I had a litter of 9 week old kittens vaccinated today. They all seemed fine apart from just now I noticed that one is cowering from me and flattens her ears when i go to stroke her 
I'm trying not to worry, and presuming that it is due to pain at the site of the jab. It is really difficult watching her like this because she is usually extremely affectionate and cuddly.
Has anyone else had a similar experience ?