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I'm not sure how Ms. Dubose affects Scout in this way. Scout learns something from Miss. Dubose; she learns what real courage is. I don't believe Scout is "anti girl". She simply does not want to conform to Southern stereotypes of how girls are supposed to act.
Basically, she tells scout that it takes real courage to be something(or act like something) you are not. In a good way. But this causes it to seem like Mrs. Dubose doesn't want Scout to act like a boy although telling her how brave she is for being herself in a society that doesn't generally accept it.