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. 2004 Apr 16;32(7):e62. doi: 10.1093/nar/gnh060

Figure 1.

Figure 1

Formation of a single-base bulge as a result of annealing a 3-MI-containing oligonucleotide to its complementary strand, which does not contain a base pairing partner for 3-MI. Displacement of 3-MI from the base stacked configuration of the single strand, which quenches the fluorescence of the fluorophore, results in an increase in fluorescence intensity with hybridization.