"Amen. Amen. Amen" repeated three times is very significant in this song, because three is a powerful number when it comes to Christianity. The repetition of "Amen" three times parallels most with Peter's denial of Jesus, since he denied him three times, and that the Church is trying to denounce his sins from him. This parallels perfectly because the return interpretation can work as well: Peter also affirmed his face three times as well, and his past self both denied his homosexuality and accepted it - the exact same order Peter did (denial, but acceptance afterward).