Figure 2
From: Optimal reference sequence selection for genome assembly using minimum description length principle
Correcting inversions in the reference sequence. (a) Reads are derived from the novel sequence. (b) The reference sequence, S R , contains two inversions, shown as yellow and blue regions. (c) The sequence generated θ has both yellow and blue regions rectified. Notice that using a simple ad-hoc scheme of counting the number of reads in the reference sequence one would have made use of (b) for assembly of novel genome. However, using MDL one can now use (c) for the assembly of the novel genome.