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_WT -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:  321,517,882
 Normal Paired: 119,820,442 (37.27%)
 Chimeric Paired: 179,431,426 (55.81%)
 Chimeric Ambiguous: 19,460,786 (6.05%)
 Unmapped: 2,805,228 (0.87%)
 Ligation Motif Present: 94,824,236 (29.49%)
Alignable (Normal+Chimeric Paired): 299,251,868 (93.07%)
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_WT/aligned inter.txt
Intra-fragment Reads: 55,588,273 (17.29% / 20.00%)
Below MAPQ Threshold: 22,745,913 (7.07% / 8.18%)
Hi-C Contacts: 199,606,126 (62.08% / 71.82%)
 Ligation Motif Present: 72,733,564  (22.62% / 26.17%)
 3' Bias (Long Range): 78% - 22%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 43,156,936  (13.42% / 15.53%)
Intra-chromosomal: 156,449,190  (48.66% / 56.29%)
Short Range (<20Kb): 47,231,631  (14.69% / 16.99%)
Long Range (>20Kb): 109,217,537  (33.97% / 39.30%)