TABLE 1.

Number of total and mapped reads

Sample	Virus	Treatment	Passage	Total no. of raw reads	No. (%) mapped reads to the genome
W0	VEEV TC-83	None	0	1,694,499	1,473,387 (86.95)
W5	VEEV TC-83	None	5	1,932,410	1,320,488 (68.33)
W10	VEEV TC-83	None	10	3,055,210	2,575,881 (84.31)
W15	VEEV TC-83	None	15	2,436,142	1,720,526 (70.63)
W20	VEEV TC-83	None	20	2,239,203	1,697,248 (75.80)
d5	VEEV TC-83	NHC	5	1,583,429	168,026 (10.61)
d10	VEEV TC-83	NHC	10	2,748,574	1,291,652 (46.99)
d15	VEEV TC-83	NHC	15	1,312,641	456,518 (34.78)
d20	VEEV TC-83	NHC	20	2,102,043	949,366 (45.16)
r5	VEEV TC-83, PP2	None	5	1,588,152	1,171,668 (73.78)
r10	VEEV TC-83, PP2	None	10	1,893,413	1,699,941 (89.78)
r15	VEEV TC-83, PP2	None	15	2,059,806	1,691,743 (82.13)
r20	VEEV TC-83, PP2	None	20	2,438,228	2,170,0771 (89.03)