The vessel was initially detected by a Customs and Border Protection surveillance plane and was then intercepted by HMAS Albany, a Navy patrol boat.
Customs, according to media reports, said the people onboard were transferred to Christmas Island for health and identity checks.
They also said another boat was found south-west of Darwin yesterday.
There were 78 passengers and two crew on board, and they will also be taken to Christmas Island for health and identity checks.
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