Table 2. Single-nucleotide polymorphism differences between isolates EPDC01 and EPDC02 from a captive Borneo elephant with Mycobacterium caprae infection, Japan, 2016*.

Genomic position	Gene	Mutation	Amino acid change	Description of function
1,338,135	Rv1194c	G → frameshift	Gln127 → frameshift	Unknown
1,445,272	Rv1290A	C → T	Ala72 → Val	Unknown
2,155,168	katG	C → T	Ser315 → Asn	Catalase; isoniazid resistance
2,577,556	Rv2306A	G → A	Gly150 → Glu	Unknown
3,200,585	Rv2891	T → G	Leu107 → Arg	Unknown
3,777,062	Rv3365c	C → A	Gly147 → Val	Unknown
4,298,329	pks2	G → A	Pro426 → Leu	Lipid metabolism
4,345,372	Rv3869	G → C	Ala112 → Pro	Unknown

*Excluded paralogue genes, which are the descendants of an ancestral gene and underwent a duplication event.