No, generally not--they will most likely pick one (not usually the PDF) and use one page instead of the other. Since your "print version" is actually different (a lot of it is "stripped out", like navigation, etc.) then those pages aren't duplicates anyway.
If you're worried about repeating text on the same page, you could use a framed page. But, again, I don't think you're going to run in to an issue.
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