I'd say these were the Cybermen from Pete's world. I posted this on another thread after AGMGTW. According to the official BBC website, the Mondas Cybermen are said to have 'Died out' so that puts an end to the Cybermen in 'The Pandorica Opens' and 'A Good Man Goes to War' being Mondasmen.
As we already know, the 5 Million Cybermen who brawled with the Daleks at Canary Wharf were sucked into the void.When Davros and the Daleks tried to destroy all reality, this broke down the Void's barriers. The Daleks in the Void were presumably destroyed when 10.5 activated the Dalek Self destruct in 'Journeys End'. Most of the Cybermen were also destroyed during the Daleks experiments, but as we know one little group survived they fell to victorian London, presumably through the Canary Wharf rift and we all know what happened to that group.
Meanwhile, what's to say another group didn't escape? But bearing in mind the fact that the whoniverse is absolutely vast, and will keep going for trillions of years, this group of Cybusmen could have arrived anywhere at any time. And what if they arrived on a super advanced planet (I mean 'Humans only had fire and the wheel while we already had space travel' kind of advanced.) in the distant future? As we know, the Cybermen are capable of operating covertly, so they could have started converting the natives until they had a vast army big enough to take control. They then turned the whole species into a new race of Cybermen.
After doing this, they then salvaged all the natives technology, giving themselves Space Travel, Time Travel, Teleportation and advanced weapons among other things.
They then rose up and began to conquer more and more worlds, until they had a vast empire which was more powerful then the Mondasian empire could ever hope to be.
It is at this stage that they discovered about the Doctor, Time lords, Time War, ETC and joined The Alliance after they discovered the Cracks in Time. After the Doctor saved everyone, the Cybermen would eventually decide that as Lumic is dead and Cybus is closed, the Logo on their chest is 'Redundant' and remove it, leading to the Logo-Less Cybermen in 'A Good Man Goes to War.
BTW, I think the reason they had a different type of Conversion in 'Closing Time' was because they were low on power, the Cybusmen experimented with this type of conversion in 'Doomsday' and 'Cyberwoman'.