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_A12 -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:  8,581,472
 Normal Paired: 6,479,012 (75.50%)
 Chimeric Paired: 1,430,192 (16.67%)
 Chimeric Ambiguous: 338,588 (3.95%)
 Unmapped: 333,680 (3.89%)
 Ligation Motif Present: 60,139 (0.70%)
Alignable (Normal+Chimeric Paired): 7,909,204 (92.17%)
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_A12/aligned inter.txt
Intra-fragment Reads: 3,211,691 (37.43% / 47.16%)
Below MAPQ Threshold: 830,190 (9.67% / 12.19%)
Hi-C Contacts: 2,768,757 (32.26% / 40.65%)
 Ligation Motif Present: 38,708  (0.45% / 0.57%)
 3' Bias (Long Range): 75% - 25%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 753,631  (8.78% / 11.07%)
Intra-chromosomal: 2,015,126  (23.48% / 29.59%)
Short Range (<20Kb): 1,247,906  (14.54% / 18.32%)
Long Range (>20Kb): 767,220  (8.94% / 11.27%)