Comparing pdfs in acrobat 7.0 professional

Hi Hope someone can help.
I have made my first pdf from indesign, it is a page of text only (about 200 word) I have then totally replaced these word with a new 200 word, then made my 2nd pdf.
After comparing these 2 pdfs, i would expect to see 1 note containing all the 200 words that were deleted.
What I actually get is about 12 notes completly splitting up the text that was deleted into 12 notes. The underling bit is also divided up. Also on another document the notes are in the wrong place on the page.
Can you help?
I have tried all different ways of making the pdf ie exporting or making a postscript. but still have the same problem.
The settings I was choosing when comparing was textual differences and consolidated report.
Thanks for any help
Alison

If you are making a PDF of a WORD or similar OFFICE file in Acrobat, it uses the original application for the creation. This is similar to printing a doc file, where WORD is used, even if you do not see it opened. Thus, if you are using OFFICE 2007, then you will not be able to use PDF Maker that comes with Acrobat. That is required even for creation of PDF document from within AA. If you want to use PDF Maker, you have 2 choices - downgrade OFFICE to 2003 (actually, I personally hate OFFICE 2007 and the messed up files it makes) or upgrade your AA to AA9.

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