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It is known that vibrational characteristics of a ship are influenced by its loading conditions. To make clear the influence, we carried out vibration measurements onboard a container ship in service. Furthermore, we calculated their modes of vibration and modal parameters, by whole ship FEM to evaluate the measured data quantitatively. As the results, (1) we obtained vibration measurement results in 3 loading conditions. (2) we represented loading dependant variation in mode of vibration and natural frequency by FE analysis. (3) we identified modal parameters in 3 loading conditions by FE analysis in conjunction with measurements.