Yep, that's normal. I found this very annoying so I added the Maximum Motorsports clutch relocation brackets, quadrant, and adjustable cable. My clutch is now even with the brake pedal. I also added a zip-tie to the throttle cable (like what
@07GtS197 suggested) to bring the throttle pedal up a little bit.
Sorry, not the best picture...
I have relatively long legs and use my car for autocross. This pedal setup is much more comfortable for me and my feet get hung up less when shifting. Nothing wrong with the stock setup; but there are options to fix the odd alignment if you would like.