Table 1. Assignable RNAseq read counts from F₁ hybrids and parents.

		F1 Hybrid Count	Parent Count	F1 Hybrid Percent of Total	Parent Percent of Total
Total Reads	Ear	996,210,711	286,233,926	-	-
	Leaf	1,133,517,167	282,553,096	-	-
	Stem	1,211,779,746	276,295,164	-	-
Aligned Reads	Ear	556,387,109	171,185,368	55.85%	59.81%
	Leaf	671,815,900	169,564,817	59.27%	60.01%
	Stem	716,223,906	162,866,225	59.11%	58.95%
Segregating Site Reads	Ear	74,556,872	85,296,872a	7.48%	29.80%a
	Leaf	73,094,422	78,878,805a	6.45%	27.92%a
	Stem	91,355,219	78,583,423a	7.54%	28.44%a

^aA higher number and percentage of reads map to segregating sites in parents due to each set of parent reads being used in multiple comparisons. In contrast each of the F₁ comparisons can only map to segregating sites between two pseudo-transcriptomes.