The Flux Simulator provides some statistical indicators to measure the uniformity of the read distribution along a transcript produced by in silico sequencing.

### Fraction Covered

 The fraction of a transcript that is covered by reads reflects its expression and the degree of of coverage fluctuation provoked by biases. where  is the length of the transcript,and the sign functionindicating whether a position is covered by at least one sequenced read.

### Chi-square statistics (X2)

 Pearson’s chi-square can be used to test the goodness of fit of a given sample to a theoretical distribution. Given a transcript of length and coverage  at position , the test statistic is defined as follows:where is the average coverage along the molecule.

### Coefficient of variation (CV)

 A CV is defined as the ratio of the standard deviation and the standard deviation of a probability distribution:, with standard deviation  and mean  of transformed coverage values Latter Anscombe transformation of coverage values has been proposed [Hansen et al. 2010] under the assumption that the distribution of reads along a transcript follows a Poisson distribution, which is to be transformed to a Gaussian distribution.