I'm afraid so

Phrase

Unfortunately, yes; I regret that that is so.

Japanese Meaning

残念ながら、そうです / 残念ですが、その通りです

When I asked if the project could be finished on time, the manager sighed and said, "I'm afraid so".

プロジェクトが期日までに終わるかどうか尋ねたとき、マネージャーはため息をついて「残念ながらそうです」と言った。

Sense（1）

Unfortunately, yes; I regret that that is so.

Do we really have to do every one by hand? Yes, I'm afraid so.