To investigate applicability of the spatial autocorrection method which is a microtremors exploration method for the estimation of basement structure, array measurements of microtremors were performed using the Iwatsuki and Shimosa deep borehole observatory where detailed structures were clarified as well as the Fuchu and Koto deep borehole observatory. In this study, estimated velocity structures of S-wave were compared with the geological sequence and results of acoustic velocity logging. The phase velocity was estimated by the spatial autocorrection method using FFT. The phase velocity with a smooth normal dispersion was observed in the periodic range from 0.5 to 5 sec in Iwatsuki, and from 0.5 to 4 sec in Shimosa by the combination of four-point circular arrays with radii of 100, 300, and 600 m. The underground structures estimated from the phase velocities coincided well with the geological sequence, and results of acoustic velocity logging and velocity logging for each borehole. For the Iwatsuki borehole, the basement velocity was also estimated properly in the periodic range of observation. While, for the Shimosa borehole, measurements with the period around 6 sec were required to estimate the basement velocity more accurately. 13 refs., 11 figs., 1 tab.