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_031033.1 Length=217124 Score E Sequences producing significant alignments: (Bits) Value seq2 181 1e-40 seq28226 179 5e-40 seq3 118 1e-21 seq4 87.8 2e-12 >seq2 Length=32560536 Score = 181 bits (200), Expect = 1e-40 Identities = 426/637 (67%), Gaps = 12/637 (2%) Strand=Plus/Minus Query 47849 TTTTTGATATTCACCCACACGTTTCTCGAAAAAATTAGTTTTGCCTTCCAATGATATATT 47908 ||| ||||| || || || || ||||| ||||| |||||||| || | | || || Sbjct 19587690 TTTCTGATACTCCCCAACGCGCTTCTCAAAAAAGTTAGTTTTCCCCTGAAGCGAAATCAA 19587631 Query 47909 TTCCATAAAATCAAATGGATTAACTG--CATTATAAAtttttttAAATCCTAATTCTGAA 47966 |||||| ||||||| ||||| ||| ||||||||||||| | | || | || Sbjct 19587630 TTCCATCCAATCAAAAGGATT--CTGAACATTATAAATTTTCCCACAACCAAGCTCACCC 19587573 Query 47967 ATCAGTCTATCTGCAACGAATTCTATATATCTTTTCATCATTTCACAATTCATTCCTAT- 48025 | | ||||| ||||| || || ||||| |||||| ||||| |||||||| | Sbjct 19587572 AATAACCTATCAGCAACAAACTCAATATACTGACTCATCAATTCACCGTTCATTCCAACC 19587513 Query 48026 -AAGTTTAACTGGTAGAGCCTCCGTAAGAAACTCTTGTTCGATAGTGACAGCATCCACTA 48084 ||| || || || || || || ||| ||| || || || ||||| | Sbjct 19587512 AAAGCACAA--GGAAGCGCTTCACAAACAAATTCTCTCTCAATCTCAACCGCATCACGGA 19587455 Query 48085 TTATCGATGTTACCGTTTCCTCACTTGGTGGATACAACAAATGTTTAAACATTAAACATG 48144 || | | | || || ||||| || | |||| | | | | |||||| | Sbjct 19587454 CAATAGTTTTCACACGCTCTTCACTAAGTTTCTTTCTCAAAAGCGAATAAAGTAAACAAG 19587395 Query 48145 CAAAATCACAATGAAGACCTTCATCTCTACTAATTAATTCGTTAGAAAATGTGAGACCGG 48204 | |||||||||||||||||||| || | ||| | ||||| ||||| || | ||| | Sbjct 19587394 CGAAATCACAATGAAGACCTTCGTCACGTGAAATAAGCTCGTTTGAAAAAGTTAAACCAG 19587335 Query 48205 GCATTAGTCCACGTTTTTTGAGCCAAAATATTGCCGCGAAAGATCCAGAAAAGAATATGC 48264 |||||| ||||||||||| ||||| || ||||| ||| ||||||||| ||||| | Sbjct 19587334 GCATTAAACCACGTTTTTTAAGCCAGAAAATTGCACAAAAACTTCCAGAAAAAAATATAC 19587275 Query 48265 CTTCTACGGCCGCAAATGCGGTAAGTCTCTCTCCGTAACTGGCTTCGTTG--TGTATCCA 48322 |||| || ||||| || | | ||| || | || || | | || | ||||| Sbjct 19587274 CTTCAACACAAGCAAAAGC--AACGATTCTTTCAGCAAATGAATCAGATGAATCGATCCA 19587217 Query 48323 CCGTTGTGCCCAATCAGCCTTCTTCTTTACACAAGGCATTGTTTCTATAGCATTAAAGAG 48382 ||||||||||| |||||| | ||| || || || || || |||| ||| | Sbjct 19587216 