MRSA has been causing increased morbidity and mortality both in the hospital and community .The aim of the present study was to know the prevalence of MRSA and its antimicrobial susceptibility pattern and to analyse the conventional and molecular detection methods . All the clinical samples submitted for Culture and sensitivity were processed following standard laboratory protocols. All the Staphylococcus aureus isolates were tested for Cefoxitin screen (30µg) by Kirby Bauer disc diffusion method and simultaneously processed in Vitek2 Compact and then were subjected to PCR for mecA gene detection. Of the 639 Culture positive isolates 43 were S. aureus . Of these 13% were identified as MRSA by Cefoxitin disc diffusion method, 27% in Vitek2 and all these 27% isolates were found positive for mecA gene by PCR. Automation is highly effective in detection of MRSA and is a best alternative for the gold standard PCR