Extended Data Fig. 7: Genome browser screenshots visualizing nUMIs for exemplary genes.

a, Example genome viewer screenshot of two single cells for the Atg12 gene showing individual reads. Grey and black denote the singly and doubly sequenced parts. The genomic sequence is colour-coded (A, red; C, green; G, blue; T, orange). Mismatches are indicated on the reads with the same colour code. On doubly sequenced parts, the top and bottom triangle represents the corresponding mismatches of the first and second read, respectively. In cell 84, there are two characteristic 4sU mismatches, which are observed in all reads. In cell 29, there are six mismatches, which are distinct from those observed in cell 84. In both cells, only a single new transcript with stochastic 4sU incorporation thus gave rise to the respective reads. b, Example genome browser screenshot for the Sqle gene. Here, at least four (nUMI = 4) mRNAs gave rise to the observed reads. However, as not all reads overlap, this is likely to be an underestimation of the actual number of cloned transcripts.