Nope, it would be nice if the interior trim boards were all even, but that probably won't be possible. You should adjust the cables so that the bulb seal on the lower edge of the top half just meets the "lip" on the upper outside edge of the lower half. You can see this if you look inside the two haves at the door opening, but where that's not possible, take the inside trim strip off the lower half (it's held on by screws), and you will be able to see how the bulb seal is meeting or not meeting the lip with the top up.
Taking the trim strips off is a MUST, too, if you want to inspect the cables where they go over the upper pulleys and to lubricate them at these points too. This is where they break, due to fraying or corrosion.
- Jack
