A circuit for generating a clock signal which is frequency aligned with a reference clock signal is disclosed. The circuit comprises a phase detector coupled to receive the reference clock signal and the generated clock signal. A frequency alignment circuit generates an average frequency alignment signal based upon comparison of the phase of a generated pulse train and the phase of a reference pulse train. Finally, an oscillator control circuit is selectively coupled to receive an output of the phase detector based upon the frequency alignment signal from the frequency alignment circuit. The oscillator control circuit generating an oscillator control signal for controlling the frequency of the generated clock signal. A method of generating a clock signal which is frequency aligned with a reference clock signal is also disclosed.