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_011616.1 Length=148634 Score E Sequences producing significant alignments: (Bits) Value seq28626 131 2e-25 seq1 116 4e-21 seq28674 114 1e-20 seq4 104 2e-17 seq9364 98.7 9e-16 seq3 98.7 9e-16 seq28803 95.1 1e-14 >seq28626 Length=87040 Score = 131 bits (144), Expect = 2e-25 Identities = 169/231 (73%), Gaps = 2/231 (1%) Strand=Plus/Plus Query 126886 TCCACCGCGTAATCGCAACACCAAATGTATCGTAGACTCTTTTTGAATATTGTAATCGCC 126945 ||||||||| || | | |||||||||| |||||||||||| || ||||| ||||| | Sbjct 42364 TCCACCGCGCAACCTAAGAACCAAATGTAGCGTAGACTCTTTCTGGATATTATAATCCGC 42423 Query 126946 CATCGTGCGAGAATCGTCTAGCTGTTTTCCAGCGTAGATCAATCGCTGCTGATCGGGAGG 127005 | || | ||| || | || || || || ||||||||||||||||||| ||||| Sbjct 42424 AAGAGTCCTCCCATCTTCCAATTGCTTCCCTGCAAAGATCAATCGCTGCTGATCAGGAGG 42483 Query 127006 TATGCCCTCCTTGTCCGTGATTTTCTGCTTGA-GTTGTTCGACGGTGTCCGTACTCTCGA 127064 || || |||||||| |||||| |||| |||| |||| ||| || | || | Sbjct 42484 AATTCCTTCCTTGTCTTGGATTTTGGCTTTGACGTTG-TCGATGGTATCGGAGGATTCTA 42542 Query 127065 CTTCGACGGTCACCGTTTTGCCGGTCAGAGTTTTTACAAAAATCTGCATGG 127115 | || | ||| | ||||||||||| || ||||| || || |||||||||| Sbjct 42543 CCTCTAGGGTTATGGTTTTGCCGGTTAGGGTTTTCACGAAGATCTGCATGG 42593 Score = 98.7 bits (108), Expect = 9e-16 Identities = 140/197 (71%), Gaps = 0/197 (0%) Strand=Plus/Plus Query 126917 GTAGACTCTTTTTGAATATTGTAATCGCCCATCGTGCGAGAATCGTCTAGCTGTTTTCCA 126976 ||||| ||||| |||||||| ||||| | | || | ||| || |||||||| || Sbjct 42167 GTAGATTCTTTCTGAATATTATAATCAGCAAGAGTTCATCCATCCTCAAGCTGTTTACCG 42226 Query 126977 GCGTAGATCAATCGCTGCTGATCGGGAGGTATGCCCTCCTTGTCCGTGATTTTCTGCTTG 127036 || ||||||||||||| ||||| || || || |||||||| ||| || || ||| Sbjct 42227 GCAAAGATCAATCGCTGTTGATCAGGTGGAATCCCCTCCTTATCCTGAATCTTGGCCTTC 42286 Query 127037 AGTTGTTCGACGGTGTCCGTACTCTCGACTTCGACGGTCACCGTTTTGCCGGTCAGAGTT 127096 | | || | || || | |||||| || || | || | ||| || || |||| || Sbjct 42287 ACATTATCAATAGTATCAGAACTCTCCACCTCAAGAGTAATCGTCTTCCCCGTCAACGTC 42346 Query 127097 TTTACAAAAATCTGCAT 127113 || |||||||||||||| Sbjct 42347 TTCACAAAAATCTGCAT 42363 >seq1 Length=28142018 Score = 116 bits (128), Expect = 4e-21 Identities = 164/228 (72%), Gaps = 2/228 (1%) Strand=Plus/Plus Query 126887 CCACCGCGTAATCGCAACACCAAATGTATCGTAGACTCTTTTTGAATATTGTAATCGCCC 126946 ||||| || | |||||||| | || | || ||||| || || |||||||||||| || Sbjct 1586933 