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/SRR3344095_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:  14,013,786
 Normal Paired: 11,724,875 (83.67%)
 Chimeric Paired: 1,605,033 (11.45%)
 Chimeric Ambiguous: 436,858 (3.12%)
 Unmapped: 247,020 (1.76%)
 Ligation Motif Present: 2,342 (0.02%)
Alignable (Normal+Chimeric Paired): 13,329,908 (95.12%)
WARN [2024-01-15T06:34:01,226]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 5,126,475 (36.58%)
PCR Duplicates: 8,203,433 (58.54%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 5,665,157
Intra-fragment Reads: 2,733,730 (19.51% / 53.33%)
Below MAPQ Threshold: 684,117 (4.88% / 13.34%)
Hi-C Contacts: 1,708,628 (12.19% / 33.33%)
 Ligation Motif Present: 901  (0.01% / 0.02%)
 3' Bias (Long Range): 73% - 27%
 Pair Type intra chrom %(L-I-O-R): 12% - 56% - 21% - 11%
 Pair Type inter chrom %(L-I-O-R): 23% - 26% - 27% - 23%
 DE: 52%
 Cis/all (FF and RR orient): 93.7%
Inter-chromosomal: 55,656  (0.40% / 1.09%)
Intra-chromosomal: 1,652,972  (11.80% / 32.24%)
Short Range (<20,000bp): 1,345,914  (9.60% / 26.25%)
Long Range (>20,000bp): 307,058  (2.19% / 5.99%)