The Spaniard lost a likely podium finish to end up eighth in Bahrain on Sunday after his DRS overtaking aid failed.
Alonso, who was forced to retire in Malaysia, is currently 30 points behind standings leader Sebastian Vettel, but Domenicali believes that there is plenty of time to avenge that gap.
"We have less points than we should have given the performance of the car," Domenicali told BBC Sport. "But stay focused, the championship is long, there is no point in crying.
"We could have been always on the podium, maybe had another win in the four races we have done. But that is the situation, so heads up, look ahead. I 'm sure the positive will come back and the negative we had today on our side maybe will affect the others soon.
"Thirty points, [but] if he has zero points next time and we win it will be five so only four races gone, it is plenty of time. Don't forget we had [an advantage of nearly] 50 points [over Vettel] last summer."
Alonso is currently fourth in the drivers' standings.