Table 4. Annotation results of the complete set of 67,096 PstI-derived SNPs (after filtering) obtained after genotyping 462 chickens.

Variants	Total no.	%
All variants	78,399	100
Intronic	28,181	35.95
Intergenic	22,116	28.21
Exonic	2,590	3.30
Splicing	256	0.11
ncRNA	6	0.01
5′-UTR	268	0.34
3′-UTR	1,328	1.69
Upstream (1kb)	11,516	14.69
Downstream (1kb)	12,306	15.70
Exonic
Synonymous	1,671	64.52
Non-synonymous	907	35.02
Startlost	5	0.19
Stopgain	3	0.12
Stoplost	4	0.15