Dear Bhaskar,

May be you will find some alternative program here

http://www.uwm.edu.pl/biochemia/index.php/pl/biopep/34-immunology-of-proteins-and-peptides

The functional version of MHCPred is now available at:

http://www.ddg-pharmfac.net/mhcpred/MHCPred/

However, the server appears to no longer generate heteroclitic peptides with better affinities by itself as it used to do earlier. Now, we have to ourselves feed and test each heteroclitic peptide of interest. If anyone is aware of any freeware or web-resource that does this, then please share.

Dear Bhaskar,

Use following links to predict heteroclitic peptides.

http://imed.med.ucm.es/Tools/rankpep.html

http://www.cbs.dtu.dk/services/NetMHC/

http://tools.immuneepitope.org/analyze/html/mhc_binding.html

definitely it help u.