Figure 10

Sample 5 VAFs compared to expected VAF levels. As in Figure 4b-d, each panel shows observed VAFs (red crosses) and expected VAF levels given a potential position of (1,1) in the sample grid plot. Expected VAF levels are all under assumption 6, with mutations on the minor allele of subclone A expected on green VAF levels, on the major allele of subclone A expected on blue, on the single copy of all tumor cells not in A expected on black (the purity of this sample was estimated to 84%), clonal mutations on minor allele on light green and clonal mutations on major allele on light blue horizontal lines (see assumptions 3 to 5 in Materials and methods). Genome segments have been ordered by decreasing expected VAF if present only on non-A cells and by increasing (minor + major) array CN (x-axis). SS gives the sum of squared distances from each observed VAF to its closest expected VAF.