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/SRR3344009_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:  18,002,480
 Normal Paired: 10,724,618 (59.57%)
 Chimeric Paired: 3,733,235 (20.74%)
 Chimeric Ambiguous: 2,661,145 (14.78%)
 Unmapped: 883,482 (4.91%)
 Ligation Motif Present: 539 (0.00%)
Alignable (Normal+Chimeric Paired): 14,457,853 (80.31%)
WARN [2024-01-15T05:38:19,624]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 9,595,511 (53.30%)
PCR Duplicates: 4,862,342 (27.01%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 16,342,335
Intra-fragment Reads: 4,028,658 (22.38% / 41.98%)
Below MAPQ Threshold: 3,653,756 (20.30% / 38.08%)
Hi-C Contacts: 1,913,097 (10.63% / 19.94%)
 Ligation Motif Present: 215  (0.00% / 0.00%)
 3' Bias (Long Range): 60% - 40%
 Pair Type intra chrom %(L-I-O-R): 17% - 48% - 18% - 17%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 24% - 26%
 DE: 28%
 Cis/all (FF and RR orient): 84.4%
Inter-chromosomal: 208,915  (1.16% / 2.18%)
Intra-chromosomal: 1,704,182  (9.47% / 17.76%)
Short Range (<20,000bp): 1,171,377  (6.51% / 12.21%)
Long Range (>20,000bp): 532,805  (2.96% / 5.55%)