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/SRR3344017_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:  14,684,221
 Normal Paired: 11,279,586 (76.81%)
 Chimeric Paired: 1,705,479 (11.61%)
 Chimeric Ambiguous: 654,845 (4.46%)
 Unmapped: 1,044,311 (7.11%)
 Ligation Motif Present: 2,657 (0.02%)
Alignable (Normal+Chimeric Paired): 12,985,065 (88.43%)
WARN [2024-01-15T05:57:24,951]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 7,707,526 (52.49%)
PCR Duplicates: 5,277,539 (35.94%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 11,264,541
Intra-fragment Reads: 3,647,283 (24.84% / 47.32%)
Below MAPQ Threshold: 817,374 (5.57% / 10.60%)
Hi-C Contacts: 3,242,869 (22.08% / 42.07%)
 Ligation Motif Present: 231  (0.00% / 0.00%)
 3' Bias (Long Range): 69% - 31%
 Pair Type intra chrom %(L-I-O-R): 15% - 51% - 19% - 15%
 Pair Type inter chrom %(L-I-O-R): 24% - 27% - 26% - 23%
 DE: 38%
 Cis/all (FF and RR orient): 94.5%
Inter-chromosomal: 118,504  (0.81% / 1.54%)
Intra-chromosomal: 3,124,365  (21.28% / 40.54%)
Short Range (<20,000bp): 2,007,695  (13.67% / 26.05%)
Long Range (>20,000bp): 1,116,670  (7.60% / 14.49%)