If your talking about that 'hole' that runs down the side of all of the baskets and the top protector, then yes they are all allined but the intake does not sit over the hole.. because its on the opposite corner if you kniow what I mean. Like its impossible to alline the intake to the line of holes...
Sounds like you're not putting them in the right direction then. Or something is somehow backwards. I have a habit of putting them in wrong then having to take them all out and do it right. Everything should line up.