CCACCACGAAGACGCAACACAAGGTGGAGGGTTGACTCCTTCTGGATATTGTAATCGGCC 1586992 Query 126947 ATCGTGCGAGAATCGTCTAGCTGTTTTCCAGCGTAGATCAATCGCTGCTGATCGGGAGGT 127006 | || || || || ||||| ||||| || ||||||| | |||||| || || || Sbjct 1586993 AAAGTACGGCCGTCCTCAAGCTGCTTTCCGGCAAAGATCAACCTCTGCTGGTCTGGGGGG 1587052 Query 127007 ATGCCCTCCTTGTCCGTGATTTTCTGCTTGA-GTTGTTCGACGGTGTCCGTACTCTCGAC 127065 || || ||||||||| ||| || ||||| |||| |||| |||||| | || || || Sbjct 1587053 ATTCCTTCCTTGTCCTGGATCTTGGCCTTGACGTTG-TCGATGGTGTCAGAGCTTTCAAC 1587111 Query 127066 TTCGACGGTCACCGTTTTGCCGGTCAGAGTTTTTACAAAAATCTGCAT 127113 || | ||| | || || || || ||||| || || || |||||||| Sbjct 1587112 CTCAAGGGTGATGGTCTTTCCTGTGAGAGTCTTGACGAAGATCTGCAT 1587159 Score = 98.7 bits (108), Expect = 9e-16 Identities = 158/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 126887 CCACCGCGTAATCGCAACACCAAATGTATCGTAGACTCTTTTTGAATATTGTAATCGCCC 126946 ||||| | || |||| ||| | || | || ||||| || || ||||||||||| | Sbjct 1586411 CCACCCCTCAAACGCAGCACAAGGTGAAGAGTGGACTCCTTCTGGATATTGTAATCCGCA 1586470 Query 126947 ATCGTGCGAGAATCGTCTAGCTGTTTTCCAGCGTAGATCAATCGCTGCTGATCGGGAGGT 127006 | || | ||| || | ||||| || || ||||||| | ||||||||| || || Sbjct 1586471 AGGGTCCTTCCATCTTCCAATTGTTTGCCTGCAAAGATCAACCTCTGCTGATCTGGGGGA 1586530 Query 127007 ATGCCCTCCTTGTCCGTGATTTTCTGCTTGAGTTGTTCGACGGTGTCCGTACTCTCGACT 127066 || || ||||| ||| ||| || ||||| | || | |||||| | ||||| || Sbjct 1586531 ATACCTTCCTTATCCTGGATCTTAGCCTTGACATTGTCAATGGTGTCTGAGCTCTCCACC 1586590 Query 127067 TCGACGGTCACCGTTTTGCCGGTCAGAGTTTTTACAAAAATCTGCAT 127113 || | ||| | || || ||||||| ||| || ||||| |||||||| Sbjct 1586591 TCCAAGGTTATGGTCTTACCGGTCAAAGTCTTGACAAATATCTGCAT 1586637 Score = 96.9 bits (106), Expect = 3e-15 Identities = 146/205 (71%), Gaps = 2/205 (1%) Strand=Plus/Plus Query 126910 ATGTATCGTAGACTCTTTTTGAATATTGTAATCGCCCATCGTGCGAGAATCGTCTAGCTG 126969 ||| | ||| ||||| || |||||||||||||| | | || | || || | ||| Sbjct 1587184 ATGAAGCGTGGACTCCTTCTGAATATTGTAATCAGCAAGAGTCCTTCCGTCTTCCAACTG 1587243 Query 126970 TTTTCCAGCGTAGATCAATCGCTGCTGATCGGGAGGTATGCCCTCCTTGTCCGTGATTTT 127029 ||||| ||| |||| | || ||||| || ||||| || || ||||||||| ||| || Sbjct 1587244 CTTTCCGGCGAAGATGAGACGTTGCTGGTCCGGAGGAATTCCTTCCTTGTCCTGGATCTT 1587303 Query 127030 CTGCTTGA-GTTGTTCGACGGTGTCCGTACTCTCGACTTCGACGGTCACCGTTTTGCCGG 127088 |||| |||| |||| |||||| | ||||| || || | ||| | || || |||| Sbjct 1587304 