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Figure 3. Gel mobility shift assay with different modified hairpins. Three different concentrations (108.6, 212.4 and 472.0 nM) of unlabeled DNA hairpins were used in gel mobility shift assays for specific competition with fluorescently labeled wild-type hairpin, 1.T/A. DNA hairpins synthesized according to Figure 1 and containing the compounds shown in Figure 2 were sorted by KD, as determined by competition with labeled wild type, 1.T/A. Bottom bands are DNA alone, top bands are DNA/RepA complexes.
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