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in addition to Dexter's answer i found that the s2D does exactly what i need. setting up might be a bit tricky and is certainly more involved than setting JPred up but using it is easy and the output is in a nicer format.
From comments I understood that you need to predictions in bulk. You can use API based system of JPred. They allow you to submit more than 1000 jobs per user per day. You can go through instructions step by step from their documentation. It looks simple ! Another hit I got while searching is Phyre2. I am sure there are many such servers.
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