Fig. 2
From: Modeling the integration of bacterial rRNA fragments into the human cancer genome
The location of the bacterial DNA integration was refined using the library insert-size. In this hypothetical case, the paired-end reads support the integration of a fragment of the bacterial 16S rRNA gene into a human gene (a). Using the consensus sequence of the two fragments, the number of bases, xx, needed between the two fragments was titrated so that the insert-sizes of the reads supporting the integration most closely resemble those of the sequencing library. Two calculations were used to determine the optimum distance between the two fragments. The first calculation identified the number of bases (x) yielding the minimum average difference (AD) between insert-size of the reads supporting the integration, I i (x), and the median sequencing library insert-size, M SL . The second calculation determined the number of bases (x) resulting in the minimum Jensen-Shannon distance (JSD) for the insert-size distributions of the sequencing library, d SL , and the reads supporting the integration, d I (x) (b)