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_028093.1 Length=182309 Score E Sequences producing significant alignments: (Bits) Value seq28226 168 8e-37 seq2 149 7e-31 seq38667 129 7e-25 seq7 105 8e-18 seq6 98.7 1e-15 seq3 96.9 4e-15 >seq28226 Length=90112 Score = 168 bits (186), Expect = 8e-37 Identities = 379/564 (67%), Gaps = 9/564 (2%) Strand=Plus/Plus Query 94684 TATATTAAGGATGGTGCTGAGAAGAAGCAGCTCTTTGAAGCCATCCAAACAGTTCCGTGT 94743 ||||| | ||| || ||||||||| | | ||| | || || | || |||| ||| Sbjct 34523 TATATCCATGATTCTGTTGAGAAGAATCGTTTGTTTCACGCGATTGAGACTATTCCTTGT 34582 Query 94744 ATTCAAAAGAAAGCGGATTGGGCTATGAAGTGGTTTGATACAAAGTCGCGTTCCTTTGCT 94803 ||| ||||||||| |||||||||||||| ||| | ||| || || ||| |||||| Sbjct 34583 ATTACAAAGAAAGCTGATTGGGCTATGAAATGGATCGATTCA---TCTGATTCATTTGCT 34639 Query 94804 GAGCGACTCTTCGCATTTGCGTGTGTTGAGGGTATCTTCTTCTCTGGTTCCTTCTGCGCT 94863 || | || | || ||||| |||||||| ||||| || |||||||| ||||| || Sbjct 34640 GAAAGGATCGTTGCTTTTGCTTGTGTTGAAGGTATATTTTTCTCTGGAAGTTTCTGTGCA 34699 Query 94864 ATTTATTGGCTCAAGAAGCGAGGTCTCATGCCAGGTCTCTGCTTCTCCAACGAGCTTATC 94923 |||| |||||| || || || ||| | ||||| ||| | || || || |||||||| Sbjct 34700 ATTTTTTGGCTTAAAAAACGTGGTTTAATGCCTGGTTTAACTTTTTCAAATGAGCTTATT 34759 Query 94924 TCTCGTGACGAGGGACTCCACCAAGAGTTTGC--GGTGGAACTTTTCAAATTATTGCGTA 94981 || || ||||| ||||| || || ||||| | | || | ||| | ||| | | Sbjct 34760 TCACGCGACGAAGGACTTCATTGCGATTTTGCCTGTTTGATTTATTC--GCTTTTGAGGA 34817 Query 94982 TTAAACCAACGACTGAGACTATTCATTCTATTGTTAAGGAAGCCGTTGAGATTGAGAAAG 95041 ||||| | ||| | | | | ||||| || || ||||||||||||| | Sbjct 34818 ATAAACTGAGTGAAGAGCGTGTGAAGACAATTGTGCGTGACGCGGTTGAGATTGAGAGGG 34877 Query 95042 GATTCATATTGGATGCCCTTCCATGCGCTCTCATCGGTATGAATTCTGAAAAAATGTCTG 95101 ||| | | || || ||||| |||||| | | || |||||| ||| ||| | Sbjct 34878 AATTTGTTTGCGAAGCGCTTCCTTGCGCTTTGGTTGGAATGAATGGTGATTTGATGAGTC 34937 Query 95102 AATATATTGAGTATGTATCTGATAGATTGTTGAAGCAGATCGG-GGTGCCTCCAATTTGG 95160 | |||||||||| ||| ||||||| |||||| || | || ||| ||||| Sbjct 34938 AGTATATTGAGTTTGTTGCTGATAGGTTGTTGTGTGAGCTTGGTTGTG-AGAAAATTTAT 34996 Query 95161 AACTCCAAGAATCCATTTGACTTCATGGAGAACATTAGCCTCGACGGGAAGACAAACTTC 95220 || ||||||| ||||| | ||||| ||| || | ||||| || ||||| Sbjct 34997 AATGTTCAGAATCCTTTTGATTGGATGGATTTGATTTCGCTTCAGGGGAAAACTAACTTT 