One of my favorite DS9 episodes is The Reckoning.
For me, it was about faith. It also show how much Kai Winn hated Sisko not just because he was the Emissary chosen by prophets and an outsider (human, not Bajorian) but for he had more faith in the Prophets than she did. Sisko was willing to sacrifice his own son in battle of Good and Evil (with Kira) in order to fulfill the Prophets' Reckoning. But Kai Winn stopped it.
Kai Winn reminds me of the Pharisees in the New Testament.
I never thought too much about until watched it again a few years back.
And never say that Christians don't like Star Trek. I remembered several years ago when my Pastor was preaching at another church. I was serving as one of church nurse (helper). IIRC, I was in the host Pastor's office and I was VHS tapes of DS9 episodes and ask him if he was a Star Trek fan and he said that he was. I was very impressed.