I have tried the trial for Anycount, and also for anymini, but it seemed to give a much greater word count for website pages than we obtained when we counted ourselves or by copying and pasting. The most accurate I have tried so far is Total Assistant, but even this gives some off results on website pages. I don't know if this is something inevitable?
Not all the text can be copy-pased from HTML, some part is inevitably lost.
Did you remove the chechboxes in "Settings-HTML"? Anycount counts not just the text that you see on the web-page, but also Meta Keywords, Meta Description, picture captions etc, as they are normally have to be translated as well and cannot be copy-pasted from HTML... That could explain the difference. So if you do not want them to be counted, remove the corresponding checkboxes in the settings.
Anyway, if that is the case, you may ask AnyCount support why it happens so and they will probably fix the problem if it exists.
[Edited at 2009-10-09 14:52 GMT]