Table 2. Four genes under positive selection identified using site-based tests.

Gene name	Gene group	M8a-M82Δl	P value (α = 0.05)	Tree length	Amino acid positions of dN/dS>1*†‡
ORF53R/myristylate membrane protein	Core	3.92	0.0478	0.16	387G (0.86)
ORF79R/putative ATPase-dependent protease	RV	5.19	0.0227	1.06	81L (0.88), 82A,† 84Q (0.89), 86L (0.81), 87V (0.83), 91S (0.88), 123L (0.85), 137R,† 140N (0.87), 146L (0.83)
ORF40R	F/A/R	4.74	0.0294	0.82	29M (0.84), 131Q,† 134A (0.88), 164T (0.83), 165V (0.81), 168L (0.83), 191T (0.88), 192P (0.86)
ORF71R	F/A/R	12.9	0.0003	0.38	19T,‡ 50M (0.94), 58I,‡ 70I†

^*Amino acid coordinates correspond to the position in the FV3 amino acid sequence. Values in parentheses refer to the PP of a site fitting into a d_N/d_S>1 class.

^†PP >0.95.

^‡PP >0.99.