Oh and by the way, I’ve tried using both the USB midi of the Analog Rytm and the “real” midi ports on my soundcard to see if there’s any difference.
For me using the real midi input and not the USB midi stuff is slightly better. I guess that’s because RME make great hardware and their midi timing is very tight.
Midi jitter is another story and that’s something that some people have quite a lot of problem with. It’s about how the midi clock fluctuates. This can of course also be measured and analyzed. Like the famous Litmus test that Innerclock Systems have on their site.
http://www.innerclocksystems.com/New%20ICS%20Litmus.html
Short story here is that Elektron gear is very tight. Looking at the numbers is one thing but I suggest using your ears before throwing a lot of money at a problem that might not really be there. (Nothing wrong with Innerclock Systems hardware/software, I’m quite sure their stuff is great.)
If your getting a lot of midi jitter you could try to disable the clock receive in the AR and just use the transport receive instead. This way you have to manually set the tempo of the AR to match the BMP you have in Cubase and Cubase will basically just tell the AR when to start and stop.