I have always taken that"gap" to represent the thickness of the stem post, keel and sternpost.i.e. the backbone of the ship.
if you are using a solid "backbone" including all three items mentioned above, it would be represented in a piece of timber such as ply, it would be the thickness of that "gap" on your plans.
then if the "bulkheads" or "frames" as some call them are being fixed to the back bone they can be fixed in two ways.
The first is to photocopy all your numbered frames at least once in one whole piece.
I then, myself ,fold each piece of paper down that centre line and one different frame is cut from each photocopy following the respective numbered line so that the 2nd half is cut at the same time giving total symitry. If you have 14 frames you end up with 14 cut out paper frames, all of different shapes. they can then be glued to the timber prior to cutting.
Then they are attached to the backbone using a half housing joint. ie. half the slot is cut from the bottom end of each frame to the thicknes of the backbone, and the corresponding half slot ( the thickness of the frame) is cut from the top end of the backbone.
If you go the other way and attach the "frames" to the backbone in two halves and not a whole frame, the "gap" represents the amount of frame that has to be taken off in order to give the true "beam" of the ship rather than an exagerated beam which you would get if you cut the frame straight down the centre line.
Hope this is understandable.
Neil.