Milan see off Auxerre to join Madrid in last 16
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Arsenal were unable to shake off the malaise of their North London derby reverse to Spurs as they suffered a second successive Group H defeat, with Braga now level on points with the Gunners.
The Gunners succumbed to two late goals from Matheus in Portugal.
The Brazilian striker broke the offside trap before firing beyond Lukasz Fabianski in the 83rd minute before producing a splendid finish following a driving run in the third minute of added time.
Arsene Wenger's side must beat FK Partizan, who have lost all five of their matches to date, at Emirates Stadium on 8th December to be sure of booking their place in the knockout phase of the competition.
Shakhtar Donetsk are the new leaders of Group H and have 12 points on the board following their 3-0 success away to Partizan.
Taras Stepanenko fired home seven minutes into the second period, with Jadson adding a second before the hour mark and former Arsenal favourite Eduardo also on target soon after.
Chelsea secured top spot in Group F with a 2-1 victory over MSK Zilina but a much-changed Blues came close to an embarrassing result in front of their own fans.
Stamford Bridge was stunned into silence when Zilina took the lead in the 19th minute as Babtounde Bello produced a delightful first-time finish from the edge of the box following a slick one-two with captain Robert Jez.
Half-time substitute Salomon Kalou then provided the cross for Daniel Sturridge to restore parity early in the second period before Florent Malouda lifted the mood with the winner four minutes from time.
Marseille made sure of their progress from Group F behind Chelsea with a 3-0 victory over 10-man Spartak Moscow at the Luzhniki Stadium.
Mathieu Valbuena's delightful finish after only 18 minutes put the French champions on their way with Loic Remy's somewhat fortunate second coming early in the second period.
Welliton saw red for the hosts in the 64th minute after reacting to a sly nudge from Souleymane Diawara before Brandao set the seal on their success soon after.
Roma produced a stirring comeback to overturn a two-goal deficit and triumph 3-2 against Bayern Munich at the Stadio Olimpico in Group E.
Louis van Gaal's men went ahead in the 33rd minute through in-form striker Mario Gomez, who added his sixth in five Champions League games soon after with a composed finish.
Marco Borriello pulled one back for the hosts at the start of the second period, finding the net from a prone position after slipping as he went to meet Jeremy Menez's cross following a rampaging run.
Daniele De Rossi restored parity nine minutes from time and it was left to Roma legend Francesco Totti to hit the winner from the penalty spot six minutes from time, with Bayern confirmed as group winners despite the defeat.
Basel are still in with a chance of stealing second spot following their narrow success at home against CFR Cluj.
Federico Almerares gave the Swiss side the lead with 15 minutes on the clock as he slid in to fire home at the far post, with Felice Piccolo dismissed for the visitors late on.
