TABLE 2.

Five candidate genes show an indication of positive selection on the basis of polymorphism surveys

Gene	Chromosome	N	bp Riv	π	θ	Taj. D	F&L D*	bp sim&Riv	F&L D	F&W H
Candidate genes
CG10200	2R	25	1390	0.0029	0.0044	−1.19	−0.43	847	−0.99	−2.64
CG5106	3R	34	1071	0.0042	0.0069	−1.37	−1.26	857	−0.19	−18.52***
CG5273	X	28	1765	0.0005	0.0016	−2.14**	−2.98*	1181	−2.09*	0.58
CG9897	2R	36	840	0.0103	0.0089	0.56	1.54*	840	1.73	−3.35
CG13004	X	36	975	0.0023	0.0035	−1.05	0.21	624	−0.76	−0.83
CG17108	2L	29	1166	0.0011	0.0018	−1.16	−0.56	1123	−0.66	−3.45*
CG17012	2L	37	902	0.0041	0.0043	−0.14	−0.02	869	−0.19	−2.86
CG8453	2R	28	1974	0.0017	0.0017	−0.09	−0.66	1951	−0.89	−5.93**
CG5976	3L	37	1530	0.0009	0.0014	−1.17	−1.71	1528	−1.22	−1.44
Neutral loci
CG12191	3L	30	446	0.0047	0.0057	−0.75	−0.75	443	−0.68	0.48
CG1124	3R	29	488	0.0016	0.0008	−1.18	−1.46	488	−1.55	−1.16
CG11105	X	42	679	0.0044	0.0041	0.22	−1.11	679	−1.23	−0.91
CG33554	2R	18	499	0.0054	0.0041	1.12	1.31	463	1.14	1.01
CG3022	2L	32	517	0.0017	0.0029	−1.41	−1.14	516	−1.26	0.63

N, number of isofemale lines analyzed for each gene; bp Riv, number of base pairs from Riverside sequences used for Taj. D and F&L D* analyses (excludes sites with gaps or missing data); π and θ, nucleotide diversity; Taj. D, Tajima's D; F&L D*, Fu and Li's D* (without an outgroup sequence); bp sim&Riv, number of base pairs from data set with D. melanogaster Riverside sequences and D. simulans sequence used for F&L D and F&W H (excludes sites with gaps or missing data); F&L D, Fu and Li's D (with D. simulans sequence as an outgroup); F&W H, Fay and Wu's H (with D. simulans sequence as an outgroup). *P < 0.05, **P < 0.01, ***P < 0.001.