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Understanding how Intel motherboards worked, which it may not necessary applied to your computer since it is a branded system; I would recommend you set the SATA as RAID on the BIOS before trying anything else.
If the system is now on IDE/AHCI/ATPI, it could be that the settings on BIOS were set as default and that could be the reason why you are not able to boot to Windows.
Once you change the SATA mode to RAID and if you are able to boot to Windows, you can use the Intel® Rapid Storage Technology to start the rebuilt of your RAID 1.
If you still have problems rebuilding the RAID, I recommend you to use a 3rd party software (like Symantic ghost) to create an image of the whole hard drive and save it on an external drive.
Once you backup all your information on an image, you can format the hard drives and then save the image on one drive and create the RAID on Windows.
Remember to set the SATA mode to RAID before to save the information again.