Jones found himself handed a rare start with both compatriot Mark Schwarzer and Ross Turnbull, who was named among the substitutes, struggling with back injuries.
He suffered a couple of first-half scares when he came for, but missed, high balls, but made an excellent point-blank save from Chopra at 2-1 to keep his side in the game.
But he would not have enjoyed watching replays of Murphy's winner as the striker beat him to Grant Leadbitter's corner to snatch victory.
He said: "Whenever you concede goals, you can always point fingers and highlight errors.
"But we win and lose collectively. Mistakes were made all over the field today.
"We said before the game, how we reacted to those mistakes was going to be important.
"We reacted in the right way through most of the game and stayed together and kept to our principles and got the reward with the equaliser.
"What have to learn as a team is to finish games off because that has happened to us too many times now.
"But we will learn those lessons. It is unbelievably painful for everybody involved with the football club at the moment, but you have to go through that pain sometimes."