Table 1. Raw and corrected (QuRE, ShoRAH) estimated error rates for the Roche's GS FLX Titanium XLR70, as estimated by shotgun-sequencing the plasmid TOPO2.1 with HCV/HIV-1 inserts, and mapping the reads against the TOPO2.1 reference using the QuRe read aligner/filter module.

				error prevalence (standard error) by type
data set (n = 70,000)	mapped (n;%)	error correction method	overall error prevalence (standard error)	insertions	deletions	mismatches	homopolymeric	non-homopolymeric
HCV	49,866; 71.24%	non-corrected	1.26% (0.0096)	0.40% (0.0054)	0.39% (0.0054)	0.47% (0.0059)	1.33% (0.0168)	1.22% (0.0117)
		QuRe	0.19% (0.0037)	0.02% (0.0012)	0.14% (0.0032)	0.02% (0.0014)	0.27% (0.0076)	0.14% (0.0040)
		ShoRAH	0.18% (0.0037)	0.00% (0.0000)	0.12% (0.0031)	0.06% (0.0021)	0.24% (0.0073)	0.14% (0.0041)
HIV-1	62,303; 89.00%	non-corrected	1.30% (0.0060)	0.36% (0.0032)	0.47% (0.0037)	0.47% (0.0036)	2.14% (0.0162)	1.05% (0.0062)
		QuRe	0.39% (0.0033)	0.06% (0.0013)	0.25% (0.0027)	0.08% (0.0015)	0.95% (0.0108)	0.23% (0.0029)
		ShoRAH	0.21% (0.0025)	0.00% (0.0001)	0.13% (0.0020)	0.07% (0.0015)	0.47% (0.0079)	0.13% (0.0022)