Figure 8

Performance of structural variant prediction on simulated Illumina data sets. Data sets with different read lengths and coverage depths were generated according to an Illumina error model from simulated E. coli reference sequences with many examples of a single type of mutation causing structural variation randomly introduced. Results in terms of the sensitivity (or recall) for recovering true-positives (top panels) and the precision, equal to the number of true-positive predictions over the total number of predictions (bottom panels), are graphed as a function of junction skew scores accepted for making predictions. Results are shown for simulated genomes containing only a) deletions with breakpoints in non-repetitive reference genome sequences, b) new insertions of bacterial transposable sequences (IS elements), and c) deletions with one boundary ending on a repetitive IS element. The default junction skew score cutoff used by breseq is 3.0.