There is apparently some issue with Vettel making an illegal move under yellow flag. If people decide to investigate it he could be docked 20 seconds putting him 1 point below Alonso, so he would be champion.
On a logically stand point, if a claim is made, they need to investigate it. If he is at fault, he should be docked seconds, just like they would any other time in the season.
On a personal stand point, I wanted Alonso to win overall because of his consistancy in a worse car then Red Bull and McLaren. He did some amazing drives to get on as many podiums as possible to get himself in that position.
Hmm, pie.