A nonlinear aeroelastic analysis system in transonic and supersonic flows has been developed using high speed parallel processing technique on the network based PC-clustered machines. This paper includes the coupling of advanced numerical techniques such as computational structural dynamics (CSD), finite element method (FEM) and computational fluid dynamics (CFD). The unsteady Euler solver on dynamic unstructured meshes is employed and coupled with computational aeroelastic solvers. Thus it can give very accurate engineering data in the structural and aeroelastic design of flight vehicles. To show the great potential of useful application, transonic and supersonic flutter analyses have been conducted for a complete aircraft model under developing in Korea.