TTTCATAGCCCAATCAGCTTTCTTCGCGATACACGGAATCGTCTCAATTGCATGAAACAA 19587157 Query 48383 AAAGtttttttCATTGCTATCTTTAACGTAAGTATCTATTAAAAGACTATACATTTCGGA 48442 | || || ||| | ||| || | ||||| || || || ||||||||||| || || Sbjct 19587156 ACGATTCTTCTCAATAGAATCATTGATATAAGTTTCAATCAAGAGACTATACATCTCAGA 19587097 Query 48443 GTGAATATTTTCAATTGCCATCTGAAATCCGTAAAAA 48479 ||||||||||| || || ||||| || ||||| ||| Sbjct 19587096 ATGAATATTTTCGATCGCGATCTGGAAACCGTAGAAA 19587060 >seq28226 Length=90112 Score = 179 bits (198), Expect = 5e-40 Identities = 436/653 (67%), Gaps = 18/653 (3%) Strand=Plus/Minus Query 47849 TTTTTGATATTCACCCACACGTTTCTCGAAAAAATTAGTTTTGCCTTCCAATGATATATT 47908 ||| |||||||| || || || ||||| ||||| |||||||| || | | || || Sbjct 35086 TTTCTGATATTCCCCAACGCGCTTCTCAAAAAAGTTAGTTTTCCCCTGAAGCGAAATCAA 35027 Query 47909 TTCCATAAAATCAAATGGATTAACTG--CATTATAAAtttttttAAATCCTAATTCTGAA 47966 ||||| ||||||| ||||| ||| ||||||||||||| | | | || | || | Sbjct 35026 ATCCATCCAATCAAAAGGATT--CTGAACATTATAAATTTTCTCACAACCAAGCTCACAC 34969 Query 47967 ATCAGTCTATCTGCAACGAATTCTATATATCTTTTCATCATTTCACAATTCATTCCTAT- 48025 | || ||||| ||||| || || ||||| |||||| |||| ||||||||| | Sbjct 34968 AACAACCTATCAGCAACAAACTCAATATACTGACTCATCAAATCACCATTCATTCCAACC 34909 Query 48026 -AAGTTTAACTGGTAGAGCCTCCGTAAGAAACTCTTGTTCGATAGTGACAGCATC---CA 48081 ||| || || || || || || ||| || || || || || || || Sbjct 34908 AAAGCGCAA--GGAAGCGCTTCGCAAACAAATTCCCTCTCAATCTCAACCGCGTCACGCA 34851 Query 48082 CTATTATCGATGTTACCGTTTCCTCACTTGGTGGATACAACAAATGTTTAAACATTAAAC 48141 | ||| || | || || ||||| || || | |||| | | | || |||| Sbjct 34850 CAATTGTCT---TCACACGCTCTTCACTCAGTTTATTCCTCAAAAGCGAATAAATCAAAC 34794 Query 48142 ATGCAAAATCACAATGAAGACCTTCATCTCTACTAATTAATTCGTTAGAAAATGTGAGAC 48201 | |||||||| |||||||| ||||| || | ||| | || || ||||| || | || Sbjct 34793 AGGCAAAATCGCAATGAAGTCCTTCGTCGCGTGAAATAAGCTCATTTGAAAAAGTTAAAC 34734 Query 48202 CGGGCATTAGTCCACGTTTTTTGAGCCAAAATATTGCCGCGAAAGATCCAGAAAAGAATA 48261 | ||||||| ||||||||||| |||||||| ||||| |||| |||||| || |||| Sbjct 34733 CAGGCATTAAACCACGTTTTTTAAGCCAAAAAATTGCACAGAAACTTCCAGAGAAAAATA 34674 Query 48262 TGCCTTCTACGGCCGCAAATGCGGTAAGTCTCTCTCCGTAACTGGCTTCGTTG--TGTAT 48319 | ||||| || ||||| || | | || || | || || | | || | || Sbjct 34673 TACCTTCAACACAAGCAAAAGC--AACGATCCTTTCAGCAAATGAATCAGATGAATCGAT 