Numerical analysis for flow characteristics of a twin skeg container ship was carried out according to skeg vertical angles($0^{circ}$, $10^{circ}$, $20^{circ}$) and skeg distances(16m, 20m, 24m) by using a commercial CFD code, FLUENT. Computed: pressure distributions, wake distributions and resistance coefficients have been compared with experimental and WAVIS results carried out by MOERI. Flow characteristics from numerical analysis such as nominal wake fractions, wake distribution and directions of the transverse vectors give good agreement with WAVIS results, even though there are quantitative discrepancy comparing with experimental measurements at the propeller plane. It is found that the better resistance performance can be obtained with the increase of the skeg vertical angle and the decrease of the skeg distance, which are mainly caused by viscous pressure resistance due to the skeg form and pressure recovery around the skeg. In addition, a vertical angle of the skeg gives more effect to the resistance coefficient comparing with the skeg distance. On the basis of results of the present study, it shows that numerical analysis using the commercial code, FLUENT, is useful and efficient tool for the evaluation of the complex stern hull form with twin-skegs.