cPanel version 11.44 uses MySQL version 5.5 as the default MySQL version. If the cPanel version is upgraded keeping the MySQL version as 5.1, the above error pop up when accessing phpMyAdmin in cPanel. Both MySQL 5.0 and 5.1 are end of life as per cPanel and , so this message pop up, but MySQL works with this latest version. To get rid of this message, upgrade MySQL version.
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September 2014
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