suspected virus worm

I need to know how I can tell how to go about checking to see if I have a virus worm. Couple days ago I had my Kapersky down for downloading. Just as I went to put protection on, Kapersky went nuts squeling like a pig. By the time I got firewall up 17 trojans were disinfectted and terminated. Except a virus worm. after fiddling around trying to get to it 1/2 hour went by and the scan that I run after said it was deleted. Since then I'm hvg all kinds of problems. I can't even get of a runway in fs9. Buildings change shapes,shades and controls are all buggered up in my aircraft. Do I still hv this worm in there? If so,is there a way I can check?:( Tim