Supplementary Figure 11: Alternative relatedness statistics and impact of total site counts on HETHET/IBS0 relatedness estimates.

(a) Histogram showing the distribution of HETHET/IBS0 relatedness scores for pairwise comparisons within control area egg collections. Values of 10 or above indicate full sibling relationships, while values of approximately two indicate the pair are not closely related (Ann. Hum. Genet. 67, 618-619, 2003; Am. J. Hum. Genet. 81, 559-575, 2007). (b) Proportion of sites that are IBS2 plotted as a function of the proportion of sites that are IBS0 for each pairwise comparison within control area egg collections. Full siblings are expected to cluster with high IBS2 values and low IBS0 values while unrelated individuals are expected to plot low on the IBS2 axis and middle to high on the IBS0 axis (Ann. Hum. Genet. 70, 841,847, 2006). (c) For each pairwise comparison within control area egg collections, the fraction of sites that are informative is plotted as a function of IBS2*_ratio (PLoS Genet.7, e1002287, 2011). Full siblings are expected to exhibit relatively high informative site counts and high IBS2*_ratio scores while unrelated individuals are expected to have low informative sites counts and intermediate IBS2*_ratio values (PLoS Genet.7, e1002287, 2011). (d) HETHET/IBS0 values plotted as a function of total number of sites with data as a proxy for read depth. Colors indicate the site class of individuals for each comparison. The distribution indicates that comparisons represented by fewer sites with data are not biased towards low or high HETHET/IBS0 scores suggesting that read depth is not biasing relatedness estimates.