Laser induced fluorescence (LIF) detection is one of the main means of Capillary Electrophoresis (CE) chip detection, in which the confocal detecting device is commonly used for its higher sensitivity and signal-to-noise ratio (SNR). Based on confocal LIF detection principle, the confocal laser induced fluorescence detecting system, which could realize the auto focusing, and auto tracking was presented, and it contained the confocal optical system, the microprocessor control system and the computer process system. This device can acquire the fluorescence data by PMT or the chip images by CCD, and 3-dimensional electric moving stage could be controlled to accomplish the auto focusing and auto tracking by image process. The device could detect or observe the CE chip data in real time.