I tend to agree with the Malware conjecture. The pop ups are the give away.
A virus is written by a "nut case" who basically wants to aggrevate you and possible destroy software.
Malware is basically written for commerical purposes, advertisments (pop ups), redirects to a certain website, etc.
Use Microsoft Security Essentials to protect against virus
Malwarebytes protection from malware (free version) and a good firewall.