Fig. 2.—

Significant autosomal introgression between pairs of Anopheles species and subspecies. ABBA-BABA statistics were calculated in nonoverlapping windows of 500 informative sites using Anopheles merus as the outgroup. Blue ribbon indicates 95% confidence region for introgression between Anopheles gambiae (2La^a/+) and GOUNDRY (positive D; 2La^a/a and 2La^+/+; 3R+; Xag) and Anopheles coluzzii (negative D; 2La^a/a; 3R+; Xag). Orange ribbon indicates 95% confidence region for introgression between Anopheles arabiensis (2La^a/a; 3Ra; Xbcd) and GOUNDRY (positive D) and A. coluzzii (negative D). Horizontal dotted lines (orange = A. arabiensis; blue = A. gambiae) indicate genome-wide significance level after correction for multiple testing. Positions of relevant chromosomal inversions are indicated with horizontal white lines. A full list of genes within significant windows is given in supplementary table S2, Supplementary Material online.