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I understand that you are experiencing boot issues and a short on your USB and analog audio ports.
In regards to your inquires, I recommend you to test your motherboard out of the chassis on a basic configuration and to test with a different power supply as this behavior may be caused by a bad power supply or a short/grounding with the chassis.
Thank you for your response. After reading few post i have successfully reset the bios. I have formatted my system with latest updated drivers. Now the Pen drive is working fine. Could be a driver issue. I am monitoring system for any such issues. I will contact this forum again if this issue comes again.