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//juicer-S2.all_accessions_pooled -d /oak/stanford/groups/akundaje/marinovg/ENCODE4/Chromatin-nanopores/2019-04-06-Drosophila-Hi-C-data//juicer-S2.all_accessions_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:  1,125,119,440
 Normal Paired: 839,632,912 (74.63%)
 Chimeric Paired: 133,598,855 (11.87%)
 Chimeric Ambiguous: 69,759,062 (6.20%)
 Unmapped: 82,128,611 (7.30%)
 Ligation Motif Present: 408,495,753 (36.31%)
Alignable (Normal+Chimeric Paired): 973,231,767 (86.50%)
Unique Reads: 821,707,387 (73.03%)
PCR Duplicates: 151,524,380 (13.47%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 2,791,894,214
Intra-fragment Reads: 45,991,211 (4.09% / 5.60%)
Below MAPQ Threshold: 306,220,246 (27.22% / 37.27%)
Hi-C Contacts: 469,495,930 (41.73% / 57.14%)
 Ligation Motif Present: 133,596,063  (11.87% / 16.26%)
 3' Bias (Long Range): 63% - 37%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 36,773,043  (3.27% / 4.48%)
Intra-chromosomal: 432,722,887  (38.46% / 52.66%)
Short Range (<20Kb): 204,827,045  (18.20% / 24.93%)
Long Range (>20Kb): 227,879,407  (20.25% / 27.73%)