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/SRR3344118_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:  9,782,475
 Normal Paired: 4,079,445 (41.70%)
 Chimeric Paired: 638,514 (6.53%)
 Chimeric Ambiguous: 349,658 (3.57%)
 Unmapped: 4,714,858 (48.20%)
 Ligation Motif Present: 15,899 (0.16%)
Alignable (Normal+Chimeric Paired): 4,717,959 (48.23%)
WARN [2024-01-15T07:42:08,502]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 1,915,863 (19.58%)
PCR Duplicates: 2,802,096 (28.64%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 2,158,441
Intra-fragment Reads: 749,691 (7.66% / 39.13%)
Below MAPQ Threshold: 323,000 (3.30% / 16.86%)
Hi-C Contacts: 843,172 (8.62% / 44.01%)
 Ligation Motif Present: 467  (0.00% / 0.02%)
 3' Bias (Long Range): 65% - 35%
 Pair Type intra chrom %(L-I-O-R): 12% - 55% - 21% - 12%
 Pair Type inter chrom %(L-I-O-R): 28% - 22% - 24% - 27%
 DE: 50%
 Cis/all (FF and RR orient): 91.0%
Inter-chromosomal: 35,503  (0.36% / 1.85%)
Intra-chromosomal: 807,669  (8.26% / 42.16%)
Short Range (<20,000bp): 709,477  (7.25% / 37.03%)
Long Range (>20,000bp): 98,192  (1.00% / 5.13%)