(A) Measured initial rates of RNAP loading and (B) (blue points) across the length of the embryo, compared to fits to the thermodynamic MWC model with and without accounting for mitotic repression (blue and purple curves, respectively). (C) Nuclear concentration dynamics of Bicoid and Zelda with proposed mitotic repression window (gray shading). (D) Predicted MS2 dynamics with no mitotic repression term or a 3 min mitotic repression window compared to experimental measurements. (A,B, solid lines indicate mean predictions of the model and shading represents standard error of the mean, while points indicate data and error bars represent the standard error of the mean, across 11 embryos; C, D, data from single embryos at 45% of the embryo length with error bars representing the standard error of the mean across nuclei, errors in model predictions in D were negligible and are obscured by the prediction curve; fitted parameter values for a 3 min mitotic repression window were , , , with different arbitrary fluorescent units for Bicoid and Zelda, , , for a model assuming six Bicoid-binding sites.).