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_015289.1 Length=176184 Score E Sequences producing significant alignments: (Bits) Value seq28107 159 4e-34 seq1 145 9e-30 seq6 114 1e-20 seq29563 100 3e-16 seq3 98.7 1e-15 >seq28107 Length=123132 Score = 159 bits (176), Expect = 4e-34 Identities = 161/208 (77%), Gaps = 1/208 (0%) Strand=Plus/Plus Query 165138 TTGGATTTGC-GTAGCATATAGCGCACCTGTCGCTGCTGCTGCCGCAGTTTTCCTGGTCT 165196 || || |||| || |||||| || || || || |||||| ||||||||| || ||| Sbjct 14809 TTTGAGTTGCTGTTGCATATTCAGCTCCGGTTGCAGCTGCTATTGCAGTTTTCTTGATCT 14868 Query 165197 ATCCTTTCGGTCAAGGGAGTTTCTCTGATGGTATGCCTCTTGGTATCTCTGGTACTTTTA 165256 | || | ||||| || || || || |||||||||||||| || |||||||||||||| | Sbjct 14869 ACCCAATAGGTCAGGGAAGCTTTTCAGATGGTATGCCTCTAGGAATCTCTGGTACTTTCA 14928 Query 165257 ACTATATGTTCGTCTTCCAAGCAGAACATAACATTCTTATGCATCCGTTCCACATGCTCG 165316 ||| |||| | || || || || || ||||| ||||||||||||||||| ||||| | | Sbjct 14929 ACTTTATGATTGTATTTCAGGCTGAGCATAATATTCTTATGCATCCGTTTTACATGTTAG 14988 Query 165317 GCGTTGCTGGGGTATTCGGTGGATCTCT 165344 | || ||||| |||||||| || || || Sbjct 14989 GTGTAGCTGGTGTATTCGGCGGCTCACT 15016 >seq1 Length=28142018 Score = 145 bits (160), Expect = 9e-30 Identities = 248/355 (70%), Gaps = 6/355 (2%) Strand=Plus/Plus Query 166257 GGTTGGCTCACTGGGACTACTTTCGTCACGAGTTGGTATACTCATGGACTCGCAAGCAGT 166316 |||||| |||| || || || || || || ||||||||||||||| | ||||| Sbjct 23237501 GGTTGGTTCACAGGTACCACCTTTGTAACTTCATGGTATACTCATGGATTGGCAAGTTCC 23237560 Query 166317 TATCTGGAGGGTGCAAACTTTCTTACTGCGGCAGTTTCTACTCCAGCAGATGCTATGGGT 166376 ||| |||| ||| ||||| | ||||||||||| |||||||| | || | | | Sbjct 23237561 TATTTGGAAGGTTGTAACTTCTTAACTGCGGCAGTCTCTACTCCTGTTAATAGTTTAGCA 23237620 Query 166377 CATTCTCTACTTCTTCTCTGGGGTCCTGAGGCTCAAGGGGATTT--CGTCAGGTGGTGCC 166434 |||||| | | | || ||||||||| | || || | ||||| ||| | ||||| | Sbjct 23237621 CATTCTTTGTTGTTACTGTGGGGTCCTAAAGCACATGAAGATTTTACGT--GTTGGTGTC 23237678 Query 166435 AACTTGGAGGGCTTTGGGCCTTTGTTGCTCTCCACGGTGCTTTTGCCCTAATTGGTTTCA 166494 || | || || | ||| | ||||||||||| ||||||||||| | |||| ||||| | Sbjct 23237679 AATTAGGTGGTATGTGGACTTTTGTTGCTCTTCACGGTGCTTTCGGATTAATAGGTTTTA 23237738 Query 166495 TGCTTCGGCAGTTTGAAATCGCTCG-TCTAGTAGGTATTCGTCCGTACAATGCAATCGCT 166553 || | || || |||||| | ||| | ||| || | || || || ||||||||| | Sbjct 23237739 TGTTACGTCAATTTGAACTTGCTTGATCT-GTTCAATTGCGGCCTTATAATGCAATCACA 23237797 Query 166554 TTTTCTGGTCCTATTGCTGTCTTCGTTAGTGTCTTTCTCATCTACCCTCTGGGTC 166608 || || ||||| | || ||| || ||| ||| || || || || || | |||| Sbjct 23237798 TTCTCCGGTCCAAGTGTTGTTTTTGTTTATGTATTCCTGATTTATCCACAAGGTC 23237852 >seq6 Length=22682783 Score = 114 bits (126), Expect = 1e-20 Identities = 143/195 (73%), Gaps = 2/195 (1%) Strand=Plus/Plus Query 164857 