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/SRR3343962_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:  44,351,296
 Normal Paired: 36,696,688 (82.74%)
 Chimeric Paired: 4,342,216 (9.79%)
 Chimeric Ambiguous: 2,344,797 (5.29%)
 Unmapped: 967,595 (2.18%)
 Ligation Motif Present: 4,456 (0.01%)
Alignable (Normal+Chimeric Paired): 41,038,904 (92.53%)
WARN [2024-01-14T22:39:32,062]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 13,955,836 (31.47%)
PCR Duplicates: 27,083,068 (61.06%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 14,905,630
Intra-fragment Reads: 4,907,045 (11.06% / 35.16%)
Below MAPQ Threshold: 2,555,907 (5.76% / 18.31%)
Hi-C Contacts: 6,492,884 (14.64% / 46.52%)
 Ligation Motif Present: 740  (0.00% / 0.01%)
 3' Bias (Long Range): 65% - 35%
 Pair Type intra chrom %(L-I-O-R): 15% - 51% - 18% - 15%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 36%
 Cis/all (FF and RR orient): 88.5%
Inter-chromosomal: 477,632  (1.08% / 3.42%)
Intra-chromosomal: 6,015,252  (13.56% / 43.10%)
Short Range (<20,000bp): 3,585,771  (8.08% / 25.69%)
Long Range (>20,000bp): 2,429,481  (5.48% / 17.41%)