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_20subterraneum_20[genbank_20GCA_5F001742945.1_202016-07- 20] 27,424 sequences; 471,834,188 total letters Query= NC_015284.1 Length=183806 Score E Sequences producing significant alignments: (Bits) Value seq2319 340 2e-88 seq1296 161 1e-34 seq432 138 1e-27 seq200 118 1e-21 seq445 98.7 1e-15 seq485 86.0 7e-12 seq318 82.4 9e-11 >seq2319 Length=57875 Score = 340 bits (376), Expect = 2e-88 Identities = 416/568 (73%), Gaps = 0/568 (0%) Strand=Plus/Minus Query 172236 TGCTGTGTTCCTTGTGTATCCATTCGGTCAGGGTTCATTCTCTGATGGTATGCCACTAGG 172295 ||| || ||| | | || ||| | |||||||| || || ||||||||||| ||||| Sbjct 18565 TGCAGTTTTCTTGATCTACCCAATTGGTCAGGGAAGCTTTTCAGATGGTATGCCTCTAGG 18506 Query 172296 TATCTCAGGTACGTTCAACTTTATGTTCGTGTTCCAAGCAGAGCATAACATTCTAATGCA 172355 ||||| ||||| |||||||||||| | || || || || |||||||| ||||| ||||| Sbjct 18505 AATCTCTGGTACTTTCAACTTTATGATTGTATTTCAGGCTGAGCATAATATTCTTATGCA 18446 Query 172356 TCCTTTCCACATGGCAGGAGTAGCAGGAATGTTTGGAGGATCTTTATTCTCAGCAATGCA 172415 ||| || |||||| ||| ||||| || | || || || || ||||| || ||||| Sbjct 18445 TCCGTTTCACATGTTAGGTGTAGCTGGTGTATTCGGCGGCTCCCTATTCAGTGCTATGCA 18386 Query 172416 CGGTTCTTTAGTTACATCTTCTCTAATCAGAGAGACAACTGAAGCAGAATCACAGAACTA 172475 |||||| || || || ||| | | ||||| || || || ||| ||||| ||| | Sbjct 18385 CGGTTCCTTGGTAACTTCTAGTTTGATCAGGGAAACTACAGAAAATGAATCTGCGAATGA 18326 Query 172476 CGGATACAAGTTCGGACAAGAAGAAGAAACATACAACATAGTAGCAGCACACGGTTACTT 172535 || |||| ||||| ||||| |||||||| || || || ||||| || || ||||| || Sbjct 18325 AGGTTACAGATTCGGTCAAGAGGAAGAAACCTATAATATTGTAGCTGCTCATGGTTATTT 18266 Query 172536 TGGTCGTCTTATCTTCCAGTATGCTTCTTTCAACAACTCAAGAAGTCTTCACTTCTTCCT 172595 ||| || | |||||||| || ||| |||||||||||| | | | || |||||||| Sbjct 18265 TGGCCGATTGATCTTCCAATACGCTAGTTTCAACAACTCTCGTTCTTTACATTTCTTCCT 18206 Query 172596 AGCAGTTTTCCCTGTTGTATGTGTATGGTTAACCTCTATGGGTATCTGTACAATGGCATT 172655 ||| | || ||||| ||| || | ||||| ||| | | |||||| |||| ||||| || Sbjct 18205 AGCTGCTTGGCCTGTAGTAGGTATCTGGTTTACCGCGTTAGGTATCAGTACTATGGCTTT 18146 Query 172656 CAACCTTAACGGTTTCAACTTCAACCAATCAGTTGTAGATGCTAACGGTAAGATTGTTCC 172715 ||| | || || || || || |||||||| || || ||| || | ||| | || Sbjct 18145 CAATTTAAATGGATTTAATTTTAACCAATCCGTCGTTGATTCTCAAGGTCGTGTAATTAA 18086 Query 172716 TACATGGGGTGACGTTCTTAACAGAGCAAACCTAGGTATGGAAGTTATGCATGAAAGAAA 172775 || |||| ||| || ||||| | || ||||| ||||||||||||||||||||| | || Sbjct 18085 CACCTGGGCTGATATTATTAACCGTGCTAACCTTGGTATGGAAGTTATGCATGAACGTAA 