I stumbled across this free After Effects script that will automatically break your quicktime up into individual shots. If you don't have Automatic duck and you're doing color correction of your video in After Effects, this is a godsend. It will save you hours of time.
http://aescripts.com/2008/01/18/magnum-the-edit-detector/
http://aescripts.com/2008/01/18/magnum-the-edit-detector/