The actors, who star as Dr Watson and Mary in "Sherlock" series, have been together since 2001 and share two children, Joe, 10, and Grace, eight, reported E! Online.
"I'm not with Amanda anymore. It's very, very amicable-I'll always love Amanda," Freeman, 45, said.
The two met in 2000 on the set of their Channel 4 film "Men Only" and went on to work together on a number of films such as "The Debt" and "The Robinsons".
Freeman did not reveal when the two split. Abbington has not commented on the breakup directly but thanked fans on Twitter after they posted her messages of support.
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