en el HTML, mas o menos así:
Código HTML:
<object classid="clsid:D27CDB6E-AE6D-11cf-96B8-444553540000" codebase="http://download.macromedia.com/pub/shockwave/cabs/flash/swflash.cab#version=6,0,29,0" width="100%" height="100%">
<param name="movie" value="tu_movie.swf">
<param name=quality value=high>
<param name="wmode" value="transparent">
<embed src="tu_movie.swf" quality=high pluginspage="http://www.macromedia.com/shockwave/download/index.cgi?P1_Prod_Version=ShockwaveFlash" type="application/x-shockwave-flash" width="100%" height="100%" wmode="transparent">
</embed>
</object>