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_004105.1 Length=209771 Score E Sequences producing significant alignments: (Bits) Value seq28226 196 6e-45 seq2 185 1e-41 seq3 93.3 6e-14 >seq28226 Length=90112 Score = 196 bits (216), Expect = 6e-45 Identities = 445/662 (67%), Gaps = 8/662 (1%) Strand=Plus/Minus Query 41773 TTTTTGGTATTCACCCACACGTTTTTCGAAAAAATTAGTCTTTCCTTCCAATGATATATT 41832 ||| || ||||| || || || || || ||||| ||||| || || | | || || Sbjct 35086 TTTCTGATATTCCCCAACGCGCTTCTCAAAAAAGTTAGTTTTCCCCTGAAGCGAAATCAA 35027 Query 41833 TTCCATGAAATCAAACGGATTGGTAACATTATAAAtttttttAAATCCCAATTCAGAAAT 41892 ||||| ||||||| ||||| ||||||||||||||| | | | || | ||| | | Sbjct 35026 ATCCATCCAATCAAAAGGATTCTGAACATTATAAATTTTCTCACAACCAAGCTCACACAA 34967 Query 41893 CAATCTATCTGCGATGAATTCTATATATGTTTTCATCATTTCACAATTCATTCCTA--TA 41950 ||| ||||| || | || || ||||| |||||| |||| ||||||||| | | Sbjct 34966 CAACCTATCAGCAACAAACTCAATATACTGACTCATCAAATCACCATTCATTCCAACCAA 34907 Query 41951 AGTTTAACTGGAAGAGCCACAGTAAGAAATTCTTGTTCAATAGAGACCGCGTCTGTTATA 42010 || || ||||| || | || |||||| ||||| |||||||| | | Sbjct 34906 AGCGCAA--GGAAGCGCTTCGCAAACAAATTCCCTCTCAATCTCAACCGCGTCACGCACA 34849 Query 42011 ATAGATCTT-ACTGTTTCTTCACTCGGTGGATACAATAAATGTTTAAACATCAAACATGC 42069 || | |||| || ||||||||| || || | ||| | | | |||||||| || Sbjct 34848 ATTG-TCTTCACACGCTCTTCACTCAGTTTATTCCTCAAAAGCGAATAAATCAAACAGGC 34790 Query 42070 GAAATCGCAGTGCAGACCCTCATCTCTACTAATTAATTCGTTGGAAAACGTGAGTCCGGG 42129 |||||||| || || || || || | ||| | || || ||||| || | || || Sbjct 34789 AAAATCGCAATGAAGTCCTTCGTCGCGTGAAATAAGCTCATTTGAAAAAGTTAAACCAGG 34730 Query 42130 CATTAGGCCACGCTTTTTAAGCCAAAATATAGACGCA-AATGATCCAGAAAAGAAGATTC 42188 ||||| ||||| |||||||||||||| || | | || || |||||| || || || | Sbjct 34729 CATTAAACCACGTTTTTTAAGCCAAAAAATTG-CACAGAAACTTCCAGAGAAAAATATAC 34671 Query 42189 CTTCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCACTGTCATGTATCCACT 42248 |||| || ||||| |||| | || || || | || || ||||| | Sbjct 34670 CTTCAACACAAGCAAAAGCAACGATCCTTTCAGCAAATGAATCAGATGAATCGATCCATT 34611 Query 42249 TTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTATGGCATTAAAGAGAT 42308 | ||||||||| || |||||| | | |||||| || || || || || | ||| | | Sbjct 34610 TCATAGCCCAATCAGCTTTCTTTGTAATACAAGGAATAGTCTCAATCGCGTGAAACAAAC 34551 Query 42309 AGtttttttCATTACTATCTTTAACATATGTATCGATCAAAAGACTATACATTTCTGAAT 42368 || || ||| | ||| | | ||| || || ||||| ||||||||||| || |||| Sbjct 34550 GATTCTTCTCAACAGAATCATGGATATAAGTTTCAATCAAGAGACTATACATCTCAGAAT 34491 Query 42369 GAATGTTTTCAATGGCCATCTGAAATCCGTAGAAACATCTGGCCTCGGTAACCTGTACTT 