the best software for identification of short sequence similarity

[milen]

Greetings:

I would like to compare two proteins for shared linear B cell epitopes.
Any suggestion about the most reliable way to do this are appreciated.
Milen
Milen Vassilev MD
Clinic of Gastroenterology
Univ. Hosp. "St Ivan Rilskii"
15, D.Nestorov str.,
Sofia -1431
Bulgaria
phone : ++359 2 590060
fax   : ++359 2 592006
fax   : ++359 2 591043
e-mail: milen at sun@medun.acad.bg(office)
        mvasilev at sf.cit.bg(private)