After dominating the first half, Norwich were left to rue failing to take what chances they did create as United substitute Danny Welbeck grabbed the only goal to extend the Canaries' winless run to four games.
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"It is a massive disappointment, it's certainly a game we didn't deserve to lose," Hughton told reporters. "On the balance of play, I thought we were excellent in that first half.
"When you're having the best period in the game – which we were in the first half – you've got to try and capitalise on it and we didn't do that.
"I thought we were good in the second half as well. It's a fortunate goal for them, but when that falls to someone of Welbeck's quality you expect them to score.
"Over the 90 minutes, I thought we were the better team, but of course it is goals that win games."