Both sides had lost their first two matches, meaning this encounter was a dead rubber, and so it was no surprise the match lacked real incident.
Younes Belhanda's goal 11 minutes from time proved decisive, the Montpellier midfielder converting a pass from Arsenal forward Marouane Chamakh.
It meant Niger's debut in the tournament ended with just a single goal and no points from their three games.
Belhanda gave a warning of things to come by shooting over from distance early on while Youssef Hadji fluffed his lines following a decent cut-back from the byline.
Niger's Moussa Maazou hit the crossbar with a brilliant volley and the tournament minnows began the second half more brightly, with Abdoul Karim testing goalkeeper Mohamed Amsif from distance.
With the match seemingly drifting towards a tame draw Mbark Boussoufa forced another save from Niger goalkeeper Daouda Kassaly before Belhanda struck in the 79th minute.
Chamakh found space in the penalty area to pick out Belhanda, who smashed home the winner.
Niger were denied a late equaliser when another long-range effort from Karim flew narrowly over the crossbar.
Victory lifted the Atlas Lions to three points as they finished third in the group. Gabon topped the standings with a 100% record after tonight's 1-0 win over fellow qualifiers Tunisia.
The new PUMA evoSPEED 1.2 FG. A great new soccer cleat with classic look and first time for PUMA to be on the cleat.
The push for more color on their cleats, adidas has added the infrared colorway to the adiZero f50 Line.
adidas has added some color to the Predator line with this new colorway. Released on May 17. Be the first to own a pair.
Borussia Dortmund hears Wembley Calling and are headed to London for the Champions League final.
Chelsea won the Europa League on Wednesday. The Blues defeated Benfica 2-1 on injury time goal from Ivanovic.
The Juventus jersey for the 2013/14 was released earlier this week. Be the first to wear the colors of the Old Lady.
The Liverpool 2013/14 soccer jersey is available for pre-order. The Reds are eager to compete for silver next season.
Ajax has released their away soccer jersey for the 2013/14 season. Get in the Gear.
One of the top soccer cleats for control the Nike CTR360 will not let you down on the field in tight spaces.
Bayern Munich are kings of Germany and hope to be crowned kings of Europe at Wembley later this month!