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/SRR3344009_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:  18,002,480
 Normal Paired: 10,724,618 (59.57%)
 Chimeric Paired: 3,733,235 (20.74%)
 Chimeric Ambiguous: 2,661,145 (14.78%)
 Unmapped: 883,482 (4.91%)
 Ligation Motif Present: 539 (0.00%)
Alignable (Normal+Chimeric Paired): 14,457,853 (80.31%)
WARN [2024-01-15T05:38:19,624]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 9,595,511 (53.30%)
PCR Duplicates: 4,862,342 (27.01%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 16,342,335
Intra-fragment Reads: 4,028,658 (22.38% / 41.98%)
Below MAPQ Threshold: 3,001,060 (16.67% / 31.28%)
Hi-C Contacts: 2,565,793 (14.25% / 26.74%)
 Ligation Motif Present: 236  (0.00% / 0.00%)
 3' Bias (Long Range): 57% - 43%
 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: 24%
 Cis/all (FF and RR orient): 65.0%
Inter-chromosomal: 678,140  (3.77% / 7.07%)
Intra-chromosomal: 1,887,653  (10.49% / 19.67%)
Short Range (<20,000bp): 1,297,102  (7.21% / 13.52%)
Long Range (>20,000bp): 590,551  (3.28% / 6.15%)