Trip distribution plays an important role in the analysis and network evaluation phases of the transportation and the traffic planing process. In this paper, the authors propose an algorithm for estimating the trip distribution between each pair of zones such as harbours and straits. The algorithm is formulated by using the observed data and introducing the concept of entropy when observed data between harbours were not existed. In order to examine the feasbility , the proposed algorithm is applied to ships on traffic route in Hanryu Sudo and in Korea costal waterway. And also, its validity is examined by comparing another algorithm through statistical test.