TABLE 1

Basic statistics for data sets analyzed in this article

Data setsnκωSPS
D1: mitochondrial gene from hominoids7333114.250.0412.79Y
D2: β-globin gene from vertebrates171442.070.2377.12Y
D3: Drosophila alcohol dehydrogenase (adh) gene232541.580.0944.20N
D4: flavivirus E-glycoprotein gene224903.940.05212.36N
D5: human influenza virus A hemagglutinin (HA) gene283294.620.3910.85Y
D6: HIV-1 vif gene291923.720.6442.88Y
D7: HIV-1 po1 gene239474.890.1961.18Y
D8: Japanese encephalitis env gene235009.520.0512.54N
D9: tick-borne flavivirus NS-5 gene183422.250.02526.13N
D10: HIV-1 env gene V3 region13912.470.9011.76Y
  • s, number of sequences; n, number of codons in the sequence; κ, transition/transversion rate ratio (α/β in the notation of Kimura 1980); ω, nonsynonymous/synonymous rate ratio, averaged over sites (dN/dS); S, tree length, measured by the number of nucleotide substitutions along the tree per codon; PS, positive selection; Y, yes; N, no.