I can't find the figures, but Health Canada only delivers health care to Indigenous people.

Health care for other Canadians is paid for through provincial budgets.

And apart from proving health care to Indigenous, newly arrived refugees and the military, I don't know what else Health Canada actually does. 

The Health Minister's mandate charges her with  introducing plain packaging for tobacco products. That is the only concrete thing in the mandate. The rest of it was to "support" and "promote" various things that are mostly of provincial jurisdiction.

So yes, it makes sense that the  funding of actual patient care would use up most of the budget.