Table 1. Variants detected by whole genome re-sequencing of an affected Border Collie.

Filtering step	Number of variants
Variants in the whole genomea	2,519,661
Variants in the critical 3.53 Mb interval on CFA 2	3,173
Variants in the critical interval that were absent from 12 other dog genomes	243
Non-synonymous variants in the whole genomea	68,303
Non-synonymous variants in the critical 3.53 Mb interval on CFA 2	17
Non-synonymous variants in the critical interval that were absent from 12 other dog genomes	3

^aThe sequences were compared to the reference genome (CanFam 3) from a Boxer. Only variants that were homozygous in the affected Border Collie are reported.