Abstract: Species composition, abundance and distribution of phytoplankton were studied from harbour and coastal waters during February and March, 2009. A total of 49 genera with 65 species of phytoplankton were recorded in this study. Among these 40 genera was represented by 46 species of diatoms and 9 genera with 19 species of dinoflagellates. There were 40 species of diatoms, 15 species of dinoflagellates in the harbour areas and 36 species of diatoms, 16 species of dinoflagellates in the coastal waters were recorded during February. Whereas 33 species of diatoms, 15 species of dinoflagellates in the harbour areas and 37 species of diatoms, 13 species of dinoflagellates in the coastal waters were recorded in March. The study indicated higher phytoplankton densities and low diversity in harbour areas compared to coastal waters.