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/FirreKO_mESC_Mut -s HindIII -p /mnt/storage/home/aselsukova/genomes/chrom.sizes/chrom.sizes_mm10 -y /mnt/storage/home/aselsukova/genomes/restriction_sites/mm10_HindIII.txt -z /mnt/storage/home/aselsukova/genomes/references/mm10/mm10.fa                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
Sequenced Read Pairs:  53,266,683
 Normal Paired: 17,150,779 (32.20%)
 Chimeric Paired: 31,626,631 (59.37%)
 Chimeric Ambiguous: 3,620,242 (6.80%)
 Unmapped: 869,031 (1.63%)
 Ligation Motif Present: 40,051,071 (75.19%)
Alignable (Normal+Chimeric Paired): 48,777,410 (91.57%)
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/FirreKO_mESC_Mut/aligned inter.txt
Intra-fragment Reads: 2,495,874 (4.69% / 5.38%)
Below MAPQ Threshold: 3,937,063 (7.39% / 8.48%)
Hi-C Contacts: 39,981,528 (75.06% / 86.14%)
 Ligation Motif Present: 31,585,977  (59.30% / 68.05%)
 3' Bias (Long Range): 93% - 7%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 10,886,342  (20.44% / 23.45%)
Intra-chromosomal: 29,095,186  (54.62% / 62.69%)
Short Range (<20Kb): 11,977,180  (22.49% / 25.80%)
Long Range (>20Kb): 17,118,005  (32.14% / 36.88%)