Selected article for: "Supplementary Table s1 and Table s1"
Author: Tuplin, A.; Evans, D. J.; Buckley, A.; Jones, I. M.; Gould, E. A.; Gritsun, T. S.
Title: Replication enhancer elements within the open reading frame of tick-borne encephalitis virus and their evolution within the Flavivirus genus
  • Document date: 2011_5_27
    • ID: 0aiaklrn_8
    Snippet: Genbank accession numbers for sequences from all four groups of flaviviruses (TBFV, MBFV, NKV and PABV) used for in silico analysis are listed in Supplementary Table S1 . RNA nucleotide sequences were aligned using ClustalX (29) and then edited manually. Nucleotide and dinucleotide scans and analysis of suppression of synonymous site variability (SSSV) were determined by mean pair-wise distance comparison at each codon within the ORF using the S.....
    Document: Genbank accession numbers for sequences from all four groups of flaviviruses (TBFV, MBFV, NKV and PABV) used for in silico analysis are listed in Supplementary Table S1 . RNA nucleotide sequences were aligned using ClustalX (29) and then edited manually. Nucleotide and dinucleotide scans and analysis of suppression of synonymous site variability (SSSV) were determined by mean pair-wise distance comparison at each codon within the ORF using the Simmonics 1.6 package (http://www.picornavirus.org/), as previously described (30) . SSSV was calculated only at aligned codon positions in which over 40% of sequence comparisons were synonymous and averaged over a sliding window of 21 codons; consequently, data point are only produced from codon 11.

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