. 2019 May 15;9(7):2303–2315. doi: 10.1534/g3.119.400224

Table 2. Amino acid sites under positive selection detected by ML methods.

Gene	Site Position	PAML	Datamonkey			TreeSAAP
Gene	Site Position	M8^a	SLAC^b	FEL^c	REL^d	Radical Changes in AA Properties^e	Total
*GSTA1*	36	√		√	√	P_α, c, pHi, α_c, P	5
	49	√	√	√	√	N_s, R_F, P_c, h, F, p, R_a, P	8
	96	√	√	√	√	pK’, F, R_a, H_p, H_t, P	4
	100	√		√		—	0
	103	√		√	√	p	1
	121	√	√	√	√	pK’, R_a, H_t	3
	208	√			√	P_α, P_c, pK’, F, P	5
	212	√			√	—	0
	215	√	√	√	√	B_r, R_F, h, pHi, H_nc, p, α_c, E_t	8
	222	√	√	√		pK’	1
*GSTM1*	107	√	√	√	√	N_s, R_F, h, p, P	5
*GSTO1*	23		√	√	√	B_r, B_l, R_F, P_c, h, F, p, E_t, P	9
	47		√	√	√	—	0
	69	√			√	K⁰, F, P	3
	125	√		√		α_c	1
	127	√	√	√	√	pK’	1
	128	√	√	√	√	N_s, B_r, B_l, R_F, P_c, h, F, p, E_l, R_a, H_p, H_t, E_t, P	14
	216	√			√	N_s, B_r, R_F, P_c, h, F, p, K⁰, H_nc, E_l, α_c, α_n, E_sm, E_t, P	15
	226	√			√	pK’	1
	227	√			√	P_α, pHi, P	3
*GSTO2*	14	√		√	√	P_α	1
	23		√	√	√	—	0
	43	√	√	√	√	N_s, α_n, pHi, B_r, R_F, h, H_nc, p, E_sm, E_t	10
	141	√			√	P_α, P_c, P	3
	164	√	√	√	√	N_s, P_c, F, R_a, P	5
*GSTP1*	12	√	√			P_c_, K⁰, pHi, α_c	4
	40		√	√	√	P_α, B_r, P_c, h, F, p, E_t, P	8
*GSTP2*	11	√				P_α, P_c_, α_n, R_a, P	5
	12	√	√	√	√	K⁰, pHi, α_c	3
	76		√	√	√	—	0
	111	√	√	√		N_s, pHi, E_sm	3
	121		√	√		h, pHi, p	3
*GSTT2*	25		√	√		α_c, P_r, E_t, pHi, E_sm	5
	80		√	√		P_α	1
	237	√		√		—	0
*GSTZ1*	71		√	√		B_l, P_c_, F, α_m, P	5
	125		√	√	√	K⁰, P_c	2
	137	√			√	—	0

Sites detected under selection in M8 with posterior probabilities > 80% in the BEB analyses.

Codons with P values < 0.2.

Codons with Bayes factors > 50.

Radical changes in amino acid properties under category 6-8 were detected in TreeSAAP. Physicochemical amino acid properties available in TreeSAAP are as following: α_c: Power to be C-term., α-helix; α_n: Power to be in the N-terminal of an α-helix; B_r: Buriedness; C_a: Helical contact energy; E_l: Long-range non-bonded energy; E_sm: Short and medium range non-bonded energy; E_t: Total non-bonding Energy; F: Mean r.m.s. fluctuation displacement; h:Hydropathy; H_nc: Normal consensus hydrophobicity; H_p: Surrounding hydrophobicity; H_t: Thermodynamic transfer hydrophobicity; K^o: Compressibility; µ: Refractive index; M_v: Molecular volume; M_w: Molecular weight; N_s: Average number of surrounding residues; P_α: α- helical tendencies; P_β: β-structure tendencies; P_c: Coil tendencies; P: Turn tendencies; p: Polarity; pH_i: Isoelectric point; pK’: Equilibrium Constant of ionization for COOH; P_r: Polar requirement; R_a: Solvent accessible reduction ratio; R_F: Chromatographic index; V⁰: Partial specific volume.