How do you transfer purchases from a jailbroken ipod touch to a pc?

I have a jailbroken ipod touch 4g 32gb and when i go to itunes to transfer purchases to upgrade my ipod to 5.1.1 it says i have 42 apps transfering but i have over atleast 65 apps. Help!
I’m not trying to transfer my jailbroken apps, I checked I actually have more then 100 apps, only about 10 jailbroken apps.

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