Effects of sequencing error and pooling on average target gene discovery yields.

<p><b>A</b>. The probability of reporting a SNP at a single site as a function of the mutation call threshold (read counts) assuming a coverage of c = 75, due either to sequencing error (red), or a real mutation (green), assuming a 1% sequencing error rate and a 25% true mutation fraction (i.e. library-pooling factor of P = 4). Circles indicate the expected mean read counts on each plot. <b>B</b>. The expected number of total mutation calls per genome as a function of the mutation call threshold, due either to sequencing error (red), or a real mutation (green), assuming a 4 Mb genome size. The dashed red line indicates the lowest mutation call threshold at which the number of false positive mutation calls falls below one. The dashed green line indicates the maximum mutation call threshold at which the number of false negatives remains less than one. <b>C</b>. The average number of true target genes discovered (at an FDR <0.67) as a function of the mutation call threshold, for different library-pooling levels P = 2 to P = 9, assuming sequencing of 80 mutant strains with a mutation density of 50 mutations per genome, and 20 true target genes.