Here is a helpful but minor tool. Made from Plexiglas this gauge replaces the wooden slat with a long slot that Vans suggests using in the builders manual. Used as an “in trail” gauge when adjusting the length of the aileron push rods in combination with the supplied bell crank gauge. No tool other than a drill press is needed to construct this gauge so long as your plexi supplier will cut the Plexiglas to size. 2” X 42”. I made myself two with the intention of doing the final rigging with them rather than ever having to use the bell crank gauge again.
After drilling two holes in line (use the fence). Lock the quill down so the point of the drill penetrats the paper (not shown) and cuts into the plastic slightly. Then making sure to press the plexi firmly against the fence push the plastic along slowly. Hint: replace the 3/16ths bit with a larger diameter to keep the bit from flexing to much.
Center line is created at a random point. As in, I set the fence about an inch away from the bit. Keep the plexi against the fence and you're always in line. The fence and plexi do need to be straight edged, I actually used an aluminum angle for the fence. For clarity I used a piece of wood in the pictures. I think that's what your asking. I also made spacers from the AT that van's supplies to hold that gauge out from the rib but even and flat against aileron. Any other kind of miss alignment you're seeing is just bad photography Everything is straight and tight in person.
Oh wait a minute. I think I know what you meant now. Those are the tooling holes that are used to set the trail. Van's puts them there when the ribs are made. You use those two holes and ignore the ones on the aileron ribs. It's the trailing edge of the aileron we are lining up with.