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/Narimans_hi-c/21 -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: 257,775 Normal Paired: 101,532 (39.39%) Chimeric Paired: 3,202 (1.24%) Chimeric Ambiguous: 847 (0.33%) Unmapped: 152,194 (59.04%) Ligation Motif Present: 1,630 (0.63%) Alignable (Normal+Chimeric Paired): 104,734 (40.63%) 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/Narimans_hi-c/21/aligned inter.txt Intra-fragment Reads: 40,850 (15.85% / 42.01%) Below MAPQ Threshold: 28,221 (10.95% / 29.02%) Hi-C Contacts: 28,159 (10.92% / 28.96%) Ligation Motif Present: 1,099 (0.43% / 1.13%) 3' Bias (Long Range): 82% - 18% Pair Type %(L-I-O-R): 26% - 24% - 25% - 24% Inter-chromosomal: 8,709 (3.38% / 8.96%) Intra-chromosomal: 19,450 (7.55% / 20.00%) Short Range (<20Kb): 13,239 (5.14% / 13.62%) Long Range (>20Kb): 6,211 (2.41% / 6.39%)