Fig. 7.

SNS variant calling performance stratified by proximity to structural variants and low pileup mappability sequence. Mappability is dichotomized at Pmap-K50E4 = 100% or <100%. Regions within 100 bp of a SV categorized as ‘with SV’. Mean precision and recall of SNS detection is plotted for the following genomic contexts: (1) regions with high mappability with no SV (blue), (2) regions with low mappability and no SV (green), (3) regions with high mappability with SV (orange) and (4) regions with low mappability and with SV (red) The standard error of the mean (SEM) for precision is shaded for each curve. Orange diamonds represent the precision and recall using the same MQ threshold of 40