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: 3,073,462 (17.63% / 31.50%)
Hi-C Contacts: 2,707,458 (15.53% / 27.75%)
 Ligation Motif Present: 524  (0.00% / 0.01%)
 3' Bias (Long Range): 60% - 40%
 Pair Type intra chrom %(L-I-O-R): 17% - 47% - 19% - 17%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 25%
 Cis/all (FF and RR orient): 70.2%
Inter-chromosomal: 608,605  (3.49% / 6.24%)
Intra-chromosomal: 2,098,853  (12.04% / 21.51%)
Short Range (<20,000bp): 1,525,894  (8.75% / 15.64%)
Long Range (>20,000bp): 572,959  (3.29% / 5.87%)