There's a difference, really. Star Trek, Dr. Who, Sci-fi, science, Simpsons etc have nothing to do with atheism. You don't need to be atheist to like them. Christian music, VeggieTales, going to Church, preachers like Billy Graham, and reading the Bible are ALL about Christianity.
And actually, there is some sacred music that I like. The majority of classical music is religious music. I majored in opera, and have frequently sung sacred pieces of music, and I love them. (Not to be confused with religious "rock", which makes me want to puke.)
As for the rest of it, the REASON I don't like them is because they're about religion. I can't lie and say that watching Veggie Tales or Billy Graham doesn't irk me, because it does. If you were atheist you would understand why. Imagine for a moment that your children were watching a Scientology cartoon, that was telling them to believe in an alien named Xenu that locked away aliens inside volcanoes, then blew the volcanoes up and the aliens spirits came and possessed all humans, and that they need to get rid of the alien spirits out of their bodies...(etc.etc.) Wouldn't it creep you out that not only are there people that actually BELIEVE this stuff, but that they're trying to teach it to your children? It's the same thing for us. We don't believe in gods or magical, supernatural beings, and watching people who do and try to encourage others to believe it also bothers us. That's why we don't like it. Believe me, I'm not trying to offend you by saying that, I'm just trying to help you understand where we're coming from.