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/juicer -d /mnt/storage/home/aselsukova/juicer/scratch/mastocytes/VL_A19 -s DpnII -p /mnt/storage/home/aselsukova/juicer/chrom.sizes/chrom.sizes_mm10 -y /mnt/storage/home/aselsukova/juicer/restriction_sites/mm10_DpnII.txt -z /mnt/storage/home/aselsukova/juicer/scratch/juicer_scratch/references/mm10/mm10.fa Sequenced Read Pairs: 14,622,113 Normal Paired: 6,074,599 (41.54%) Chimeric Paired: 6,530,142 (44.66%) Chimeric Ambiguous: 1,594,565 (10.91%) Unmapped: 422,807 (2.89%) Ligation Motif Present: 6,337,512 (43.34%) Alignable (Normal+Chimeric Paired): 12,604,741 (86.20%) java -Djava.awt.headless=true -Xmx16000m -jar /mnt/storage/home/aselsukova/juicer/scripts/common/juicer_tools.jar LibraryComplexity /mnt/storage/home/aselsukova/juicer/scratch/mastocytes/VL_A19/aligned inter.txt Intra-fragment Reads: 737,613 (5.04% / 6.45%) Below MAPQ Threshold: 1,845,936 (12.62% / 16.15%) Hi-C Contacts: 8,848,180 (60.51% / 77.40%) Ligation Motif Present: 4,060,337 (27.77% / 35.52%) 3' Bias (Long Range): 80% - 20% Pair Type %(L-I-O-R): 25% - 25% - 25% - 25% Inter-chromosomal: 4,796,032 (32.80% / 41.95%) Intra-chromosomal: 4,052,148 (27.71% / 35.45%) Short Range (<20Kb): 1,966,988 (13.45% / 17.21%) Long Range (>20Kb): 2,085,160 (14.26% / 18.24%)