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/SRR3344082_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:  15,689,992
 Normal Paired: 8,324,139 (53.05%)
 Chimeric Paired: 1,248,084 (7.95%)
 Chimeric Ambiguous: 593,548 (3.78%)
 Unmapped: 5,524,221 (35.21%)
 Ligation Motif Present: 9,058 (0.06%)
Alignable (Normal+Chimeric Paired): 9,572,223 (61.01%)
WARN [2024-01-15T06:16:33,405]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 4,828,106 (30.77%)
PCR Duplicates: 4,744,117 (30.24%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 6,096,079
Intra-fragment Reads: 1,940,509 (12.37% / 40.19%)
Below MAPQ Threshold: 680,933 (4.34% / 14.10%)
Hi-C Contacts: 2,206,664 (14.06% / 45.70%)
 Ligation Motif Present: 2,058  (0.01% / 0.04%)
 3' Bias (Long Range): 67% - 33%
 Pair Type intra chrom %(L-I-O-R): 13% - 54% - 21% - 13%
 Pair Type inter chrom %(L-I-O-R): 22% - 29% - 27% - 22%
 DE: 46%
 Cis/all (FF and RR orient): 93.6%
Inter-chromosomal: 85,556  (0.55% / 1.77%)
Intra-chromosomal: 2,121,108  (13.52% / 43.93%)
Short Range (<20,000bp): 1,686,271  (10.75% / 34.93%)
Long Range (>20,000bp): 434,837  (2.77% / 9.01%)