PHP/MySQL sites get indexed for sure and as long as you follow optimization techniques this shouldn't be a problem for the original poster.

The debate has moved on to whether they get indexed (well) or not, and some have offered examples of database driven sites using dynamic URLs and suggesting use of mod_rewrite. While this is good, in my experience I've seen dynamic URLs rank just as well as a PHP/MySQL site that doesn't use them.

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Happy coding,
The Martian