Encoder taking an age to process sequences from Premiere Pro CC

Hi
Relative newbie so please bear with.
I have a large number of Premiere Pro sequences that I need to encode to a custom setting. The source footage is HD MTS. The custom setting for export is H.264, 960 x 540, 25, 2.5mbp, 2 pass (to go to itunes-U).
I'm on a Macbook Pro, 2.9 GHz Intel Core i7, 8gb 1600 MHz DDR3 with a Intel HD Graphics 4000 1024 MB.
A twenty minute sequence with no filters/fx added and no other programmes running is taking my machine upward of 3hrs to encode - does this sound right? A colleague, running a similar setup (I'm awaiting exact specs) pops them out in fifteen minutes.
Is there anything I can do to speed up or are there any known issues?
Many thanks

Hi Kevin,
Thank you for your response.
After looking in to it further, I don't think I am able to enable GPU acceleration with my Intel graphics card. Are you able to confirm that this is correct or suggest how I might enable it?
It takes the same time from 8.1 projects or projects updated to 8.01.
I'm running 10.9.5 OS X.
Thank you for your assistance.
Kind regards,
John

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