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_005179.1 Length=134721 Score E Sequences producing significant alignments: (Bits) Value seq28226 219 4e-52 seq2 178 1e-39 seq4 82.4 7e-11 >seq28226 Length=90112 Score = 219 bits (242), Expect = 4e-52 Identities = 491/732 (67%), Gaps = 9/732 (1%) Strand=Plus/Minus Query 12847 CATAACAGACATTTTTTGATATTCGCTAACTCTTTTTTCAAAAAAGTTTGTTTTTCCTTC 12906 ||||||||| ||| |||||||| | ||| | || ||||||||||| ||||| || | Sbjct 35098 CATAACAGAAGCTTTCTGATATTCCCCAACGCGCTTCTCAAAAAAGTTAGTTTTCCCCTG 35039 Query 12907 TAACGAAATATTTTCCATAAAATCGAAAGGATTTTTCGAACAATAGTATTTTTTACAC-- 12964 | |||||| ||||| |||| |||||||| | ||||| || | |||| ||| Sbjct 35038 AAGCGAAATCAAATCCATCCAATCAAAAGGATTCT--GAACATTATAAATTTTCTCACAA 34981 Query 12965 CCTAATTCTAGTAACAATCTGTCAGCAACAAACTCTATGTACTGTTTCATTAAATCACAG 13024 || | || ||||| || |||||||||||||| || ||||| |||| ||||||| Sbjct 34980 CCAAGCTCACACAACAACCTATCAGCAACAAACTCAATATACTGACTCATCAAATCACCA 34921 Query 13025 TTCATTCCTATTAATTTTACAGGCATAGCTTCTGTTAAAAAGtttttttCTATATCAACT 13084 |||||||| | || ||| | ||||| | ||| | | || || ||||| Sbjct 34920 TTCATTCCAACCAAAGCGCAAGGAAGCGCTTCGCAAACAAATTCCCTCTCAATCTCAACC 34861 Query 13085 GCTTCGATAACTATGTCTCTTATTACGTTCTCTAATG-GAGGATTTGATAGATGCTTAAA 13143 || || || || | |||| ||| ||| | | | ||| | | || | | Sbjct 34860 GCGTCACGCACAAT-TGTCTTCACACGCTCTTCACTCAGTTTATTCCTCAAAAGCGAATA 34802 Query 13144 CATCATACATGCAAAATCACAGTGCAATCCTTCATCTCTACTTATTAGCTCGTTTGAAAA 13203 |||| ||| |||||||| || || | |||||| || | || ||||| |||||||| Sbjct 34801 AATCAAACAGGCAAAATCGCAATGAAGTCCTTCGTCGCGTGAAATAAGCTCATTTGAAAA 34742 Query 13204 TGTTAGACCCGGCATAAGCCCTCGTTTTTTAATCCAAAATATAGCAGCAAACGAACCCGa 13263 |||| ||| ||||| | || |||||||||| |||||| || ||| || || || Sbjct 34741 AGTTAAACCAGGCATTAAACCACGTTTTTTAAGCCAAAAAATTGCACAGAAACTTCCAGA 34682 Query 13264 aaaaaaTATTCCTTCAACTGCTGCAAACGCTATCAACCTTTCACCATACGTACTATTTTT 13323 |||||||| |||||||| ||||| || | | ||||||| || | | | | | Sbjct 34681 GAAAAATATACCTTCAACACAAGCAAAAGCAACGATCCTTTCAGCAAATGAATCAGATGA 34622 Query 13324 ACTCTCTATCCACTTTCTGGCCCAGTTTGCTTTTTGTTTAACGCAGTTCATATTTTCTAT 13383 | || ||||| || | ||||| | ||||| | | ||| || ||| | || || Sbjct 34621 A---TCGATCCATTTCATAGCCCAATCAGCTTTCTTTGTAATACAAGGAATAGTCTCAAT 34565 Query 13384 TGCGTTAAATAAATAAtttttttCCTTACTGTCTAAAATATAAGTATCTATCAATAAGCT 13443 |||| ||| ||| ||| || || | || |||||||| || ||||| | || Sbjct 34564 CGCGTGAAACAAACGATTCTTCTCAACAGAATCATGGATATAAGTTTCAATCAAGAGACT 34505 Query 13444 ATACATTTCTGAATGAATATTTTCCATCGCTATTTGGAAACCATAAAAACATCTAGCCTC 13503 |||||| || ||||||||||| || ||||| || ||||| || || ||| | ||||| Sbjct 34504 ATACATCTCAGAATGAATATTCTCGATCGCAATCTGGAATCCGTAGAAAGCACGCGCCTC 34445 Query 13504 TGATACCTGAACTTCGGAGTAAAATCTTTCTGCTAAGTTTTCGTTAACTATCCCGTCACT 13563 |||||| |||||||| |||||| |||| | || || || || ||||| Sbjct 34444 TGATACTTGAACTTCTTTCATGAATCTTCCTGCAAGATTCTCCAAGACAATGCCGTCGGA 34385 Query 13564 AGCAGCAAAAAA 13575 ||||||||| || Sbjct 34384 AGCAGCAAAGAA 34373 >seq2 Length=32560536 Score = 178 bits (196), Expect = 1e-39 Identities = 436/655 (67%), Gaps = 21/655 (3%) Strand=Plus/Minus Query 12847 CATAACAGACATTTTTTGATATTCGCTAACTCTTTTTTCAAAAAAGTTTGTTTTTCCTTC 12906 ||||||||| ||| ||||| || | ||| | || ||||||||||| ||||| || | Sbjct 19587702 CATAACAGAAGCTTTCTGATACTCCCCAACGCGCTTCTCAAAAAAGTTAGTTTTCCCCTG 19587643 Query 12907 TAACGAAATATTTTCCATAAAATCGAAAGGATTTTTCGAACAATAGTATTTTT--TACAC 12964 | |||||| |||||| |||| |||||||| | ||||| || | |||| ||| Sbjct 19587642 AAGCGAAATCAATTCCATCCAATCAAAAGGATTCT--GAACATTATAAATTTTCCCACAA 19587585 Query 12965 CCTAATTCTAGTAACAATCTGTCAGCAACAAACTCTATGTACTGTTTCATTAAATCACAG 13024 || | || || || || |||||||||||||| || ||||| |||| || |||| | Sbjct 19587584 CCAAGCTCACCCAATAACCTATCAGCAACAAACTCAATATACTGACTCATCAATTCACCG 19587525 Query 13025 TTCATTCCTATTAATTTTACAGGCATAGCTTCTGTTAAAAAGtttttttCTATATCAACT 13084 |||||||| | || ||| | ||||| | ||| | | | || || ||||| Sbjct 19587524 TTCATTCCAACCAAAGCACAAGGAAGCGCTTCACAAACAAATTCTCTCTCAATCTCAACC 19587465 Query 13085 GCTTC---GATAACTATGTCTCTTATTACGTTCTCTAATGGAGGATTTGATAGATGCTTA 13141 || || || || || | || | ||| |||| | ||| | | || | Sbjct 19587464 GCATCACGGACAA-TAGTTTTCACACGCTCTTCACTAA--GTTTCTTTCTCAAAAGCGAA 19587408 Query 13142 AACATCATACATGCAAAATCACAGTGCAATCCTTCATCTCTACTTATTAGCTCGTTTGAA 13201 | | | ||| || |||||||| || | ||||| || | || |||||||||||| Sbjct 19587407 TAAAGTAAACAAGCGAAATCACAATGAAGACCTTCGTCACGTGAAATAAGCTCGTTTGAA 19587348 Query 13202 AATGTTAGACCCGGCATAAGCCCTCGTTTTTTAATCCAAAATATAGCAGCAAACGAACCC 13261 || |||| ||| ||||| | || |||||||||| ||| || || ||| ||| || Sbjct 19587347 AAAGTTAAACCAGGCATTAAACCACGTTTTTTAAGCCAGAAAATTGCACAAAAACTTCCA 19587288 Query 13262 GaaaaaaaTATTCCTTCAACTGCTGCAAACGCTATCAACCTTTCACCATACGTACTATTT 13321 ||||||||||| |||||||| ||||| || | | |||||| || | | | | | Sbjct 19587287 GAAAAAAATATACCTTCAACACAAGCAAAAGCAACGATTCTTTCAGCAAATGAATCAGAT 19587228 Query 13322 TTACTCTCTATCCACTTTCTGGCCCAGTTTGCTTTTT----GTTTAACGCAGTTCATATT 13377 | || ||||| || | ||||| | ||||| | | | ||| | || | Sbjct 19587227 GAA---TCGATCCATTTCATAGCCCAATCAGCTTTCTTCGCGATACACGGA----ATCGT 19587175 Query 13378 TTCTATTGCGTTAAATAAATAAtttttttCCTTACTGTCTAAAATATAAGTATCTATCAA 13437 || ||||| | ||| ||| ||| || || || || |||||||| || ||||| Sbjct 19587174 CTCAATTGCATGAAACAAACGATTCTTCTCAATAGAATCATTGATATAAGTTTCAATCAA 19587115 Query 13438 TAAGCTATACATTTCTGAATGAATATTTTCCATCGCTATTTGGAAACCATAAAAA 13492 | |||||||| || |||||||||||||| ||||| || |||||||| || ||| Sbjct 19587114 GAGACTATACATCTCAGAATGAATATTTTCGATCGCGATCTGGAAACCGTAGAAA 19587060 >seq4 Length=28907061 Score = 82.4 bits (90), Expect = 7e-11 Identities = 80/103 (78%), Gaps = 0/103 (0%) Strand=Plus/Minus Query 13147 CATACATGCAAAATCACAGTGCAATCCTTCATCTCTACTTATTAGCTCGTTTGAAAATGT 13206 ||| || |||||||||||||| | || || |||||| ||||| || ||||| ||||| Sbjct 2895780 CATGCAAGCAAAATCACAGTGAAGACCCTCGTCTCTAGAGATTAGTTCATTTGAGAATGT 2895721 Query 13207 TAGACCCGGCATAAGCCCTCGTTTTTTAATCCAAAATATAGCA 13249 ||||| ||||| | |||| ||||||| ||| ||||| ||| Sbjct 2895720 CAGACCTGGCATTAATCCTCTCTTTTTAAGCCAGAATATGGCA 2895678 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 430777280795502