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/SRR3344100_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:  15,864,807
 Normal Paired: 8,467,429 (53.37%)
 Chimeric Paired: 1,296,602 (8.17%)
 Chimeric Ambiguous: 477,345 (3.01%)
 Unmapped: 5,623,431 (35.45%)
 Ligation Motif Present: 20,305 (0.13%)
Alignable (Normal+Chimeric Paired): 9,764,031 (61.55%)
WARN [2024-01-15T07:11:31,621]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 3,892,300 (24.53%)
PCR Duplicates: 5,871,731 (37.01%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 4,354,981
Intra-fragment Reads: 1,829,179 (11.53% / 46.99%)
Below MAPQ Threshold: 552,784 (3.48% / 14.20%)
Hi-C Contacts: 1,510,337 (9.52% / 38.80%)
 Ligation Motif Present: 3,252  (0.02% / 0.08%)
 3' Bias (Long Range): 67% - 33%
 Pair Type intra chrom %(L-I-O-R): 11% - 55% - 23% - 11%
 Pair Type inter chrom %(L-I-O-R): 26% - 25% - 23% - 27%
 DE: 54%
 Cis/all (FF and RR orient): 91.9%
Inter-chromosomal: 53,989  (0.34% / 1.39%)
Intra-chromosomal: 1,456,348  (9.18% / 37.42%)
Short Range (<20,000bp): 1,248,639  (7.87% / 32.08%)
Long Range (>20,000bp): 207,709  (1.31% / 5.34%)