Throwing the red flag on the scoring play to buy time for the booth to take a second look seems to be a calculated decision on the part of Harbaugh. Calling a timeout would have been a waste of a timeout. Throwing the red flag in that scenario did not count as one of their challenges due to its illegality. And the 15 yard penalty did not hurt the team seeing as how the new kickoff starting point already gives the kicker a 90% chance of getting a touchback.