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/SRR3343966_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:  24,577,966
 Normal Paired: 14,823,915 (60.31%)
 Chimeric Paired: 4,935,866 (20.08%)
 Chimeric Ambiguous: 3,626,444 (14.75%)
 Unmapped: 1,191,741 (4.85%)
 Ligation Motif Present: 2,022 (0.01%)
Alignable (Normal+Chimeric Paired): 19,759,781 (80.40%)
WARN [2024-01-14T23:28:26,211]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 12,150,698 (49.44%)
PCR Duplicates: 7,609,083 (30.96%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 18,529,233
Intra-fragment Reads: 4,635,085 (18.86% / 38.15%)
Below MAPQ Threshold: 3,586,572 (14.59% / 29.52%)
Hi-C Contacts: 3,929,041 (15.99% / 32.34%)
 Ligation Motif Present: 980  (0.00% / 0.01%)
 3' Bias (Long Range): 59% - 41%
 Pair Type intra chrom %(L-I-O-R): 18% - 45% - 19% - 18%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 24%
 Cis/all (FF and RR orient): 75.4%
Inter-chromosomal: 733,726  (2.99% / 6.04%)
Intra-chromosomal: 3,195,315  (13.00% / 26.30%)
Short Range (<20,000bp): 2,218,224  (9.03% / 18.26%)
Long Range (>20,000bp): 977,091  (3.98% / 8.04%)