Experiment description: Juicer version 1.5.6; BWA 0.7.18-r1243-dirty; 4 threads; openjdk version "22.0.1-internal" 2024-04-16; /home/nuriddinov/progs/juicer-master/CPU/juicer.sh -t 4 -d /home/nuriddinov/scratch/fastq/miAr/2 -p /home/nuriddinov/scratch/genome/miAr/miAr.fa.scf.sizes -y /home/nuriddinov/scratch/genome/miAr/miAr.fa.DpnII.juicer.txt -n miAr -l 2500000,1000000,500000,250000,100000,50000,25000,10000 -z /home/nuriddinov/scratch/genome/miAr/miAr.fa -o /home/nuriddinov/scratch/out/hic/miAr/2 -D /home/nuriddinov/progs/juicer-master/CPU                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
Sequenced Read Pairs:  43,110
 Normal Paired: 17,946 (41.63%)
 Chimeric Paired: 18,977 (44.02%)
 Chimeric Ambiguous: 6,027 (13.98%)
 Unmapped: 160 (0.37%)
 Ligation Motif Present: 38,144 (88.48%)
Alignable (Normal+Chimeric Paired): 36,923 (85.65%)
Unique Reads: 36,909 (85.62%)
PCR Duplicates: 4 (0.01%)
Optical Duplicates: 10 (0.02%)
Library Complexity Estimate: 170,308,891
Intra-fragment Reads: 1,786 (4.14% / 4.84%)
Below MAPQ Threshold: 3,827 (8.88% / 10.37%)
Hi-C Contacts: 33,082 (76.74% / 89.63%)
 Ligation Motif Present: 25,879  (60.03% / 70.12%)
 3' Bias (Long Range): 82% - 18%
 Pair Type intra chrom %(L-I-O-R): 8% - 76% - 8% - 8%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 44%
 Cis/all (FF and RR orient): 39.0%
Inter-chromosomal: 11,242  (26.08% / 30.46%)
Intra-chromosomal: 21,840  (50.66% / 59.17%)
Short Range (<20,000bp): 16,180  (37.53% / 43.84%)
Long Range (>20,000bp): 5,660  (13.13% / 15.34%)