To my understanding, it's best to do a fresh install of windows when you're moving to a new motherboard. (For reference, my current build is an ASUS P8Z77-V LK with an i5-3570K, new build is going to be Asus Z170-A with i5-6600K)
I have an SSD (Crucial M4 128GB) and an HDD (WD Black 1TB) from...