Experiment description: Juicer version 1.5.6; BWA 0.7.17-r1188; 20 threads; java version "1.8.0_131"; scripts/juicer.sh -t 20 -D /oak/stanford/groups/akundaje/marinovg/ENCODE4/Chromatin-nanopores/2019-04-06-Drosophila-Hi-C-data/06-S2-GSE99104/juicer-S2R+-pooled -d /oak/stanford/groups/akundaje/marinovg/ENCODE4/Chromatin-nanopores/2019-04-06-Drosophila-Hi-C-data/06-S2-GSE99104/juicer-S2R+-pooled -p /oak/stanford/groups/akundaje/marinovg/genomes/dm3/dm3.chrom.sizes -y /oak/stanford/groups/akundaje/marinovg/genomes/dm3/bwa-indexes/dm3_MboI.txt -z /oak/stanford/groups/akundaje/marinovg/genomes/dm3/bwa-indexes/dm3.fa                                                                                                                                                                                                                                                                                                                                                                                             
Sequenced Read Pairs:  605,884,794
 Normal Paired: 531,418,049 (87.71%)
 Chimeric Paired: 30,041 (0.00%)
 Chimeric Ambiguous: 29,486 (0.00%)
 Unmapped: 74,407,218 (12.28%)
 Ligation Motif Present: 72,205,387 (11.92%)
Alignable (Normal+Chimeric Paired): 531,448,090 (87.71%)
Unique Reads: 475,761,279 (78.52%)
PCR Duplicates: 55,686,811 (9.19%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 2,355,513,179
Intra-fragment Reads: 38,416,165 (6.34% / 8.07%)
Below MAPQ Threshold: 202,455,921 (33.41% / 42.55%)
Hi-C Contacts: 234,889,193 (38.77% / 49.37%)
 Ligation Motif Present: 23,024,718  (3.80% / 4.84%)
 3' Bias (Long Range): 69% - 31%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 24,062,521  (3.97% / 5.06%)
Intra-chromosomal: 210,826,672  (34.80% / 44.31%)
Short Range (<20Kb): 75,228,389  (12.42% / 15.81%)
Long Range (>20Kb): 135,596,846  (22.38% / 28.50%)