To identify significant in vitro effects of haplotype on luminescence, we employed a mixed-effects model using the lmer package [63] within R [62], grouping the replicate luminescence measurements by mini-prep identifier (treating the mini-prep as a random effect). The haplotype identifier has a significant effect on luminescence at p-value<0.001 for each of the three reported associations between haplotype sequence and luminescence measurement. No additional correlations were significant at this threshold.
