Using deep sequencing to characterize the biophysical mechanism of a transcriptional regulatory sequence: SI Appendix

1. Supporting experimental procedures a. Plasmid library construction b. Media and growth rates c. Amplicon generation d. Processing of sequence reads e. Library substitution rates f. Post-sort loss of library diversity 2. Supporting theoretical methods a. Overview of mutual information b. Statistical inference using mutual information (justification of Eq. 1) c. Maximizing mutual information leaves some model parameters undetermined d. Fitting a model to multiple data sets e. Computing mutual information f. Parallel tempering Monte Carlo sampling of model parameters g. Model comparison to literature 3. Supporting information references 4. Supporting information figures