With the dots aligned per the FSM you are good to go.
(Timing the distributer is a separate matter)
If you set the crank to have the #6 ( your words) cylinder at tdc then that would make the dot at 12:00. There is no other position that the dot is at 12:00 on the crank.
Same holds true for the cam. There is only 1 position that the cam gear dot will be pointing to 6:00 and I assume based on your statement that #6 is that position, then the cam will be on the #6 compression stroke.