I think the meaning of the song is that she loves Judas, but he betrayed Jesus, so since, as it says in the chorus that she is a "holy fool" something is drawing her a way from him. She said "Jesus is my virtue" but she also said "Judas is the demon I cling to" She belives in Jesus, and she is religous but is also in love with Judas. When she said she was a hooker and prostitue wench it might not mean that literally. She said "In the most biblical sense" so she might think of herself as a bad person for loving Judas instead of actually being that.