Weathering and permeability in rocks play a very important role in underground disposal of radioactive waste and their long-term management as well as stability security of rock structures. Weathering and permeability of rocks are largely controlled by the characters of inner structures of rocks. In other words, weathering rate can be accelerated depending on the quantity of pore and microcrack in rocks. Quantitative evaluation of inner structures of rocks can serve as a tool that can assess the degree of weathering of rocks. Therefore it can be said that the understanding of three dimensional distribution of the inner structure of rocks is important for long-term management of rock structures. This study was performed to analyze three dimensional distribution of pore in rocks using Micro Focus X-ray CT on fresh granite and weathered granite from Korea. Results of the analysis clearly show distribution of pore and porosity of the inner rock.