The games was lost on the three 3-and-outs to start the game.
The game was lost when Shields and Neal went down (best pass defender and best edge rusher they had in the game).
**edit** The game was lost on poor clock management at the end of the first half.
The game was lost when Burnett got over late to help Hawk cover Davis because he was protecting deep on Boldin.
The game was lost when McCarthy got cute and ran Cobb from the 9 when 1st and goal while Eddie-Eddie-Eddie sat on the sideline.
The game was lost when Hyde couldn't make an incredibly athletic and somewhat difficult INT.
The game was lost when Bush lost contain and Kaepernick ran for 40 yards.
The game was lost when the 49ers made more plays than the GBP.