I've always used a Clopper-Pearson interval for binomial confidence intervals, but never questioned why (it's the default in ROOT). I found <a href="http://en.wikipedia.org/wiki/Binomial_proportion_confidence_interval" rel="nofollow">http://en.wikipedia.org/wiki/Binomial_proportion_confidence_...</a> quite useful. Sounds like using Clopper-Pearson is safer than using a Wilson interval .