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/SRR3344008_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:  12,295,317
 Normal Paired: 7,669,293 (62.38%)
 Chimeric Paired: 2,559,729 (20.82%)
 Chimeric Ambiguous: 1,535,490 (12.49%)
 Unmapped: 530,805 (4.32%)
 Ligation Motif Present: 1,384 (0.01%)
Alignable (Normal+Chimeric Paired): 10,229,022 (83.19%)
WARN [2024-01-15T04:59:42,819]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 7,704,277 (62.66%)
PCR Duplicates: 2,524,745 (20.53%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 17,149,350
Intra-fragment Reads: 2,967,079 (24.13% / 38.51%)
Below MAPQ Threshold: 1,909,451 (15.53% / 24.78%)
Hi-C Contacts: 2,827,747 (23.00% / 36.70%)
 Ligation Motif Present: 945  (0.01% / 0.01%)
 3' Bias (Long Range): 60% - 40%
 Pair Type intra chrom %(L-I-O-R): 17% - 49% - 16% - 18%
 Pair Type inter chrom %(L-I-O-R): 24% - 25% - 25% - 25%
 DE: 25%
 Cis/all (FF and RR orient): 79.4%
Inter-chromosomal: 439,839  (3.58% / 5.71%)
Intra-chromosomal: 2,387,908  (19.42% / 30.99%)
Short Range (<20,000bp): 1,767,789  (14.38% / 22.95%)
Long Range (>20,000bp): 620,119  (5.04% / 8.05%)