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/SRR3344004_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:  13,465,540
 Normal Paired: 11,211,157 (83.26%)
 Chimeric Paired: 1,442,120 (10.71%)
 Chimeric Ambiguous: 385,774 (2.86%)
 Unmapped: 426,489 (3.17%)
 Ligation Motif Present: 2,765 (0.02%)
Alignable (Normal+Chimeric Paired): 12,653,277 (93.97%)
WARN [2024-01-15T04:36:22,375]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 10,107,256 (75.06%)
PCR Duplicates: 2,546,021 (18.91%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 27,065,502
Intra-fragment Reads: 4,712,186 (34.99% / 46.62%)
Below MAPQ Threshold: 1,060,997 (7.88% / 10.50%)
Hi-C Contacts: 4,334,073 (32.19% / 42.88%)
 Ligation Motif Present: 1,500  (0.01% / 0.01%)
 3' Bias (Long Range): 70% - 30%
 Pair Type intra chrom %(L-I-O-R): 9% - 62% - 19% - 9%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 26% - 25%
 DE: 60%
 Cis/all (FF and RR orient): 89.0%
Inter-chromosomal: 194,430  (1.44% / 1.92%)
Intra-chromosomal: 4,139,643  (30.74% / 40.96%)
Short Range (<20,000bp): 3,394,185  (25.21% / 33.58%)
Long Range (>20,000bp): 745,458  (5.54% / 7.38%)