England defender Danny Rose is in the frame to start, but Pochettino refused to comment on rumours Rose was "fuming" for being left out of Saturday's derby.
Third-placed Dortmund must beat Group H leaders Spurs and hope Real Madrid fail to win at APOEL, also on Tuesday, to keep alive their thin hopes of reaching the last 16. "I'm very happy for him".
"We are positive, very positive, because the performance was good, the effort was good", he said. Saturday's decision helped him develop his fitness. "We are going to play with our best team, fresh players, not taking risks because their health is most important".
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"I'm happy because the squad is good, mentality is ideal, and the reaction after Saturday was fantastic". I am happy that people criticise us sometimes because it means people expect more from us. Two draws and two defeats have seen them pick up just two points, meaning they are five points short of Real Madrid in second, and eight below Tottenham at the top.
"I want to congratulate the players". They were fantastic today. After the disappointment of Saturday it's great to feel the victory. Sometimes you need luck to win. When you lose something is wrong.
"The team stepped up and after Saturday we were ready to compete here in a hard game against a hard team and we are so proud".
"They were fit [to play against Arsenal], both Dele Alli and Harry Kane", Pochettino said.
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Meanwhile, the results ended Dortmund's chances of qualifying for the knockout stages.
"There is still a bad feeling after the Stuttgart game and it's important to get out of this situation as a group", said Germany midfielder Julian Weigl.
Dortmund, who have won two of the three games all time between the sides, have lost at home to an opponent from England only once in their eight previous games in European competition.
He told Sky: "At 1-1 we saw that the players lacked the self-confidence to continue to play football".
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Ze Luis sliced a header off target in the first half and powered another one inches wide of the near post in the 77th minute before he finally found the net following a goal-mouth scramble to thrill the fervent home crowd.