Very few, but some management systems (WebsoteOS for one) does not allow phpMyAdmin from accessing the database.
The problem stems from the fact that phpMyAdmin (pMA) does a general query for all allowed databases and the management system sees that as an attempt to view all databases for all users. The management program is poorly written, while pMA doesnt do this, the companies I have dealt with feel they are justified.
Unfortunately for those of us who like and use pMA, there is nothing we can do to open their eyes that pMA is only looking for the 'allowed list' for the username and password specified, there is an alternative though.
I personally do not like this program, but I have heard good things about it, and it does work where pMA will not in all cases I have tried. My SQL Front. You can download it here.
It is a 30 day free trial, but once your database is set up, you should be able to use script to do anything else (create single table, alter tables).
That was a mouthfull
