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/SRR3343975_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:  19,870,218
 Normal Paired: 12,464,870 (62.73%)
 Chimeric Paired: 3,641,369 (18.33%)
 Chimeric Ambiguous: 2,894,209 (14.57%)
 Unmapped: 869,770 (4.38%)
 Ligation Motif Present: 2,001 (0.01%)
Alignable (Normal+Chimeric Paired): 16,106,239 (81.06%)
WARN [2024-01-15T00:11:29,292]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 11,221,681 (56.47%)
PCR Duplicates: 4,884,558 (24.58%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 20,858,700
Intra-fragment Reads: 4,441,101 (22.35% / 39.58%)
Below MAPQ Threshold: 3,403,096 (17.13% / 30.33%)
Hi-C Contacts: 3,377,484 (17.00% / 30.10%)
 Ligation Motif Present: 861  (0.00% / 0.01%)
 3' Bias (Long Range): 60% - 40%
 Pair Type intra chrom %(L-I-O-R): 17% - 46% - 19% - 17%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 25%
 Cis/all (FF and RR orient): 73.7%
Inter-chromosomal: 669,472  (3.37% / 5.97%)
Intra-chromosomal: 2,708,012  (13.63% / 24.13%)
Short Range (<20,000bp): 1,988,246  (10.01% / 17.72%)
Long Range (>20,000bp): 719,766  (3.62% / 6.41%)