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Table 4 Parameter estimates for PAML models

From: Spatial, temporal and genetic dynamics of highly pathogenic avian influenza A (H5N1) virus in China

Group Model Parameter estimates Sites* with ω > 1, ω (SE)
II 2005-2006 M7 (β) p = 0.19, q = 0.64  
  M8 (β & ω) p = 0.63, q = 2.96, f0 = 0.97 145, 1.379 (0.763)
   ω = 2.56, f1 = 0.03 154, 1.34 (0.765)
    156, 1.748 (0.571)
    157, 1.313 (0.765)
    171, 1.409 (0.714)
    172, 1.749 (0.571)
    178, 1.653 (0.636)
    204, 1.429 (0.712)
    205, 1.517 (0.702)
II 2006-2007 M7 (β) p = 0.16, q = 0.60  
  M8 (β & ω) p = 1.81, q = 13.43, f0 = 0.93 61, 1.229 (0.634)
   ω = 1.61, f1 = 0.07 136, 1.506 (0.584)
    145, 1.288 (0.687)
    154, 1.252 (0.688)
    156*, 1.701 (0.454)
    157, 1.211 (0.688)
    170, 1.507 (0.585)
    171, 1.496 (0.588)
    172, 1.632 (0.516)
    178, 1.504 (0.585)
    199, 1.202 (0.63)
    200, 1.358 (0.637)
    204, 1.268 (0.637)
    205, 1.371 (0.636)
  1. p and q are parameters of the β distribution. f is the proportion of sites assigned to an individual ω (= dN/dS) category or to a β distribution with shape parameters p and q, f1 = 1 – f0. Sites inferred under selection at the 90% level are listed in bold, and those at the 95% level are marked with an asterisk.