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/Darevska/DV1 -p /sf/storage/gmo/mirmir/data/Darevska/daVa.2.fa.scf.sizes -q 30 -y /sf/storage/gmo/mirmir/data/Darevska/daVa.2.fa.DpnII.juicer.txt -n daVa.2 -l 2500000,1000000,500000,250000,100000,50000,25000,10000 -z /sf/storage/gmo/mirmir/data/Darevska/daVa.2.fa -o /sf/storage/gmo/mirmir/out/Darevska/DV1 -D /home/mirmir/work/progs/juicer-master/CPU                                                                                                                                                                                                                                                                                                                                                                                                                  
Sequenced Read Pairs:  1,205,032
 Normal Paired: 973,588 (80.79%)
 Chimeric Paired: 61,703 (5.12%)
 Chimeric Ambiguous: 21,011 (1.74%)
 Unmapped: 148,730 (12.34%)
 Ligation Motif Present: 61,276 (5.09%)
Alignable (Normal+Chimeric Paired): 1,035,291 (85.91%)
Unique Reads: 1,017,963 (84.48%)
PCR Duplicates: 16,965 (1.41%)
Optical Duplicates: 363 (0.03%)
Library Complexity Estimate: 31,221,298
Intra-fragment Reads: 439,875 (36.50% / 43.21%)
Below MAPQ Threshold: 235,067 (19.51% / 23.09%)
Hi-C Contacts: 782,896 (64.97% / 76.91%)
 Ligation Motif Present: 35,717  (2.96% / 3.51%)
 3' Bias (Long Range): 51% - 49%
 Pair Type intra chrom %(L-I-O-R): 1% - 97% - 1% - 1%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 91%
 Cis/all (FF and RR orient): 27.2%
Inter-chromosomal: 49,999  (4.15% / 4.91%)
Intra-chromosomal: 732,897  (60.82% / 72.00%)
Short Range (<20,000bp): 725,723  (60.22% / 71.29%)
Long Range (>20,000bp): 7,174  (0.60% / 0.70%)