The purpose of this study is to develop a structural analysis system of LNG pump tower structure. The system affords to build optimized finite element model and procedure of the pump tower structure. The pump tower structure is one of the most important components of LNG (liquefied natural gas) carriers. The pump tower structure is subject to sloshing load of LNG induced by ship motion depending on filling ratio. Three typer of loading components, which are thermal, inertia and self-gravity are considered in the analysis. The finite element analysis is performed with ANSYS commercial code. The failure of each members can be evaluated of API unity and punching shear in ABS rule. The GUI is newly developed using Tcl/tk script language. All these design and analysis procedures are embedded in to the analysis system successfully.