Development of a SNP-based assay for measuring genetic diversity in the Tasmanian devil insurance population

Table 2 Pedigree results for all genotyped offspring

Facility/Group	No. of offspring	Potential dams	Potential sires	No of loci genotyped	Average % missing gts	Comments
1/1	2	1 known	2	164	0.51	All resolved
1/2	2	1 known	2	164	0.61	All resolved
1/3	4	1 known	4	164	0.60	One unresolved- two sires possible
1/4	4	1 known	5	164	0.60	All resolved
1/5	7	4	4	164	0.52	One unresolved- two dams and two sires possible
1/6	4	1 known	4	164	0.70	All resolved
2/1	8	5	8	192	0.22	Exclusions only- full-sibs and half sibs amongst candidate parents, 1 dam failed genotyping
2/2	13	5 known	8	192	0.24	Exclusions only- half-sibs amongst candidate sires, no sample for 1 known dam
3/1	5	3	5	192	0.29	Exclusions only- full- and half-sibs amongst candidate sires
4/1	6	3	12	192	0.26	Exclusions only- half-sibs amongst candidate sires and no sample for one candidate dam
5/1	11	8	6	192	0.28	Exclusions only- half-sibs amongst candidate parents

Nb. Number of loci differ as trios from breeding facility 1 were genotyped in the first sequencing run whereas trios from breeding facilities 2–5 were sequenced in runs 2, 3 and 4 with a refined marker set. Known dams are according to information provided from studbook management