Marine algal flora and community structure were examined at four sites at Tongyeong, Korea, from February to December 2009. Eighty-two algal species were identified, including 10 green, 25 brown, and 47 red algae. During the study period, the number of species was highest at the Dukpo (61 species) site followed by the Gajodo (60 species), Yepo (58 species), and Chilchundo (53 species) sites. Seaweed biomass ranged from 578.11 to 678.26 g, with the maximum and minimum at Chilchundo and Yepo, respectively. Dominant species in term of biomass were Sargassum thunbergii at Yepo, Dukpo, and Gajodo and Gelidium amansii at Chilchundo. The vertical distribution from the high to low intertidal zone was Sargassum thunbergii and Chondria crassicaulis; Sargassum thunbergii and Ulva linza; Ulva pertusa, Sargassum fulvellum, and Gelidium amansii. Two groups clearly segregated in a cluster analysis, a Yepo/Dukpo group (group A) and a Gajodo/Chilchundo (B), indicating relatively strong differences in similarity. The seaweed community structure of group A was characterized by higher biomass and higher species richness of brown algae than were observed in group B. Additionally, the biomass ratio and the species richness of green algae was lower in group A. These differences in seaweed community structure may have been resulted from the effects of cold effluents.