Flooding normally occurs during periods of excessive precipitation or thawing in the winter period (ice jam). Flooding is typically accompanied by an increase in river discharge. This paper presents a statistical model for the prediction and explanation of the water discharge time series using an example from the Schoharie Creek, New York (one of the principal tributaries of the Mohawk River). It is developed with a view to wider application in similar water basins. In this study a statistical methodology for the decomposition of the time series is used. The Kolmogorov-Zurbenko filter is used for the decomposition of the hydrological and climatic time series into the seasonal and the long and the short term component. We analyze the time series of the water discharge by using a summer and a winter model. The explanation of the water discharge has been improved up to 81%. The results show that as water discharge increases in the long term then the water table replenishes, and in the seasonal term it depletes. In the short term, the groundwater drops during the winter period, and it rises during the summer period. This methodology can be applied for the prediction of the water discharge at multiple sites.