That alleged evidence was an e-fit of a potential suspect which was created by a former British spy for the McCanns' own probe in to their daughter's disappearance.
Also cited by the McCanns in their complaint were comments posted by readers below the online version of the article, which was pulled down by News UK just under two weeks after publication.
But it caused the couple "severe embarrassment and distress," they claimed in court documents.
Alleging the Sunday Times' article damaged their reputation, the McCann's said that the story implied they had allowed "the trail to go cold," reported Press Gazette .
The Sunday Times later apologised for the article, which had carried the headline "Madeleine clues hidden for 5 years" and "Investigators had E-Fits five years ago."
The McCanns are seeking unspecified damages.
It's been just disgraceful how many people have abused the McCanns for their own profit.
Goncalo Amaral - Ex-detective investigating Madeleine's disappearance wrote a book accusing Kate and Gerry of murdering their own daughter
Kevin Halligan - conman who convinced the McCaznns that he could find Madeleine and took them for, by some estimates, more than a half million dollars
British Police forces - who competed for the spotlight in investigating Maddy's disappearance hampered the investigation
Then there was a couple who built a 'machine' that could find Madeleine and tried to flog it. It was basically and empty box.
The McCanns need our prayers and support not our greed and deceit.