By the early Tuesday afternoon, it was over the central part of Manica province, and heading towards Zimbabwe.
The institute warned of winds of up to 60 km an hour in Manica and in the northern parts of Inhambane and Gaza provinces.
The cyclone has also brought heavy rains to these areas as well as to Sofala, over which it passed earlier in the day, and to the southern part of Zambezia province.
According to Radio Mozambique, the cyclone caused severe damage in the port city of Beira, ripping the roofs off many flimsy homes.
It uprooted trees and disrupted electricity supplies in Beira and the nearby district of Buzi. The poorer suburbs of Beira have been inundated by the torrential rains. There are reports of one cyclone-related death in the city.
Meanwhile, some 700 km further south, there is no relief for the residents of Xai-Xai, capital of Gaza province.
According to the latest data released from the Southern Regional Water Board, the Limpopo river is continuing to rise at Xai-Xai, and by Tuesday morning was 5.88 metres high. Flood alert level at Xai-Xai is 4.3 metres.
The other rivers in southern Mozambique were gradually subsiding, although the Incomati river remained flooded, cutting off the main Maputo-Beira road some 90 km north of the capital.
Two of the three major dams in southern Mozambique are full beyond their maximum theoretical capacity.
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