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Labs typically use restriction enzymes.

'Restriction Enzymes cut DNA at specific recognition nucleotide sequences. To cut the DNA, a restriction enzyme makes two incisions, once through each sugar-phosphate backbone (i.e. each strand) of the DNA double helix.'

Meaning if you have a restriction enzyme that cuts at, say TA|GC, everywhere the TAGC sequence is in the DNA will be cleaved at that point. Because there are multiple instances of TAGC in the sample it leads to DNA fragments of differing sizes which then migrate at different rates under electrophoresis.

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Q: What is used to break apart dna fragments in a gel electrophoresis technique?
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