Table 1. Sequencing statistics.

	Mean Target Coverage	% of Target Bases ≥10×	Total Variants on 3R		Protein Coding Variants on 3R
			No Filter	RD ≥ 15, GQ ≥ 30	No Filter	RD ≥ 15, GQ ≥ 30
One Lane Sequences	22.7 (±6.2)	94.90 (±4.37)	310.2 (±68.2)	83.7 (±25.3)	23.8 (±6.1)	12.5 (±4.8)
Two Lane Sequences	49.7 (±8.2)	96.50 (±0.08)	229.4 (±39.7)	139.6 (±25.4)	21.8 (±0.4)	16.4 (±0.9)
P Value (t Test)		ns	P < 0.05	P < 0.001	ns	P < 0.05

Mutation predictions for 16 mutants strains sequenced in either one or two Illumina lanes, as indicated. Results are reported prior to selective validation by Sanger sequencing, and include false positives. RD (read depth) and GQ (genome quality) represent filters for sequence quality. See Results section on identification of mutations for details. Errors represent ± 1 SD.