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_015960.1 Length=175699 Score E Sequences producing significant alignments: (Bits) Value seq2 199 4e-46 seq28226 194 2e-44 seq3 107 2e-18 seq4 86.0 7e-12 >seq2 Length=32560536 Score = 199 bits (220), Expect = 4e-46 Identities = 434/648 (67%), Gaps = 9/648 (1%) Strand=Plus/Minus Query 18669 TTTTTGATATTCGGCAACTCTTTTTTCAAAGAAATTAGTTTTTCCCTCTAATGATATACA 18728 ||| ||||| || |||| | || ||||| || |||||||| |||| | || || | Sbjct 19587690 TTTCTGATACTCCCCAACGCGCTTCTCAAAAAAGTTAGTTTTCCCCTGAAGCGAAATCAA 19587631 Query 18729 TTCCATAAAATCAAATGGATTTTTTACATTATATAtttttttGAATCCTAATTCTAATAG 18788 |||||| ||||||| ||||| | |||||||| ||||| | || | || | Sbjct 19587630 TTCCATCCAATCAAAAGGATTCTGAACATTATAAATTTTCCCACAACCAAGCTCACCCAA 19587571 Query 18789 TAGTCTATCCGCTACAAATTTAATATATGTGTTCATCATATCACAATTCATTCCTATTAA 18848 || ||||| || ||||| | |||||| |||||| |||| |||||||| | || Sbjct 19587570 TAACCTATCAGCAACAAACTCAATATACTGACTCATCAATTCACCGTTCATTCCAACCAA 19587511 Query 18849 TTTAACAGGTAGTGCATCTGTAAGAAATTCTTGTTCTATATTTACTGCCTCTGATATAAT 18908 | ||| || || || || ||||||| || || | || || || | ||| Sbjct 19587510 AGCACAAGGAAGCGCTTCACAAACAAATTCTCTCTCAATCTCAACCGCATCACGGACAAT 19587451 Query 18909 AGATACAACTCTATCTTCATTAGGAGGGTATAGAAGATGTTTAAACATCAAACATGCAAA 18968 || | || | |||||| || | | | | | | | | | ||||| || || Sbjct 19587450 AGTTTTCACACGCTCTTCACTAAGTTTCTTTCTCAAAAGCGAATAAAGTAAACAAGCGAA 19587391 Query 18969 ATCACAATGTAGTCCCTCGTCTCTACTTATCAATTCATTAGAAAATGTTAAACCAGGCAT 19028 ||||||||| || || ||||| | || | || || ||||| |||||||||||||| Sbjct 19587390 ATCACAATGAAGACCTTCGTCACGTGAAATAAGCTCGTTTGAAAAAGTTAAACCAGGCAT 19587331 Query 19029 CAGTCCTCttttttttAACCAGAATATAGAAGCAAATGATCCAGAAAAGAATATACCTTC 19088 | || | |||||| | |||||| || | | ||| ||||||||| ||||||||||| Sbjct 19587330 TAAACCACGTTTTTTAAGCCAGAAAATTGCACAAAAACTTCCAGAAAAAAATATACCTTC 19587271 Query 19089 TACTGCTGCAAAAGCAACTAGTCTTTCTCCATAACTAGCATCATTATTATGAATCCATTT 19148 || ||||||||||| | |||||| || | | |||| || |||||||| Sbjct 19587270 AACACAAGCAAAAGCAACGATTCTTTCAGCAAA---TGAATCAGATGAATCGATCCATTT 19587214 Query 19149 CAGTGCCCAATCAGCCTTCTTTTTTACACATGGCATTGTCTCTATAGAATTAAATA---G 19205 || ||||||||||| ||||| | ||| || || ||||| || | || ||| | | Sbjct 19587213 CATAGCCCAATCAGCTTTCTTCGCGATACACGGAATCGTCTCAATTGCATGAAACAAACG 19587154 Query 19206 ATACATACGCTCATCTGTATCTTTAACATATGCATCTATCAATAAACTGTACATTTCTGA 19265 || | | |||| | ||| || | ||| | || ||||| | ||| ||||| || || Sbjct 19587153 ATTCTT---CTCAATAGAATCATTGATATAAGTTTCAATCAAGAGACTATACATCTCAGA 19587097 Query 19266 ATGAATATTTTCTATAGCCATCTGAAATCCGTAAAAACATCTTGCTTC 19313 |||||||||||| || || ||||| || ||||| ||| | |||||| Sbjct 19587096 ATGAATATTTTCGATCGCGATCTGGAAACCGTAGAAAGCACGTGCTTC 19587049 >seq28226 Length=90112 Score = 194 bits (214), Expect = 2e-44 Identities = 447/668 (67%), Gaps = 19/668 (3%) Strand=Plus/Minus Query 18669 TTTTTGATATTCGGCAACTCTTTTTTCAAAGAAATTAGTTTTTCCCTCTAATGATATACA 18728 ||| |||||||| |||| | || ||||| || |||||||| |||| | || || | Sbjct 35086 TTTCTGATATTCCCCAACGCGCTTCTCAAAAAAGTTAGTTTTCCCCTGAAGCGAAATCAA 35027 Query 18729 TTCCATAAAATCAAATGGATTTTTTACATTATATAtttttttGAATCCTAATTCTAATAG 18788 ||||| ||||||| ||||| | |||||||| ||||| | | || | || | | Sbjct 35026 ATCCATCCAATCAAAAGGATTCTGAACATTATAAATTTTCTCACAACCAAGCTCACACAA 34967 Query 18789 TAGTCTATCCGCTACAAATTTAATATATGTGTTCATCATATCACAATTCATTCCTATTAA 18848 | ||||| || ||||| | |||||| |||||| ||||| ||||||||| | || Sbjct 34966 CAACCTATCAGCAACAAACTCAATATACTGACTCATCAAATCACCATTCATTCCAACCAA 34907 Query 18849 TTTAACAGGTAGTGCATCTGTAAGAAATTCTTGTTCTATATTTACTGCCTCTGATATAAT 18908 ||| || || || || |||||| || || | || || || | ||| Sbjct 34906 AGCGCAAGGAAGCGCTTCGCAAACAAATTCCCTCTCAATCTCAACCGCGTCACGCACAAT 34847 Query 18909 AGATACAACTCTATCTTCATTAGGAGGGTAT-----AGAAGATGTTTAAACATCAAACAT 18963 | || | |||||| | || ||| | ||| | |||| ||||||| Sbjct 34846 TGTCTTCACACGCTCTTCACTC--AGTTTATTCCTCAAAAGC-GAATAAA--TCAAACAG 34792 Query 18964 GCAAAATCACAATGTAGTCCCTCGTCTCTACTTATCAATTCATTAGAAAATGTTAAACCA 19023 |||||||| ||||| ||||| ||||| | || | ||||| ||||| ||||||||| Sbjct 34791 GCAAAATCGCAATGAAGTCCTTCGTCGCGTGAAATAAGCTCATTTGAAAAAGTTAAACCA 34732 Query 19024 GGCATCAGTCCTCttttttttAACCAGAATATAGAAGCAAATGATCCAGAAAAGAATATA 19083 ||||| | || | |||||| | ||| || || | | || |||||| || |||||| Sbjct 34731 GGCATTAAACCACGTTTTTTAAGCCAAAAAATTGCACAGAAACTTCCAGAGAAAAATATA 34672 Query 19084 CCTTCTACTGCTGCAAAAGCAACTAGTCTTTCTCCATAACTAGCATCATTATTATGAATC 19143 ||||| || ||||||||||| | ||||| || | | |||| || ||| Sbjct 34671 CCTTCAACACAAGCAAAAGCAACGATCCTTTCAGCAAA---TGAATCAGATGAATCGATC 34615 Query 19144 CATTTCAGTGCCCAATCAGCCTTCTTTTTTACACATGGCATTGTCTCTATAGAATTAAAT 19203 ||||||| ||||||||||| |||||| | | ||| || || ||||| || | | ||| Sbjct 34614 CATTTCATAGCCCAATCAGCTTTCTTTGTAATACAAGGAATAGTCTCAATCGCGTGAAAC 34555 Query 19204 A---GATACATACGCTCATCTGTATCTTTAACATATGCATCTATCAATAAACTGTACATT 19260 | ||| | | |||| | | ||| | | ||| | || ||||| | ||| ||||| Sbjct 34554 AAACGATTCTT---CTCAACAGAATCATGGATATAAGTTTCAATCAAGAGACTATACATC 34498 Query 19261 TCTGAATGAATATTTTCTATAGCCATCTGAAATCCGTAAAAACATCTTGCTTCTGTTATC 19320 || ||||||||||| || || || ||||| |||||||| ||| | || |||| || Sbjct 34497 TCAGAATGAATATTCTCGATCGCAATCTGGAATCCGTAGAAAGCACGCGCCTCTGATACT 34438 Query 19321 TGTACTTC 19328 || ||||| Sbjct 34437 TGAACTTC 34430 Score = 87.8 bits (96), Expect = 2e-12 Identities = 119/166 (72%), Gaps = 0/166 (0%) Strand=Plus/Minus Query 19374 AGCTGCAAAAAATGCTAATACATGTTTAATAAAATGTTTTTCATCTGAGGTTAATGTATT 19433 ||| ||||| || || | || ||| |||||||| |||| | ||||| | || Sbjct 34280 AGCAGCAAAGAAGGCAAGAACGTGTGAGATAAAATGGCGTTCACCGTCGGTTAGGTTGTT 34221 Query 19434 CCAATCATTAATATCTTTAGATAAATCTACTTCTTCAACTGTCCAAAAAGAAGCCTCTGC 