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/Symbiodinium/2020-01-23-Novogene-NovaSeq/juicer-L1199-Chlorella_sp._Hi-C -y none -s none -p /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-gDNA/L1363-Chlorella_sp._gDNA/SPAdes-3.14-L1363-Chlorella_sp._gDNA/scaffolds.chrom.sizes -y none -s none -z /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-gDNA/L1363-Chlorella_sp._gDNA/SPAdes-3.14-L1363-Chlorella_sp._gDNA/bwa-indexes/scaffolds.fa                                                                                                                                                                                                                                                                                                                                                                                                                                             
Sequenced Read Pairs:  86,618,522
 Normal Paired: 59,369,490 (68.54%)
 Chimeric Paired: 0 (0.00%)
 Chimeric Ambiguous: 0 (0.00%)
 Unmapped: 27,249,032 (31.46%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 59,369,490 (68.54%)
Unique Reads: 57,822,888 (66.76%)
PCR Duplicates: 1,531,158 (1.77%)
Optical Duplicates: 15,444 (0.02%)
Library Complexity Estimate: 1,130,533,781
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 8,694,405 (10.04% / 15.04%)
Hi-C Contacts: 49,128,483 (56.72% / 84.96%)
 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: 29,850,528  (34.46% / 51.62%)
Intra-chromosomal: 19,277,955  (22.26% / 33.34%)
Short Range (<20Kb): 14,346,860  (16.56% / 24.81%)
Long Range (>20Kb): 4,929,408  (5.69% / 8.53%)