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/SRR3343980_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:  20,232,293
 Normal Paired: 12,553,604 (62.05%)
 Chimeric Paired: 3,283,472 (16.23%)
 Chimeric Ambiguous: 3,127,859 (15.46%)
 Unmapped: 1,267,358 (6.26%)
 Ligation Motif Present: 1,745 (0.01%)
Alignable (Normal+Chimeric Paired): 15,837,076 (78.28%)
WARN [2024-01-15T00:53:16,496]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 12,271,820 (60.65%)
PCR Duplicates: 3,565,256 (17.62%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 29,669,443
Intra-fragment Reads: 4,249,791 (21.00% / 34.63%)
Below MAPQ Threshold: 3,907,009 (19.31% / 31.84%)
Hi-C Contacts: 4,115,020 (20.34% / 33.53%)
 Ligation Motif Present: 1,030  (0.01% / 0.01%)
 3' Bias (Long Range): 59% - 41%
 Pair Type intra chrom %(L-I-O-R): 16% - 50% - 18% - 16%
 Pair Type inter chrom %(L-I-O-R): 25% - 26% - 25% - 25%
 DE: 30%
 Cis/all (FF and RR orient): 72.6%
Inter-chromosomal: 792,882  (3.92% / 6.46%)
Intra-chromosomal: 3,322,138  (16.42% / 27.07%)
Short Range (<20,000bp): 2,435,774  (12.04% / 19.85%)
Long Range (>20,000bp): 886,364  (4.38% / 7.22%)