Have you tried MySQLTuner yet? It's free and it makes optimizing your MySQL server easier than ever!

To make Apache write logs similar to IIS, toss this into your Apache configuration:

LogFormat "%{%Y-%m-%d %H:%M:%S}t %h %u %m %U %q %>s %b %T %H %{Host}i
%{User-Agent}i %{Cookie}i %{Referer}i" iis

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