As you are running 6.5 you can enable some additional debugging which
shows when the server is running slowly:

Enable Performance Monitoring
Go to Server Statistics
At the bottom of that page, put 0.5 in the High warning threshold box
at the bottom of the page and press Set All

This will add an entry to the log if any of the measurements displayed
on this page take longer than 0.5 seconds.  To see the entries, scroll
to the top of the page and click on the 'here' link.  Leave the server
running for a while and then paste here what you see.


-- 
Triode
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