If you are using Vista or Windows 7 then you never run as Adminstrator (even if you are one) by default. To run something as Administrator you have to right-click it and select the "Run as Administrator" option.
You could probably get away with simply deleting the Calibre folder under Program Files if you cannot get rid of it any other way.
Note that with the latest Windows releases of Calibre if you want to install it under Program Files you need to select the "Advanced" rather than the "Install" option after accepting the GPL license.
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