Anurag,
I am afraid this can not be accomplished from CA SSO SAML 1.1 configuration, because there is no option given to modify the entry.
Per specification, <NameQualifier> is an optional parameter, thus a vendor can choose either implement it or not to.
<extension base="string">
<attribute name="NameQualifier" type="string" use="optional"/>
<attribute name="Format" type="anyURI" use="optional"/>
</extension>
This kind of limitation will explain why people move on to SAML 2 and as well as development effort.
Maybe you could convince your partner to drop this requirement since it is optional, if you have to do this, then assertion customization Plug-in (also known as Custom code) will be the last resort.
Hope this helps.
Hongxu