Group testing is a method of pooling a number of units together and performing a single test on the resulting group. It is an appealing option when few individual units are thought to be infected leading to reduced costs of testing as compared to individually testing the units. Group testing aims to identify the positive groups in all the groups tested or to estimate the proportion of positives (p) in a population. Interval estimation methods of the proportions in group testing for unequal group sizes adjusted for overdispersion have been examined. Lately improvement in statistical methods allows the construction of highly accurate confidence intervals (CIs). The aim here is to apply group testing for estimation and generate highly accurate Bootstrap confidence intervals (CIs) for the proportion of defective or positive units in particular. This study provided a comparison of several proven methods of constructing CIs for a binomial proportion after adjusting for overdispersion in group testing with groups of unequal sizes. Bootstrap resampling was applied on data simulated from binomial distribution, and confidence intervals with high coverage probabilities were produced. This data was assumed to be overdispersed and independent between groups but correlated within these groups. Interval estimation methods based on the Wald, the Logit and Complementary log-log (CLL) functions were considered. The criterion used in the comparisons is mainly the coverage probabilities attained by nominal 95% CIs, though interval width is also regarded. Bootstrapping produced CIs with high coverage probabilities for each of the three interval methods.