JL asked this interesting question =)
Here is the answer as promised:
Thymine is actually methylated-Uracil.
The methylation will make DNA unrecognizable by nucleases and thus ensuring the integrity of the DNA genome for replication.
Also cytosine can spontaneously deaminate to become uracil (C--> U mutation is quite common). However, DNA repair proteins will be able to recognise/differentiate and fix it since this uracil is not methylated.
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