18026 Query 172776 TGCACACAACTTCCCATTAGACCTTGCT 172803 || || || ||||| ||||||| ||| Sbjct 18025 CGCTCATAATTTCCCTCTAGACCTAGCT 17998 >seq1296 Length=110557 Score = 161 bits (178), Expect = 1e-34 Identities = 176/234 (75%), Gaps = 0/234 (0%) Strand=Plus/Minus Query 172272 ATTCTCTGATGGTATGCCACTAGGTATCTCAGGTACGTTCAACTTTATGTTCGTGTTCCA 172331 ||| || ||||||||||| ||||| ||||| ||||| |||||||||||| | || || || Sbjct 75581 ATTTTCAGATGGTATGCCTCTAGGAATCTCTGGTACTTTCAACTTTATGATTGTATTTCA 75522 Query 172332 AGCAGAGCATAACATTCTAATGCATCCTTTCCACATGGCAGGAGTAGCAGGAATGTTTGG 172391 || |||||||| ||||| |||||||| || |||||| ||| ||||| || | || || Sbjct 75521 GGCTGAGCATAATATTCTTATGCATCCGTTTCACATGTTAGGTGTAGCTGGTGTATTCGG 75462 Query 172392 AGGATCTTTATTCTCAGCAATGCACGGTTCTTTAGTTACATCTTCTCTAATCAGAGAGAC 172451 || || ||||| || ||||||||||| || || || ||| | | ||||| || || Sbjct 75461 CGGCTCCCTATTCAGTGCTATGCACGGTTCCTTGGTAACTTCTAGTTTGATCAGGGAAAC 75402 Query 172452 AACTGAAGCAGAATCACAGAACTACGGATACAAGTTCGGACAAGAAGAAGAAAC 172505 || ||| ||||| ||| | || |||| ||||| ||||| |||||||| Sbjct 75401 TACAGAAAATGAATCTGCGAATGAAGGTTACAGATTCGGTCAAGAGGAAGAAAC 75348 >seq432 Length=331984 Score = 138 bits (152), Expect = 1e-27 Identities = 274/406 (67%), Gaps = 0/406 (0%) Strand=Plus/Plus Query 173177 TGTTCCTTTGGGGACCTGAAGCACAAGGTTCATTCGTACGTTGGTTACAACTCGGAGGAC 173236 |||| || ||||| ||||||||||| || || ||||||| ||| | || || | Sbjct 47500 TGTTACTGTGGGGTCCTGAAGCACAGGGAGATTTTACCCGTTGGTGTCAATTAGGTGGTC 47559 Query 173237 TATGGAACTTTGTAGCATTACATGGAGTCTTTGGACTCATAGGTTTCATGCTCCGTCAGT 173296 | |||| ||||| || | || || | || ||| | |||||||| ||| | ||||| | Sbjct 47560 TGTGGACTTTTGTTGCTCTTCACGGTGCTTTCGGATTAATAGGTTTTATGTTACGTCAAT 47619 Query 173297 TTGAGATCGCAGGACTTGTAGGCATCAGACCTTACAACGCACTCGCATTCTCTGCTGTTA 173356 |||| | || || ||| | | ||||| || ||| |||||||||| | | | Sbjct 47620 TTGAACTTGCTCGATCTGTTCAATTGCGGCCTTATAATGCAATCGCATTCTCCGGTCCAA 47679 Query 173357 TCGCAGTCTTCACTAGCATCTTTTTAATCTACCCACTAGGGCAGCACAGTTGGTTCTTCG 173416 | || || || | | || | || || ||||| || ||| |||||||||| | Sbjct 47680 TTGCTGTTTTTGTTTCTGTATTCCTTATTTATCCACTGGGTCAGTCTGGTTGGTTCTTTG 47739 Query 173417 CACCTTCATTCGGTGTCGCAGCAATCTTTCGTTATATCTTATTCATACAAGGTTTCCACA 173476 ||||| || ||||| ||||| || ||||| | || | || | ||||| || || | Sbjct 47740 CACCTAGTTTTGGTGTAGCAGCTATATTTCGATTCATTCTCTTTTTCCAAGGGTTTCATA 47799 Query 173477 ACATTACATTGAATCCATTTCACATGATGGGTGTTGCAGGAATACTAGGTGGAGCATTAC 173536 | ||||| || |||||||| |||||||| ||||| || || | || | || || Sbjct 47800 