This study focuses on understanding of the sensitivities of the acoustophoretic process on uncertainties/errors in the geometric properties of the chip material and the piezoelectric actuators. The sensitivity of the acoustophoretic process is investigated both numerically and experimentally. For the numerical simulations a three dimensional finite element model is used. In the experimental analysis, a microfluidic chip with two stations is used. The first station has the accurate geometric values of the design and the second station has the introduced error in a geometric parameter so that the effect of this error can be demonstrated on the same chip and the channel.