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_006820.1 Length=196280 Score E Sequences producing significant alignments: (Bits) Value seq38608 147 3e-30 seq28107 136 5e-27 seq6 127 3e-24 seq32521 107 2e-18 seq3 100 4e-16 seq1 93.3 5e-14 >seq38608 Length=401930 Score = 147 bits (162), Expect = 3e-30 Identities = 138/176 (78%), Gaps = 0/176 (0%) Strand=Plus/Minus Query 138702 CGAGCGTATGATTTCGTATCGCAAGAAATTCGTGCAGCAGAAGATCCTGAATTCGAGACC 138761 || || ||||| ||||| || |||||||| || ||||| |||||||||||||| ||||| Sbjct 348917 CGTGCCTATGACTTCGTTTCTCAAGAAATCCGCGCAGCGGAAGATCCTGAATTTGAGACT 348858 Query 138762 TTCTACACCAAGAACATTCTTCTGAATGAAGGTCTGCGTGCCTGGATGGCTCCTGTGGAT 138821 ||||||||||| || ||||| | || |||||| | ||||| |||||||| || ||| Sbjct 348857 TTCTACACCAAAAATATTCTCTTAAACGAAGGTATTCGTGCTTGGATGGCGGCTCAAGAT 348798 Query 138822 CAACCTCACGAAAACTTTGTTTTTCCTGAAGAAGTATTGCCAAGAGGCAACGCTCT 138877 || ||||| |||||| || | || ||||| || || | ||| | || |||||||| Sbjct 348797 CAGCCTCATGAAAACCTTATATTCCCTGAGGAGGTTCTACCACGTGGAAACGCTCT 348742 >seq28107 Length=123132 Score = 136 bits (150), Expect = 5e-27 Identities = 158/210 (75%), Gaps = 5/210 (2%) Strand=Plus/Plus Query 135748 TTGGATTTG-TGTCGCTTACTCAGCCCCTGTTGCCGCTGCTACTGCTGTTTTCCTGGTCT 135806 || || ||| ||| || || ||||| || ||||| ||||||| ||| |||||| || ||| Sbjct 14809 TTTGAGTTGCTGTTGCATATTCAGCTCCGGTTGCAGCTGCTATTGCAGTTTTCTTGATCT 14868 Query 135807 ACCCCTTTGGACAAGGTTC--TTTCAGTGATGGTATGCCGCTTGGCATTTCTGGAACTTT 135864 |||| | || || || |||||| |||||||||| || || || ||||| ||||| Sbjct 14869 ACCCAATAGGTCAGGGAAGCTTTTCAG--ATGGTATGCCTCTAGGAATCTCTGGTACTTT 14926 Query 135865 TAACTACATGCTTGTTTTCCAGGCAGAACACAACATTCTCATGCATCCTTTCCACATGTT 135924 |||| ||| |||| || ||||| || || || ||||| |||||||| || ||||||| Sbjct 14927 CAACTTTATGATTGTATTTCAGGCTGAGCATAATATTCTTATGCATCCGTTTTACATGTT 14986 Query 135925 GGGAGTTGCTGGGGTCTTCGGTGGTTCTCT 135954 || || ||||| || ||||| || || || Sbjct 14987 AGGTGTAGCTGGTGTATTCGGCGGCTCACT 15016 >seq6 Length=22682783 Score = 127 bits (140), Expect = 3e-24 Identities = 177/242 (73%), Gaps = 6/242 (2%) Strand=Plus/Plus Query 135421 GTTTGGAACGCTGATGATTCCTACTCTTCTCG-CAGCTGCTATCTGC-TTTATTGTTGCT 135478 |||| ||| ||||||| ||||| ||| | | | || || |||| |||||| | || Sbjct 2047924 GTTTTGAATTTTGATGATCCCTAC-CTTATTGACCGCAACT-TCTGTATTTATTATCACT 2047981 Query 135479 TTCATCGCTGCACCTCCCGTCGATATTGACGGCATCCGCGAACCTGTTGCTGGTTCTCTA 135538 ||||| ||||| ||| || |||||||| || | || || ||||| |||| |||||| Sbjct 2047982 