Numerical simulations are performed to study the unsteady flowfields in peristaltic micropumps. A peristaltic micropump consists of three or more pumping chambers in which an oscillating membrane is used to drive the microfluid flow. The direction of the net pump flow is mainly controlled by the phase differences of the membrane oscillations in different chambers. In the work, the effects of phase differences on the pump flow rate are studied in detail. For a micropump with three pumping chambers in series arrangement and with a working frequency of 1 Hz, the maximum flow rate occurred at a phase difference of roughly 66°. For a micropump with more than three pumping chambers, the maximum flow rate depends on the phase differences and the chamber configurations. In general, peristaltic micropumps with chambers in parallel arrangement have higher pump flow rate and pumping efficiency than those with chambers in series arrangement.