Table 2. CRE regions and variants affecting gene expression.

Library	Type	Genes	Regions	SNPs	InDels
Intra-specific	Levels	1/59	1/240	0/1	1/1
Intra-specific	Dynamics	22/50	31/201	30/57	5/13
Inter-specific	Levels	2/86	2/317	-/68	-/12
Inter-specific	Dynamics	59/72	113/257	-/3560	-/479

Genes, regions, SNPs, and InDels are the number significant out of the number tested. Individual SNPs and InDels were not tested for the inter-specific library.

CRE: cis-regulatory element; SNPs: single-nucleotide polymorphisms; InDels: insertions/deletions.