You have installed Intel Raid not Gigabyte, so that is why the Gigabyte RAID Program will not work for you. You need to install the Intel Matrix program for Intel RAID >>>
IntelĀ® Matrix Storage ManagerĀ*Intel(R) Matrix Storage Manager
You have me confused with your main question though. But you can easily go into the RAID ROM (Control + I) and see what RAID is setup. Just go check it out.
What are you looking at that has you concerned about 260 vs 540?