35056 Query 95221 TTCGAAAAGAGGGTTGGGGACTAT 95244 || || ||| | |||||||| ||| Sbjct 35057 TTTGAGAAGCGCGTTGGGGAATAT 35080 >seq2 Length=32560536 Score = 149 bits (164), Expect = 7e-31 Identities = 372/562 (66%), Gaps = 5/562 (1%) Strand=Plus/Plus Query 94684 TATATTAAGGATGGTGCTGAGAAGAAGCAGCTCTTTGAAGCCATCCAAACAGTTCCGTGT 94743 ||||| || ||| | ||||||||| | | ||| | || || | || |||||||| Sbjct 19587127 TATATCAATGATTCTATTGAGAAGAATCGTTTGTTTCATGCAATTGAGACGATTCCGTGT 19587186 Query 94744 ATTCAAAAGAAAGCGGATTGGGCTATGAAGTGGTTTGATACAAAGTCGCGTTCCTTTGCT 94803 || |||||||| |||||||||||||| ||| | ||| || || ||| |||||| Sbjct 19587187 ATCGCGAAGAAAGCTGATTGGGCTATGAAATGGATCGATTCA---TCTGATTCATTTGCT 19587243 Query 94804 GAGCGACTCTTCGCATTTGCGTGTGTTGAGGGTATCTTCTTCTCTGGTTCCTTCTGCGCT 94863 || || || | || ||||| |||||||| ||||| || || ||||| || || || Sbjct 19587244 GAAAGAATCGTTGCTTTTGCTTGTGTTGAAGGTATATTTTTTTCTGGAAGTTTTTGTGCA 19587303 Query 94864 ATTTATTGGCTCAAGAAGCGAGGTCTCATGCCAGGTCTCTGCTTCTCCAACGAGCTTATC 94923 |||| ||||| || || || ||| | ||||| ||| | || || ||||||||||| Sbjct 19587304 ATTTTCTGGCTTAAAAAACGTGGTTTAATGCCTGGTTTAACTTTTTCAAACGAGCTTATT 19587363 Query 94924 TCTCGTGACGAGGGACTCCACCAAGAGTTTGCGGTGGAACTTTTCAAATTATTGCGTATT 94983 || |||||||| || || || || || || ||||| | ||| | | Sbjct 19587364 TCACGTGACGAAGGTCTTCATTGTGATTTCGCTTGTTTACTTTATTCGCTTTTGAGAAAG 19587423 Query 94984 AAACCAACGACTGAGACTATTCATTCTATTGTTAAGGAAGCCGTTGAGATTGAGAAAGGA 95043 |||| | ||| | | | ||||||| || || ||||||||||||| || | Sbjct 19587424 AAACTTAGTGAAGAGCGTGTGAAAACTATTGTCCGTGATGCGGTTGAGATTGAGAGAGAA 19587483 Query 95044 TTCATATTGGATGCCCTTCCATGCGCTCTCATCGGTATGAATTCTGAAAAAATGTCTGAA 95103 || | | || || ||||| || ||| | | || ||||| |||| ||| | | Sbjct 19587484 TTTGTTTGTGAAGCGCTTCCTTGTGCTTTGGTTGGAATGAACGGTGAATTGATGAGTCAG 19587543 Query 95104 TATATTGAGTATGTATCTGATAGATTGTTGAAGCAGATCGG-GGTGCCTCCAATTTGGAA 95162 |||||||||| ||| ||||||| || ||| || | || ||| ||||| || Sbjct 19587544 TATATTGAGTTTGTTGCTGATAGGTTATTGGGTGAGCTTGGTTGTG-GGAAAATTTATAA 19587602 Query 95163 CTCCAAGAATCCATTTGACTTCATGGAGAACATTAGCCTCGACGGGAAGACAAACTTCTT 95222 ||||||| ||||| | ||||| ||| || | ||||| || ||||| || Sbjct 19587603 TGTTCAGAATCCTTTTGATTGGATGGAATTGATTTCGCTTCAGGGGAAAACTAACTTTTT 19587662 Query 95223 CGAAAAGAGGGTTGGGGACTAT 95244 || ||| | |||||||| ||| Sbjct 