Ideally you'd see about 12.5 if it hasn't been running for a while, and something in the 14 range with it running and the engine revved a bit.
One explanation for your symptoms is a charging system problem, and when the battery voltage gets too low, the ignition system quits. Then letting it sit for a while lets the battery recover a little and it starts and runs for a while. I know when I had a failing battery in mine, once cranking got slowish, I had to push it to start it.
These bikes don't have CDI by the way, they're electronic ignition systems that switch coil primary current, but not Capacitor Discharge Ignition systems.
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