What are the specs of your source footage? The more detail, the better.
That is what you will set your Project/Sequence to. For odd Frame Size and other irregularities, you will need to be in Desktop Mode and set everything according to your source footage. That's why I asked for details on what you are Importing. The format/CODEC will be important. If you do not know, then G-Spot will be your friend and tell you.
export as a basic .mov file
I would encourage you not to use .mov files. It limits the number of viewers on your site. I, for example, neither have nor want anything Quicktime installed on my machine. So any web site that posts .mov's, I can't see their video.
Flash is the web standard these days. Windows Media, Quicktime and Real have largely fallen by the wayside. Best not to use them at all.
Oh gosh, I wish that it would die and never arise again. I feel about that one, as you do about QT. The Real Player was really part virus and Trojan, in my book - ugh, if I never see an RM file again, I'll be happy.
Jim, you just brought back a ton of bad, bad memories.