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/SRR3343947_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:  54,638,297
 Normal Paired: 42,766,450 (78.27%)
 Chimeric Paired: 5,968,142 (10.92%)
 Chimeric Ambiguous: 4,027,425 (7.37%)
 Unmapped: 1,876,280 (3.43%)
 Ligation Motif Present: 6,038 (0.01%)
Alignable (Normal+Chimeric Paired): 48,734,592 (89.19%)
WARN [2024-01-14T17:54:51,379]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 15,197,697 (27.82%)
PCR Duplicates: 33,536,895 (61.38%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 15,948,712
Intra-fragment Reads: 4,888,391 (8.95% / 32.17%)
Below MAPQ Threshold: 3,818,963 (6.99% / 25.13%)
Hi-C Contacts: 6,490,343 (11.88% / 42.71%)
 Ligation Motif Present: 1,184  (0.00% / 0.01%)
 3' Bias (Long Range): 64% - 36%
 Pair Type intra chrom %(L-I-O-R): 17% - 47% - 19% - 17%
 Pair Type inter chrom %(L-I-O-R): 26% - 25% - 25% - 25%
 DE: 30%
 Cis/all (FF and RR orient): 94.1%
Inter-chromosomal: 261,650  (0.48% / 1.72%)
Intra-chromosomal: 6,228,693  (11.40% / 40.98%)
Short Range (<20,000bp): 3,247,743  (5.94% / 21.37%)
Long Range (>20,000bp): 2,980,950  (5.46% / 19.61%)