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/SRR3344000_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:  17,434,951
 Normal Paired: 10,822,955 (62.08%)
 Chimeric Paired: 3,251,168 (18.65%)
 Chimeric Ambiguous: 2,506,619 (14.38%)
 Unmapped: 854,209 (4.90%)
 Ligation Motif Present: 883 (0.01%)
Alignable (Normal+Chimeric Paired): 14,074,123 (80.72%)
WARN [2024-01-15T03:47:38,195]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 9,758,079 (55.97%)
PCR Duplicates: 4,316,044 (24.76%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 17,966,265
Intra-fragment Reads: 3,977,159 (22.81% / 40.76%)
Below MAPQ Threshold: 3,710,281 (21.28% / 38.02%)
Hi-C Contacts: 2,070,639 (11.88% / 21.22%)
 Ligation Motif Present: 501  (0.00% / 0.01%)
 3' Bias (Long Range): 63% - 37%
 Pair Type intra chrom %(L-I-O-R): 17% - 48% - 18% - 17%
 Pair Type inter chrom %(L-I-O-R): 25% - 24% - 25% - 26%
 DE: 29%
 Cis/all (FF and RR orient): 88.6%
Inter-chromosomal: 165,452  (0.95% / 1.70%)
Intra-chromosomal: 1,905,187  (10.93% / 19.52%)
Short Range (<20,000bp): 1,392,196  (7.99% / 14.27%)
Long Range (>20,000bp): 512,991  (2.94% / 5.26%)