTCGTTAAGACCCTCACTGGCAAGACCATCACTCTGGAAGTTGAGAGTTCA 27565058 Query 38304 GACAGCGTGCAAACGCTTAAAGAAAAAATCCTCGACAAAGAGGGAATTCCCGCCGACCAA 38363 || | | | | | |||| | || || | || || || || || || | ||||| Sbjct 27565059 GATACCATAGACAATGTTAAGGCCAAGATTCAAGATAAGGAAGGGATCCCACCGGACCAG 27565118 Query 38364 CAGCGGCTCATTTACGCGGGCAAACAGCTGGACGACGAGCGCACCCTCAACGACTACAAC 38423 ||||| || |||| || || || |||||||| |||| ||| ||||| ||| |||||| Sbjct 27565119 CAGCGTCTGATTTTTGCTGGAAAGCAGCTGGAGGACGGGCGTACCCTTGCCGATTACAAC 27565178 Query 38424 ATCCAAAAGGAAGCGACGCTGCATTTGGTGCTGCGT 38459 ||||||||||| | || || ||||||||||| ||| Sbjct 27565179 ATCCAAAAGGAGTCTACCCTCCATTTGGTGCTCCGT 27565214 >seq28803 Length=52646 Score = 111 bits (122), Expect = 2e-19 Identities = 159/224 (71%), Gaps = 0/224 (0%) Strand=Plus/Minus Query 38236 TTaaaaaaaTGCAAATATTCGTAAAAACGCTCACGGGCAAAACCATCACCGTCGACGTCG 38295 ||| | | |||||||| ||||| || || ||||| ||||| |||||||| | || || | Sbjct 34003 TTATATAGATGCAAATCTTCGTTAAGACCCTCACTGGCAAGACCATCACTCTTGAAGTTG 33944 Query 38296 AGGCCACCGACAGCGTGCAAACGCTTAAAGAAAAAATCCTCGACAAAGAGGGAATTCCCG 38355 || | || | | | | | |||| | || || | || || || || || || Sbjct 33943 AGAGTTCAGATACCATAGACAATGTTAAGGCCAAGATTCAAGATAAGGAAGGGATCCCAC 33884 Query 38356 CCGACCAACAGCGGCTCATTTACGCGGGCAAACAGCTGGACGACGAGCGCACCCTCAACG 38415 | ||||| ||||| || |||| || || || |||||||| |||| ||| ||||| || Sbjct 33883 CGGACCAGCAGCGTCTGATTTTTGCTGGAAAGCAGCTGGAGGACGGGCGTACCCTTGCCG 33824 Query 38416 ACTACAACATCCAAAAGGAAGCGACGCTGCATTTGGTGCTGCGT 38459 | |||||||| |||||||| | || || ||||||||||| ||| Sbjct 33823 ATTACAACATACAAAAGGAGTCAACCCTTCATTTGGTGCTCCGT 33780 Score = 82.4 bits (90), Expect = 8e-11 Identities = 99/135 (73%), Gaps = 0/135 (0%) Strand=Plus/Plus Query 38337 GACAAAGAGGGAATTCCCGCCGACCAACAGCGGCTCATTTACGCGGGCAAACAGCTGGAC 38396 ||||||||||| || || | ||||| ||| ||||||||| || || || || || || Sbjct 8528 GACAAAGAGGGTATCCCTCCAGACCAGCAGAGGCTCATTTTTGCTGGAAAGCAACTTGAA 8587 Query 38397 GACGAGCGCACCCTCAACGACTACAACATCCAAAAGGAAGCGACGCTGCATTTGGTGCTG 38456 || | || ||| | ||| || |||||||| |||||| | || || ||| | || || Sbjct 8588 GATGGCCGTACCTTGGCCGATTATAACATCCAGAAGGAATCCACCCTTCATCTTGTCCTT 8647 Query 38457 CGTTTGAGAGGCGGC 38471 |||||||| || ||| Sbjct 8648 CGTTTGAGGGGAGGC 8662 >seq28674 Length=75340 Score = 111 bits (122), Expect = 2e-19 Identities = 163/229 (71%), Gaps = 6/229 (3%) Strand=Plus/Plus Query 38244 aTGCAAATATTCGTAAAAACGCTCACGGGCAAAACCATCACCGTCGACGTCGAGGCCACC 38303 ||||| || ||||| ||||| || || ||||||||||| ||| | || || || || || Sbjct 20592 ATGCAGATCTTCGTGAAAACCCTAACCGGCAAAACCATAACCCTAGAGGTTGAATCCTCC 20651 Query 38304 GACAGCGT-GCAAACGCTTAAAGAAAAAATCCTCGACAAAGAGGGAATTCCCGCCGACCA 38362 |||| | | | |||| | |||| ||||||| || || || |||||||| | ||||| Sbjct 20652 GACACCATCGACAACG-TCAAAGCCAAAATCCAAGATAAGGAAGGAATTCCACCAGACCA 20710 Query 38363 ACAGCGGCTCATTTACGCGGGCAAACAGCTGGACGACGAGCGCACCCTCAACGACTACAA 38422 |||||| ||||| | ||| || ||||| || || |||| || | || || Sbjct 20711 ACAGCGTCTCATCTTCGCCGGAAAACAACTCGAAGACG-GC---CGNNNNNNNNTTATAA 20766 Query 38423 CATCCAAAAGGAAGCGACGCTGCATTTGGTGCTGCGTTTGAGAGGCGGC 38471 ||||||||| ||| | ||||| ||| | || || ||| | | |||||| Sbjct 20767 CATCCAAAAAGAATCAACGCTCCATCTCGTTCTCCGTCTCCGCGGCGGC 20815 >seq9364 Length=1264 Score = 107 bits (118), Expect = 2e-18 Identities = 158/224 (71%), Gaps = 0/224 (0%) Strand=Plus/Minus Query 38236 TTaaaaaaaTGCAAATATTCGTAAAAACGCTCACGGGCAAAACCATCACCGTCGACGTCG 38295 ||| | | |||||||| || || || || ||||| || || ||||| || | || || | Sbjct 746 TTATATAGATGCAAATCTTTGTCAAGACCCTCACTGGTAAGACCATTACTCTTGAAGTTG 687 Query 38296 AGGCCACCGACAGCGTGCAAACGCTTAAAGAAAAAATCCTCGACAAAGAGGGAATTCCCG 38355 || |||| | | | | | |||| | ||||| | || || || || || || Sbjct 686 AGAGTTCCGATACCATAGACAATGTTAAGGCCAAAATTCAAGATAAGGAAGGGATCCCAC 627 Query 38356 CCGACCAACAGCGGCTCATTTACGCGGGCAAACAGCTGGACGACGAGCGCACCCTCAACG 38415 | ||||| ||||| | |||| || || ||||||||||| |||| ||| ||||| || Sbjct 626 CGGACCAGCAGCGTTTGATTTTTGCTGGAAAACAGCTGGAGGACGGGCGGACCCTTGCCG 567 Query 38416 ACTACAACATCCAAAAGGAAGCGACGCTGCATTTGGTGCTGCGT 38459 | ||||||||||||||||| | || || |||||||| || ||| Sbjct 566 ATTACAACATCCAAAAGGAGTCCACCCTCCATTTGGTTCTCCGT 523 >seq5139 Length=1344 Score = 107 bits (118), Expect = 2e-18 Identities = 161/225 (72%), Gaps = 4/225 (2%) Strand=Plus/Plus Query 38237 TaaaaaaaTGCAAATATTCGTAAAAACGCTCACGGGCAAAACCATCACCGTCGACGTCGA 38296 |||| | || ||||| ||||| || || ||||| ||||| |||||| | |||| || || Sbjct 1090 TAAATAGATACAAATCTTCGTTAAGACCCTCACTGGCAAGACCATCGCTCTCGAAGTTGA 1149 Query 38297 GGCCACCGACAGCGTGCAAACGCTTAAAGAAAAAATCCTCGACAAAGA-GGGAATTCCCG 38355 | | || | | | | | |||| | || || | || || || ||||| ||| Sbjct 1150 GAGTTCAGATACCATAGACAATGTTAAGGCCAAGATTCAAGATAAGGAAGGGAA--CCCA 1207 Query 38356 CCG-ACCAACAGCGGCTCATTTACGCGGGCAAACAGCTGGACGACGAGCGCACCCTCAAC 38414 ||| |||| ||||| || |||| || || || |||||||| || | ||| ||||| | Sbjct 1208 CCGGACCAGCAGCGTCTGATTTTTGCTGGAAAGCAGCTGGAGGATGGGCGTACCCTTGCC 1267 