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/SRR3343946_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:  21,701,416
 Normal Paired: 16,941,495 (78.07%)
 Chimeric Paired: 2,342,352 (10.79%)
 Chimeric Ambiguous: 1,638,185 (7.55%)
 Unmapped: 779,384 (3.59%)
 Ligation Motif Present: 2,350 (0.01%)
Alignable (Normal+Chimeric Paired): 19,283,847 (88.86%)
WARN [2024-01-14T16:50:12,972]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 9,829,259 (45.29%)
PCR Duplicates: 9,454,588 (43.57%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 12,503,893
Intra-fragment Reads: 3,469,970 (15.99% / 35.30%)
Below MAPQ Threshold: 1,783,041 (8.22% / 18.14%)
Hi-C Contacts: 4,576,248 (21.09% / 46.56%)
 Ligation Motif Present: 706  (0.00% / 0.01%)
 3' Bias (Long Range): 65% - 35%
 Pair Type intra chrom %(L-I-O-R): 17% - 47% - 19% - 17%
 Pair Type inter chrom %(L-I-O-R): 26% - 25% - 25% - 25%
 DE: 31%
 Cis/all (FF and RR orient): 94.4%
Inter-chromosomal: 174,682  (0.80% / 1.78%)
Intra-chromosomal: 4,401,566  (20.28% / 44.78%)
Short Range (<20,000bp): 2,315,749  (10.67% / 23.56%)
Long Range (>20,000bp): 2,085,817  (9.61% / 21.22%)