GGCTTTGACGTTG-TCGATGGTGTCAGAGCTCTCCACCTCAAGGGTGATGGTCTTTCCGG 1587362 Query 127089 TCAGAGTTTTTACAAAAATCTGCAT 127113 | || ||||| || || || ||||| Sbjct 1587363 TGAGTGTTTTCACGAAGATTTGCAT 1587387 >seq28674 Length=75340 Score = 114 bits (126), Expect = 1e-20 Identities = 167/231 (72%), Gaps = 4/231 (2%) Strand=Plus/Minus Query 126886 TCCACCGCGTAATCGCAACACCAAATGTATCGTAGACTCTTTTTGAATATTGTAATCGCC 126945 |||||| ||||| | | |||||||| | |||||||||||| || ||||| ||||| | Sbjct 21043 TCCACCACGTAACCTAAGAACCAAATGAAGCGTAGACTCTTTCTGGATATTATAATCAGC 20984 Query 126946 CATCGTGCGAGAATCGTCTAGCTGTTTTCCAGCGTAGATCAATCGCTGCTGATCGGGAGG 127005 | || | | ||| || | || ||||| || |||||||||| || ||||| ||||| Sbjct 20983 AAGAGTTCTACCATCTTCCAATTGCTTTCCTGCAAAGATCAATCGTTGTTGATCAGGAGG 20924 Query 127006 TATGCCCTCCTTGTCCGTGATTTTCTG-CTTGA-GTTGTTCGACGGTGTCCGTACTCTCG 127063 || || || || | | ||| | | || ||| | |||| |||| ||||| | | ||| Sbjct 20923 AATTCCTTCTTTAT-CTTGAATCTTTGCCTTCACGTTG-TCGATTGTGTCAGAAGATTCG 20866 Query 127064 ACTTCGACGGTCACCGTTTTGCCGGTCAGAGTTTTTACAAAAATCTGCATG 127114 ||||||| || | |||||||| || || ||||| || || || |||||| Sbjct 20865 ACTTCGAGTGTGATGGTTTTGCCAGTTAGGGTTTTGACGAAGATTTGCATG 20815 Score = 114 bits (126), Expect = 1e-20 Identities = 144/198 (73%), Gaps = 0/198 (0%) Strand=Plus/Minus Query 126916 CGTAGACTCTTTTTGAATATTGTAATCGCCCATCGTGCGAGAATCGTCTAGCTGTTTTCC 126975 |||||| ||||| |||||||| ||||| | | || | ||| || |||||||| || Sbjct 21241 CGTAGATTCTTTCTGAATATTATAATCAGCAAGAGTCCTTCCATCTTCAAGCTGTTTACC 21182 Query 126976 AGCGTAGATCAATCGCTGCTGATCGGGAGGTATGCCCTCCTTGTCCGTGATTTTCTGCTT 127035 ||| ||||||||||||||||||| || || || |||||||| ||| || ||| ||| Sbjct 21181 AGCAAAGATCAATCGCTGCTGATCAGGTGGAATCCCCTCCTTATCCTGAATCTTCGCCTT 21122 Query 127036 GAGTTGTTCGACGGTGTCCGTACTCTCGACTTCGACGGTCACCGTTTTGCCGGTCAGAGT 127095 | | || | || || | |||||| || || | || | ||| || || |||| || Sbjct 21121 CACATTATCAATAGTATCAGAACTCTCCACCTCCAAAGTAATCGTCTTTCCCGTCAACGT 21062 Query 127096 TTTTACAAAAATCTGCAT 127113 || |||||||||||||| Sbjct 21061 CTTCACAAAAATCTGCAT 21044 >seq4 Length=28907061 Score = 104 bits (114), Expect = 2e-17 Identities = 141/197 (72%), Gaps = 0/197 (0%) Strand=Plus/Minus Query 126917 GTAGACTCTTTTTGAATATTGTAATCGCCCATCGTGCGAGAATCGTCTAGCTGTTTTCCA 126976 || || || || || || ||||||||| ||| || || ||| || ||||| |||||| Sbjct 27565879 GTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTTCGGCCATCTTCGAGCTGCTTTCCA 