 Brigadier-General Jay Hood , the commander of the jail, looked into the allegations, published and then retracted by Newsweek, that American personnel flushed a Qur'an down a toilet.
<clarity>  Brigadier-General Jay Hood , the commander of the jail, looked into the allegations, published and then retracted by Newsweek, that American personnel flushed a Qur'an down a toilet.
 , the commander of the jail, looked into the allegations, published and then retracted by Newsweek, that American personnel flushed a Qur'an down a toilet.