I finally found the origin of the issue.
After a few tests, it seems it only appears in fullscreen (with or without the browser tabs (F11)) in chrome.
But if I use the window mode and scale it manually to the max size of my screen, there is not fps drop.
Then I unplugged my second screen (I have 2 monitors)
No more fps drops! Everything just works fine, in fullscreen or not.
So it seems that Chrome doesn't like fullscreen HTML5 applications with dual monitor!
Does anyone heard of that problem ? Is there a trick to fix this bug ?