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_003391.1 Length=205719 Score E Sequences producing significant alignments: (Bits) Value seq28226 208 1e-48 seq2 199 5e-46 seq3 93.3 6e-14 seq4 86.0 8e-12 >seq28226 Length=90112 Score = 208 bits (230), Expect = 1e-48 Identities = 461/687 (67%), Gaps = 6/687 (1%) Strand=Plus/Minus Query 35866 TTTTTGGTATTCACCCACACGTTTTTCGAAAAAATTAGTTTTACCTTCTAATGATATATT 35925 ||| || ||||| || || || || || ||||| |||||||| || | | || || Sbjct 35086 TTTCTGATATTCCCCAACGCGCTTCTCAAAAAAGTTAGTTTTCCCCTGAAGCGAAATCAA 35027 Query 35926 TTCCATGAAATCGAATGGATTGATAACATTATAAAtttttttAAATCCCAATTCAGAAAT 35985 ||||| |||| || ||||| ||||||||||||||| | | | || | ||| | | Sbjct 35026 ATCCATCCAATCAAAAGGATTCTGAACATTATAAATTTTCTCACAACCAAGCTCACACAA 34967 Query 35986 CAATCTATCTGCGACAAATTCTATATATGTTTTCATCATTTCACAATTCATTCCTAT--A 36043 ||| ||||| || ||||| || ||||| |||||| |||| ||||||||| | | Sbjct 34966 CAACCTATCAGCAACAAACTCAATATACTGACTCATCAAATCACCATTCATTCCAACCAA 34907 Query 36044 AGTTTAACTGGAAGAGCCACAGTAAGAAATTCTTGTTCAATAGAGACCGCGTCTGTTATA 36103 || || ||||| || | || |||||| ||||| |||||||| | | Sbjct 34906 AGCGCAA--GGAAGCGCTTCGCAAACAAATTCCCTCTCAATCTCAACCGCGTCACGCACA 34849 Query 36104 ATAGATATTACTGTTTCTTCACTCGGTGGATACAATAAATGTTTAAACATCAAACATGCG 36163 || | | || ||||||||| || || | ||| | | | |||||||| || Sbjct 34848 ATTGTCTTCACACGCTCTTCACTCAGTTTATTCCTCAAAAGCGAATAAATCAAACAGGCA 34789 Query 36164 AAATCGCAGTGTAGACCCTCGTCTCTACTAATTAATTCGTTGGAAAACGTGAGTCCGGGC 36223 |||||||| || || || ||||| | ||| | || || ||||| || | || ||| Sbjct 34788 AAATCGCAATGAAGTCCTTCGTCGCGTGAAATAAGCTCATTTGAAAAAGTTAAACCAGGC 34729 Query 36224 ATTAGGCCACGCTTTTTAAGCCAAAATATGGACGCA-AATGATCCAGAAAAGAAAATTCC 36282 |||| ||||| |||||||||||||| || | | || || |||||| || || || || Sbjct 34728 ATTAAACCACGTTTTTTAAGCCAAAAAATTG-CACAGAAACTTCCAGAGAAAAATATACC 34670 Query 36283 TTCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCACTGTCATGTATCCACTT 36342 ||| || ||||| |||| | || || || | || || ||||| || Sbjct 34669 TTCAACACAAGCAAAAGCAACGATCCTTTCAGCAAATGAATCAGATGAATCGATCCATTT 34610 Query 36343 TTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATTGTCTCTATAGCATTAAAGAGATA 36402 ||||||||| || |||||| | | |||||| || ||||| || || | ||| | | Sbjct 34609 CATAGCCCAATCAGCTTTCTTTGTAATACAAGGAATAGTCTCAATCGCGTGAAACAAACG 34550 Query 36403 GtttttttCATTACTATCTTTAACATATGTATCAATCAAAAGACTATACATTTCCGAATG 36462 || || ||| | ||| | | ||| || |||||||| ||||||||||| || ||||| Sbjct 34549 ATTCTTCTCAACAGAATCATGGATATAAGTTTCAATCAAGAGACTATACATCTCAGAATG 34490 Query 36463 AATGTTTTCAATGGCCATTTGAAATCCGTAGAAACATCTAGCCTCGGTAATCTGTACTTC 36522 ||| || || || || || || |||||||||||| | ||||| | | || ||||| Sbjct 34489 AATATTCTCGATCGCAATCTGGAATCCGTAGAAAGCACGCGCCTCTGATACTTGAACTTC 34430 Query 36523 