If you had read the docs as has already been suggested:
After calling, the handle will be set to read at a point after the BOM (or at the beginning of the file if no BOM was found)
So all you need to do is find out what your current position in the file is after you get the encoding:
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($encoding, $spillage) = get_encoding_from_filehandle(HANDLE);
$bom_length = tell HANDLE;
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The intelligent reader will judge for himself. Without examining the facts fully and fairly, there is no way of knowing whether vox populi is really vox dei, or merely vox asinorum. — Cyrus H. Gordon
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