Maybe Sasuke would join the akatsuki after he killed Itachi, Just to learn from them and then turn on them. I think that Naruto is going to fight the leader of the akatsuki later on though. I don't think kakashi will live through the story.

Or

Itachi and Sasuke will join together for a little bit and then fight each other later on. And Naruto will just let them fight each other. And then he will go after the leader of the akatsuki. Just speculation but I am probably going to be wrong.