A most basic example of a reference/donor graph, constructed from the superposition of the two original graphs. (a) Reference graph GR. (b) Donor graph GD. (c) The graph representing the reference sequence "TTGTTATTCTAC" and donor sequence 'ACGTTATTCTGT'. The donor subsequence "GTTATTCT" is reference-parallel, with reference marker R[3: 7], indicating that it aligns to position 3-7 in the reference sequence.
Parrish et al. BMC Genomics 2013 14(Suppl 1):S8 doi:10.1186/1471-2164-14-S1-S8