Experiment description: Juicer version 1.5.6;4 threads; java version "1.8.0_45"; /mnt/storage/home/manuriddinov/Distributive/juicer-master/CPU/juicer.sh -t 4 -S final -d /mnt/storage/home/manuriddinov/scratch/fastq/Fungus/F39 -p /mnt/storage/home/manuriddinov/MyData/Fungus/genome/scf/F39/F39.scf.sizes -y /mnt/storage/home/manuriddinov/MyData/Fungus/genome/scf/F39/F39.MboI.juicer.txt -q 30 -n F39 -l 1000000,500000,250000,100000,50000,25000,10000,5000,1000 -z /mnt/storage/home/manuriddinov/MyData/Fungus/genome/scf/F39/F39.fa -o /mnt/storage/home/manuriddinov/scratch/Fungus/F39 -D /mnt/storage/home/manuriddinov/Distributive/juicer-master/CPU Sequenced Read Pairs: 2,420,743 Normal Paired: 139,369 (5.76%) Chimeric Paired: 48,176 (1.99%) Chimeric Ambiguous: 22,132 (0.91%) Unmapped: 2,211,066 (91.34%) Ligation Motif Present: 83,066 (3.43%) Alignable (Normal+Chimeric Paired): 187,545 (7.75%) Unique Reads: 186,591 (7.71%) PCR Duplicates: 909 (0.04%) Optical Duplicates: 45 (0.00%) Library Complexity Estimate: 19,275,320 Intra-fragment Reads: 50,058 (2.07% / 26.83%) Below MAPQ Threshold: 35,544 (1.47% / 19.05%) Hi-C Contacts: 100,989 (4.17% / 54.12%) Ligation Motif Present: 44,302 (1.83% / 23.74%) 3' Bias (Long Range): 76% - 24% Pair Type intra chrom %(L-I-O-R): 6% - 83% - 5% - 6% Pair Type inter chrom %(L-I-O-R): 25% - 26% - 25% - 25% DE: 58% Cis/all (FF and RR orient): 43.1% Inter-chromosomal: 24,054 (0.99% / 12.89%) Intra-chromosomal: 76,935 (3.18% / 41.23%) Short Range (<20,000bp): 64,899 (2.68% / 34.78%) Long Range (>20,000bp): 12,036 (0.50% / 6.45%)