It is an expression for a good luck. You will hold your thumbs for wishing good luck to somebody. It is like a crossing fingers.
holding thumbs Use for it in an example:

"You have that hard exam tomorrow? I will hold thumbs for you."
by Edaxis February 14, 2016
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Used extensively in South Africa as a gesture of good luck.
Jim, I'm holding thumbs that you win the big race tomorrow.
by Saffa-Jaymz June 29, 2016
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