TGTACAAAATCGTTCTGCTAAATTTTC 36549 | | |||| | |||| | ||| || Sbjct 34429 TTTCATGAATCTTCCTGCAAGATTCTC 34403 Score = 86.0 bits (94), Expect = 8e-12 Identities = 89/117 (76%), Gaps = 0/117 (0%) Strand=Plus/Minus Query 36617 GTTAGTTTATTCCAATCATTGATATCTTTAGATATATCCACTTCTTCCACTGTCCAAAAT 36676 ||||| || ||||| | || ||||| |||| ||| |||||||| | ||||| ||| Sbjct 34231 GTTAGGTTGTTCCAGTGATGAGGATCTTCCGATAAATCGACTTCTTCGGCGGTCCAGAAT 34172 Query 36677 GATGCCTCTGCCTTTTTATACATATTCCAGATGTCATGATATTGAATTGGAAAAATA 36733 || || ||||| ||||| ||||| | |||||| | | | ||||||||||| || ||| Sbjct 34171 GAAGCTTCTGCTTTTTTGTACATTTCCCAGATTTTAGGGTATTGAATTGGGAACATA 34115 >seq2 Length=32560536 Score = 199 bits (220), Expect = 5e-46 Identities = 425/633 (67%), Gaps = 4/633 (1%) Strand=Plus/Minus Query 35866 TTTTTGGTATTCACCCACACGTTTTTCGAAAAAATTAGTTTTACCTTCTAATGATATATT 35925 ||| || || || || || || || || ||||| |||||||| || | | || || Sbjct 19587690 TTTCTGATACTCCCCAACGCGCTTCTCAAAAAAGTTAGTTTTCCCCTGAAGCGAAATCAA 19587631 Query 35926 TTCCATGAAATCGAATGGATTGATAACATTATAAAtttttttAAATCCCAATTCAGAAAT 35985 |||||| |||| || ||||| ||||||||||||||| | | || | ||| | Sbjct 19587630 TTCCATCCAATCAAAAGGATTCTGAACATTATAAATTTTCCCACAACCAAGCTCACCCAA 19587571 Query 35986 CAATCTATCTGCGACAAATTCTATATATGTTTTCATCATTTCACAATTCATTCCTAT--A 36043 || ||||| || ||||| || ||||| |||||| ||||| |||||||| | | Sbjct 19587570 TAACCTATCAGCAACAAACTCAATATACTGACTCATCAATTCACCGTTCATTCCAACCAA 19587511 Query 36044 AGTTTAACTGGAAGAGCCACAGTAAGAAATTCTTGTTCAATAGAGACCGCGTCTGTTATA 36103 || || ||||| || || || ||||||| ||||| ||||| || | | Sbjct 19587510 AGCACAA--GGAAGCGCTTCACAAACAAATTCTCTCTCAATCTCAACCGCATCACGGACA 19587453 Query 36104 ATAGATATTACTGTTTCTTCACTCGGTGGATACAATAAATGTTTAAACATCAAACATGCG 36163 |||| | | || |||||||| || | ||| | | | | ||||| ||| Sbjct 19587452 ATAGTTTTCACACGCTCTTCACTAAGTTTCTTTCTCAAAAGCGAATAAAGTAAACAAGCG 19587393 Query 36164 AAATCGCAGTGTAGACCCTCGTCTCTACTAATTAATTCGTTGGAAAACGTGAGTCCGGGC 36223 ||||| || || ||||| ||||| | ||| | ||||| ||||| || | || ||| Sbjct 19587392 AAATCACAATGAAGACCTTCGTCACGTGAAATAAGCTCGTTTGAAAAAGTTAAACCAGGC 19587333 Query 36224 ATTAGGCCACGCTTTTTAAGCCAAAATATGGACGCAAATGATCCAGAAAAGAAAATTCCT 36283 |||| ||||| ||||||||||| || || | ||| ||||||||| || || ||| Sbjct 19587332 ATTAAACCACGTTTTTTAAGCCAGAAAATTGCACAAAAACTTCCAGAAAAAAATATACCT 19587273 Query 36284 TCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCACTGTCATGTATCCACTTT 36343 || || ||||| |||| | ||| || || | || || ||||| || Sbjct 19587272 TCAACACAAGCAAAAGCAACGATTCTTTCAGCAAATGAATCAGATGAATCGATCCATTTC 19587213 Query 36344 TGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATTGTCTCTATAGCATTAAAGAGATAG 36403 ||||||||| || ||||| | ||| || || ||||| || |||| ||| | | Sbjct 19587212 ATAGCCCAATCAGCTTTCTTCGCGATACACGGAATCGTCTCAATTGCATGAAACAAACGA 