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/SRR3344003_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:  25,096,561
 Normal Paired: 20,285,756 (80.83%)
 Chimeric Paired: 2,467,788 (9.83%)
 Chimeric Ambiguous: 1,169,183 (4.66%)
 Unmapped: 1,173,834 (4.68%)
 Ligation Motif Present: 10,148 (0.04%)
Alignable (Normal+Chimeric Paired): 22,753,544 (90.66%)
WARN [2024-01-15T04:17:07,023]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 11,128,642 (44.34%)
PCR Duplicates: 11,624,902 (46.32%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 13,763,557
Intra-fragment Reads: 3,956,795 (15.77% / 35.56%)
Below MAPQ Threshold: 1,316,872 (5.25% / 11.83%)
Hi-C Contacts: 5,854,975 (23.33% / 52.61%)
 Ligation Motif Present: 3,102  (0.01% / 0.03%)
 3' Bias (Long Range): 65% - 35%
 Pair Type intra chrom %(L-I-O-R): 14% - 54% - 17% - 14%
 Pair Type inter chrom %(L-I-O-R): 26% - 25% - 24% - 25%
 DE: 43%
 Cis/all (FF and RR orient): 95.9%
Inter-chromosomal: 135,425  (0.54% / 1.22%)
Intra-chromosomal: 5,719,550  (22.79% / 51.39%)
Short Range (<20,000bp): 4,296,014  (17.12% / 38.60%)
Long Range (>20,000bp): 1,423,536  (5.67% / 12.79%)