27565820 Query 126977 GCGTAGATCAATCGCTGCTGATCGGGAGGTATGCCCTCCTTGTCCGTGATTTTCTGCTTG 127036 || | ||||| | |||||||| || || ||||||||||||||| || || ||| Sbjct 27565819 GCAAAAATCAACCTTTGCTGATCCGGGGGAATGCCCTCCTTGTCCTGTATCTTAGCCTTC 27565760 Query 127037 AGTTGTTCGACGGTGTCCGTACTCTCGACTTCGACGGTCACCGTTTTGCCGGTCAGAGTT 127096 | | || | ||||| | ||||| || || | || | || || || || |||||| Sbjct 27565759 ACATTGTCAATTGTGTCTGAGCTCTCAACCTCCAAAGTTATTGTCTTACCAGTAAGAGTT 27565700 Query 127097 TTTACAAAAATCTGCAT 127113 || |||||||||||||| Sbjct 27565699 TTCACAAAAATCTGCAT 27565683 Score = 96.9 bits (106), Expect = 3e-15 Identities = 158/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 126886 TCCACCGCGTAATCGCAACACCAAATGTATCGTAGACTCTTTTTGAATATTGTAATCGCC 126945 |||||| || | |||||||| | || | |||||||| || ||||| ||||| || | Sbjct 27566138 TCCACCACGAAGGCGCAACACAAGGTGAAGAGTAGACTCCTTCTGAATGTTGTAGTCAGC 27566079 Query 126946 CATCGTGCGAGAATCGTCTAGCTGTTTTCCAGCGTAGATCAATCGCTGCTGATCGGGAGG 127005 | || | ||| || | || || ||||| ||||||| | ||||||||| || || Sbjct 27566078 AAGGGTCCTTCCATCCTCCAATTGCTTGCCAGCAAAGATCAACCTCTGCTGATCTGGTGG 27566019 Query 127006 TATGCCCTCCTTGTCCGTGATTTTCTGCTTGAGTTGTTCGACGGTGTCCGTACTCTCGAC 127065 || ||||||||||| ||||| ||||| | |||| || || | ||| || || Sbjct 27566018 GATTCCCTCCTTGTCTTGTATTTTTGCCTTGACATTATCGATCGTATCTGAACTTTCTAC 27565959 Query 127066 TTCGACGGTCACCGTTTTGCCGGTCAGAGTTTTTACAAAAATCTGCAT 127113 || | || | || || || |||| ||| || ||||| |||||||| Sbjct 27565958 CTCCAATGTAATGGTCTTTCCAGTCAAAGTCTTCACAAAGATCTGCAT 27565911 >seq9364 Length=1264 Score = 98.7 bits (108), Expect = 9e-16 Identities = 158/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 126887 CCACCGCGTAATCGCAACACCAAATGTATCGTAGACTCTTTTTGAATATTGTAATCGCCC 126946 ||||| || | || | |||||||| | || ||||| ||||| || ||||||||| | Sbjct 512 CCACCACGGAGACGGAGAACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCGGCA 571 Query 126947 ATCGTGCGAGAATCGTCTAGCTGTTTTCCAGCGTAGATCAATCGCTGCTGATCGGGAGGT 127006 | || || || || |||||||||||||| | ||||| |||||||| || || || Sbjct 572 AGGGTCCGCCCGTCCTCCAGCTGTTTTCCAGCAAAAATCAAACGCTGCTGGTCCGGTGGG 631 Query 127007 ATGCCCTCCTTGTCCGTGATTTTCTGCTTGAGTTGTTCGACGGTGTCCGTACTCTCGACT 127066 || || ||||| || ||||| ||| | | || | ||| || | |||||| ||| Sbjct 632 ATCCCTTCCTTATCTTGAATTTTGGCCTTAACATTGTCTATGGTATCGGAACTCTCAACT 691 Query 127067 TCGACGGTCACCGTTTTGCCGGTCAGAGTTTTTACAAAAATCTGCAT 