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Not sure what squid, or what black spots you are talking about. Many squids, like many cephalopods, have the ability to change colors depending on their mood, or environment. Some even being able to change colors on on half of their body versus the other when "speaking"/reacting to others of their species. They can even make fake eyes at the other end of their bodies to intimidate and confuse predators. They do this because they have evolved cells called chromatophores, which can change colors as well as reflect light, some are photosynthetic as well due to the bacteria that are found in the cells.

The vampire squid (which is not a real squid) has primitive versions of these cells, which are only black. Not sure if this is the squid and the black spots you are talking about

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