TABLE 1.

Evaluation of PhyResSE with respect to resistance-mediating mutations^a

Resistance-mediating gene sequenced	No. of SNPs detected by Sanger sequencing (total no. of strain sequences)	No. of SNPs detected by WGS/interpreted by PhyResSE (total no. of strain sequences)	No. of discordant SNPs	No. of discordant strains	% Concordanceb
rpoB	20 (92)	22 (92)	2	2	97.83c
katG	27 (92)	27 (92)	0	0	100
inhA	2 (3)	4 (92)	2	0d	100
ahpC	1 (3)	1 (92)	0	0	100
rrs	2 (92)	2 (92)	0	0	100
rpsL	20 (92)	20 (92)	0	0	100
gidB	72 (92)	73 (92)	1	1	98.91c
embB	16 (92)	18 (92)	2	2	97.83c
embA	0 (4)	1 (92)	1	0d	100
embC	1 (4)	1 (92)	0	0	100
pncA	11 (92)	12 (92)	1	1	97.83e

^aResults obtained by Sanger sequencing and WGS data interpreted by PhyResSE are compared, and numbers of identical and differing results are listed.

^bRelated to the total number of strain sequences.

^cHeteroresistant.

^dNot Sanger sequenced.

^eCovered by reverse primer.