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will this hurt the embryo?
I'm not entirely sure. I think it depends in what sense you mean. I know shipped eggs have a lower hatch rate, but speaking personally, for me that usually manifests itself in a high percentage of complete non developers and then a small percentage of early deaths, say round about the 3-12 day mark. Any eggs that get as far as lockdown with a fully developed chick in them usually go on to have the same hatch rate as my own eggs that have made it to lockdown.
The last lot of shipped eggs I incubated, only 5 made it to lockdown. 4 hatched fine, and when I opened the last one to check, it was only a tiny embryo. I hadn't been sure on candling, so left it in just in case. So really, out of 4 viable embryos, all 4 hatched. My previous shipped egg incubation was exactly the same: 6 eggs made it to lockdown, 3 hatched out, adn the other 3 turned out to have been tiny early death embryos. So all 3 fully developed ones hatched out fine.
I think with shipped eggs, if you get them as far as lockdown, they have teh same chance of hatching out as any other egg. The problems with them tend to come early on in the incubation. I hope that info is helpful for you...