Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 6 threads; java version "1.8.0_45"; ./juicer.sh -t 6 -g mm10 -D /mnt/storage/home/aselsukova/distributives/juicer -d /mnt/storage/home/aselsukova/distributives/juicer/scratch/Rearr_data/del1-13d9lac_Mut -s DpnII -p /mnt/storage/home/aselsukova/genomes/chrom.sizes/chrom.sizes_mm10 -y /mnt/storage/home/aselsukova/genomes/restriction_sites/mm10_DpnII.txt -z /mnt/storage/home/aselsukova/genomes/references/mm10/mm10.fa Sequenced Read Pairs: 124,147,940 Normal Paired: 103,670,749 (83.51%) Chimeric Paired: 4,029 (0.00%) Chimeric Ambiguous: 8,163 (0.01%) Unmapped: 20,464,999 (16.48%) Ligation Motif Present: 16,148 (0.01%) Alignable (Normal+Chimeric Paired): 103,674,778 (83.51%) java -Djava.awt.headless=true -Xmx16000m -jar /mnt/storage/home/aselsukova/distributives/juicer/scripts/common/juicer_tools.jar LibraryComplexity /mnt/storage/home/aselsukova/distributives/juicer/scratch/Rearr_data/del1-13d9lac_Mut/aligned inter.txt Intra-fragment Reads: 13,006,201 (10.48% / 14.31%) Below MAPQ Threshold: 16,798,177 (13.53% / 18.49%) Hi-C Contacts: 61,063,514 (49.19% / 67.20%) Ligation Motif Present: 10,255 (0.01% / 0.01%) 3' Bias (Long Range): 50% - 50% Pair Type %(L-I-O-R): 25% - 25% - 25% - 25% Inter-chromosomal: 12,439,780 (10.02% / 13.69%) Intra-chromosomal: 48,623,734 (39.17% / 53.51%) Short Range (<20Kb): 11,628,927 (9.37% / 12.80%) Long Range (>20Kb): 36,994,783 (29.80% / 40.71%)