Extended Data Fig. 9: Tn-seq data for additional crRNAs tested.

a, b, Genome-wide distribution of genome-mapping Tn-seq reads from transposition experiments with the V. cholerae transposon programmed with crRNAs 1–8 (a) and crRNAs 17–24 (b). The location of each target site is denoted by a maroon triangle. Dagger symbol indicates that the lacZ target site for crRNA-3 is duplicated within the λ DE3 prophage, as is the transposon integration site; Tn-seq reads for this dataset were mapped to both genomic loci for visualization purposes only, although we are unable to determine from which locus they derive. c, Analysis of integration site distributions for crRNAs 1–24 determined from the Tn-seq data; the distance between the Cascade target site and transposon insertion site is shown. Data for both integration orientations are superimposed, with filled blue bars representing the T-RL orientation and the dark outlines representing the T-LR orientation. Values in the top-right corner of each graph give the on-target specificity (%), calculated as the percentage of reads resulting from integration within 100 bp of the primary integration site, as compared with the total number of reads aligning to the genome; and the orientation bias (X:Y), calculated as the ratio of reads for the T-RL orientation to reads for the T-LR orientation. Most crRNAs favour integration in the T-RL orientation 49–50 bp downstream of the Cascade target site. crRNA-21 is greyed out because the expected primary integration site is present in a repetitive stretch of DNA that does not allow us to map the reads confidently. Asterisks denote samples for which more than 1% of the genome-mapping reads could not be uniquely mapped.