You're tired of waiting. If you don't act soon, you may be stuck in the past forever. Though you would hate to cause any harm to Charizard, you really have no choice now do you?
You reluctantly fire off a Hyper Beam which shreds apart Charizard's insides. You quickly fly away and don't look back to see Charazard fall over in excruciating pain.
You aren't proud about what you just did, but you don't have time to worry about that. You need to find Jirachi.