Table 1.

Performance of Singleton Phasing in the Illumina Trio Parents

Read coverage of the trio	5×	10×	20×
Singletons covered by PIRs	625	775	869
Singletons covered by PIRs and $p>0.99$	615	768	862
Number of errors	5	4	4
Error rate	0.93%	0.61%	0.55%

The table shows the number of singletons that are phased incorrectly (row 4) using different read coverage (5×, 10×, and 20×) and the corresponding switch error rates (row 5). Row 2 gives the number singletons that are covered by PIRs. Row 3 gives the number singletons that are covered by PIRs for which our model is confident of the phase of the singleton $\left(p>0.99\right)$. Note that the reported switch error rate is measured for singletons close enough (<300 bp) to heterozygous genotypes at 1000GP sites that can be trio phased.