Clinical metagenomic sequencing for rapid diagnosis of pneumonia and meningitis caused by Chlamydia psittaci

Table 2 Pathogenic microorganisms detected using metagenomic next generation sequencing

Patient No.	Total reads	Chlamydia psittaci		Other microbes detected
		Reads	Genome coverage rate	Reads	Genome coverage rate
1	22128603	231	1.45%	-	-
2	33738995	305	1.81%	207	0.11% (Chlamydia albicans)
3	50359059	2	0.01%	-	-
4	41903841	6	0.02%	-	-
5	18745727	2137	7.76%	388	0.73% (Streptococcus pneumonia)

Genome coverage rate was defined as matched reads length per genome length.