[youtube]https://www.youtube.com/watch?v=pMv4qtCXhhY[/youtube]
In that video he selects the Note In box on the Start Sequence 1 event, then get Reaper to loop over say C3 and then back in Freestyler hit the learn button.
Here is a shot of the screen I am talking about.

That is it in a nutshell. The video explains it better than me.
But my question is this... How do I set what Sequence 1 is? How do I set Sequence 2?
Say I have created 50 sequences, but I only want sequences 25 to 35 to be fired via midi. How do I make the midi window set my sequence 25 in the 'Start Sequence 1' box?