Relief u/s 89

Hi All - I have filed ITR for F.Y. 2016-17 and claimed refund.  I have received the refund as well.  I forgot to claim relief u/s 89(1).  Now I have filled form 10E and also filing revised ITR u/s 139(5). However, while filing revised ITR, it is showing refund amount  as amount which has already been refunded  + Relief u/s 89(1).  Ideally, it should only be amount as relief u/s 89(1).  Please help what should I do?