Lining up the wrong direction?
 

Teams line up wrong direction to start game, officials not paying attention, start the game, play about 2 minutes, score is 6-5. Team A scores again and officials finally notice they are going the wrong way.

Team B gets ball and everything that has happened counts. Question, where do they take it out?

It's after a made basket so they should get to run the baseline, so should the officials take them to the other end and have them come the length of the floor like they would of done if scoring on the correct basket or do we give them a spot throw in on the same end we are on?

This. Get everyone going the right way, in the right way.

First And Ten ...
 

It's like the teams changing sides between quarters in a football game.