127113 || | || | || || || || || || || ||||| || ||||| Sbjct 692 TCAAGAGTAATGGTCTTACCAGTGAGGGTCTTGACAAAGATTTGCAT 738 Score = 93.3 bits (102), Expect = 4e-14 Identities = 141/198 (71%), Gaps = 2/198 (1%) Strand=Plus/Plus Query 126917 GTAGACTCTTTTTGAATATTGTAATCGCCCATCGTGCGAGAATCGTCTAGCTGTTTTCCA 126976 || || || || || || ||||||||| ||| || || ||| || ||||| |||||| Sbjct 86 GTGGATTCCTTCTGGATGTTGTAATCGGCCAAAGTTCGCCCATCTTCGAGCTGCTTTCCA 145 Query 126977 GCGTAGATCAATCGCTGCTGATCGGGAGGTATGCCCTCCTTGTCCGTGATTTTCTGC-TT 127035 || ||||||| | ||||| || || || || |||||||||||| ||| | | || || Sbjct 146 GCAAAGATCAACCTTTGCTGGTCTGGGGGGATACCCTCCTTGTCC-TGAATCTTAGCTTT 204 Query 127036 GAGTTGTTCGACGGTGTCCGTACTCTCGACTTCGACGGTCACCGTTTTGCCGGTCAGAGT 127095 | | || | ||||| | ||||| || || | || | || ||||| || || || Sbjct 205 CACATTGTCAATAGTGTCTGAGCTCTCAACCTCCAAAGTAATAGTCTTGCCAGTAAGGGT 264 Query 127096 TTTTACAAAAATCTGCAT 127113 || |||||||||||||| Sbjct 265 CTTCACAAAAATCTGCAT 282 >seq3 Length=31061273 Score = 98.7 bits (108), Expect = 9e-16 Identities = 158/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 126887 CCACCGCGTAATCGCAACACCAAATGTATCGTAGACTCTTTTTGAATATTGTAATCGCCC 126946 ||||| || | |||||| || | ||| | || || || || || || |||||||| | Sbjct 12366402 CCACCACGAAGTCGCAAGACAAGATGAAGGGTGGATTCCTTCTGGATGTTGTAATCAGCT 12366343 Query 126947 ATCGTGCGAGAATCGTCTAGCTGTTTTCCAGCGTAGATCAATCGCTGCTGATCGGGAGGT 127006 | || | ||| || |||||||||||||| | |||| | ||||| || || || Sbjct 12366342 AATGTCCTGCCATCCTCAAGCTGTTTTCCAGCAAAAATCAGCCTTTGCTGGTCTGGTGGA 12366283 Query 127007 ATGCCCTCCTTGTCCGTGATTTTCTGCTTGAGTTGTTCGACGGTGTCCGTACTCTCGACT 127066 || || |||||||| || || ||||| | ||| | || |||| |||||| || Sbjct 12366282 ATACCTTCCTTGTCTTGAATCTTGACCTTGACATTTTCTATCGTATCCGAACTCTCAACC 12366223 Query 127067 TCGACGGTCACCGTTTTGCCGGTCAGAGTTTTTACAAAAATCTGCAT 127113 || | ||| || || || ||||| ||||| || ||||| || ||||| Sbjct 12366222 TCAAGGGTGACGGTCTTTCCGGTGAGAGTCTTCACAAAGATTTGCAT 12366176 Score = 98.7 bits (108), Expect = 9e-16 Identities = 158/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 126887 CCACCGCGTAATCGCAACACCAAATGTATCGTAGACTCTTTTTGAATATTGTAATCGCCC 126946 ||||| || | |||||| || | ||| | || || || || || || ||||||||| || Sbjct 12366630 CCACCACGAAGTCGCAAGACAAGATGAAGGGTGGATTCCTTCTGGATGTTGTAATCGGCC 12366571 Query 126947 ATCGTGCGAGAATCGTCTAGCTGTTTTCCAGCGTAGATCAATCGCTGCTGATCGGGAGGT 127006 | || || ||| || ||||| |||||||| | |||| | ||||| || || || Sbjct 12366570 AAGGTTCGGCCATCTTCCAGCTGCTTTCCAGCAAAAATCAGCCTTTGCTGGTCTGGGGGA 12366511 Query 127007 ATGCCCTCCTTGTCCGTGATTTTCTGCTTGAGTTGTTCGACGGTGTCCGTACTCTCGACT 127066 || ||||||||||| || || ||| | | || | || || | ||||| || Sbjct 12366510 ATACCCTCCTTGTCTTGAATCTTGGCCTTAACATTGTCAATAGTATCTGAGCTCTCAACC 12366451 Query 127067 TCGACGGTCACCGTTTTGCCGGTCAGAGTTTTTACAAAAATCTGCAT 127113 || | || | ||||||||| || || || || |||||||||||||| Sbjct 12366450 TCCAAAGTAATCGTTTTGCCTGTAAGCGTCTTAACAAAAATCTGCAT 12366404 Score = 91.5 bits (100), Expect = 1e-13 Identities = 139/198 (70%), Gaps = 0/198 (0%) Strand=Plus/Minus Query 126916 CGTAGACTCTTTTTGAATATTGTAATCGCCCATCGTGCGAGAATCGTCTAGCTGTTTTCC 126975 ||| |||||||| ||||| || ||||| ||| || || ||| || ||||| ||||| Sbjct 12367285 CGTGGACTCTTTCTGAATGTTATAATCAGCCAAAGTCCGGCCATCTTCAAGCTGCTTTCC 12367226 Query 126976 AGCGTAGATCAATCGCTGCTGATCGGGAGGTATGCCCTCCTTGTCCGTGATTTTCTGCTT 127035 ||| | ||||| | ||||| || || || || || || |||||| || || ||| Sbjct 12367225 AGCAAATATCAACCTTTGCTGGTCTGGGGGAATACCTTCTTTGTCCTGTATCTTGGTCTT 12367166 Query 127036 GAGTTGTTCGACGGTGTCCGTACTCTCGACTTCGACGGTCACCGTTTTGCCGGTCAGAGT 127095 | | || | ||||| | ||||| || || | ||| | || || ||||| ||||| Sbjct 12367165 CACATTGTCAATAGTGTCTGAGCTCTCTACCTCCAAGGTAATAGTCTTTCCGGTAAGAGT 12367106 Query 127096 TTTTACAAAAATCTGCAT 127113 || || ||||||||||| Sbjct 12367105 CTTCACGAAAATCTGCAT 12367088 >seq28803 Length=52646 Score = 95.1 bits (104), Expect = 1e-14 Identities = 139/197 (71%), Gaps = 0/197 (0%) Strand=Plus/Plus Query 126917 GTAGACTCTTTTTGAATATTGTAATCGCCCATCGTGCGAGAATCGTCTAGCTGTTTTCCA 126976 || || || || || || ||||||||| ||| || || ||| || ||||| |||||| Sbjct 33343 GTGGATTCCTTCTGGATGTTGTAATCGGCCAAAGTTCGCCCATCTTCGAGCTGCTTTCCA 33402 Query 126977 GCGTAGATCAATCGCTGCTGATCGGGAGGTATGCCCTCCTTGTCCGTGATTTTCTGCTTG 127036 || ||||||| | ||||| || || || || ||||||||||| || || ||| Sbjct 33403 GCAAAGATCAACCTTTGCTGGTCTGGGGGGATACCCTCCTTGTCTTGAATCTTAGCCTTA 33462 Query 127037 AGTTGTTCGACGGTGTCCGTACTCTCGACTTCGACGGTCACCGTTTTGCCGGTCAGAGTT 127096 | | || | ||||| | ||||| || || | || | || ||||| || ||||| Sbjct 33463 ACATTGTCAATAGTGTCTGAGCTCTCAACCTCCAAAGTTATTGTCTTGCCAGTAAGAGTC 33522 Query 127097 TTTACAAAAATCTGCAT 127113 || |||||||||||||| Sbjct 33523 TTCACAAAAATCTGCAT 33539 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 475268690228240