Normalized, mature transcript FCR per time point (arbitrary units) for true, simulated, and mapped data. The truth data models an idealized exponential decay curve for three randomly assigned decay rates (violet: fast/ k = 0.15, brown: moderate/ k = 0.1, magenta: slow/ k = 0.05). FCR for simulated and mapper-specific alignments was estimated as explained in the Methods section. The mosaic panel was created by choosing the mapper-based FCR estimate closest to the simulated value per transcript. FCR was normalized to the maximum value across all timepoints. The data reconstructed from the read mapper alignments show increasing noise with decreasing mappability although some clear outliers are also visible in high mappability regions. Grey, dashed lines indicate 50% FCR.