TTCATTGCTGCCCCTTTAGTAGATATTGATGG--TTCGTGAGTCTGTTTCTGGATCTCTA 2048039 Query 135539 ATGTACGGAAATAACATCATCTCTGGTGCTGTTATCCCTTCTAGCAACGCCATCGGCCTT 135598 | |||||||| || || || | |||||| |||||||| || || ||||| | Sbjct 2048040 CTTTACGGAAACAATATAATTTTTGGTGCCATTATCCCTACTTCTGCGGCTATCGGTTTG 2048099 Query 135599 CACTTCTATCCCATCTGGGAAGCTGCTTCTCTTGATGAGTGGCTATATAATGGTGGTCCT 135658 ||||| || || || ||||||||||| || ||||||||| | |||| || || |||||| Sbjct 2048100 CACTTTTACCCAATATGGGAAGCTGCATCCGTTGATGAGTTGTTATACAACGGCGGTCCT 2048159 Query 135659 TA 135660 || Sbjct 2048160 TA 2048161 Score = 109 bits (120), Expect = 7e-19 Identities = 164/227 (72%), Gaps = 16/227 (7%) Strand=Plus/Minus Query 135421 GTTTGGAACGCTGATGATTCCTACTCTTCTCG-CAGCTGCTATCTGC-TTTATTGTTGCT 135478 |||| ||| ||||||| ||||| ||| | | | || || |||| |||||| | ||| Sbjct 2115435 GTTTTGAATTTTGATGATCCCTAC-CTTATTGACCGCAACT-TCTGTATTTATTATCGCT 2115378 Query 135479 TTCATCGCTGCACCTCCCGTCGATATTGACGGCATCCGCGAACCTGTTGCTGGTTCTCTA 135538 ||||| ||||| ||| || |||||||| || | || || ||||| |||| |||||| Sbjct 2115377 TTCATTGCTGCCCCTTTAGTAGATATTGATGG--TTCGTGAGTCTGTTTCTGGATCTCTA 2115320 Query 135539 ATGTACGGAAATAACATCATCTCTGGTGCTGTTATCCCTTCTAGCAAC-------GCCAT 135591 | |||||||| || || || | |||||| |||| ||| ||| || || || Sbjct 2115319 CTTTACGGAAACAATATAATTTTTGGTGCCATTATTCCT---AGCTACTTCTGCGGCTAT 2115263 Query 135592 CGGCCTTCACTTCTATCCCATCTGGGAAGCTGCTTCTCTTGATGAGT 135638 ||| | ||||| || || || ||||||||||| ||| ||||||||| Sbjct 2115262 CGGTTTGCACTTTTACCCGATATGGGAAGCTGCATCTGTTGATGAGT 2115216 Score = 82.4 bits (90), Expect = 1e-10 Identities = 131/186 (70%), Gaps = 9/186 (5%) Strand=Plus/Minus Query 135467 TTTATTGTTGCTTTCATCGCTGCACCTCCCGTCGATATTGACGGCATCCGCGAACCTGTT 135526 |||||| |||||||||| ||||| ||| | | ||||||| || | || || ||||| Sbjct 2027073 TTTATTATTGCTTTCATTGCTGCCCCTTCAG---ATATTGATGG--TTCGTGAGTCTGTT 2027019 Query 135527 GCTGGTTCTCTAATGTACGGAAATAACATCATCTCTGGTGCTGTTATCCCTTCTAGCAAC 135586 ||| |||||| | ||| ||| || || || |||||||| |||| ||| || Sbjct 2027018 TCTGAATCTCTACTTTACCAAAACAATATAATTTCTGGTGCCATTATTCCTACTTCTGCG 2026959 Query 135587 GCCATCGGCCTTCACTTCTATCCCATCTGGGAAGCTGCTTCTCTTGATGAGTGGCTATAT 135646 || ||||| ||||| || | | ||||||||||| ||||||||||| |||| Sbjct 2026958 GCTATCGGTTCACACTTTTACCTGGTATGGGAAGCTGC----GTTGATGAGTGGTTATAC 2026903 Query 135647 AATGGT 135652 || ||| Sbjct 2026902 AACGGT 2026897 >seq32521 Length=1850 Score = 107 bits (118), Expect = 2e-18 Identities = 91/112 (81%), Gaps = 0/112 (0%) Strand=Plus/Minus Query 138696 AACCTACGAGCGTATGATTTCGTATCGCAAGAAATTCGTGCAGCAGAAGATCCTGAATTC 138755 || ||||| || ||||| ||||| || |||||||| | ||||| |||||||||||||| Sbjct 847 AAACTACGTGCCTATGACTTCGTTTCTCAAGAAATCCACGCAGCGGAAGATCCTGAATTT 788 Query 138756 GAGACCTTCTACACCAAGAACATTCTTCTGAATGAAGGTCTGCGTGCCTGGA 138807 ||||| ||||||||||| || ||||| | || |||||| | ||||| |||| Sbjct 787 GAGACTTTCTACACCAAAAATATTCTCTTAAACGAAGGTATTCGTGCGTGGA 736 >seq3 Length=31061273 Score = 100 bits (110), Expect = 4e-16 Identities = 81/98 (83%), Gaps = 0/98 (0%) Strand=Plus/Minus Query 138682 TTGGTCTTGCTCTTAACCTACGAGCGTATGATTTCGTATCGCAAGAAATTCGTGCAGCAG 138741 ||||||| || || |||||||| || ||||| || || || |||||||| || |||| | Sbjct 10151963 TTGGTCTGGCCCTGAACCTACGTGCCTATGACTTTGTTTCTCAAGAAATCCGCACAGCGG 10151904 Query 138742 AAGATCCTGAATTCGAGACCTTCTACACCAAGAACATT 138779 ||||||||||||| ||||| ||||||||||| || ||| Sbjct 10151903 AAGATCCTGAATTTGAGACTTTCTACACCAAAAATATT 10151866 >seq1 Length=28142018 Score = 93.3 bits (102), Expect = 5e-14 Identities = 234/351 (67%), Gaps = 10/351 (3%) Strand=Plus/Plus Query 137959 GTGGCTGGCTTACTGGCACAACGTTTGTTACAAGCTGGTACACCCACGGGTTGGCGTCTA 138018 |||| ||| | || || || || ||||| || ||||| || || || ||||| | Sbjct 23237499 GTGGTTGGTTCACAGGTACCACCTTTGTAACTTCATGGTATACTCATGGATTGGCAAGTT 23237558 Query 138019 GTTATCTTGAAGGCGCTAATTTCCTCACAGCAGCTGTTTCGACTCCTGCTGATGCTATGG 138078 ||| | ||||| ||| ||| | || || || || || ||||||| | || | | | Sbjct 23237559 CCTATTTGGAAGGTTGTAACTTCTTAACTGCGGCAGTCTCTACTCCTGTTAATAGTTTAG 23237618 Query 138079 GTCATTCTCTTCTTCTACTTTGGGGTCCTGAGTCTCAAGGAGATAT--CGTCCGCTGGTT 138136 |||||| | | |||| ||||||||| | | || | |||| | ||| | |||| Sbjct 23237619 CACATTCTTTGTTGTTACTGTGGGGTCCTAAAGCACATGAAGATTTTACGT--GTTGGTG 23237676 Query 138137 CCAACTTGGGGGACTCTGGACTTTTGTGGCGCTCCACGGGGCCTTTAGTCTGATTGGATT 138196 ||| | || || | ||||||||||| || || ||||| || || | | || || || Sbjct 23237677 TCAATTAGGTGGTATGTGGACTTTTGTTGCTCTTCACGGTGCTTTCGGATTAATAGGTTT 23237736 Query 138197 CATGCTTCGCCAGTTTGAGATCTCTCG-TCTGGTAGGCA--TCCGTCCCTACAACGCAAT 138253 ||| | || || ||||| | || | |||| | || | || || || || ||||| Sbjct 23237737 TATGTTACGTCAATTTGAACTTGCTTGATCTGTT---CAATTGCGGCCTTATAATGCAAT 23237793 Query 138254 CGCATTCTCTGGTCCCATCGCTGTGTTCGTCAGCGTGTTCCTGATGTATCC 138304 | ||||||| ||||| | | ||| || || || |||||||| ||||| Sbjct 23237794 CACATTCTCCGGTCCAAGTGTTGTTTTTGTTTATGTATTCCTGATTTATCC 23237844 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 627661465270400