Fig. 6

Integrated quality controls: a Nucleotide-conversion rates of read sets from 6 representative mESC time courses showing a decrease of T > C conversions proportional to their respective chase time. b T > C conversion containing read based PCA of 6 mESC timepoints (3 replicates each). c Distribution of non-T > C mismatches across read positions display spikes in error rates (highlighted in yellow) for a low T > C conversion content (no 4SU) and a high T > C conversion (12 h chase) sample which are dampened or eradicated when applying base-quality filtering. d Nucleotide-conversion distribution along 3′ end positions in a static 250 bp at 3′ UTR ends for mESC time-course showing characteristic curve shifts according to their presumed T > C conversion content (timepoint) and a strong base conversion bias towards the 3′ end (highlighted in yellow) induced by generally reduced T-content in the last bases of 3′ UTRs