I was finally able to get back into Windows. First I used the repair console to install a new boot section, this allowed me to at least load Windows and get to the desktop. Unfortunateyl this did not cure my problem since the computer ran unbelievably slow once I did get to the desktop. However, I was able to run the network wizard and link it to my laptop, this let me pull all of my important files off. I believe now that I must have had some sort of nasty malware or virus because of all of the steps I had to take to get this mess cleaned up. Here is what I did to take care of the situation:
1. With the repair console I reformatted partition 1 (which still did not show to have a valid installation of Windows on it) (partition 2 was only 8mb)
2. I ran the reformat and reinstall windows option from the recovery console.
3. After these two steps I was for the first time able to load Windows and get to the desktop without any problems. The computer was up and running but something still was not quite right, every program seemed to be taking a little bit longer to run. I eventually stumled on the reason when I went in to the bios to switch from loading from the cd drive to the hard drive. In the bios I discovered the processor speed was turned from normal to automatic. I switched it back to normal and it is running 100% again

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I reinstalled Zone Alarm and Avast but this time I also added Threat Fire for a little added protection. It doesn't just look for malware and viruses based off of a definition database but by there behavior and it was free on Kim Komando's site.
Thanks for the help The information week site had a lot of usefull stuff on it and helped navigate through the repair console.