Table 1.

CODEML model 8 vs 7 comparison for rps5 and atpI and positively selected sites.

Gene	Model	Log-likelihood	2Δ (in L)	p-value	Positively selected sites	Tree length
rps5	M7	− 6,492.11
	M8	− 6,275.91	432.4	1.28e–94	3 T, 7 K , 8 T, 9 N, 10R, 11I, 14C, 15 N, 24S, 25 N, 28 N, 29 W, 31 W, 33 R, 34 N, 35 W, 36 N, 37C, 40C, 42F, 45 K, 48S, 50 N, 51S, 52S, 53Y, 54 N, 55I, 57S, 58 T, 59C, 60C, 61L, 63Y, 64Y, 65 T, 66C, 67Y, 70R, 71G, 74R, 75 W, 76C, 77S, 78 N, 79S, 80I, 82C, 83R, 84Y, 87 N, 92I, 97S, 98C, 99 N, 100 W, 101F, 102I, 104 N, 105I, 107 K, 108 P, 109S	14.81
atpI	M7	− 9,013.33
	M8	− 8,757.67	511.32	9.30e−112	1 K, 10L, 11 V, 13Y, 15 V, 18Y, 21Q, 22E, 23L, 24 K, 25I, 27L, 28 M, 30G, 36L, 37H, 38I, 39L, 41L, 43I, 48F, 53Y, 54H, 55I, 56 V, 57L, 63 V, 65I, 67 V, 68Q, 69F, 70L, 75Q, 77 V, 79Q, 80L, 81Q, 82L, 86L, 87L, 89R, 92P, 101D, 102 V, 104L, 107 M, 108L, 109 T, 110Q, 123L, 132, 133E, 136P, 139L, 140L, 142R, 144Y, 150Y, 151D, 154P, 163L, 164P, 166H, 170H	10.92

Bayes Empirical Bayes (BEB) was used to calculate posterior probabilities and only those with Prob(ω > 1) > 0.99 were shown. The p-value was calculated with degree of freedom equals to 2.