Sorry to hear that. They can be pests, I like them best when they stay in the woods.
There are quite a few urban coyotes marauding around here at night- we live smack in between several large parks and reserves. In one park, there are coyotes, but I never see squirrels, raccoons, or skunks, so they must be hungry.
Shooting things is "frowned upon" in the city, so we just chase them away if they take an interest in pets.