TABLE 1.

Comparison of metagenome shotgun sequencing and amplicon sequencing

Sample	Metagenome shotgun sequencing				Amplicon sequencing				Gaina
	Raw reads	Aligned reads	Percent (%)	Aligned reads per geneb	Raw reads	Aligned reads	Percent (%)	Aligned reads per geneb
CS1	3.4 × 107	690	0.0021	4 (2–10)	1.3 × 106	1.0 × 106	75.79	324.5 (19.75–2245.5)	3.7 × 104
CS2	3.4 × 107	125	0.0004	3.5 (2–4.75)	1.3 × 106	1.3 × 106	98.55	219 (23.5–2134)	2.7 × 105
CS3	3.4 × 107	550	0.0016	5 (2–9)	2.2 × 106	2.0 × 106	92.98	518 (90.5–2823)	5.8 × 104
CS4	3.5 × 107	86	0.0002	3 (2–5)	2.4 × 106	2.2 × 106	92.39	126 (22–463)	3.7 × 105
CS5	3.3 × 107	381	0.0011	4 (2–7)	1.3 × 106	1.1 × 106	90.10	127 (32–432.5)	7.9 × 104
CS6	3.4 × 107	176	0.0005	2 (2–5.75)	3.3 × 106	3.0 × 106	91.88	113 (15 –886)	1.8 × 105
Avg	3.4 × 107	335	0.0010	NAc	1.9 × 106	1.8 × 106	90.28	NAc	9.2 × 104

^aThe results of dividing the on-target percentage of amplicon sequencing by shotgun sequencing.

^bThese results are represented as median (interquartile range, IQR).

^cNA, Not applicable.