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_fem_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:  726,169,857
 Normal Paired: 352,183,229 (48.50%)
 Chimeric Paired: 317,903,936 (43.78%)
 Chimeric Ambiguous: 34,364,853 (4.73%)
 Unmapped: 21,717,839 (2.99%)
 Ligation Motif Present: 462,642,128 (63.71%)
Alignable (Normal+Chimeric Paired): 670,087,165 (92.28%)
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_fem_WT/aligned inter.txt
Intra-fragment Reads: 68,988,943 (9.50% / 12.83%)
Below MAPQ Threshold: 50,732,370 (6.99% / 9.44%)
Hi-C Contacts: 417,852,459 (57.54% / 77.73%)
 Ligation Motif Present: 318,977,518  (43.93% / 59.34%)
 3' Bias (Long Range): 93% - 7%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 68,912,794  (9.49% / 12.82%)
Intra-chromosomal: 348,939,665  (48.05% / 64.91%)
Short Range (<20Kb): 114,606,172  (15.78% / 21.32%)
Long Range (>20Kb): 234,333,439  (32.27% / 43.59%)