TTTATTACTGCATTCATCGCTGCTCCCCCTGTGGACATTGATGGTATTCGTGAACCTGTC 164916 ||||||| | ||||| ||||| || || || ||||||||| |||||| |||| Sbjct 2047970 TTTATTATCACTTTCATTGCTGCCCCTTTAGTAGATATTGATGGT--TCGTGAGTCTGTT 2048027 Query 164917 GCAGGTTCTCTAATGTACGGTAACAACATCATCTCTGGTGCTGTCGTTCCGTCTTCTAAC 164976 | || |||||| | ||||| ||||| || || | |||||| | | || ||||| Sbjct 2048028 TCTGGATCTCTACTTTACGGAAACAATATAATTTTTGGTGCCATTATCCCTACTTCTGCG 2048087 Query 164977 GCAATCGGACTTCACTTCTATCCTATTTGGGAAGCTGCAACCATGGATGAATGGTTGTAC 165036 || ||||| | ||||| || || || |||||||||||| || | ||||| | ||| ||| Sbjct 2048088 GCTATCGGTTTGCACTTTTACCCAATATGGGAAGCTGCATCCGTTGATGAGTTGTTATAC 2048147 Query 165037 AACGGTGGTCCTTAC 165051 ||||| ||||||||| Sbjct 2048148 AACGGCGGTCCTTAC 2048162 Score = 86.0 bits (94), Expect = 7e-12 Identities = 142/201 (71%), Gaps = 13/201 (6%) Strand=Plus/Minus Query 164852 TTTGT-TTTATTACTGCATTCATCGCTGCTCCCCCTGTGGACATTGATGGTATTCGTGAA 164910 ||||| ||||||| ||| ||||| ||||| |||| || ||||||||| |||||| Sbjct 2027079 TTTGTATTTATTATTGCTTTCATTGCTGC---CCCTTCAGATATTGATGGT--TCGTGAG 2027025 Query 164911 CCTGTCGCAGGTTCTCTAATGTACGGTAACAACATCATCTCTGGTGCTGTCGTTCCGTCT 164970 |||| | | |||||| | ||| ||||| || || |||||||| | |||| || Sbjct 2027024 TCTGTTTCTGAATCTCTACTTTACCAAAACAATATAATTTCTGGTGCCATTATTCCTACT 2026965 Query 164971 TCTAACGCAATCGGACTTCACTTCTATCCTATTTGGGAAGCTGCAACCATGGATGAATGG 165030 ||| || ||||| ||||| || | | |||||||||| | | ||||| ||| Sbjct 2026964 TCTGCGGCTATCGGTTCACACTTTTACCTGGTATGGGAAGCTG----CGTTGATGAGTGG 2026909 Query 165031 TTGTACAACGGTGGTCCTTAC 165051 || |||||| ||||||||| Sbjct 2026908 TTATACAAC---GGTCCTTAC 2026891 >seq29563 Length=4854 Score = 100 bits (110), Expect = 3e-16 Identities = 87/108 (81%), Gaps = 0/108 (0%) Strand=Plus/Plus Query 165205 GGTCAAGGGAGTTTCTCTGATGGTATGCCTCTTGGTATCTCTGGTACTTTTAACTATATG 165264 ||||| || || || || |||||||||||||| || ||||| |||||||| |||| |||| Sbjct 4292 GGTCAGGGAAGCTTTTCAGATGGTATGCCTCTAGGAATCTCCGGTACTTTCAACTTTATG 4351 Query 165265 TTCGTCTTCCAAGCAGAACATAACATTCTTATGCATCCGTTCCACATG 165312 | || || || | || ||||| |||||||||||||| || |||||| Sbjct 4352 ATTGTATTTCAGGTTGAGCATAATATTCTTATGCATCCATTTCACATG 4399 >seq3 Length=31061273 Score = 98.7 bits (108), Expect = 1e-15 Identities = 86/107 (80%), Gaps = 0/107 (0%) Strand=Plus/Minus Query 166978 TTGGTCTTGCTCTCAACCTTCGTGCTTATGACTTTGTTTCCCAAGAACTAAGGGCAGCAG 167037 ||||||| || || ||||| ||||| |||||||||||||| |||||| | | |||| | Sbjct 10151963 TTGGTCTGGCCCTGAACCTACGTGCCTATGACTTTGTTTCTCAAGAAATCCGCACAGCGG 10151904 Query 167038 AGGATCCTGAGTTTGAAACCTTCTATACCAAGAACATTCTCTTGAAT 167084 | |||||||| ||||| || ||||| ||||| || ||| |||| ||| Sbjct 10151903 AAGATCCTGAATTTGAGACTTTCTACACCAAAAATATTATCTTAAAT 10151857 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 563385656026240