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/SRR3343950_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:  17,476,935
 Normal Paired: 13,919,421 (79.64%)
 Chimeric Paired: 2,077,121 (11.88%)
 Chimeric Ambiguous: 1,210,736 (6.93%)
 Unmapped: 269,657 (1.54%)
 Ligation Motif Present: 2,759 (0.02%)
Alignable (Normal+Chimeric Paired): 15,996,542 (91.53%)
WARN [2024-01-14T18:21:51,373]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 9,116,049 (52.16%)
PCR Duplicates: 6,880,493 (39.37%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 12,755,907
Intra-fragment Reads: 3,499,404 (20.02% / 38.39%)
Below MAPQ Threshold: 1,252,229 (7.17% / 13.74%)
Hi-C Contacts: 4,364,416 (24.97% / 47.88%)
 Ligation Motif Present: 1,131  (0.01% / 0.01%)
 3' Bias (Long Range): 65% - 35%
 Pair Type intra chrom %(L-I-O-R): 15% - 50% - 20% - 15%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 37%
 Cis/all (FF and RR orient): 90.2%
Inter-chromosomal: 268,674  (1.54% / 2.95%)
Intra-chromosomal: 4,095,742  (23.44% / 44.93%)
Short Range (<20,000bp): 2,714,961  (15.53% / 29.78%)
Long Range (>20,000bp): 1,380,781  (7.90% / 15.15%)