Table 1.

Mapping of RNAseq reads

	FHV-RNAseq	%	VLP-RNAseq	%
Totals reads	28,939,991	100	19,604,376	100
FHV RNA1	17,888,032	61.8	1103	< 0.1
FHV RNA2	6,744,282	23.3	1,462,744	7.5
Host genome	1,081,696	3.7	12,510,924	63.8
AcMNPVa	—		1,718,522	8.8
FHV RNA1–RNA1	1,167,929	4.0	82	< 0.1
Insertions	19,494		0
Deletions	1,106,870		0
MicroInDels	41,565		82
FHV RNA1–RNA2	11,068	< 0.1	0
FHV RNA2–RNA1	22,288	< 0.1	0
FHV RNA2–RNA2	33,897	0.1	2168	< 0.1
Insertions	10,872		226
Deletions	16,086		130
MicroInDels	6939		1812
Other junctions			19,044	0.1
Recombinations			1220
MicroInDels			17,824
Unaligned reads	1,990,779	6.9	3,889,789	19.8

^aAcMNPV, Autographa californica multiple nuclear polyhedrosis virus (baculovirus expression vector).