If you are getting a BSOD this is not an infection. This is either software or hardware.
If you can boot from media with Linux on it you should be able to boot from the from the repair disc. If you can not, then I suspect that there is a problem with the repair disc you created. To be sure you did this properly you should read the instructions supplied by Microsoft.
Do you have a Windows 7 Installation disc for this version of windows? If you don't you may be able to get your local repair shop to burn you a copy. You need to explain to them that you want it to perform a Repair Installation. If you can get a copy of the installation media use the instructions below and do a Startup Repair.
Repair Installation Instructions
Attention: In order to boot from the installation disc you may need to change the boot order in the BIOS so that the optical driver is the first device in the boot order, and the HDD/SSD is the second devcice.
1. Place the installation disc in the tray of the CD/DVD drive, close the tray and restart the computer.
2. You will be prompted to press any key to start the installation, do so.
At this point the setup process will load files, this will take several minutes.
3. You will now need to choose the Language, Time and currency format, and Keyboard or input method that you'd like to use.
After this is done click on Next.
4. Click on the Repair your computer link at the bottom-left of the Install Windows window.
This link will begin the Windows 7 System Recovery Options.
5. System Recovery Options will now search your hard drive(s) for any Windows 7 installations. This will take several minutes.
No participation is required on your part at this time, wait till it has finished and the next window opens.
6. Choose the Windows 7 installation that you'd like to perform the Startup Repair on, then click on Next
7. Click on the Startup Repair link from list of recovery tools in System Recovery Options.
For a future reference, there are several other diagnostic and recovery tools available in the Windows 7 System Recovery Options including System Restore, System Image Recovery, Windows Memory Diagnostic, and Command Prompt.
8. The Startup Repair tool will now search for problems in the system files.
If Startup Repair finds a problem with any system files the tool may suggest a solution which you will need to confirm, or may solve the problem automatically.
9. Startup Repair will now attempt to repair whatever problems it found with system files.
Note: If Startup Repair did not find any problems with system files you won't see this step.
Important: Your computer may or may not restart several times during this repair process. This is normal, you should allow it to continue until you see the Restart your computer to complete the repairs window.
10. Click on Finish, this will restart your computer.
It is possible that the Startup Repair will not be able to fix the problem. If the Startup Repair tool determines this, it may automatically run the the repair after your computer restarts. If it does not automatically run the repair but you are still having problems with Windows 7 repeat these steps to run Startup Repair again manually.