The cooler is not making proper contact, that much is clear. My guess is that there is something wrong with the installation bracket.
Do you have all the springs and nuts in the right place? You didn't forget to install the back plate did you?
In case you lost the manual --> http://www.coolermaster-usa.com/upload/download/279/files/Hyper%20212%20EVO_English%20_Manual-0716.pdf