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/SRR3343961_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:  17,421,077
 Normal Paired: 14,361,676 (82.44%)
 Chimeric Paired: 1,683,847 (9.67%)
 Chimeric Ambiguous: 932,470 (5.35%)
 Unmapped: 443,084 (2.54%)
 Ligation Motif Present: 1,912 (0.01%)
Alignable (Normal+Chimeric Paired): 16,045,523 (92.10%)
WARN [2024-01-14T21:46:01,985]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 8,359,205 (47.98%)
PCR Duplicates: 7,686,318 (44.12%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 10,808,524
Intra-fragment Reads: 3,144,240 (18.05% / 37.61%)
Below MAPQ Threshold: 1,114,705 (6.40% / 13.34%)
Hi-C Contacts: 4,100,260 (23.54% / 49.05%)
 Ligation Motif Present: 420  (0.00% / 0.01%)
 3' Bias (Long Range): 65% - 35%
 Pair Type intra chrom %(L-I-O-R): 15% - 53% - 18% - 15%
 Pair Type inter chrom %(L-I-O-R): 25% - 26% - 25% - 25%
 DE: 39%
 Cis/all (FF and RR orient): 89.3%
Inter-chromosomal: 270,974  (1.56% / 3.24%)
Intra-chromosomal: 3,829,286  (21.98% / 45.81%)
Short Range (<20,000bp): 2,331,510  (13.38% / 27.89%)
Long Range (>20,000bp): 1,497,776  (8.60% / 17.92%)