Well, one of the vulnerablilities would be your guest book.
If it doesn't have the right filters in it, they could upload PHP code right into your MySQL database, and the next time that the page is accessed it would run the script.
If you can get code to the server-side, you can pretty much screw up an entire webserver
If you still have access to your MySQL databases, or if you somehow do, then you should check and see if there is any PHP code hidden in there.
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<?php if($Adsense_Revenue > 0): define('HAPPINES','100%'); else: define('HAPPINESS', '0%') endif; ?>
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