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The first repatriation flight from Dubai carrying 170 passengers is expected to land at the Mangaluru International Airport (MIA) here on Tuesday.
Nearly 1,000 rooms at lodges, hostels and service apartments have been kept ready as quarantine facilities for the NRIs.
The authorities have reserved rooms in 18 hotels, lodges and six hostels for the mandated two-week quarantine.
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All the quarantine facilities will have the services of doctors to monitor the health of those coming from abroad.
Around 3,000 Indian citizens have sought repatriation to DK and Udupi districts from different countries, sources said.
Some of them will arrive in ships once the services are started to the New Mangalore Port.
Only people belonging to DK district will be quarantined here, while those from Udupi, Uttara Kannada districts and Kasaragod in Kerala will be sent to their respective destinations.