Assessment of benthic quality status was implemented along the subtidal areas of Jindo and Jejudo to understand faunal structure of polychaete assemblages and ecological quality of the benthic environment. Sediment analysis was characterized by well sorted of both mud and sand in Jindo, and a little higher sand in Jejudo instead. A total of 68 polychaete species were found at 14 sampling stations with a mean density of 231 inds./m2, and 61 species, 167 inds./m2 and 62 species, 295 inds./m2 in Jindo areas and Jejudo areas. Dominant species found in Jindo areas were Heteromastus filiformis, Ampharete arctica, Prionospio sp., Sigambra tentaculata, Thelepus sp. and Amphicteis gunneri, Ampharete arctica, Prionospio sp., Spiochaetopterus costarum, Heteromastus filiformis in Jejudo. With a help of cluster analysis, it was found that the sampling stations showed distinctive pattern of the distribution pattern and benthic quality status in Jindo and Jejudo except sampling station numbers 5 and 6, respectively. AMBI analysis the results were 1.2-3.4, grade Ⅴ benthic polychaetes did not appear. It was evident that both Jindo and Jejudo had different sedimentary characteristics as well as distribution pattern of polychaete assemblages.