Experiment description: Juicer version 1.5.6; BWA 0.7.5a-r405; 60 threads; java version "1.8.0_131"; scripts/juicer.sh -t 60 -D /oak/stanford/groups/akundaje/marinovg/ENCODE4/Chromatin-nanopores/2021-03-18-NextSeq/juicer-L2061-GM12878_0_5pFA_Hi-C -d /oak/stanford/groups/akundaje/marinovg/ENCODE4/Chromatin-nanopores/2021-03-18-NextSeq/juicer-L2061-GM12878_0_5pFA_Hi-C -p /oak/stanford/groups/akundaje/marinovg/genomes/hg20/hg38-no-haps.chrom.sizes -y /oak/stanford/groups/akundaje/marinovg/genomes/hg20/bwa-indexes/hg38-no-haps_MboI.txt -z /oak/stanford/groups/akundaje/marinovg/genomes/hg20/bwa-indexes/hg38-no-haps.fa                                                                                                                                                                                                                                                                                                                                                                                            
Sequenced Read Pairs:  35,596,215
 Normal Paired: 31,799,145 (89.33%)
 Chimeric Paired: 0 (0.00%)
 Chimeric Ambiguous: 0 (0.00%)
 Unmapped: 3,797,070 (10.67%)
 Ligation Motif Present: 73,701 (0.21%)
Alignable (Normal+Chimeric Paired): 31,799,145 (89.33%)
Unique Reads: 29,893,142 (83.98%)
PCR Duplicates: 1,888,422 (5.31%)
Optical Duplicates: 17,581 (0.05%)
Library Complexity Estimate: 256,734,765
Intra-fragment Reads: 6,453,670 (18.13% / 21.59%)
Below MAPQ Threshold: 16,892,302 (47.46% / 56.51%)
Hi-C Contacts: 6,547,170 (18.39% / 21.90%)
 Ligation Motif Present: 7,706  (0.02% / 0.03%)
 3' Bias (Long Range): 55% - 45%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 1,843,317  (5.18% / 6.17%)
Intra-chromosomal: 4,703,853  (13.21% / 15.74%)
Short Range (<20Kb): 4,542,912  (12.76% / 15.20%)
Long Range (>20Kb): 160,937  (0.45% / 0.54%)