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Ethiopian striker Fikru Teferra Lemessa and Czech Republic midfielder Jakub Podany scored for the visiting team who consolidated their position at the top of the standings with six points from two matches but also had Spaniard Borja Fernandez expelled in the 84th minute for receiving two yellow cards.
It was NorthEast United's first loss of the competition after winning their first match 1-0 against Kerala Blasters.
Atletico de Kolkata led 1-0 at halftime through a superbly-taken goal by Fikru in the 13th minute. It was his second goal in as many matches.
The ball was masterly chipped over the NorthEast defence by Kolkata's 'marquee' player Luis Garcia and the striker took it on his chest and volleyed it into the net leaving the vociferous NorthEast crowd stunned. The opening goal was preceded by a strong start from the visiting team.
Atletico de Kolkata led 1-0 at halftime through a superbly-taken goal by Fikru
IANS