Women's clothing store Supre in Gateway Plaza and clothing store Factorie on Liebig Street shut their doors on Sunday.

A Cotton On spokeswoman said the decision to close Supre was to improve its "footprint across the markets" and serve "customers in locations and across channels that work for them".

"We value the incredible contribution our team members have made to Supre in the local community. Our team members remain our number one priority," she said.

A Gateway Plaza spokeswoman said that women's clothing store Katies would move into the vacant store after it moved from Liebig Street to a temporary location in the shopping centre last month.

A Factorie store person confirmed the Liebig Street store would also close, with most of the store's six staff offered jobs among Warrnambool's remaining Cotton On stores.

Cotton On and Cotton On Kids remain in Gateway Plaza while Cotton On Mega, which stocks a range of the company's brands, is on Liebig Street.

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