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/SRR3343958_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:  17,743,735
 Normal Paired: 14,495,518 (81.69%)
 Chimeric Paired: 1,909,133 (10.76%)
 Chimeric Ambiguous: 952,211 (5.37%)
 Unmapped: 386,873 (2.18%)
 Ligation Motif Present: 3,157 (0.02%)
Alignable (Normal+Chimeric Paired): 16,404,651 (92.45%)
WARN [2024-01-14T19:40:41,487]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 10,302,782 (58.06%)
PCR Duplicates: 6,101,869 (34.39%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 16,154,032
Intra-fragment Reads: 3,964,324 (22.34% / 38.48%)
Below MAPQ Threshold: 1,138,792 (6.42% / 11.05%)
Hi-C Contacts: 5,199,666 (29.30% / 50.47%)
 Ligation Motif Present: 1,536  (0.01% / 0.01%)
 3' Bias (Long Range): 67% - 33%
 Pair Type intra chrom %(L-I-O-R): 15% - 54% - 17% - 15%
 Pair Type inter chrom %(L-I-O-R): 26% - 25% - 25% - 24%
 DE: 40%
 Cis/all (FF and RR orient): 92.9%
Inter-chromosomal: 221,087  (1.25% / 2.15%)
Intra-chromosomal: 4,978,579  (28.06% / 48.32%)
Short Range (<20,000bp): 3,419,231  (19.27% / 33.19%)
Long Range (>20,000bp): 1,559,348  (8.79% / 15.14%)