You wouldn't skip words exactly. You've already PhotoRead them. Your mind and eyes will draw your attention to the parts the conscious mind needs so that you can recall it later. Since you've PhotoRead it all the words are in your mind.
PhotoReading puts the information into the long term memory. Activation is for the benefit of the conscious mind to build the neural pathways to make it easier to recall the information when or as you need it later.
Speed reading uses the short term memory and if you put that information into the long term memory then you have "skipped words" and you're trusting the mind to fill in the blanks correctly.
Alex