ISI reports that their popular index to the scholarly literature, Web of Science, covers the contents of 494 peer-reviewed open access journals. That amounts to 4.5% of the roughly 11,000 journals covered by the service, also known by its subsets — Arts & Humanities Citation Index, Science Citation Index, and Social Sciences Citation Index.
It is good news as we all support OA , as DOAJ there are 4468 OA journals already, hope OA journals will get more reputation and ranking with compare to subscription based Journals.
List of Journals which are included in Web of science are here
Note : Few of the journal which are listed are not Open Access e.g International Social Science Journal (by Wiley) IMF Staff Paper (Palgrave)