"Connection SUCCESSFUL!"
My friend's server has the same problem. You can connect to it, play on it fine, but it always shows up on the server list with the wrong ports, however many times you may restart the server. I posted a thread about it a few months ago, and jitspoe replied, but since it wasn't my server, I couldn't do much more than RCON, so I wasn't able to provide jitspoe the info he asked for (and then the thread died...).
Also, when I was testing the troubleshooter, the server I booted up had the same problem... you can connect, but it had the wrong port numbers on the server list.