Chief, you missed the point on the NFC comment. Say the top two teams in all of the NFL are in the NFC. There is no possible way they will play for the Super Bowl. So then the best game would be for the NFC Championship, not the Super Bowl.
To be the best, you have to beat the best, no matter which round it is in. There are flaws in every sort of bracketing system out there. Especially when a seeding system is used. You just go out there, and wrestle.