TABLE 2.

Polymorphism and divergence along the D. melanogaster and D. simulans branches by previously described domains for the four DCC genes exhibiting adaptive protein evolution

			D. melanogaster branch					D. simulans branch
Gene	Domain	Codon position	π (N)	π (S)	dN	dS	dN/dS	dN	dS	dN/dS
mle	RNA binding	2–70	0.0000	0.0000	0.019	0.040	0.48	0.000	0.083	0.00
	Helicase/ATP binding	394–560	0.0000	0.0020	0.011	0.014	0.79	0.008	0.069	0.12
	C-terminal helicase	639–813	0.0000	0.0000	0.005	0.290	0.19	0.003	0.022	0.12
	Extradomain		0.0002	0.0006	0.001	0.046	0.21	0.016	0.059	0.28
mof	Chromodomain	395–450	0.0000	0.0100	0.000	0.180	0.00	0.010	0.019	0.51
	HAT-Zn	575–760	0.0000	0.0000	0.002	0.090	0.03	0.002	0.110	0.02
	Extradomain		0.0040	0.0060	0.027	0.072	0.26	0.012	0.057	0.21
msl1	X-binding	1–26	NA	NA	0.080	0.065	1.3	0.000	0.000	0.00
	Glycine rich	26–74	0.0000	0.0000	0.070	0.050	1.5	0.019	0.012	0.26
	LZ/apolar/coiled coil	113–159	0.0000	0.0180	0.070	0.100	0.67	0.000	0.190	0.00
	MOF interaction site	766–939	0.0000	0.0030	0.018	0.019	0.01	0.000	0.000	0.00
	MSL3 interaction site	973–1039	0.0000	0.0060	0.015	0.017	0.08	0.000	0.000	0.00
	Extradomain		0.0020	0.0060	0.028	0.071	0.39	0.021	0.053	0.16
msl2	Cysteine rich	521–561	0.0000	0.0210	0.000	0.000	0.00	0.000	0.065	0.00
	Extradomain		0.0040	0.0220	0.035	0.120	0.29	0.011	0.060	0.17
msl3	CBD	35–72	0.0000	0.0070	0.000	0.150	0.00	0.000	0.031	0.00
	Polar region	72–151	0.0020	0.0140	0.012	0.006	2.00	0.005	0.100	0.05
	MRG	200–480	0.0020	0.0300	0.009	0.073	0.12	0.004	0.000	NA
	Extradomain		0.0020	0.0400	0.040	0.120	0.34	0.003	0.110	0.03

d, divergence; N, nonsynonymous; S, synonymous; extradomain, region outside currently annotated domains.