Sorry for not getting it, do you mean like this?
{literal}<script language="JavaScript" src="http://www.trustlogo.com/trustlogo/javascript/trustlogo.js" type="text/javascript">
</script>
{/literal}
And
<!--
TrustLogo Html Builder Code:
Shows the logo at URL
http://www.mydomain.com/shop/trustlogo/cornertrust.gif
Logo type is ("SC")
Floating on the
//-->
{literal}<script type="text/javascript">TrustLogo("http://www.mydomain.com/shop/trustlogo/cornertrust.gif", "SC", "bottomright");</script>
{/literal}