Briton Froome finished 61 seconds adrift of the leaders after a crash on the opening day, but avoided trouble on stage two.
"It's about what I expected, we thought we'd lose a bit to Froome and we lost a bit to Froome", said the dry-witted Quintana.
Agence France-PresseParis: Chris Froome was booed by a section of the public on the starting ramp but otherwise enjoyed a great day in the Tour de France team time-trial on Monday where Sky were edged by four seconds by winners BMC.
Thomas missed out on the yellow jersey by just three seconds, having started the day sixth in the general classification and one second up on Van Avermaet. We evaluate the Tour's GC standings after this pivotal day.
Title contenders Vincenzo Nibali, Tom Dumoulin, and Romain Bardet are 16 seconds behind Sagan, giving them an early advantage over Froome.
A year ago, Sagan was kicked out of the Tour after race organizers ruled he caused a crash that broke the shoulder blade of Mark Cavendish in a sprint finish to end Stage 4. It would have been nice not to have thrown 51 seconds away on the first day. Through the jury's decision, in the final version as many as 116 riders had the same time as the leg victor, Peter Sagan (4:06:37 hour) i.e.all those who were in the peloton at the time of the crash.
And though Sky missed out on victory - and a chance to put Geraint Thomas in the yellow jersey - Froome was able to eradicate the deficit to numerous other contenders.
By finishing second in the 35.5km team time-trial around Cholet, Team Sky did that with typical efficiency.
The overall leader after second stage, Peter Sagan, was dropped by his Bora-Hansgrohe teammates and fell to 80th overall and lost the yellow jersey.
"It was a strong effort from everyone", said the 33-year-old.
Movistar lost 53 seconds, which leaves Colombian Nairo Quintana, twice runner-up, 1:13 behind Froome - a massive amount of time after only three days of racing.
Tomorrow the Tour de France 204-kilometre sprint stage with the only mountain of the fourth category, which the participants of the race will overcome 60 kilometers from the finish.