Im thinking it might an app that is updating it self , do you have programs running with autoupdate enabled?
And have you also tried the Spysweeper scan i mentioned? You can also try an extra online AV scan from Kaspersky:
http://www.kaspersky.com/service?chapter=161739400
Click on Kaspersky Online Scanner
You will be promted to install an ActiveX component from Kaspersky, Click Yes.
The program will launch and then begin downloading the latest definition files:
Once the files have been downloaded click on NEXT
Now click on Scan Settings
In the scan settings make that the following are selected:
Scan using the following Anti-Virus database:
Extended (if available otherwise Standard)
Scan Options:
Scan Archives
Scan Mail Bases
Click OK
Now under select a target to scan:
Select My Computer
This will start the program and scan your system.
The scan will take a while so be patient and let it run.
Once the scan is complete it will display if your system has been infected.
Now click on the Save as Text button:
Save the file to your desktop.
Post the log from it please.