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Different plant parts of various Bauhinia species are utilized as folk medicine. The present study was, therefore, assigned for RAPD analysis so as to explore the possibilities of applying such molecular methods to subsequent detailed biosystematic and biodiversity analysis of the Bauhinia DNAs. Bauhinia leaf samples were collected and further processed to obtain DNA. DNAs further used for PCR and RAPD analysis. RAPD primer screening was done with 15 primers and out of which, data of 9 primers were used for RAPD analysis. From distance data NJ tree was generated. The NJ tree indicates that dendrogram was divided into two groups and also showing genetic distance among plants under study. The variability exhibited at the morphological levels is also revealed upon DNA analysis of the different genotypes. The present study was done to provide foundation for advanced R&D methodologies such as the ones which employed in Biodiversity and Genetic diversity analysis. Thus it can be concluded that, RAPD analysis explore the possibilities of applying such a molecular method to subsequent detailed biosystematic and biodiversity analysis of economically important plants.