Rogue.sysCleanPro is a seriously aggressive malware. Basically what it does is generate pops saying your system is infected and does a fake scan pointing where it obviously finds thing to be fixed that can only be fixed when you purchase the full version.
It is very dangerous as has been known to install additional spyware, dl viruses, repair itself, spread and in some cases compromise account security and credit card/bank security.
Registry entries:
Files:
Could a hacker use this to compromise your accounts? if it was part of the software bundle that you use for uploading/accessing your godaddy account. Other than that? idk. it seems like you may have have gotten it from another program, maybe a maintenance utility or something. Since it does have a history of compromising security, we'll go ahead and try to elimitate it as a possibility.
Since we now know that you have no known infections, change your passwords and re-upload the site information. If you don't get hacked again then we know that was the point of compromise. If it does then we've basically elimited anything on your pc as a point of compromise with exception to one thing.
How do you access your godaddy account? do you use the browser or another application?