The mapping algorithm differences between the average (per gene) number of reads mapped to paralogs (>70% similarity) vs. average (per gene) number of reads mapped to non-paralogs. All human (A) and most mouse (B) tissues show a disproportionate effect of mapping to paralogs. Y-axis values indicate the difference in the number of reads mapped to paralogs averaged across all paralogs as compared to the number of reads mapped to non-paralogs averaged across all non-paralogs. Blue diamonds indicate the usage of a “unique” mapping approach. Red squares indicate the usage of a “non-unique” mapping approach.
Jue et al. BMC Genomics 2013 14:150 doi:10.1186/1471-2164-14-150