Table 2.

Filtering table of the analyzed sputum samples processed with the extraction protocol involving different saponin amounts, DNase, and bead-beating treatments to test the effect of lower detergent concentrations on estimating the bias in the Gram-negative/Gram-positive bacteria ratio

Sample	Sequenced reads produced	High-quality reads	Reads retained after Homo sapiens filtering	% filtered Homo
Sputum-0.0125%	51,453	48,877	31,094	36.38%
Sputum-0.05%	34,712	33,795	31,860	5.73%
Sputum-0.1%	41,873	40,807	39,754	2.58%
Sputum-0.5%	13,420	13,056	12,774	2.16%
Sputum-1.5%	34,688	33,633	32,716	2.73%
Sputum-2%	37,528	36,418	35,249	3.21%
Sputum-NT	38,545	37,556	17,595	53.15%

NT: Untreated.