The study was carried out to lead a comparative analysis on antimicrobial activity of selected Citrus fruits and to identify the antimicrobial compounds present in them. The citrus fruits used for the study were Citrus aurantifolia, Citrus indica, Citrus limon, Citrus limetta and Citrus grandis. The antimicrobial activity of fruit juices was tested on selected bacterial strains of Staphylococcus aureus (Gram positive) and Escherichia coli (Gram negative). The result showed that all the citrus fruits used in the experiment exhibited antimicrobial activity, the most effective ones were Citrus aurantifolia and Citrus limon while Citrus limetta showed less zone of inhibition in comparison to the others.