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Hi, i`m Richard, a Veterinarian from the UK. Hopefully I can help today.
The blister in the region of a surgical knot can be seen as a normal reaction from the dogs body as she is absorbing and breaking down the suture material under the skin. These blisters are usually sterile, but what can help if she will tolerate it is to salt water bathe the area (1 tablespoon of salt to 1 pint of water) twice daily, to help it resolve.
Is the pain response a new development? I would not expect an acute pain response such as you are describing associated with the blister, I suspect there may be a cause other than this for her discomfort.