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I tried to update my Xperia S to latest build version 6.2.B.0.200 with sony PC companion but it said that the version is modified and the software could not be updated... I have updated my phone to 4.1.2 jelly bean... Any solutions for this problem???
It sounds to me that your phone have a modified the software (custom rom) or that your phones boot loader is unlocked.
If this isn't the case you can try to update with Update Service instead: