The home side opened the scoring through Gary Caldwell before Saints responded in the second half with a Rickie Lambert equaliser.
But, after Morgan Schneiderlin looked to have netted the winning goal in the 85th minute, a Shaun Maloney effort in the dying embers secured a point for Wigan.
And, after the game, Pochettino claimed his side "deserved the victory".
“Yes, I am frustrated,” he told reporters. “Same as the rest of the boys because the team has played a great match today.
|SAINTS GO MARCHING OUT
|9/1||Southampton are 9/1 to finish bottom with BetVictor|
When asked if he was finding English football to be crueller than his time in Spain with La Liga outfit Espanyol, Pochettino simply lamented his poor fortune in recent games.
“Cruel? No because that's football.” he continued. “It is luck, sometimes you have luck and sometimes you don't but the thing is you have to look for your own luck.”
Pochettino also expressed uncertainty over the prognosis for Gaston Ramirez, who picked up a knock during the first half of the game.
“He had a big bang in the first half and he has had a dead leg.” he explained. “He couldn't move it much.
“Until they do some tests, they do not know if he's injured or not.”
The Argentine went on to dismiss talk of Premier League relegation, confidently claiming that his side has enough quality to stay up.
“I think it's far too early to start talking about these problems yet and we will see later. I think this team is good enough for this league.”