Incorporation of genotype data in CRI-SPA-Map for local isolates. (A) Variant positions on ChrXIV-L are depicted with vertical tick marks on the bottom. Green lines depict W303 allele tracts in each of 332 local isolates as well as isolate growth rates in liquid YPD. The solid black line shows the −log10(P-value) at each variant as indicated by the right y-axis in panel B. The median growth rate of all local isolates is denoted by a solid horizontal gray line. Dashed lines denote significance thresholds as determined by Bonferroni correction (red) and 1000 permutations (purple). Note that these thresholds were nearly identical. (B) Zoom-in on the region containing the four significant variants. The ORFs in this region are depicted as rectangles, with those used in ORF-based mapping colored based on the significance of their effect as in the upper panel of Figure 3.
