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/SRR3343944_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:  21,633,786
 Normal Paired: 17,592,950 (81.32%)
 Chimeric Paired: 1,952,133 (9.02%)
 Chimeric Ambiguous: 1,273,131 (5.88%)
 Unmapped: 815,572 (3.77%)
 Ligation Motif Present: 4,985 (0.02%)
Alignable (Normal+Chimeric Paired): 19,545,083 (90.35%)
WARN [2024-01-14T15:09:10,611]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 12,360,937 (57.14%)
PCR Duplicates: 7,184,146 (33.21%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 19,568,142
Intra-fragment Reads: 3,824,648 (17.68% / 30.94%)
Below MAPQ Threshold: 2,207,056 (10.20% / 17.86%)
Hi-C Contacts: 6,329,233 (29.26% / 51.20%)
 Ligation Motif Present: 2,205  (0.01% / 0.02%)
 3' Bias (Long Range): 64% - 36%
 Pair Type intra chrom %(L-I-O-R): 14% - 57% - 16% - 14%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 43%
 Cis/all (FF and RR orient): 90.6%
Inter-chromosomal: 337,632  (1.56% / 2.73%)
Intra-chromosomal: 5,991,601  (27.70% / 48.47%)
Short Range (<20,000bp): 3,887,899  (17.97% / 31.45%)
Long Range (>20,000bp): 2,103,702  (9.72% / 17.02%)