The water pressure on the surface of the seabed was obtained with the cnoidal wave theory usually employed in coastal regions to analyze the interaction between the structures and waves. Dynamic responses induced by the cnoidal water waves in seabed sediments were investigated with numerical methods. Parametric studies were conducted to indicate the influences of the elastic constants, seepage characteristics and the compressibility of the pore water in analytical and numerical calculations. The results show that the excess pore pressures are extensively affected by the compressibility of the pore water and the seepage coefficient, whereas the anisotropy of the soil permeability has little impact on the pore pressure. The shear modulus and the Poisson's ratio used in the calculation also have some effect on the response of the seabed.