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/SRR3343945_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:  61,784,708
 Normal Paired: 50,465,440 (81.68%)
 Chimeric Paired: 5,692,585 (9.21%)
 Chimeric Ambiguous: 3,552,463 (5.75%)
 Unmapped: 2,074,220 (3.36%)
 Ligation Motif Present: 13,940 (0.02%)
Alignable (Normal+Chimeric Paired): 56,158,025 (90.89%)
WARN [2024-01-14T16:16:21,323]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 20,462,801 (33.12%)
PCR Duplicates: 35,695,224 (57.77%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 22,244,368
Intra-fragment Reads: 5,716,479 (9.25% / 27.94%)
Below MAPQ Threshold: 4,492,494 (7.27% / 21.95%)
Hi-C Contacts: 10,253,828 (16.60% / 50.11%)
 Ligation Motif Present: 3,584  (0.01% / 0.02%)
 3' Bias (Long Range): 63% - 37%
 Pair Type intra chrom %(L-I-O-R): 14% - 56% - 16% - 14%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 42%
 Cis/all (FF and RR orient): 88.9%
Inter-chromosomal: 660,406  (1.07% / 3.23%)
Intra-chromosomal: 9,593,422  (15.53% / 46.88%)
Short Range (<20,000bp): 6,132,718  (9.93% / 29.97%)
Long Range (>20,000bp): 3,460,704  (5.60% / 16.91%)