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. 2016 Jun 7;6:27605. doi: 10.1038/srep27605

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Copyright © 2016, Macmillan Publishers Limited

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Complete open reading frame (ORF) and NS5 gene conserved region alignments of different Tembusu virus (TMUV) strains using the mVISTA method (A) and ClustalW method (B). (A,B) Illustrate the alignment results of the YY5 strain in comparisons with 12 TMUV reference strains (CJD05, FJMH220, GS-PT-7, JS2010, LD2010, XHZD2010, JM, SDXT, JX2, AHQY, DF-2, and CQW1) retrieved from GenBank (accession number is presented after the strain name). Areas in pink (A) exhibit ≥99% similarity and areas in white display <99% similarity. Areas in dark blue (A) denote the region for LAMP primer design. Areas in light blue color (B) represent single nucleotide differences. Six primers targeting various regions are shown according to the alignment result.