Experiment description: Juicer version 1.5.6; BWA 0.7.17-r1188; 4 threads; /home/mirmir/work/progs/juicer-master/CPU/juicer.sh: line 338: java: command not found; /home/mirmir/work/progs/juicer-master/CPU/juicer.sh -t 4 -d /home/mirmir/work/fastq/alOe/ -p /sf/storage/gmo/mirmir/data/alOe/alOe.fa.scf.sizes -q 30 -y /sf/storage/gmo/mirmir/data/alOe/alOe.fa.DpnII.juicer.txt -n alOe -l 2500000,1000000,500000,250000,100000,50000,25000,10000 -z /sf/storage/gmo/mirmir/data/alOe/alOe.fa -o /sf/storage/gmo/mirmir/out/alOe -D /home/mirmir/work/progs/juicer-master/CPU                                                                                                                                                                                                                                                                                                                                                                                                                                                     
Sequenced Read Pairs:  9,498
 Normal Paired: 5,035 (53.01%)
 Chimeric Paired: 3,467 (36.50%)
 Chimeric Ambiguous: 924 (9.73%)
 Unmapped: 72 (0.76%)
 Ligation Motif Present: 7,434 (78.27%)
Alignable (Normal+Chimeric Paired): 8,502 (89.51%)
Unique Reads: 8,457 (89.04%)
PCR Duplicates: 21 (0.22%)
Optical Duplicates: 24 (0.25%)
Library Complexity Estimate: 1,708,517
Intra-fragment Reads: 882 (9.29% / 10.43%)
Below MAPQ Threshold: 711 (7.49% / 8.41%)
Hi-C Contacts: 7,746 (81.55% / 91.59%)
 Ligation Motif Present: 5,781  (60.87% / 68.36%)
 3' Bias (Long Range): 82% - 18%
 Pair Type intra chrom %(L-I-O-R): 7% - 80% - 7% - 6%
 Pair Type inter chrom %(L-I-O-R): 28% - 25% - 24% - 24%
 DE: 59%
 Cis/all (FF and RR orient): 52.6%
Inter-chromosomal: 1,492  (15.71% / 17.64%)
Intra-chromosomal: 6,254  (65.85% / 73.95%)
Short Range (<20,000bp): 4,896  (51.55% / 57.89%)
Long Range (>20,000bp): 1,358  (14.30% / 16.06%)