Your setup is more akin to requiring multiple jobs than a multi config job. As the source you want to build is different.
As it is different you will want to build only the branch that changed on any commit, not all of them.
Alternativly you can have a single normal job and have git checkout whichever branch changed – however I do not recommend this as trend reports become meaningless (and you may have different people maintinaing different branches and so want to change other settings like email notification etc.)
/James
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