ATTGGACATTAAACCCATTTCATATGATGGGAGTTGCTGGTGTATTGGGCGCCGCCCTAT 47859 Query 173537 TATGTGCCATTCATGGTGCAACAGTGCAGAACACATTGTATGAAGA 173582 |||| || |||||||| || || || | || || || | |||||| Sbjct 47860 TATGCGCTATTCATGGCGCTACCGTAGAAAATACCTTATTTGAAGA 47905 >seq200 Length=959787 Score = 118 bits (130), Expect = 1e-21 Identities = 136/183 (74%), Gaps = 0/183 (0%) Strand=Plus/Minus Query 173788 GTAGGTCTTGCACTTAACCTTAGAGCATACGACTTTGTATCTCAAGAGATAAGAGCAGCA 173847 || ||||| || || ||||| | || || ||||| || |||||||| || | ||||| Sbjct 265341 GTCGGTCTGGCCCTGAACCTACGTGCCTATGACTTCGTTTCTCAAGAAATCCGCGCAGCG 265282 Query 173848 GAAGATCCAGAGTTCGAGACTTTCTACACTAAGAATATACTTCTTAATGAAGGTATGAGA 173907 |||||||| || || |||||||||||||| || ||||| || | || |||||||| | Sbjct 265281 GAAGATCCTGAATTTGAGACTTTCTACACCAAAAATATTCTCTTAAACGAAGGTATTCGT 265222 Query 173908 GCATGGATGTCATCTGTAGATCAACCACATGAGAACTTCGTATTTCCAGAAGAAGTGTTA 173967 || |||||| | || |||||| || ||||| ||| | |||| || || || || || Sbjct 265221 GCGTGGATGGCGGCTCAAGATCAGCCTCATGAAAACCTTATATTCCCTGAGGAGGTTCTA 265162 Query 173968 CCA 173970 ||| Sbjct 265161 CCA 265159 >seq445 Length=326537 Score = 98.7 bits (108), Expect = 1e-15 Identities = 176/255 (69%), Gaps = 4/255 (2%) Strand=Plus/Plus Query 158393 TGATGCAACCTGTAGGTGAGTGGGGATTTGACATTGCTGTAGGTAGTATGCAAAGGTTTG 158452 || || ||||| ||||| | ||| ||| |||| ||| ||| ||||| || | Sbjct 228582 TGTTGAAACCTCCTGGTGAATTTGGAGCTGATATTGTTGTCGGTTCAGCTCAAAGATTCG 228641 Query 158453 GTATTCCTATGGGATACGGAGGTCCTCATGCTGCATTCTTTGCAACAACAGACAAGTATA 158512 || |||| ||||| || || |||||||||||||| ||||| || || || | |||| | Sbjct 228642 GTGTTCCAATGGGTTATGGTGGTCCTCATGCTGCTTTCTTGGCTACTTCACAAGAGTACA 228701 Query 158513 AGAGAAAGATACCTGGCAGAATTGTAG--GTCAGTCAGTAGATAGCGAAGGTAATAAAGC 158570 |||| | ||| ||||| ||||| | | || ||| || ||| ||||| ||| Sbjct 228702 AGAGGATGATGCCTGGAAGAATCATTGGTGTTAGT--GTTGATTCTTCTGGTAAGTCAGC 228759 Query 158571 ATACAGATTAGCACTACAGACTAGAGAGCAGCATATCAGAAGAGACAAAGCAACCAGTAA 158630 | || | || | || || || ||||||||||| | || ||||| || ||||| || Sbjct 228760 TTTGAGGATGGCTATGCAAACCAGGGAGCAGCATATTCGTAGGGACAAGGCTACCAGCAA 228819 Query 158631 CATCTGCACAGCACA 158645 ||| ||||| || || Sbjct 228820 CATTTGCACTGCTCA 228834 Score = 86.0 bits (94), Expect = 7e-12 Identities = 86/112 (77%), Gaps = 0/112 (0%) Strand=Plus/Plus Query 159693 TGGTGCAGATGTATGTCATCTAAACTTACATAAGACATTCTGTATTCCACATGGAGGTGG 159752 ||| |||||||| || ||||| || | || |||||||| || || || |||||||| || Sbjct 232601 TGGAGCAGATGTTTGCCATCTCAATCTTCACAAGACATTTTGCATCCCTCATGGAGGAGG 