The Ministry of Education is investigating the incident.
Head of sector enablement and support Katrina Casey said the ministry had met with the centre, and the centre was taking the incident seriously.
"[The centre] has made some immediate changes to its practice, she said.
"We will be meeting with the service again as our investigation progresses. We will be discussing with them any further changes needed to ensure children are safe.
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"Children's health and safety is of paramount importance. We act immediately if there are concerns about children's health and safety."