Query 38415 GACTACAACATCCAAAAGGAAGCGACGCTGCATTTGGTGCTGCGT 38459 || ||||||||||||||||| | || || ||||||||||| ||| Sbjct 1268 GATTACAACATCCAAAAGGAGTCCACCCTCCATTTGGTGCTCCGT 1312 >seq3 Length=31061273 Score = 107 bits (118), Expect = 2e-18 Identities = 150/208 (72%), Gaps = 2/208 (1%) Strand=Plus/Plus Query 38240 aaaaaTGCAAATATTCGTAAAAACGCTCACGGGCAAAACCATCACCGTCGACGTCGAGGC 38299 ||| ||||| || ||||| ||||| || || || || || || ||| |||| || ||| | Sbjct 8017439 AAAGATGCAGATCTTCGTGAAAACCCTAACAGGGAAGACGATAACCCTCGAGGTTGAGTC 8017498 Query 38300 CACCGACAGCGTGCA-AACGCTTAAAGAAAAAATCCTCGACAAAGAGGGAATTCCCGCCG 38358 | |||| | | |||| | |||| || |||| ||||| || |||||||| | | Sbjct 8017499 TTCAGACACAATCGACAACG-TCAAAGCCAAGATCCAAGACAAGGAAGGAATTCCACCTG 8017557 Query 38359 ACCAACAGCGGCTCATTTACGCGGGCAAACAGCTGGACGACGAGCGCACCCTCAACGACT 38418 |||| || || ||||| | ||| || || ||| |||| || | ||||| ||| ||||| Sbjct 8017558 ACCAGCAACGTCTCATCTTCGCCGGAAAGCAGTTGGAAGATGGCCGCACTCTCGCCGACT 8017617 Query 38419 ACAACATCCAAAAGGAAGCGACGCTGCA 38446 |||||||||| || ||| | || || || Sbjct 8017618 ACAACATCCAGAAAGAATCAACTCTTCA 8017645 Score = 93.3 bits (102), Expect = 4e-14 Identities = 150/216 (69%), Gaps = 0/216 (0%) Strand=Plus/Plus Query 38244 aTGCAAATATTCGTAAAAACGCTCACGGGCAAAACCATCACCGTCGACGTCGAGGCCACC 38303 |||||||| || || || |||| || ||||| ||| | || |||| || ||| | Sbjct 12365948 ATGCAAATCTTTGTTAAGGCGCTTACAGGCAAGACCGTTACTCTCGAAGTTGAGAGTTCA 12366007 Query 38304 GACAGCGTGCAAACGCTTAAAGAAAAAATCCTCGACAAAGAGGGAATTCCCGCCGACCAA 38363 || | | | | | |||| | || || | || || || || || || | ||||| Sbjct 12366008 GATACCATAGACAATGTTAAGGCCAAGATTCAAGATAAGGAAGGGATCCCATCAGACCAG 12366067 Query 38364 CAGCGGCTCATTTACGCGGGCAAACAGCTGGACGACGAGCGCACCCTCAACGACTACAAC 38423 ||||| || |||| || || || |||||||| || | ||| ||||| || |||||| Sbjct 12366068 CAGCGTCTGATTTTTGCTGGAAAGCAGCTGGAGGATGGGCGTACCCTTGCTGATTACAAC 12366127 Query 38424 ATCCAAAAGGAAGCGACGCTGCATTTGGTGCTGCGT 38459 ||||||||||| | || || ||||||||||| ||| Sbjct 12366128 ATCCAAAAGGAGTCCACCCTCCATTTGGTGCTCCGT 12366163 Score = 87.8 bits (96), Expect = 2e-12 Identities = 156/228 (68%), Gaps = 0/228 (0%) Strand=Plus/Plus Query 38244 aTGCAAATATTCGTAAAAACGCTCACGGGCAAAACCATCACCGTCGACGTCGAGGCCACC 38303 ||||| || || || || ||||| || ||||| ||||| || | || || || | | Sbjct 12366632 ATGCAGATTTTTGTTAAGACGCTTACAGGCAAGACCATTACTTTGGAGGTAGAAAGCTCA 12366691 Query 38304 GACAGCGTGCAAACGCTTAAAGAAAAAATCCTCGACAAAGAGGGAATTCCCGCCGACCAA 38363 |||| | | | | || | || || | ||||| ||||| ||||| | ||||| Sbjct 12366692 GACACAATTGACAATGTGAAGGCCAAGATACAAGACAAGGAGGGTATTCCTCCAGACCAG 12366751 Query 38364 CAGCGGCTCATTTACGCGGGCAAACAGCTGGACGACGAGCGCACCCTCAACGACTACAAC 38423 || || | |||| || || || |||||||| || | || ||| | ||| |||||| Sbjct 12366752 CAAAGGTTGATTTTTGCCGGAAAGCAGCTGGAAGATGGCCGAACCTTGGCCGATTACAAC 12366811 Query 38424 ATCCAAAAGGAAGCGACGCTGCATTTGGTGCTGCGTTTGAGAGGCGGC 38471 ||||| |||||| | || || ||| | || || |||||||| || ||| Sbjct 12366812 ATCCAGAAGGAATCCACCCTTCATCTTGTCCTTCGTTTGAGGGGAGGC 12366859 Score = 86.0 bits (94), Expect = 6e-12 Identities = 148/215 (69%), Gaps = 0/215 (0%) Strand=Plus/Plus Query 38244 aTGCAAATATTCGTAAAAACGCTCACGGGCAAAACCATCACCGTCGACGTCGAGGCCACC 38303 ||||| || || || || ||||| || |||||||| || || | || || ||| | | Sbjct 12366404 ATGCAGATTTTTGTTAAGACGCTTACAGGCAAAACGATTACTTTGGAGGTTGAGAGCTCA 12366463 Query 38304 GACAGCGTGCAAACGCTTAAAGAAAAAATCCTCGACAAAGAGGGAATTCCCGCCGACCAA 38363 || | | | | |||| | || || | ||||| ||||| |||||| | ||||| Sbjct 12366464 GATACTATTGACAATGTTAAGGCCAAGATTCAAGACAAGGAGGGTATTCCCCCAGACCAG 12366523 Query 38364 CAGCGGCTCATTTACGCGGGCAAACAGCTGGACGACGAGCGCACCCTCAACGACTACAAC 38423 || |||| |||| || || || |||||||| || | || ||| | ||| |||||| Sbjct 12366524 CAAAGGCTGATTTTTGCTGGAAAGCAGCTGGAAGATGGCCGAACCTTGGCCGATTACAAC 12366583 Query 38424 ATCCAAAAGGAAGCGACGCTGCATTTGGTGCTGCG 38458 ||||| |||||| | || || ||| | || |||| Sbjct 12366584 ATCCAGAAGGAATCCACCCTTCATCTTGTCTTGCG 12366618 >seq28626 Length=87040 Score = 89.7 bits (98), Expect = 5e-13 Identities = 149/213 (70%), Gaps = 2/213 (1%) Strand=Plus/Minus Query 38244 aTGCAAATATTCGTAAAAACGCTCACGGGCAAAACCATCACCGTCGACGTCGAGGCCACC 38303 ||||| || ||||| ||||| || || ||||||||||| ||| | || || || || || Sbjct 42591 ATGCAGATCTTCGTGAAAACCCTAACCGGCAAAACCATAACCCTAGAGGTAGAATCCTCC 42532 Query 38304 GACAGCGT-GCAAACGCTTAAAGAAAAAATCCTCGACAAAGAGGGAATTCCCGCCGACCA 38362 || | | | | |||| | |||| ||||||| ||||| || |||||||| | || || Sbjct 42531 GATACCATCGACAACG-TCAAAGCCAAAATCCAAGACAAGGAAGGAATTCCTCCTGATCA 42473 Query 38363 ACAGCGGCTCATTTACGCGGGCAAACAGCTGGACGACGAGCGCACCCTCAACGACTACAA 38422 ||||| | || | || || || || |||| || | | | || || || || || Sbjct 42472 GCAGCGATTGATCTTTGCAGGGAAGCAATTGGAAGATGGGAGGACTCTTGCGGATTATAA 42413 Query 38423 CATCCAAAAGGAAGCGACGCTGCATTTGGTGCT 38455 ||||| || || | ||||| |||||||| || Sbjct 42412 TATCCAGAAAGAGTCTACGCTACATTTGGTTCT 42380 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 499928646899840