Table 4.

Putative de novo SNPs present in the lab-adapted C. remanei population above 6 %

Position	Ref	Alt	Wild allele frequency	Lab allele frequency	Wild depth	Lab depth
8678151	T	C	0	0.07	998	993
22410779	C	T	0	0.16	992	997
23864162	T	A	0	0.06	991	895
27788600	A	G	0	0.069	995	956
67266085	C	T	0	0.066	998	846
67492174	A	G	0	0.07	940	961
96566683	T	C	0	0.071	988	971
127028996	C	T	0	0.065	982	965
143968069	T	G	0	0.121	996	988

Many putative de novo SNPs were present at significant frequencies in the lab-adapted population, despite being absent in the wild population. Using a minimum read depth of 900× overlapping paired-end (OPE) reads, PELE-Seq detected 9 putative de novo SNPs found above 6 % frequency in the lab-adapted population