5.9 magnum head gasket question?????

current engine is a 5.9 magnum out of a 2000 dodge ram truck, bored and stroked to 408, RHS indy "X" heads.

My question is...Is the head gasket supposed to cover some of the water jacket openings. and the holes in the gasket are way smaller than the port opening.

The part #9898pt (felpro) seems to be correct.
I have searched other threads but cant seem to find anything on this.
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