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/SRR3344096_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:  10,684,491
 Normal Paired: 8,425,305 (78.86%)
 Chimeric Paired: 1,087,231 (10.18%)
 Chimeric Ambiguous: 314,260 (2.94%)
 Unmapped: 857,695 (8.03%)
 Ligation Motif Present: 2,274 (0.02%)
Alignable (Normal+Chimeric Paired): 9,512,536 (89.03%)
WARN [2024-01-15T06:47:00,097]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 3,519,619 (32.94%)
PCR Duplicates: 5,992,917 (56.09%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 3,842,948
Intra-fragment Reads: 1,811,495 (16.95% / 51.47%)
Below MAPQ Threshold: 591,937 (5.54% / 16.82%)
Hi-C Contacts: 1,116,187 (10.45% / 31.71%)
 Ligation Motif Present: 401  (0.00% / 0.01%)
 3' Bias (Long Range): 75% - 25%
 Pair Type intra chrom %(L-I-O-R): 12% - 58% - 18% - 12%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 51%
 Cis/all (FF and RR orient): 94.7%
Inter-chromosomal: 29,523  (0.28% / 0.84%)
Intra-chromosomal: 1,086,664  (10.17% / 30.87%)
Short Range (<20,000bp): 886,118  (8.29% / 25.18%)
Long Range (>20,000bp): 200,546  (1.88% / 5.70%)