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/SRR3343951_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:  43,315,586
 Normal Paired: 34,509,465 (79.67%)
 Chimeric Paired: 5,198,807 (12.00%)
 Chimeric Ambiguous: 2,994,511 (6.91%)
 Unmapped: 612,803 (1.41%)
 Ligation Motif Present: 6,705 (0.02%)
Alignable (Normal+Chimeric Paired): 39,708,272 (91.67%)
WARN [2024-01-14T19:15:09,749]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 15,335,450 (35.40%)
PCR Duplicates: 24,372,822 (56.27%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 16,970,408
Intra-fragment Reads: 5,549,138 (12.81% / 36.19%)
Below MAPQ Threshold: 3,231,963 (7.46% / 21.08%)
Hi-C Contacts: 6,554,349 (15.13% / 42.74%)
 Ligation Motif Present: 1,839  (0.00% / 0.01%)
 3' Bias (Long Range): 65% - 35%
 Pair Type intra chrom %(L-I-O-R): 15% - 50% - 19% - 15%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 37%
 Cis/all (FF and RR orient): 90.5%
Inter-chromosomal: 394,952  (0.91% / 2.58%)
Intra-chromosomal: 6,159,397  (14.22% / 40.16%)
Short Range (<20,000bp): 4,069,748  (9.40% / 26.54%)
Long Range (>20,000bp): 2,089,649  (4.82% / 13.63%)