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/BorC1_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:  176,329,357
 Normal Paired: 172,639,222 (97.91%)
 Chimeric Paired: 7,423 (0.00%)
 Chimeric Ambiguous: 6,053 (0.00%)
 Unmapped: 3,676,659 (2.09%)
 Ligation Motif Present: 40,637 (0.02%)
Alignable (Normal+Chimeric Paired): 172,646,645 (97.91%)
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/BorC1_Mut/aligned inter.txt
Intra-fragment Reads: 45,584,221 (25.85% / 51.66%)
Below MAPQ Threshold: 15,363,559 (8.71% / 17.41%)
Hi-C Contacts: 27,299,488 (15.48% / 30.94%)
 Ligation Motif Present: 15,820  (0.01% / 0.02%)
 3' Bias (Long Range): 77% - 23%
 Pair Type %(L-I-O-R): 26% - 24% - 24% - 25%
Inter-chromosomal: 4,122,939  (2.34% / 4.67%)
Intra-chromosomal: 23,176,549  (13.14% / 26.26%)
Short Range (<20Kb): 16,214,881  (9.20% / 18.37%)
Long Range (>20Kb): 6,961,585  (3.95% / 7.89%)