Matching is always better. cut the gasket to fit, and trace it on your case. Port the transfers all the way down, but be aware always of how close you are to blowing through the sides of the case, stud and bolt holes. Make everything smooth and beautiful.
Yes those holes at the bottom of your transfers are supposed to be there.
Leave yourself at least 1.5mm of base gasket sealing surface.
Clean everything till its clean, then clean it again.