Figure 2. Read densities in specific regions of transfected plasmids.

(A) Amp^r, (B) pUC ori. Note the similar pattern of read density for identical sequences in different plasmids and lower read density and altered patterns in pGL4-SV40. (C) Kan/Neo is the main locus where overlapping sense and antisense expression is detected. (D) SV40 promoter and intron-derived RNAs. Y-scale represents normalized read density – aligned reads on a counts per million (CPM) scale.