19587663 TGAGAAGCGCGTTGGGGAGTAT 19587684 >seq38667 Length=153359 Score = 129 bits (142), Expect = 7e-25 Identities = 235/338 (70%), Gaps = 12/338 (4%) Strand=Plus/Minus Query 9557 TCAAGGATATCAACGCGATTCGTCGCGGCGATGACAACAATACCTGTTTCATTATCAAAA 9616 ||||| || ||| | | ||| || || || ||||||| || | || | | ||||| Sbjct 113478 TCAAGAATGTCAGCCCTATTGGTTGCTGCAATGACAATGATCTCGGTATTACCCTCAAAT 113419 Query 9617 CCATCCATCTCTGTCAAAAGTTGGTTAATAGTTTGTTCCCGTTCATCATTCGCTGGCATA 9676 |||||||| ||||||||||||||||| | || ||||||| |||||||||| || | Sbjct 113418 CCATCCATTTCTGTCAAAAGTTGGTTGAGGGTCTGTTCCCTTTCATCATTCTCT---TCA 113362 Query 9677 CCA---CCAGCACTGCGTTGCTTTCCCACGGCATCAATCTCATCAATGAAGACGATGCAT 9733 ||| |||| | ||||| |||||| |||||||| ||||||| || || || || Sbjct 113361 CCAATTCCAGTGCCTCGTTGTCCTCCCACAGCATCAATTTCATCAACAAAAACAATACAA 113302 Query 9734 GGTTGATTTTCGCGAGCGACTTC--AAAGAGATCCCGTACACGCTTGGCGCCCACACCAA 9791 || ||||| || |||| || | ||| || || || || || ||||||| Sbjct 113301 GGAGCGTTTTCTTTGGC--CTTCTTGAATATATCACGAACTCGAGAAGCACCAACACCAA 113244 Query 9792 CAAACATCTCCACAAAGTTTGCGGCGGAACATTG-GATGAAGGGGACATTAGATTCACCC 9850 |||||||||| ||||| | | | | | |||| || || |||||| | ||||||| Sbjct 113243 CAAACATCTCAACAAACTCAGAACCTG-AGATTGAGAAAAACGGGACACCTGCTTCACCC 113185 Query 9851 GCAATGGCTCGGGCGAGAAGAGTCTTACCCGTACCTGG 9888 ||||| || ||| | || |||||||| || || || Sbjct 113184 GCAATAGCCTTGGCTAATAGCGTCTTACCAGTCCCCGG 113147 Score = 129 bits (142), Expect = 7e-25 Identities = 235/338 (70%), Gaps = 12/338 (4%) Strand=Plus/Minus Query 9557 TCAAGGATATCAACGCGATTCGTCGCGGCGATGACAACAATACCTGTTTCATTATCAAAA 9616 ||||| || || | | || || || || ||||||| | || || | | ||||| Sbjct 118993 TCAAGAATGTCGGCCCTGTTGGTTGCTGCAATGACAATGACCCCGGTATTACCCTCAAAT 118934 Query 9617 CCATCCATCTCTGTCAAAAGTTGGTTAATAGTTTGTTCCCGTTCATCATTCGCTGGCATA 9676 |||||||| ||||||||||||||||||| || ||||||| |||||| ||| || | Sbjct 118933 CCATCCATTTCTGTCAAAAGTTGGTTAAGGGTCTGTTCCCTTTCATCGTTCCCT---CCA 118877 Query 9677 CCA---CCAGCACTGCGTTGCTTTCCCACGGCATCAATCTCATCAATGAAGACGATGCAT 9733 ||| |||| | |||||| ||||||| |||||||| ||||||| || || || || Sbjct 118876 CCAATTCCAGTGCCTCGTTGCCTTCCCACAGCATCAATTTCATCAACAAAAACAATACAA 118817 Query 9734 GGTTGATTTTCGCGAGCGACTTC--AAAGAGATCCCGTACACGCTTGGCGCCCACACCAA 9791 || ||| || || |||| || | ||| || || || || || ||||| | Sbjct 