Every, year, a great amount of site investigation data is collected on site to obtain sufficient conditions. Investigation of subsurface conditions is prerequisite to the design and construction of structures and also provides information on ground properties such as geologic formation and types of soil. This data set, which portrays real representation of ground conditions over the existing geologic and soil maps, could be further utilized for analyzing the subsurface conditions. It is therefore necessary to develope a subsurface exploration analysis system which is able to extract the valuable information from the heterogeneous, non-normalized subsurface investigation data. This paper presents the overall design scheme and implementation on a subsurface exploration analysis system. The analysis system employs one of data set such as bore-hole data. The clustering technique employed in the developed system makes a large volume of bore-hole data into several groups in terms of ground formation and geographical vicinity. As a result of clustering, each group or cluster consists of bore-hole data with similar characteristics of subsurface and geographical vicinity. In addition, each clustered data is displayed on digital topographical map with different color so that the analysis of site investigation data could be performed in more sensible ways.