It looks like Fred the wonder boy Alonso had an engine advantage over Felipe. According to the FIA report both drivers were told to turn down their engines and shortly after Alonso was allowed to turn his back up. Felipe was never told to do the same. :D
http://www.autosport.com/news/report.php/id/86508
"The report also revealed that a few laps before the radio communication where Rob Smedley informed Massa that Alonso was faster than him, both drivers had been ordered to turn their engines down before the Spaniard was allowed to turn his up again.
"Alonso increased his engine speed without Mr Felipe Massa's being informed," revealed the FIA document. "Mr Fernando Alonso was therefore benefiting from a definite performance advantage over Mr Felipe Massa in the moments preceding the contentious overtaking."