Even though I find phpMyAdmin and similar tools useful I don’t like them on production servers. When I spent a lot of my time protecting website against SQL injection I don’t want to leave opened doors to access the database through phpMyAdmin. Many phpMyAdmin installations are not protected with HTTPS and just one login on a public or attacked wifi can lead to a lot of troubles. So I recommend to delete the phpMyAdmin installation from the server and start with a more comfortable and secured way to do the task.
SSH tunnel will give you the security you’re looking for. Start your Putty, load the session and configure tunnel:
I’ve selected port 3366 to be used on my local machine so it avoids conflict with my other installation. Now I can connect from any tool to MySQL database at localhost:3366. I prefer Netbeans IDE and MySQL Workbench which is also really great for server/user configuration.