Detection and genetic characterization of Seoul Virus from commensal brown rats in France

Table 1 Overview of the sequence reads and mapped SEOV sequences obtained using the Illumina NGS platform for sample preparations S1-S3

Illumina Sample Prep	Read data							Reads from SEOV Segments			Reads from SEOV	% reads from SEOV
Illumina Sample Prep	Total reads	PF	PF aligned	% PF aligned	% Ribosomal	Viral reads	% viral reads	Segment S	Segment M	Segment L	Reads from SEOV	% reads from SEOV
S1	91,661,298	75,522,658	66,580,460	88.16%	0.99%	255,911	0.34%	12,675	30,211	13,617	56,503	22%
S2	83,920,361	59,434,134	42,659,876	71.78%	30.95%	434,756	0.73%	10,610	37,111	43,345	91,066	20.90%
S3	62,479,875	46,105,731	21,974,935	47.66%	21.55%	1,016,600	2.20%	112,152	363,008	381,521	856,681	84.29%

PF: Pass Filter (Quality Check). PF Aligned – sequences aligned with rat genome (see methods).

ISSN: 1743-422X