Fig. 2

Schematic of the GUIDE-seq library features used for unique read identification. Schematic overview of the two sequencing libraries that are generated using the GUIDE-seq method [19]. Each library (forward and reverse) has a different GUIDE-seq oligo tag fragment (red or blue) that is a part of the resulting read 2 sequences. Paired-end reads from different libraries are aggregated based on the p5 and p7 indices. Unique reads within each library are defined based on three identifiers: the unique molecular index (UMI) in the p5 index read, the p5 adaptor genomic ligation site, and the GUIDE-seq dsODN integration site. Redundant reads are discarded. For the purposes of peak calling, unique paired-end reads are condensed into single-base genomic ranges that define the position of the GUIDE-seq dsODN integration site and the genomic reference sequence strand associated with read 2