Objective: To evaluate the incidence of Chlamydia infection in female population by considering cost effectiveness of tests. Place & Duration of Study: This study was conducted at Civil Hospital Karachi, Pakistan from May 2008 to June 2009. Methodology: Incidence of Chlamydia infection among women was determined through endocervical specimens collected from all women. The first specimen taken was transferred on slides to perform direct fluorescent antibody test (DFA) and second specimen was used for Becton Dickinson Probe Tec ET system (BDPT). Those specimens which were detected to have C.trachomatis DNA with the BDPT were accepted as positive. The data was expressed in terms of mean and percentages with a confidence interval of 95%. Analysis was done on SPSS version 16.0. Result: Out of 230 patients selected for the study, 138 cases were of symptomatic where as 92 cases were asymptomatic. C. trachomatis was detected in 20 out of 138 (14.49%) cases of symptomatic and 11 out of 92 (11.9%) cases of asymptomatic with DFA and BDPT techniques. The sensitivity and specificity of DFA were 67.2% and 94.0% respectively. While they were 75% and 95% for BDPT. Conclusion: Both DFA & DBPT tests are easy to perform and cost effective for developing countries.