What do people do now? Or is it still all custom?
PHPMyAdmin is useful but only as far as a basic replacement for an SQL Management Suite, but most bespoke management suites offer more functionality (e.g. tracing, profiling, etc). Plus securing the raw ports for remote management is far easier than trying to secure PHPMyAdmin sitting on an internal HTTP server that might itself have vulnerabilities (and stereotypically you have to give PHPMyAdmin database root or equivelant to work well).
Custom is popular because most people don't want raw database access. They want access to manipulate organisational data itself rather than the table schema, database user security, or database settings. Table schemas should be mostly static outside of development environments, production should have well tested, well scheduled schema updates, no single user should be sitting there with a database root user fiddling about by "hand." That's just asking for unrecoverable data loss or downtime.
Custom also allows you to tie access into your existing single sign on system, and do a few sanity checks on the changes users make.
Our reports department uses Qlikview, which accepts all sorts of data in any sort of format. Which is very easy to use after a few training sessions.