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A complaint filed Oct. 12 in U.S. District Court in north Mississippi says Christopher Gary Hughes threw the woman to a concrete floor of the Lee County Detention Center and kicked and stomped her on Oct. 14, 2007.
Authorities say Lee County Sheriff Jim Johnson notified the Highway Patrol immediately after the incident and turned over a video.
The FBI is leading the investigation.
It's not clear why Hughes was charged nearly five years later.