This paper describes a trans-skull ultrasonic system that measures the blood flow velocity in brain under skull. In this system, we use an ultrasonic array probe with the center frequency of 1.0 MHz. The system determines the blood flow and locate blood vessel by Doppler effect. This Doppler effect is examined by the center of gravity shift in the frequency domain. We use three silicon tubes of different thickness imitated to blood vessel. We confirmed the change of frequency quantity of Doppler effect according to the water current velocity. The experimental result shows that the system detects the flow velocity by Doppler effect under skull and do automatic extracting method of water current.