From Trek site:
It's not how Trek-Segafredo envisioned the day when they set out to ride arguably the hardest stage of this year's Tour; with a 'take no prisoners' plan, they threw everything they had into the race.
Sending both Jarlinson Pantano and Bauke Mollema into the day's breakaway gave the team more cards to play, but when Contador crashed on a descent, and then later again on an uphill, the tables – at least the team's GC ambitions – began to turn.
Although Contador was not seriously hurt and managed his way back into the rivals group both times, his optimism took a blow. When later his legs did not respond as he had hoped for in today's important race, his morale plunged.
On the last climb, Contador struggled, and he was unable to hold the pace of the rivals group. By the finish, he arrived with an extremely fatigued Mollema – who had given a valiant effort in the breakaway and again in the finale for Contador – and lost over four minutes and dropped out of the top 10 GC.
"Today has not been a good day," said Contador, perhaps the biggest understatement of the day. "Majka fell right in front of me, and I could not avoid him. At that moment, I felt a little powerless, but I tried to recover until Nairo (Quintana) hooked with my bike and I was again thrown to the ground. Although, that in the end, was not as bad.
"It is secondary to say what is hurting me the most; simply the legs have not been as I would have liked and that's all. Mollema was a great help today. Now we have to think first of all about where I stand, and then, based on that, rethink the race."
So lots going on but he puts his loses down to Bad Legs, no excuses.