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: 20,810,537 (11.74% / 32.45%)
Hi-C Contacts: 43,314,929 (24.44% / 67.55%)
 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: 13,832,173  (7.81% / 21.57%)
Intra-chromosomal: 29,482,756  (16.64% / 45.98%)
Short Range (<20Kb): 28,859,826  (16.29% / 45.01%)
Long Range (>20Kb): 582,088  (0.33% / 0.91%)