The quantitative impact of read mapping to non-native reference genomes in comparative RNA-Seq studies
Fig 5
Read alignment for cusC operon for IAI1 batch condition, replicates 1 and 2.
The native IAI1 genome (top) shows a continuous operon with sparsely aligned reads, while the heterologous K12 genome (bottom) shows an insertion after the cusC gene that is highly expressed (outlined in red).