So today I was getting ready to work on a clients site, when I pulled it up and discovered the Turkish Flag.
They have been hacked, according to sites found on google, MiSource.org was one of more then 30k websites hacked yesterday by a Turkish hacker referring to themselves as ALEMiN KRALI (iSKORPiTX).
Here are the steps we followed based on those from http://www.hackedbyiskorpitx.com/ basically, reset password, restore from backup and ready to go.
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