Table 1.

Number of isolates assigned to different genetic context groups of the carbapenemase genes using short-read sequencing data

Carbapenemase gene	No. of isolates	Median no. of genes per short-read contig (IQR)	No. (%) of isolates with assigned context group	No. (%) of isolates discarded from clustering*	No. (%) of isolates with ambiguous context†	No. of context groups
blaOXA-48-like	249	2 (2–2)	4 (1.6)	221 (88.8)	24 (9.6)	3
blaVIM	56	6 (2–7)	39 (69.6)	16 (28.6)	1 (1.8)	10
blaNDM	79	15 (4–22)	59 (74.7)	6 (7.6)	14 (17.7)	15
blaKPC	312	23 (18–35)	82 (26.3)	0 (0)	230 (73.7)	45

IQR, interquartile range.

^*Isolates were discarded from the clustering either because there were fewer than four genes on the carbapenemase-carrying contig or if the carbapenemase gene was found in the assembly without a start or stop codon.

^†Isolates were designated an ambiguous context if the carbapenemase-carrying contig matched multiple different (often larger) contigs.