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/SRR3343999_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:  18,100,695
 Normal Paired: 11,131,287 (61.50%)
 Chimeric Paired: 3,543,934 (19.58%)
 Chimeric Ambiguous: 2,553,586 (14.11%)
 Unmapped: 871,888 (4.82%)
 Ligation Motif Present: 866 (0.00%)
Alignable (Normal+Chimeric Paired): 14,675,221 (81.08%)
WARN [2024-01-15T03:09:40,479]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 10,413,166 (57.53%)
PCR Duplicates: 4,262,055 (23.55%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 20,090,783
Intra-fragment Reads: 4,606,640 (25.45% / 44.24%)
Below MAPQ Threshold: 3,808,863 (21.04% / 36.58%)
Hi-C Contacts: 1,997,663 (11.04% / 19.18%)
 Ligation Motif Present: 354  (0.00% / 0.00%)
 3' Bias (Long Range): 64% - 36%
 Pair Type intra chrom %(L-I-O-R): 17% - 49% - 18% - 17%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 31%
 Cis/all (FF and RR orient): 89.1%
Inter-chromosomal: 151,392  (0.84% / 1.45%)
Intra-chromosomal: 1,846,271  (10.20% / 17.73%)
Short Range (<20,000bp): 1,250,067  (6.91% / 12.00%)
Long Range (>20,000bp): 596,204  (3.29% / 5.73%)