42428 |||| || || || || ||||| |||||||||||| | ||||| | || || |||| Sbjct 34490 GAATATTCTCGATCGCAATCTGGAATCCGTAGAAAGCACGCGCCTCTGATACTTGAACTT 34431 Query 42429 CT 42430 || Sbjct 34430 CT 34429 Score = 89.7 bits (98), Expect = 7e-13 Identities = 90/117 (77%), Gaps = 0/117 (0%) Strand=Plus/Minus Query 42524 GTTAATTTATTCCAATCATTGATATCTTTAGATATATCTACTTCTTCTACCGTCCAAAAT 42583 |||| || ||||| | || ||||| |||| ||| |||||||| | ||||| ||| Sbjct 34231 GTTAGGTTGTTCCAGTGATGAGGATCTTCCGATAAATCGACTTCTTCGGCGGTCCAGAAT 34172 Query 42584 GATGCTTCTGCCTTTTTATACATATTCCAGATATCATGATATTGAATTGGGAAAATA 42640 || |||||||| ||||| ||||| | |||||| | | | |||||||||||||| ||| Sbjct 34171 GAAGCTTCTGCTTTTTTGTACATTTCCCAGATTTTAGGGTATTGAATTGGGAACATA 34115 >seq2 Length=32560536 Score = 185 bits (204), Expect = 1e-41 Identities = 422/633 (67%), Gaps = 4/633 (1%) Strand=Plus/Minus Query 41773 TTTTTGGTATTCACCCACACGTTTTTCGAAAAAATTAGTCTTTCCTTCCAATGATATATT 41832 ||| || || || || || || || || ||||| ||||| || || | | || || Sbjct 19587690 TTTCTGATACTCCCCAACGCGCTTCTCAAAAAAGTTAGTTTTCCCCTGAAGCGAAATCAA 19587631 Query 41833 TTCCATGAAATCAAACGGATTGGTAACATTATAAAtttttttAAATCCCAATTCAGAAAT 41892 |||||| ||||||| ||||| ||||||||||||||| | | || | ||| | Sbjct 19587630 TTCCATCCAATCAAAAGGATTCTGAACATTATAAATTTTCCCACAACCAAGCTCACCCAA 19587571 Query 41893 CAATCTATCTGCGATGAATTCTATATATGTTTTCATCATTTCACAATTCATTCCTAT--A 41950 || ||||| || | || || ||||| |||||| ||||| |||||||| | | Sbjct 19587570 TAACCTATCAGCAACAAACTCAATATACTGACTCATCAATTCACCGTTCATTCCAACCAA 19587511 Query 41951 AGTTTAACTGGAAGAGCCACAGTAAGAAATTCTTGTTCAATAGAGACCGCGTCTGTTATA 42010 || || ||||| || || || ||||||| ||||| ||||| || | | Sbjct 19587510 AGCACAA--GGAAGCGCTTCACAAACAAATTCTCTCTCAATCTCAACCGCATCACGGACA 19587453 Query 42011 ATAGATCTTACTGTTTCTTCACTCGGTGGATACAATAAATGTTTAAACATCAAACATGCG 42070 |||| | | || |||||||| || | ||| | | | | ||||| ||| Sbjct 19587452 ATAGTTTTCACACGCTCTTCACTAAGTTTCTTTCTCAAAAGCGAATAAAGTAAACAAGCG 19587393 Query 42071 AAATCGCAGTGCAGACCCTCATCTCTACTAATTAATTCGTTGGAAAACGTGAGTCCGGGC 42130 ||||| || || ||||| || || | ||| | ||||| ||||| || | || ||| Sbjct 19587392 AAATCACAATGAAGACCTTCGTCACGTGAAATAAGCTCGTTTGAAAAAGTTAAACCAGGC 19587333 Query 42131 ATTAGGCCACGCTTTTTAAGCCAAAATATAGACGCAAATGATCCAGAAAAGAAGATTCCT 42190 |||| ||||| ||||||||||| || || | ||| ||||||||| || || ||| Sbjct 19587332 ATTAAACCACGTTTTTTAAGCCAGAAAATTGCACAAAAACTTCCAGAAAAAAATATACCT 19587273 Query 42191 TCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCACTGTCATGTATCCACTTT 42250 || || ||||| |||| | ||| || || | || || ||||| || Sbjct 