Abstract
We have analyzed motion of DNA molecules in the microchannel with nanofences in order to clarify the mechanism of size-based separation. The traces of DNA molecules were obtained from video images taken by a CCD camera with an image intensifier unit. We developed a program to trace DNA molecules in the microchannel during electrophoresis. It was found that smaller DNA molecules had longer detours around nanofences and the detour had nearly inverse relationship with applied voltage.