118816 GGAGCATTCTCTTTGGC--CTTCTTGAATAAATCACGAACTCGAGAAGCACCAACACCGA 118759 Query 9792 CAAACATCTCCACAAAGTTTGCGGCGGAACATTG-GATGAAGGGGACATTAGATTCACCC 9850 |||||||||| ||||| | | | | | |||| || || |||||| | ||||||| Sbjct 118758 CAAACATCTCAACAAACTCAGAACCTG-AGATTGAGAAAAACGGGACACCTGCTTCACCC 118700 Query 9851 GCAATGGCTCGGGCGAGAAGAGTCTTACCCGTACCTGG 9888 ||||| || ||| | || |||||||| || ||||| Sbjct 118699 GCAATAGCCTTGGCTAATAGCGTCTTACCAGTCCCTGG 118662 >seq7 Length=30551617 Score = 105 bits (116), Expect = 8e-18 Identities = 288/434 (66%), Gaps = 14/434 (3%) Strand=Plus/Minus Query 9556 ATCAAGGATATCAACGCGATTCGTCGCGGCGATGACAACAATACCTGTTTCATTATCAAA 9615 |||||| | |||| | ||| || || || | |||| || ||| | | | | ||| Sbjct 4917395 ATCAAGAACATCAGGTCTATTAGTAGCAGCCAAAACAATAACACCCGAATTACCAGAAAA 4917336 Query 9616 ACCATCCATCTCTGTCAAAAGTTGGTTAATAGTTTGTTCCCGTTCATCATTCGCTGGCAT 9675 |||||||||||| |||||||| || |||||||||||||||| ||||||||| | Sbjct 4917335 ACCATCCATCTCAGTCAAAAGCTGATTAATAGTTTGTTCCCTCTCATCATTCCC---ACC 4917279 Query 9676 ACCA---CCAGCACTGCGTTGCTTTCCCACGGCATCAATCTCATCAATGAAGACGATGCA 9732 |||| ||||| | | || | || || |||||||| |||||||| || || ||||| Sbjct 4917278 ACCAAGTCCAGCTCCTCTCTGTCTCCCAACTGCATCAATTTCATCAATAAACACAATGCA 4917219 Query 9733 TGGTTGATTTTCGCGAGCGACT--TCAAAGAGATCCCGTACACGCTTG--GCGCCCACAC 9788 || |||| || || ||||| | ||||| || || || | || || |||| Sbjct 4917218 AGG--CGCCTTCGACTTCGCCTTCTCAAACAAATCCC-TA-ACCCTAGAAGCACCAACAC 4917163 Query 9789 CAACAAACATCTCCACAAAGTTTGCGGCGGAACATTGGATGAAGGGGACATTAGATTCAC 9848 ||||||||| |||||||| | | || | ||| | ||| || ||| || ||||| Sbjct 4917162 CAACAAACAATTCCACAAACTCCGAAGCCGCACACGAAAAGAACGGCACACCAGCTTCAC 4917103 Query 9849 CCGCAATGGCTCGGGCGAGAAGAGTCTTACCCGTACCTGGCTTACCCGCGAGGAGGGCAC 9908 | || | || | || | || ||||| || || || || || | | || | Sbjct 4917102 CGGCTACCGCCCTCGCCAATAGCGTCTTTCCTGTTCCCGGTGGCCCAACCAAAAGACACC 4917043 Query 9909 CTCGTGGAATCTTGGCGCCACTTCCAAAGTATCTCTCAGGTTGCTTAAGAAAATCCACAA 9968 || |||||||| || || || ||| | ||||| | ||| | ||||| |||| Sbjct 4917042 CTTTAGGAATCTTAGCACCTAAAGCAGTGTACTTATCAGGATTCTTCAAGAAATCAACAA 4916983 Query 9969 TTTCTTCCAATTCA 9982 ||||| |||||| Sbjct 4916982 CTTCTTGTAATTCA 4916969 >seq6 Length=22682783 Score = 98.7 bits (108), Expect = 1e-15 Identities = 224/335 (67%), Gaps = 4/335 (1%) Strand=Plus/Plus