Experiment description: Juicer version 1.5.6; BWA 0.7.17-r1188; 60 threads; java version "1.8.0_40"; scripts/juicer.sh -t 60 -D /srv/scratch/marinovg/juicer-L1519-Giardia_lamblia-Hi-C-MboI_MseI -d /srv/scratch/marinovg/juicer-L1519-Giardia_lamblia-Hi-C-MboI_MseI -p /oak/stanford/groups/akundaje/marinovg/genomes/Diplomonada/Giardia_lamblia/Giardia_lamblia.GCA_000002435.1.20.chrom.sizes -y none -s none -z /oak/stanford/groups/akundaje/marinovg/genomes/Diplomonada/Giardia_lamblia/bwa-indexes/Giardia_lamblia.GCA_000002435.1.20.fa                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
Sequenced Read Pairs:  177,198,029
 Normal Paired: 158,479,882 (89.44%)
 Chimeric Paired: 0 (0.00%)
 Chimeric Ambiguous: 0 (0.00%)
 Unmapped: 18,718,147 (10.56%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 158,479,882 (89.44%)
Unique Reads: 64,125,466 (36.19%)
PCR Duplicates: 94,327,033 (53.23%)
Optical Duplicates: 27,383 (0.02%)
Library Complexity Estimate: 72,151,118
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 18,947,340 (10.69% / 29.55%)
Hi-C Contacts: 45,178,126 (25.50% / 70.45%)
 Ligation Motif Present: 0  (0.00% / 0.00%)
 3' Bias (Long Range): 0% - 0%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 14,849,821  (8.38% / 23.16%)
Intra-chromosomal: 30,328,305  (17.12% / 47.30%)
Short Range (<20Kb): 29,671,461  (16.74% / 46.27%)
Long Range (>20Kb): 614,295  (0.35% / 0.96%)