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: 265,949 (22.07% / 26.13%)
Hi-C Contacts: 752,014 (62.41% / 73.87%)
 Ligation Motif Present: 32,930  (2.73% / 3.23%)
 3' Bias (Long Range): 50% - 50%
 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: 92%
 Cis/all (FF and RR orient): 30.4%
Inter-chromosomal: 40,106  (3.33% / 3.94%)
Intra-chromosomal: 711,908  (59.08% / 69.93%)
Short Range (<20,000bp): 705,434  (58.54% / 69.30%)
Long Range (>20,000bp): 6,474  (0.54% / 0.64%)