Query 9556 ATCAAGGATATCAACGCGATTCGTCGCGGCGATGACAACAATACCTGTTTCATTATCAAA 9615 |||||| || ||| | ||| || || || || |||| || ||| || | | | ||| Sbjct 20869472 ATCAAGAATTTCAGGTCTATTAGTAGCAGCAATAACAATAACACCAGTATTACCACTAAA 20869531 Query 9616 ACCATCCATCTCTGTCAAAAGTTGGTTAATAGTTTGTTCCCGTTCATCATTCGCTGGCAT 9675 ||||||||| || ||||| | || || | |||||||| | |||||||||| || Sbjct 20869532 ACCATCCATTTCAGTCAACAACTGATTCAATGTTTGTTCTCTTTCATCATTCCCTCCACC 20869591 Query 9676 ACCACCAGCACTGCGTTGCTTTCCCACGGCATCAATCTCATCAATGAAGACGATGCATGG 9735 | ||| | || | || |||| || ||||||||||||||||| || | | || || Sbjct 20869592 AATACCTGTACCTCTCTGTCTTCCAACAGCATCAATCTCATCAATAAATATCAAACAAGG 20869651 Query 9736 TTGATTTTCGCGAGCGACTTCAAAGAGATCCCGTACACGCTTG--GCGCCCACACCAACA 9793 | |||||| || | ||| | ||| | | || |||| || || ||||||||| Sbjct 20869652 TGAATTTTCTTTGGCCTTGTTAAACAAATCTCTT--ACTCTTGAAGCACCAACACCAACA 20869709 Query 9794 AACATCTCCACAAAGTTTGCGGCGGAACATTGGATGAAGGGGACATTAGATTCACCCGCA 9853 |||||||| | || | || | || | | ||| || || || | ||| || ||| Sbjct 20869710 AACATCTCAATGAATTCTGAACCTGATAGTGAAAAGAATGGAACTTTTGCTTCTCCTGCA 20869769 Query 9854 ATGGCTCGGGCGAGAAGAGTCTTACCCGTACCTGG 9888 || ||| || || || ||||| || || ||||| Sbjct 20869770 ATTGCTTTTGCTAGTAGTGTCTTTCCTGTCCCTGG 20869804 >seq3 Length=31061273 Score = 96.9 bits (106), Expect = 4e-15 Identities = 161/229 (70%), Gaps = 19/229 (8%) Strand=Plus/Minus Query 9590 ACAACAAT---ACCTGTTTCATTATCAAAACCATCCATCTCTGTCAAAAGTTGGTTAATA 9646 |||||||| ||| || | | ||||| |||||||| ||||||||||||||||| | Sbjct 6381387 ACAACAATGACACCGGTATTACCCTCAAATCCATCCATTTCTGTCAAAAGTTGGTTGAGG 6381328 Query 9647 GTTTGTTCCCGTTCATCATTCGCTGGCATACCACC-AGCACTG-----CGTTGCTTTCCC 9700 || ||||| | ||| |||||| || ||||| | ||| | ||| |||| Sbjct 6381327 GTCTGTTCTCTTTCGTCATTCCCT------CCACCGATTCCTGTCCCTCTTTGTCTTCCA 6381274 Query 9701 ACGGCATCAATCTCATCAATGAAGACGATGCATGGTTGATTTTCGCGAGCGACTTC--AA 9758 || |||||||| ||||||| ||||| ||||| || ||| || ||| |||| | Sbjct 6381273 ACAGCATCAATTTCATCAACAAAGACAATGCAAGGAGCATTCTCTTTAGC--CTTCTTGA 6381216 Query 9759 AGAGATCCCGTACACGCTTGGCGCCCACACCAACAAACATCTCCACAAA 9807 | | ||| || ||||| || || | ||||||||||||||| ||||| Sbjct 6381215 ACAAATCACGGACACGAGAAGCACCAATACCAACAAACATCTCAACAAA 6381167 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 582976088531240