If you do not rectify it immediately, this discrepancy may cause various complicated problems in future.
I feel that you have passed your B.Tech examination very recently. So, you can easily submit an application to the concerned University to rectify the mistake (in your father's name) along with supporting documents (PAN card, AADHAR card, etc. of your father). Most probably, this minor mistake will be rectified quickly by the University.
However, if the mistake is not rectified, you have to sign an affidavit before a first-class magistrate of your city and publish classified advertisement in one English and in one vernacular newspaper indicating the correct name of your father. You have to preserve the affidavit and advertisement permanently.
Beware! I question everything and everybody.