34616 Query 48320 CCACCGTTGTGCCCAATCAGCCTTCTTCTTTACACAAGGCATTGTTTCTATAGCATTAAA 48379 ||| ||||||||||| ||||| | | |||||| || || || || || | ||| Sbjct 34615 CCATTTCATAGCCCAATCAGCTTTCTTTGTAATACAAGGAATAGTCTCAATCGCGTGAAA 34556 Query 48380 GAGAAAGtttttttCATTGCTATCTTTAACGTAAGTATCTATTAAAAGACTATACATTTC 48439 | | || || ||| ||| | | ||||| || || || ||||||||||| || Sbjct 34555 CAAACGATTCTTCTCAACAGAATCATGGATATAAGTTTCAATCAAGAGACTATACATCTC 34496 Query 48440 GGAGTGAATATTTTCAATTGCCATCTGAAATCCGTAAAAACATCTCGCTTCTG 48492 || |||||||| || || || ||||| |||||||| ||| | ||| |||| Sbjct 34495 AGAATGAATATTCTCGATCGCAATCTGGAATCCGTAGAAAGCACGCGCCTCTG 34443 Score = 93.3 bits (102), Expect = 6e-14 Identities = 120/166 (72%), Gaps = 0/166 (0%) Strand=Plus/Minus Query 48551 AGCAGCAAAAAATGCTAATACATGTTTAATAAAATATTTTTCGTTGGAAGTCAGTTTATT 48610 ||||||||| || || | || ||| ||||||| ||| | || || || || Sbjct 34280 AGCAGCAAAGAAGGCAAGAACGTGTGAGATAAAATGGCGTTCACCGTCGGTTAGGTTGTT 34221 Query 48611 CCAGTCATTGATATCTTTTGATATATCTACTTCTTCAGCTGTCCAAAATGATGCCTCTGC 48670 ||||| || ||||| |||| ||| |||||||| || ||||| ||||| || ||||| Sbjct 34220 CCAGTGATGAGGATCTTCCGATAAATCGACTTCTTCGGCGGTCCAGAATGAAGCTTCTGC 34161 Query 48671 TTTTTTATACATATTCCATATATCACTGTATTGGATTGGGAAAATA 48716 |||||| ||||| | ||| || | | |||||| |||||||| ||| Sbjct 34160 TTTTTTGTACATTTCCCAGATTTTAGGGTATTGAATTGGGAACATA 34115 >seq3 Length=31061273 Score = 118 bits (130), Expect = 1e-21 Identities = 148/203 (73%), Gaps = 0/203 (0%) Strand=Plus/Minus Query 78159 CCTCCCTGATCTATATATCTGGCGGTGTTATTATAAACTCTCAACATTGGAATAATACCG 78218 ||||||||||| | ||| | ||| |||| ||| | || | ||||||||||| |||||| Sbjct 3456868 CCTCCCTGATCAACATAACGGGCAGTGTCATTGAACACACGCAACATTGGAACAATACCA 3456809 Query 78219 TTAGATGTTCCATTTGTTCCAGAAATATAACTTCCACTTGCGCGAATATTACTAATGGAT 78278 ||||| || ||||||||||| ||| ||||| ||| || || || ||| || || Sbjct 3456808 TTAGAAGTCCCATTTGTTCCGCGAATGTAACTGCCATAGGCACGTATGTTATGAACAGAA 3456749 Query 78279 ATCCCTATTCCTCCTGCCATCTTAGATATTAGAGCGCAACGTTTCAATGTATCGTAGATA 78338 | || ||||||||||| ||| || | ||| || |||||||||||||| || Sbjct 3456748 ACACCAATTCCTCCTGCAGATTTACTAATAACAGCACACTCCTTCAATGTATCGTAAATC 3456689 Query 78339 CCCTCTATACTGTCATCCATCAT 78361 ||||| ||||| || || |||| Sbjct 3456688 