Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 20 threads; openjdk version "1.8.0_152-release"; /home/aapopov/tool/juicer1.6_compact-main/scripts/juicer.sh -g GRCm39 -d /data/aapopov/Projects/ChickenOocyt/NSN_mouse_oocytes/SRR3343997_pass -s DpnII -y /data/aapopov/Projects/ChickenOocyt/Mouse_genome/GRCm39_DpnII.txt -p /data/aapopov/Projects/ChickenOocyt/Mouse_genome/GRCm39.fasta.chrom.sizes -D /home/aapopov/tool/juicer1.6_compact-main -z /data/aapopov/Projects/ChickenOocyt/Mouse_genome/GRCm39.fasta -t 20                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
Sequenced Read Pairs:  19,406,394
 Normal Paired: 15,443,044 (79.58%)
 Chimeric Paired: 2,228,854 (11.49%)
 Chimeric Ambiguous: 1,317,035 (6.79%)
 Unmapped: 417,461 (2.15%)
 Ligation Motif Present: 6,367 (0.03%)
Alignable (Normal+Chimeric Paired): 17,671,898 (91.06%)
WARN [2024-01-15T01:50:15,624]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 9,044,216 (46.60%)
PCR Duplicates: 8,627,682 (44.46%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 11,539,206
Intra-fragment Reads: 3,513,906 (18.11% / 38.85%)
Below MAPQ Threshold: 1,474,182 (7.60% / 16.30%)
Hi-C Contacts: 4,056,128 (20.90% / 44.85%)
 Ligation Motif Present: 2,156  (0.01% / 0.02%)
 3' Bias (Long Range): 68% - 32%
 Pair Type intra chrom %(L-I-O-R): 16% - 51% - 17% - 16%
 Pair Type inter chrom %(L-I-O-R): 24% - 27% - 27% - 23%
 DE: 35%
 Cis/all (FF and RR orient): 95.8%
Inter-chromosomal: 119,534  (0.62% / 1.32%)
Intra-chromosomal: 3,936,594  (20.29% / 43.53%)
Short Range (<20,000bp): 2,285,178  (11.78% / 25.27%)
Long Range (>20,000bp): 1,651,416  (8.51% / 18.26%)