Flitcroft was in charge for the game at London Road after Keith Hill's sacking in the wake of Saturday's 3-1 defeat at home to Blackburn.
He felt his side was worthy of at least a point and admitted that he would love to be considered as a long-term replacement for the man he had previously been assistant to at Oakwell.
"I would have been disappointed with a 1-1 draw so I'm absolutely gutted to end up with nothing," Flitcroft said.
"The lads fought tooth and nail just as they had been doing for Keith but we just lacked that killer touch in front of goal.
"Our end product is something that has let us down all season but it is something we will continue to work on for as long as I'm here.
"It's a very strange feeling not working beside my best pal as I have been doing for the last six-and-a-half years but Keith asked me to stay and fight on which is exactly what myself and the players did.
"I'll continue to give everything either as a No 1 or No 2 for this football club."