232660 Query 159753 AGGTCCTGGCGTAGGTCCTATTGGTGTAGCAAAACATCTCACACCATTTGTA 159804 || ||||| | ||||||||||||||| ||||| | |||||||| || Sbjct 232661 TGGCCCTGGAATGGGTCCTATTGGTGTAAAGAAACACTTGGCACCATTTTTA 232712 Score = 82.4 bits (90), Expect = 9e-11 Identities = 101/138 (73%), Gaps = 0/138 (0%) Strand=Plus/Plus Query 159046 TATCATAGTGAGACTGACATGATGAGATATATCTATGAGTTAGCATCAAAAGATTTCTCA 159105 || || | |||| ||| || | ||||| || || || || |||||||||| ||||| Sbjct 230468 TACCAAACTGAGCATGAGTTGCTCAGATACATTCATAAGCTACAATCAAAAGATCTCTCA 230527 Query 159106 TTAGTAAATGGTATGGTTCCACTTGGTAGTTGTACTATGAAACTAAACGCAGCATCAGAA 159165 | || | ||||| | |||||||| |||||| ||||| || || ||| || | ||| Sbjct 230528 CTTGTCCACAGTATGATCCCACTTGGATCTTGTACAATGAAGCTGAATGCAACAACCGAA 230587 Query 159166 CTGATGCCTGTGTCATGG 159183 ||||||||||| ||||| Sbjct 230588 ATGATGCCTGTGACATGG 230605 >seq485 Length=309328 Score = 86.0 bits (94), Expect = 7e-12 Identities = 97/129 (75%), Gaps = 1/129 (1%) Strand=Plus/Plus Query 173860 TTCGAGACTTTCTACACTAAGAATATACTTCTTAATGAAGGTATGAGAGCATGGATGTCA 173919 || |||||||||||||| || ||||| || | || |||||||| | ||||||||| | Sbjct 82761 TTTGAGACTTTCTACAC-AAAAATATTCTCTTAAACGAAGGTATTCGTGCATGGATGGCG 82819 Query 173920 TCTGTAGATCAACCACATGAGAACTTCGTATTTCCAGAAGAAGTGTTACCAAGAGGTAAC 173979 || ||||||| || ||||| ||| | |||| || || || || ||||| | || ||| Sbjct 82820 ACTATAGATCAGCCTCATGAAAACCTTATATTCCCTGAGGAGGTTCTACCACGTGGAAAC 82879 Query 173980 GCACTTTAA 173988 | |||||| Sbjct 82880 ACTCTTTAA 82888 >seq318 Length=400206 Score = 82.4 bits (90), Expect = 9e-11 Identities = 147/215 (68%), Gaps = 0/215 (0%) Strand=Plus/Plus Query 172589 TCTTCCTAGCAGTTTTCCCTGTTGTATGTGTATGGTTAACCTCTATGGGTATCTGTACAA 172648 ||||| |||| | || ||||| ||| || | ||||| | | | |||||| |||| Sbjct 349093 TCTTCTTAGCTGCTTGACCTGTAGTAGGTATCTGGTTTATCGTGTTAGGTATCAGTACTG 349152 Query 172649 TGGCATTCAACCTTAACGGTTTCAACTTCAACCAATCAGTTGTAGATGCTAACGGTAAGA 172708 |||| ||||| | || | || || || |||||||| || || ||| || | ||| Sbjct 349153 TGGCTTTCAATTTAAATTGATTTAATTTTAACCAATCCGTCGTTGATTCTCAAGGTCGTG 349212 Query 172709 TTGTTCCTACATGGGGTGACGTTCTTAACAGAGCAAACCTAGGTATGGAAGTTATGCATG 172768 | || || |||| ||| | ||||| | || ||||| |||||||||||||||||| Sbjct 349213 TAATTAACACTTGGGCTGATACTATTAACCGTGCTAACCTTGGTATGGAAGTTATGCATA 349272 Query 172769 AAAGAAATGCACACAACTTCCCATTAGACCTTGCT 172803 || | || | || || || || ||| || ||| Sbjct 349273 AACGTAACACTCATAATTTTCCTCCAGAGCTAGCT 349307 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 587849616048640