What is the meaning of analog clock and indeterminate Clock? What frequency of Crystal oscillators are used in PSOC5lp device?
Analog clocks have got different routing paths to suppress noise.
MHz ECO crystal stated in PSoC5LP Family Datasheet as 4 to 25 MHz
Is it possible to change CPU clock frequency on run time?
Yes, look into "System Reference Guide" (from Creator help menu) concerning clock access.