Fig. 3

Frequency distribution of lab-specific (red), wild-caught (green), and neutrally simulated derived (between dotted lines) SNPs across various evolutionary parameters. a Mean Grantham score per replacement substitution. b Mean replacement/silent (R/S) ratio per SNP per individual. c Mean ratio of the number of first codon position (C1) SNPs to the number of second and third codon position (C2+C3) SNPs. d Mean proportion of non-preferred to preferred (N2P) codons and preferred to non-preferred (P2N) codons per individual. For all panels, dotted black horizontal lines represent one standard deviation from the mean of 1000 random simulations using D. simulans sequence data (matched to the number of lab-specific SNPs). Statistical significance determined using a Wilcoxon rank-sum test. Asterisks indicate significant differences between lab-specific SNPs and SNPs derived from neutral simulations (***P-value < 0.001, ** P-value < 0.05). Squares indicate significant differences between lab-specific SNPs and SNPs derived from the Raleigh NC population (■■■P-value < 0.001, ■■P-value < 0.05)