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One had its epicentre in the neighbouring country of Myanmar, the second in Manipur.
A report by National Centre for Seismology said a 5.2-magnitude earthquake, with epicentre in Myanmar, was recorded at 3.52 am. It lay at a depth of 140 km.
Tremors were felt in Assam, including Guwahati.
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It was reported at 7.53 am, the report said.
No news of any loss of life or property was received from any location as yet.
The northeastern region falls in high seismic zone, making earthquakes a frequent occurrence.