Cas9-induced large deletions and small indels are controlled in a convergent fashion

Demultiplexed reads assembled from 150PE Illumina using Pear with following settings: pear-0.9.10-bin-64 -f read1.fq -r read2.fq -n 20 -p 0.01. Unassembled PE reads (estimated at 0.1% of all reads) and reads that failed demux not included. 960 files total, corresponding to 96 wells of the library (95 control or knock-out mES clones and one well intentionally left empty) times two biological replicates times five test gRNAs (non-targetting control g33, chromosome X targetting g15, g48 and gU48 and autosome targetting g148). mES cells are derived from CAST x BL6 cross. Non-targeting control g33 fastq files are not locus-demultiplexed ie would map to g15, g48 and g148 loci.