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Flyleaf is sweet http://www.youtube.com/watch?v=6VqQjNStwao this Cassie live. My friend and I saw them. This is what the song ist about and its a strue story Well, I went to wikipedia and here's what I read:

.....Official reports state that harris then walked over to the table across from the lower computer row, slapped the top twice with his hand, knelt down, and said "peek-a-boo" before shooting cassie bernall in the head. The recoil from the weapon hit his face, breaking his nose. Although it is popularly believed that bernall was the individual who was asked "do you believe in god?", the official investigation has attributed this remark not to bernall but to a surviving student, valeen schnurr (see below). Three students who witnessed bernall's death, including the person who was hiding under the table with her, have testified the exchange did not occur.[16] nevertheless, others who were in the library asserted the exchange occurred, though none of these students physically witnessed it. They may instead have heard the later exchange between klebold and schnurr and been misled by news reports attributing the words to bernall. This misunderstanding sparked much debate as to whether the official investigation thoroughly assessed all possibilities.....


And this...........Harris, in the meantime, went over to another table where two girls were hiding, bent down and looked at them, and dismissed them as "pathetic". The pair then went over to an empty table and began to reload their weapons. Schnurr, who had been hurt badly, began to cry out at that point, "oh, god help me!" klebold went back to her and asked her if she believed in god. She floundered in her answer, saying no and then yes, trying to get the answer "right". He asked her why; she said it was because it was what her family believed. He taunted her then walked away. This incident eventually led to the cassie bernall controversy, as some believe the eyewitnesses who continue to back the bernall claim may have wrongfully attributed the schnurr/klebold remark to bernall due to possible similarlities in voice and appearance.....

So, it appears that cassie wasn't the one who was asked the question, "do you believe in god?"
although, the song really is about cassie. It's still about standing up for what you believe in, but cassie wasn't the one.
At least that's what I concluded from what I read.