Sunday Oliseh’s men were beaten 1-0 by the Syl Nationale of Guinea on Tuesday at the Umuganda Stadium Rubavu, Rwanda.
Ibrahim Sankhon scored the only goal of the game at the stroke of half-time, after capitalizing on poor display from the Nigerian defence.
Nigeria started the second half brightly bringing in top scorer Chikatara, but the disciplined Guinean defence always kept the Eagles at bay.
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It was the Nigerian opponents that almost added a second when goal scorer Sankhon dribbled his way into the Nigerian box but scuffed his shot narrowly wide.
Guinea progressed alongside Tunisia who demolished Niger 5-0.