An embodiment of the present invention provides a phase locked loop that operates on clock signals derived from an RF clock signal generated by the phase locked loop. A frequency reference input provides a reference clock. A controllable oscillator generates the RF clock signal. A phase detection circuit operates on the reference clock to provide digital phase error samples indicative of a phase difference between the reference clock and the RF clock. A dithering circuit is coupled to the reference signal and injects a short sequence dither signal into the reference signal in order to overcome quantization noise and thereby improve RMS phase-error detection for integer channels.