Many pile foundations were severely damaged by soil liquefaction at the Port Island during the Hyogo-ken Nanbu Earthquake, January 17, 1995. The objective of this study is to investigate the responses of a pile foundation in the liquefied soil by the difference of input earthquake motions. Earthquake response analyses of a structure on pile foundation are conducted using the numerical model that takes into account the effect of excess pore water pressure. Two earthquake waveforms, which have the different cyclic characteristics, are employed as an input motion. These analytical results indicate that bending moments of pile are affected by the difference of liquefaction process due to the cyclic characteristics of input earthquake motion.