CCCTCAATACTATCCTCTTTCAT 3456666 Score = 105 bits (116), Expect = 9e-18 Identities = 114/151 (75%), Gaps = 0/151 (0%) Strand=Plus/Minus Query 77902 TTTCATATTGAGTATATAGCCGTTCAAATTCATCTCCCCAAACATCATCCAATCCAGGGC 77961 ||||||| |||||||| ||| |||||||| || |||||| ||| |||| ||||| Sbjct 3457341 TTTCATACTGAGTATACAGCTTCTCAAATTCTTCACCCCAACAATCTGCCAAACCAGGTG 3457282 Query 77962 ATTCATTTGGGCACATCAATGACCAGTCACCATCTTCCTTAACTCGTTTCATAAAGAGAT 78021 |||||| ||||| | || ||||| | |||| || ||||| ||||||||||||| Sbjct 3457281 CTTCATTGGGGCAAAACACGGACCATACCCCATTGCTCTGAACTCTGTTCATAAAGAGAT 3457222 Query 78022 CAGGTATCCATAGAGCAATAAATAGATCTCG 78052 |||| | ||| |||||| |||| |||||| Sbjct 3457221 CAGGAACCCAAAGAGCATAGAATAAATCTCG 3457191 Score = 89.7 bits (98), Expect = 7e-13 Identities = 158/228 (69%), Gaps = 2/228 (1%) Strand=Plus/Minus Query 78399 GTTCCTGCATTAAATAATGTCGGAGATGCATGCGTAAACCATTTTTCAGAAAGTAGATTG 78458 ||||| ||||| || | || ||||| ||||| ||||||||| | | ||| | | || Sbjct 3456535 GTTCCAGCATTGAAAAGAGTTGGAGAAGCATGAGTAAACCATCTCTGAGACATCAAATGA 3456476 Query 78459 TATGTTTCAATAGCTGATTCTATGTCCCATTGATGAATTCCTACCGCTACACGCATCAAC 78518 || |||| | ||| ||||| || || | ||||||||| || | || | ||| ||| Sbjct 3456475 TAAGTTTTGACAGCAGATTCAATATCATCCTTATGAATTCCAACAGAAACCCTCATTAAC 3456416 Query 78519 ATATGCTGAGGTCTTTCAACCGTCTTATTATT-TATTTTCAACAAGTATGATTTTTCCAA 78577 ||||| ||||||||||| | | ||| | || | |||||||| || || | || | Sbjct 3456415 ATATGTTGAGGTCTTTCCA-CAACTTCTCCTTGAACTTTCAACAGATAAGACCTCTCAAG 3456357 Query 78578 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCTCTCGTAAATAAT 78625 ||||| || ||||| || | || ||| || || || ||||| || Sbjct 3456356 GGTTTTGAATCCAAAGTAATCATAGTCAAAATCCCTATCATAAATTAT 3456309 >seq4 Length=28907061 Score = 87.8 bits (96), Expect = 2e-12 Identities = 78/98 (80%), Gaps = 0/98 (0%) Strand=Plus/Minus Query 48141 CATGCAAAATCACAATGAAGACCTTCATCTCTACTAATTAATTCGTTAGAAAATGTGAGA 48200 || ||||||||||| |||||||| || |||||| |||| ||| || || ||||| ||| Sbjct 2895776 CAAGCAAAATCACAGTGAAGACCCTCGTCTCTAGAGATTAGTTCATTTGAGAATGTCAGA 2895717 Query 48201 CCGGGCATTAGTCCACGTTTTTTGAGCCAAAATATTGC 48238 || ||||||| ||| | ||||| ||||| ||||| || Sbjct 2895716 CCTGGCATTAATCCTCTCTTTTTAAGCCAGAATATGGC 2895679 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 694329706108640