Table 1.

Mapping summary of RNA-seq samples

				CSS gene models		TGAC gene models
Genotype	Time point	Replicate	Reads	Reads pseudoaligned	% reads pseudoaligned	Reads pseudoaligned	% reads pseudoaligned
5A -	1	1	24,443,658	17,072,939	69.85	20,549,681	84.07
5A -	1	2	34,441,799	23,349,288	67.79	28,483,090	82.70
5A -	1	3	23,462,705	16,220,597	69.13	19,664,859	83.81
5A -	2	1	21,333,672	14,839,724	69.56	18,052,324	84.62
5A -	2	2	14,967,302	10,632,519	71.04	12,803,552	85.54
5A -	2	3	35,522,754	25,491,523	71.76	30,297,336	85.29
5A +	1	1	19,267,564	13,520,181	70.17	16,317,352	84.69
5A +	1	2	22,299,102	15,479,234	69.42	18,780,525	84.22
5A +	1	3	30,531,539	20,789,582	68.09	25,436,453	83.31
5A +	2	1	51,637,607	36,192,489	70.09	43,739,451	84.70
5A +	2	2	53,575,232	37,956,887	70.85	45,497,914	84.92
5A +	2	3	30,553,421	21,604,895	70.71	25,984,674	85.05
		Total	362,036,355	253,149,858	–	305,607,211	–
		Mean	30,169,696	21,095,822	69.87	25,467,268	84.41