TABLE 4.

Subtype assignment of the 14 genotypes from the DRC obtained by NGS^a

Isolate	Simplot		Bootscan		Large phylogeny
	Classification	Support (% similarity)b	Classification	Support (% of permutated trees)c	Classification	Bootstrap support (%)
NGSID 1	Majority subtype C	0.80–0.94	Majority subtype C	22–100	Outlier subtype C	100
NGSID 2	Majority subtype C	0.83–0.95	Majority subtype C	48–100	Outlier subtype C	100
NGSID 3	Majority subtype D	0.93–0.97	Majority subtype D	42–100	Subtype D	89
NGSID 5	Majority subtype F1	0.87–0.98	Majority subtype F1	74–100	Subtype F1	98
NGSID 6	Subtype A1/G/A1/G/H/G	NAd	Subtype A1/G/A1/G/H/G	NA	Unclassified URF	64
NGSID 7	Subtype A1/G/A1/G/A1/G	NA	Subtype A1/G/A1/G/A1/G	NA	Basal to 25_cpx	100
NGSID 8	Subtype A1/K/A1/H/A1	NA	Subtype A1/K/A1/H/A1	NA	Unclassified URF	80
NGSID 10	Subtype A1/K/A1/H/A1	NA	Subtype A1/K/A1/H/A1	NA	Unclassified URF	80
NGSID 12	Subtype K/F1/K/F1/K	NA	Subtype K/F1/K/F1/K/G	NA	Unclassified URF	92
NGSID 13	Majority subtype J	0.82–0.96	Majority subtype J	84–100	Outlier subtype J	100
NGSID 14	Majority subtype H	0.79–0.98	Majority subtype H	82–100	Subtype H	100
NGSID 15	Majority subtype H	0.86–0.99	Majority subtype H	74–100	Subtype H	100
NGSID 16	Majority subtype H	0.86–0.96	Majority subtype H	96–100	Outlier subtype H	100
NGSID 18	Subtype A1/K/A1/J/A1	NA	Subtype A1/K/A1/J/A1	NA	Unclassified URF	17

^aThe subtype classifications for the 14 genotypes obtained by NGS made by the use of Simplot software, bootscan analysis, and manual phylogenetic inference are presented.

^bLowest to highest range of similarity.

^cLowest to highest range of the percentage of permutated trees.

^dNA, not applicable.