19493 ||| | || | ||||| |||||||| |||||||| | ||||| || ||||| ||||| Sbjct 34220 CCAGTGATGAGGATCTTCCGATAAATCGACTTCTTCGGCGGTCCAGAATGAAGCTTCTGC 34161 Query 19494 TTTTTTATACATGTTCCATATATCACGATATTGTATAGGAAATATA 19539 |||||| ||||| | ||| || | | | ||||| || || || ||| Sbjct 34160 TTTTTTGTACATTTCCCAGATTTTAGGGTATTGAATTGGGAACATA 34115 >seq3 Length=31061273 Score = 107 bits (118), Expect = 2e-18 Identities = 160/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 48600 GTTCCTGAATTAAATAATGTTGGAGATGCATGAATAAACCATTTCTCTGATAACAATTTA 48659 ||||| | ||| || | |||||||| |||||| |||||||| ||| || | ||| | | Sbjct 3456535 GTTCCAGCATTGAAAAGAGTTGGAGAAGCATGAGTAAACCATCTCTGAGACATCAAATGA 3456476 Query 48660 TATGTTTCAATAACAGAATCTATATCCCATTGATGTATACCTATAGATACACGCATTAAC 48719 || |||| | | |||| || ||||| | ||| || || | ||| || | ||||||| Sbjct 3456475 TAAGTTTTGACAGCAGATTCAATATCATCCTTATGAATTCCAACAGAAACCCTCATTAAC 3456416 Query 48720 ATATATTGAGGTCTTTCAACAATTTTGTTATTTATTTTCAAAAGATATGATTTTTCCAAT 48779 |||| |||||||||||| |||| || | | |||||| ||||| || | || | Sbjct 3456415 ATATGTTGAGGTCTTTCCACAACTTCTCCTTGAACTTTCAACAGATAAGACCTCTCAAGG 3456356 Query 48780 GTTTTAAAACCAAAATAGTTGTATGAAAAGTCGTTATCATTAATAAT 48826 ||||| || ||||| || | || ||| || |||||| ||| || Sbjct 3456355 GTTTTGAATCCAAAGTAATCATAGTCAAAATCCCTATCATAAATTAT 3456309 Score = 104 bits (114), Expect = 3e-17 Identities = 156/222 (70%), Gaps = 0/222 (0%) Strand=Plus/Minus Query 48360 CCTCCTTGATCTATATATCTGGCAGTATTGTTATAAACTCTTAACATTGGGACAATACCA 48419 ||||| ||||| | ||| | |||||| | || | || | |||||||| ||||||||| Sbjct 3456868 CCTCCCTGATCAACATAACGGGCAGTGTCATTGAACACACGCAACATTGGAACAATACCA 3456809 Query 48420 TTTGATATACCATTGGTTCCCGAAATATAACTTCCACTAGCTCTTATATTACTAATTGAA 48479 || || | ||||| ||||| ||| ||||| ||| || | ||| ||| || ||| Sbjct 3456808 TTAGAAGTCCCATTTGTTCCGCGAATGTAACTGCCATAGGCACGTATGTTATGAACAGAA 3456749 Query 48480 ATACCTATACCACCTGCCATTTTAGATATTAGAGCACACCGTTTAAGGGTATCATAAATT 48539 | ||| || || ||||| |||| || | ||||||| || | ||||| ||||| Sbjct 3456748 ACACCAATTCCTCCTGCAGATTTACTAATAACAGCACACTCCTTCAATGTATCGTAAATC 3456689 Query 48540 CCTTCTATACTATCATCTATCATATTTAATAGAAAACAACTA 48581 || || |||||||| ||| ||||| | | ||| |||||| Sbjct 3456688 CCCTCAATACTATCCTCTTTCATACACACCAAAAAGCAACTA 3456647 >seq4 Length=28907061 Score = 86.0 bits (94), Expect = 7e-12 Identities = 76/95 (80%), Gaps = 0/95 (0%) Strand=Plus/Minus Query 18961 CATGCAAAATCACAATGTAGTCCCTCGTCTCTACTTATCAATTCATTAGAAAATGTTAAA 19020 || ||||||||||| || || |||||||||||| || | |||||| || ||||| | | Sbjct 2895776 CAAGCAAAATCACAGTGAAGACCCTCGTCTCTAGAGATTAGTTCATTTGAGAATGTCAGA 2895717 Query 19021 CCAGGCATCAGTCCTCttttttttAACCAGAATAT 19055 || ||||| | |||||| ||||| | ||||||||| Sbjct 2895716 CCTGGCATTAATCCTCTCTTTTTAAGCCAGAATAT 2895682 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 561834413615640