Hard to say if the noises I have heard are the same as yours but my APE certainly doesn't have the quietest 'box, reverse and 1st -2nd, 2nd -1st, I do hear some transmission whine that I've only ever experience in stripped out Mitsi Evo RS and a 20yr old Mini, certainly not something I would expect to hear in a modern vehicle.
It is very quiet on mine certainly when compared to the AGP I have also heard it on, dealer claims its normal and as I have heard it in other cars with a lot more mileage I'm not too bothered, doesn't give you a quality product feel though.