Abstract: Clonal diversity in six Cyclobalanopsis glauca populations were determined by means of allozyme analysis. Individuals per genotype were 1.270 and 1.508 at population and species levels, respectively. High clonal diversity was found in the populations. Mean Simpson’s diversity index for the six populations was 0.9882,and eveness averaged 0. 7921. 81.3% of the genotypes distributed locally. Only one genotype (0.5 %) distributed over more than 75 % of the populations. Correlation analysis shows a significant relation between Simpson’s index and total nitrogen (P< 0.05) ,and no significant relation were observed between clonal diversity and other environmental factors.