Is it worth entering shots that have been taken in auto mode? Will they be taken seriously?

Mate, a good photo's a good photo.
Got nothin' to lose.
Or just dont tell people which ones are which.

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Matt Harris Photography
The Crusade for Photographers Rights
Support a Needy Artist?

I agree with Matt.  If you have a great shot, you have one, and you took it, so show it off.   Enter the comp and you will certainly make everyone wish they'd taken it if you win.

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[Digital Black and white]

Agree with the others. A lot of PRO's use auto for nature shots, where speed counts or you lose the shot.

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SK
The Best Photographer in the world 4th November - 5th November 2006 & 17th-18 November 2007
Oldboy’s Gallery

The fact that you even have to ask this question is a reflection of the terrible snobbery that exists in photography. Photography is this dimension is basically pure art, and it matters not one iota if you use a Hasselblad or a Casio. A £10,000 lens is not going to take your pictures for you. Use your eye and your imagination to capture your images, and post the shots that you are proud of.