A miserable pain filled existence before ending up on your plate v a comfortable existence in a more natural habitat before ending up on your plate.
I know a lot of people think that because you end up eating the animal, it doesn't matter how it lived, but I disagree.
I eat meat, but I don't like to think of an animal having an awful existence up to being killed. I prefer to think that it had sunshine and open air, erm, up to it being killed. 
It matters to me.
I suppose some would say if it matters that much, don't eat meat. And I don't have an answer to that.