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Infected need help

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Hi, i want to reistall my Windows XP with Lunix and need to back up all my data to a external harddrive but i found some possible deep infections and don't want to pass them to my external hard drive just to reinfect my new install.

I was reading this link from this forum:

When i tried some of the suggested files to to scan with the online scanner Jotti etc i got this:

Instructions, copy and paste (C:\WINDOWS\system32\hkcmd.exe) into the Jotti scanner, i got this messaage:
The file you uploaded is 0 bytes. It is very likely a firewall or a piece of malware is prohibiting you from uploading this file.

I turned off my Firewall and still got the same message so i tried to upload the file C:\WINDOWS\system32\hkcmd.exe manually but i couldn't find it.
I did a search for C:\WINDOWS\system32\hkcmd.exe with no results found. I then uploaded the the most similiar file to the one mention C:\WINDOWS\system32\cmd.exe and got this result from jotti: Sunbelt - - Trojan-Proxy.Agent.C

How can i be sure may computer is clean and not pass on any infected files to my external hard drive. i did find out that my tea timer in S&D has never been turned on, Thanx.
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