Likelihood ratio tests for positive selection on specific sites by PAML and HyPhy.

#seq, number of nucleotide sequence entries used in the multi-alignments. Length, nucleotide sequence length in alignment. PSS, positive-selected site, predicted by FEL with cutoff of P<0.05, REL with cutoff of P>0.90 or BEB posterior probability (in M8 by PAML) of P>0.90. p1 is proportion of sites in the class with ω>1 and ω1 is the estimate of ω for that class. Numbers in parentheses are codon positions in the alignment. Df, degree of freedom in the LRT. Only significant P values in the LRT are presented in bold.*, positive selected sites predicted by different methods are overlapping.