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: 210,551,816 (34.75% / 44.26%)
Hi-C Contacts: 226,793,298 (37.43% / 47.67%)
 Ligation Motif Present: 22,288,483  (3.68% / 4.68%)
 3' Bias (Long Range): 69% - 31%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 21,126,214  (3.49% / 4.44%)
Intra-chromosomal: 205,667,084  (33.94% / 43.23%)
Short Range (<20Kb): 73,672,634  (12.16% / 15.49%)
Long Range (>20Kb): 131,993,048  (21.79% / 27.74%)