19587272 TCAACACAAGCAAAAGCAACGATTCTTTCAGCAAATGAATCAGATGAATCGATCCATTTC 19587213 Query 42251 TGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTATGGCATTAAAGAGATAG 42310 ||||||||| || ||||| | ||| || ||||| || || |||| ||| | | Sbjct 19587212 ATAGCCCAATCAGCTTTCTTCGCGATACACGGAATCGTCTCAATTGCATGAAACAAACGA 19587153 Query 42311 tttttttCATTACTATCTTTAACATATGTATCGATCAAAAGACTATACATTTCTGAATGA 42370 || || ||| || ||| || | ||| || || ||||| ||||||||||| || |||||| Sbjct 19587152 TTCTTCTCAATAGAATCATTGATATAAGTTTCAATCAAGAGACTATACATCTCAGAATGA 19587093 Query 42371 ATGTTTTCAATGGCCATCTGAAATCCGTAGAAA 42403 || ||||| || || ||||| || ||||||||| Sbjct 19587092 ATATTTTCGATCGCGATCTGGAAACCGTAGAAA 19587060 >seq3 Length=31061273 Score = 93.3 bits (102), Expect = 6e-14 Identities = 141/198 (71%), Gaps = 2/198 (1%) Strand=Plus/Minus Query 72418 GTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGACAGTAGATTG 72477 ||||| ||||| || | || |||||||| || ||||||||| | | ||||| | || Sbjct 3456535 GTTCCAGCATTGAAAAGAGTTGGAGAAGCATGAGTAAACCATCTCTGAGACATCAAATGA 3456476 Query 72478 TACGTCTCAATAGCTGATTCTATATCCCATTGATGTATTCCTACCGCGACACGCATTAAC 72537 || || | | ||| ||||| ||||| | ||| ||||| || | || | ||||||| Sbjct 3456475 TAAGTTTTGACAGCAGATTCAATATCATCCTTATGAATTCCAACAGAAACCCTCATTAAC 3456416 Query 72538 ATATGCTGAGGTCTTTCAACGATCTTGTTATT-TATTTTCAACAAGTAGGATTTTTCCAA 72596 ||||| ||||||||||| || | ||| | || | |||||||| || || | || | Sbjct 3456415 ATATGTTGAGGTCTTTCCAC-AACTTCTCCTTGAACTTTCAACAGATAAGACCTCTCAAG 3456357 Query 72597 AGTTTTAAAACCAAAATA 72614 ||||| || ||||| || Sbjct 3456356 GGTTTTGAATCCAAAGTA 3456339 Score = 89.7 bits (98), Expect = 7e-13 Identities = 142/204 (70%), Gaps = 0/204 (0%) Strand=Plus/Minus Query 72177 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 72236 |||||||||||| | || | || |||| ||| | || | ||||||||||| |||||| Sbjct 3456869 TCCTCCCTGATCAACATAACGGGCAGTGTCATTGAACACACGCAACATTGGAACAATACC 3456810 Query 72237 ATTGGATGCACCATTGGTCCCGGAGATATAGCTTCCACTGGCACGAATATTGCTAATTGA 72296 ||| || | ||||| || ||| || || || ||| |||||| || || || || Sbjct 3456809 ATTAGAAGTCCCATTTGTTCCGCGAATGTAACTGCCATAGGCACGTATGTTATGAACAGA 3456750 Query 72297 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGAT 72356 | ||| ||||| ||||| |||| || | || || || || ||||| || || Sbjct 3456749 AACACCAATTCCTCCTGCAGATTTACTAATAACAGCACACTCCTTCAATGTATCGTAAAT 3456690 Query 72357 GCCCTCTATACTATCATCCATCAT 72380 ||||| |||||||| || |||| Sbjct 3456689 CCCCTCAATACTATCCTCTTTCAT 3456666 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 670811591788760