19587153 Query 36404 tttttttCATTACTATCTTTAACATATGTATCAATCAAAAGACTATACATTTCCGAATGA 36463 || || ||| || ||| || | ||| || |||||||| ||||||||||| || |||||| Sbjct 19587152 TTCTTCTCAATAGAATCATTGATATAAGTTTCAATCAAGAGACTATACATCTCAGAATGA 19587093 Query 36464 ATGTTTTCAATGGCCATTTGAAATCCGTAGAAA 36496 || ||||| || || || || || ||||||||| Sbjct 19587092 ATATTTTCGATCGCGATCTGGAAACCGTAGAAA 19587060 >seq3 Length=31061273 Score = 93.3 bits (102), Expect = 6e-14 Identities = 143/204 (70%), Gaps = 0/204 (0%) Strand=Plus/Minus Query 66215 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 66274 |||||||||||| | || | || |||| ||| | || | ||||||||||| |||||| Sbjct 3456869 TCCTCCCTGATCAACATAACGGGCAGTGTCATTGAACACACGCAACATTGGAACAATACC 3456810 Query 66275 ATTGGATGTACCATTGGTCCCGGAGATATAGCTTCCACTTGCACGAATATTACTAATTGA 66334 ||| || || ||||| || ||| || || || ||| ||||| || ||| || || Sbjct 3456809 ATTAGAAGTCCCATTTGTTCCGCGAATGTAACTGCCATAGGCACGTATGTTATGAACAGA 3456750 Query 66335 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGAT 66394 | ||| ||||| ||||| |||| || | || || || || ||||| || || Sbjct 3456749 AACACCAATTCCTCCTGCAGATTTACTAATAACAGCACACTCCTTCAATGTATCGTAAAT 3456690 Query 66395 GCCCTCTATACTATCATCCATCAT 66418 ||||| |||||||| || |||| Sbjct 3456689 CCCCTCAATACTATCCTCTTTCAT 3456666 Score = 84.2 bits (92), Expect = 3e-11 Identities = 139/198 (70%), Gaps = 2/198 (1%) Strand=Plus/Minus Query 66456 GTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGAAAGTAGATTG 66515 ||||| ||||| || | || |||||||| || ||||||||| | | ||| | | || Sbjct 3456535 GTTCCAGCATTGAAAAGAGTTGGAGAAGCATGAGTAAACCATCTCTGAGACATCAAATGA 3456476 Query 66516 TACGTCTCAATAGCTGAGTCTATATCCCATTGATGAATTCCTACTGCGACACGCATTAAC 66575 || || | | ||| || || ||||| | ||||||||| || | || | ||||||| Sbjct 3456475 TAAGTTTTGACAGCAGATTCAATATCATCCTTATGAATTCCAACAGAAACCCTCATTAAC 3456416 Query 66576 ATGTGCTGAGGTCTTTCAACGATCTTGTTGTT-TATTTTCAACAAGTAGGATTTTTCCAA 66634 || || ||||||||||| || | ||| | || | |||||||| || || | || | Sbjct 3456415 ATATGTTGAGGTCTTTCCAC-AACTTCTCCTTGAACTTTCAACAGATAAGACCTCTCAAG 3456357 Query 66635 AGTTTTAAAACCAAAATA 66652 ||||| || ||||| || Sbjct 3456356 GGTTTTGAATCCAAAGTA 3456339 >seq4 Length=28907061 Score = 86.0 bits (94), Expect = 8e-12 Identities = 77/97 (79%), Gaps = 0/97 (0%) Strand=Plus/Minus Query 36158 CATGCGAAATCGCAGTGTAGACCCTCGTCTCTACTAATTAATTCGTTGGAAAACGTGAGT 36217 || || ||||| ||||| ||||||||||||||| |||| ||| || || || || || Sbjct 2895776 CAAGCAAAATCACAGTGAAGACCCTCGTCTCTAGAGATTAGTTCATTTGAGAATGTCAGA 2895717 Query 36218 CCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGG 36254 || ||||||| || | |||||||||||| ||||||| Sbjct 2895716 CCTGGCATTAATCCTCTCTTTTTAAGCCAGAATATGG 2895680 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 657851521174840