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_007921.1 Length=147544 Score E Sequences producing significant alignments: (Bits) Value seq28626 127 2e-24 seq9364 122 8e-23 seq28803 116 3e-21 seq4 116 3e-21 seq1 113 4e-20 seq5139 102 8e-17 seq3 98.7 9e-16 >seq28626 Length=87040 Score = 127 bits (140), Expect = 2e-24 Identities = 167/229 (73%), Gaps = 2/229 (1%) Strand=Plus/Plus Query 131008 CCACCGCGCAAACGCAGCACTAAATGTATGGTCGACTCCTTTTGAATGTTGTAATCGCTC 131067 ||||||||||| | || || ||||||| || ||||| || || || || ||||| | | Sbjct 42365 CCACCGCGCAACCTAAGAACCAAATGTAGCGTAGACTCTTTCTGGATATTATAATC-CGC 42423 Query 131068 ATG-GTGCGCGAGTCCTCTAGCTGCTTGCCTGCGTAGATTAAACGCTGCTGGTCCGGAGG 131126 | | || | | || || | ||||| ||||| |||| || |||||||| || ||||| Sbjct 42424 AAGAGTCCTCCCATCTTCCAATTGCTTCCCTGCAAAGATCAATCGCTGCTGATCAGGAGG 42483 Query 131127 GATTCCTTCTTTGTCGGTGATTTTCTGCTTGAGCTGCTCCACAGTATCGGTGGACTCGAT 131186 |||||||| ||||| |||||| |||| | || | ||||||| ||| || | Sbjct 42484 AATTCCTTCCTTGTCTTGGATTTTGGCTTTGACGTTGTCGATGGTATCGGAGGATTCTAC 42543 Query 131187 GTCGACGGTAACGGTTTTACCGGTTAGAGTTTTTACGAAAATCTGCATG 131235 || | ||| | |||||| |||||||| ||||| ||||| ||||||||| Sbjct 42544 CTCTAGGGTTATGGTTTTGCCGGTTAGGGTTTTCACGAAGATCTGCATG 42592 >seq9364 Length=1264 Score = 122 bits (134), Expect = 8e-23 Identities = 163/227 (72%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 131008 CCACCGCGCAAACGCAGCACTAAATGTATGGTCGACTCCTTTTGAATGTTGTAATCGCTC 131067 ||||| || | ||| || || ||||| | ||| ||||||||||| |||||||||||| Sbjct 512 CCACCACGGAGACGGAGAACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCGGCA 571 Query 131068 ATGGTGCGCGAGTCCTCTAGCTGCTTGCCTGCGTAGATTAAACGCTGCTGGTCCGGAGGG 131127 | ||| ||| |||||| ||||| || || || | || ||||||||||||||||| ||| Sbjct 572 AGGGTCCGCCCGTCCTCCAGCTGTTTTCCAGCAAAAATCAAACGCTGCTGGTCCGGTGGG 631 Query 131128 ATTCCTTCTTTGTCGGTGATTTTCTGCTTGAGCTGCTCCACAGTATCGGTGGACTCGATG 131187 || ||||| || || ||||| ||| | | || | ||||||| ||| | Sbjct 632 ATCCCTTCCTTATCTTGAATTTTGGCCTTAACATTGTCTATGGTATCGGAACTCTCAACT 691 Query 131188 TCGACGGTAACGGTTTTACCGGTTAGAGTTTTTACGAAAATCTGCAT 131234 || | |||| ||| ||||| || || || || || || || ||||| Sbjct 692 TCAAGAGTAATGGTCTTACCAGTGAGGGTCTTGACAAAGATTTGCAT 738 Score = 84.2 bits (92), Expect = 2e-11 Identities = 157/228 (69%), Gaps = 2/228 (1%) Strand=Plus/Plus Query 131008 CCACCGCGCAAACGCAGCACTAAATGTATGGTCGACTCCTTTTGAATGTTGTAATCGCTC 131067 || || | |||||| || || | ||| | ||| || ||||| || |||||||||||| | Sbjct 56 CCTCCCCTCAAACGAAGGACAAGATGAAGGGTGGATTCCTTCTGGATGTTGTAATCGGCC 115 Query 131068 ATGGTGCGCGAGTCCTCTAGCTGCTTGCCTGCGTAGATTAAACGCTGCTGGTCCGGAGGG 131127 | || ||| || || |||||||| || || |||| || | |||||||| || ||| Sbjct 116 AAAGTTCGCCCATCTTCGAGCTGCTTTCCAGCAAAGATCAACCTTTGCTGGTCTGGGGGG 175 Query 131128 ATTCCTTCTTTGTCGGTGATTTTCTGC-TTGAGCTGCTCCACAGTATCGGTGGACTCGAT 131186 || || || ||||| ||| | | || || | | || | ||| || | | ||| | Sbjct 176 ATACCCTCCTTGTC-CTGAATCTTAGCTTTCACATTGTCAATAGTGTCTGAGCTCTCAAC 234 Query 131187 GTCGACGGTAACGGTTTTACCGGTTAGAGTTTTTACGAAAATCTGCAT 131234 || | |||| || || || || || || || || ||||||||||| Sbjct 235 CTCCAAAGTAATAGTCTTGCCAGTAAGGGTCTTCACAAAAATCTGCAT 282 >seq28803 Length=52646 Score = 116 bits (128), Expect = 3e-21 Identities = 106/134 (79%), Gaps = 0/134 (0%) Strand=Plus/Plus Query 131008 CCACCGCGCAAACGCAGCACTAAATGTATGGTCGACTCCTTTTGAATGTTGTAATCGCTC 131067 ||||| || | ||| ||||| ||||| | ||| ||||||||||| |||||||||||| Sbjct 33769 CCACCACGGAGACGGAGCACCAAATGAAGGGTTGACTCCTTTTGTATGTTGTAATCGGCA 33828 Query 131068 ATGGTGCGCGAGTCCTCTAGCTGCTTGCCTGCGTAGATTAAACGCTGCTGGTCCGGAGGG 131127 | ||| ||| |||||| |||||||| || || | || | ||||||||||||||| ||| Sbjct 33829 AGGGTACGCCCGTCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGG 33888 Query 131128 ATTCCTTCTTTGTC 131141 || ||||| || || Sbjct 33889 ATCCCTTCCTTATC 33902 >seq4 Length=28907061 Score = 116 bits (128), Expect = 3e-21 Identities = 106/134 (79%), Gaps = 0/134 (0%) Strand=Plus/Minus Query 131008 CCACCGCGCAAACGCAGCACTAAATGTATGGTCGACTCCTTTTGAATGTTGTAATCGCTC 131067 ||||| || | ||| ||||| ||||| | ||| ||||||||||| |||||||||||| Sbjct 27565225 CCACCACGGAGACGGAGCACCAAATGGAGGGTAGACTCCTTTTGGATGTTGTAATCGGCA 27565166 Query 131068 ATGGTGCGCGAGTCCTCTAGCTGCTTGCCTGCGTAGATTAAACGCTGCTGGTCCGGAGGG 131127 | ||| ||| |||||| |||||||| || || | || | ||||||||||||||| ||| Sbjct 27565165 AGGGTACGCCCGTCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGG 27565106 Query 131128 ATTCCTTCTTTGTC 131141 || ||||| || || Sbjct 27565105 ATCCCTTCCTTATC 27565092 >seq1 Length=28142018 Score = 113 bits (124), Expect = 4e-20 Identities = 161/227 (71%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 131008 CCACCGCGCAAACGCAGCACTAAATGTATGGTCGACTCCTTTTGAATGTTGTAATCGCTC 131067 ||||| || | ||||| ||| | || | ||| |||||||| || || ||||||||| | Sbjct 1586933 CCACCACGAAGACGCAACACAAGGTGGAGGGTTGACTCCTTCTGGATATTGTAATCGGCC 1586992 Query 131068 ATGGTGCGCGAGTCCTCTAGCTGCTTGCCTGCGTAGATTAAACGCTGCTGGTCCGGAGGG 131127 | || || |||||| |||||||| || || |||| || | ||||||||| || ||| Sbjct 1586993 AAAGTACGGCCGTCCTCAAGCTGCTTTCCGGCAAAGATCAACCTCTGCTGGTCTGGGGGG 1587052 Query 131128 ATTCCTTCTTTGTCGGTGATTTTCTGCTTGAGCTGCTCCACAGTATCGGTGGACTCGATG 131187 |||||||| ||||| ||| || ||||| | || | || || | | || | Sbjct 1587053 ATTCCTTCCTTGTCCTGGATCTTGGCCTTGACGTTGTCGATGGTGTCAGAGCTTTCAACC 1587112 Query 131188 TCGACGGTAACGGTTTTACCGGTTAGAGTTTTTACGAAAATCTGCAT 131234 || | ||| | ||| || || || ||||| || ||||| |||||||| Sbjct 1587113 TCAAGGGTGATGGTCTTTCCTGTGAGAGTCTTGACGAAGATCTGCAT 1587159 Score = 98.7 bits (108), Expect = 9e-16 Identities = 158/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 131008 CCACCGCGCAAACGCAGCACTAAATGTATGGTCGACTCCTTTTGAATGTTGTAATCGCTC 131067 || || |||| ||| || || | ||| | || |||||||| ||||| |||||||| Sbjct 1587161 CCTCCACGCAGACGGAGAACAAGATGAAGCGTGGACTCCTTCTGAATATTGTAATCAGCA 1587220 Query 131068 ATGGTGCGCGAGTCCTCTAGCTGCTTGCCTGCGTAGATTAAACGCTGCTGGTCCGGAGGG 131127 | || | ||| || | |||||| || ||| |||| | ||| |||||||||||||| Sbjct 1587221 AGAGTCCTTCCGTCTTCCAACTGCTTTCCGGCGAAGATGAGACGTTGCTGGTCCGGAGGA 1587280 Query 131128 ATTCCTTCTTTGTCGGTGATTTTCTGCTTGAGCTGCTCCACAGTATCGGTGGACTCGATG 131187 |||||||| ||||| ||| || |||| | || | || || | | ||| | Sbjct 1587281 ATTCCTTCCTTGTCCTGGATCTTGGCTTTGACGTTGTCGATGGTGTCAGAGCTCTCCACC 1587340 Query 131188 TCGACGGTAACGGTTTTACCGGTTAGAGTTTTTACGAAAATCTGCAT 131234 || | ||| | ||| || ||||| || ||||| ||||| || ||||| Sbjct 1587341 TCAAGGGTGATGGTCTTTCCGGTGAGTGTTTTCACGAAGATTTGCAT 1587387 Score = 86.0 bits (94), Expect = 6e-12 Identities = 155/227 (68%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 131008 CCACCGCGCAAACGCAGCACTAAATGTATGGTCGACTCCTTTTGAATGTTGTAATCGCTC 131067 ||||| || | ||| ||||| | || | ||| |||||||| ||||||||||| || Sbjct 1586183 CCACCACGAAGACGGAGCACAAGGTGAAGGGTGGACTCCTTCTGAATGTTGTAGTCAGCA 1586242 Query 131068 ATGGTGCGCGAGTCCTCTAGCTGCTTGCCTGCGTAGATTAAACGCTGCTGGTCCGGAGGG 131127 | ||| | ||||| | ||| || |||||| |||| | | |||||| || || ||| Sbjct 1586243 AGGGTCCTTCCATCCTCCAACTGTTTCCCTGCGAAGATCAGCCTCTGCTGATCAGGTGGG 1586302 Query 131128 ATTCCTTCTTTGTCGGTGATTTTCTGCTTGAGCTGCTCCACAGTATCGGTGGACTCGATG 131187 || ||||| || || ||||| ||| | | || | ||||| | | ||| | Sbjct 1586303 ATACCTTCCTTATCCTGAATTTTGGCCTTCACATTATCAATGGTATCTGAGCTCTCCACC 1586362 Query 131188 TCGACGGTAACGGTTTTACCGGTTAGAGTTTTTACGAAAATCTGCAT 131234 || | ||| | ||| ||||| || | || || || ||||||||||| Sbjct 1586363 TCCAAGGTTATGGTCTTACCAGTCAAGGTCTTGACAAAAATCTGCAT 1586409 >seq5139 Length=1344 Score = 102 bits (112), Expect = 8e-17 Identities = 103/134 (77%), Gaps = 0/134 (0%) Strand=Plus/Minus Query 131008 CCACCGCGCAAACGCAGCACTAAATGTATGGTCGACTCCTTTTGAATGTTGTAATCGCTC 131067 ||||| | | ||| ||||| ||||| | ||| ||||||||||| |||||||||||| Sbjct 1323 CCACCATGGAGACGGAGCACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCGGCA 1264 Query 131068 ATGGTGCGCGAGTCCTCTAGCTGCTTGCCTGCGTAGATTAAACGCTGCTGGTCCGGAGGG 131127 | ||| ||| ||||| |||||||| || || | || | ||||||||||||||| ||| Sbjct 1263 AGGGTACGCCCATCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGG 1204 Query 131128 ATTCCTTCTTTGTC 131141 | ||||| || || Sbjct 1203 TTCCCTTCCTTATC 1190 >seq3 Length=31061273 Score = 98.7 bits (108), Expect = 9e-16 Identities = 158/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 131008 CCACCGCGCAAACGCAGCACTAAATGTATGGTCGACTCCTTTTGAATGTTGTAATCGCTC 131067 ||||| || | ||| ||||| ||||| | ||| ||||||||||| ||||||||||| Sbjct 12366174 CCACCACGAAGACGGAGCACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCAGCA 12366115 Query 131068 ATGGTGCGCGAGTCCTCTAGCTGCTTGCCTGCGTAGATTAAACGCTGCTGGTCCGGAGGG 131127 | ||| ||| ||||| |||||||| || || | || | |||||||||||| | ||| Sbjct 12366114 AGGGTACGCCCATCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCTGATGGG 12366055 Query 131128 ATTCCTTCTTTGTCGGTGATTTTCTGCTTGAGCTGCTCCACAGTATCGGTGGACTCGATG 131187 || ||||| || || || || ||| | | || | ||||| | ||| | Sbjct 12366054 ATCCCTTCCTTATCTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCAACT 12365995 Query 131188 TCGACGGTAACGGTTTTACCGGTTAGAGTTTTTACGAAAATCTGCAT 131234 |||| |||||||| || || || || | || || || || ||||| Sbjct 12365994 TCGAGAGTAACGGTCTTGCCTGTAAGCGCCTTAACAAAGATTTGCAT 12365948 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 471782392851840