Fig. 2.

Summary of selective sweep mapping results. Candidate selective sweep regions identified in each test for selection for (A) chromosome 8, (B) chromosome 10, and (C) chromosome 12. Results for different subspecies are indicated by red for indica and blue for tropical japonica. CLR, composite likelihood ratio test based on the multipopulation allele frequency spectrum; DIV, diversity test based on regions of no variation; TJ, tropical japonica; IND. Vertical bars in the CLR track correspond to single fragments, because it was calculated for each fragment separately. Colors in the track correspond to the respective population, with black bars indicating a sweep in both indica and tropical japonica. The four shared sweep regions are marked with a dot.