Experiment description: Juicer version 1.5.6; BWA 0.7.5a-r405; 20 threads; java version "1.8.0_131"; scripts/juicer.sh -t 20 -D /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2020-10-17-Novogene-NovaSeq/juicer-L1621-Pavlovia_cf._CCMP459-Hi-C -y none -s none -p /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-gDNA/L1802-Pavlovia_cf._CCMP459_gDNA/SPAdes-3.15-L1802-Pavlovia_cf._CCMP459_gDNA/scaffolds.chrom.sizes -y none -s none -z /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-gDNA/L1802-Pavlovia_cf._CCMP459_gDNA/SPAdes-3.15-L1802-Pavlovia_cf._CCMP459_gDNA/bwa-indexes/scaffolds.fa                                                                                                                                                                                                                                                                                                                                                                                                           
Sequenced Read Pairs:  222,286,006
 Normal Paired: 96,354,692 (43.35%)
 Chimeric Paired: 83,427,233 (37.53%)
 Chimeric Ambiguous: 41,088,052 (18.48%)
 Unmapped: 1,416,029 (0.64%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 179,781,925 (80.88%)
Unique Reads: 119,128,901 (53.59%)
PCR Duplicates: 59,673,739 (26.85%)
Optical Duplicates: 979,285 (0.44%)
Library Complexity Estimate: 204,195,122
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 10,193,455 (4.59% / 8.56%)
Hi-C Contacts: 108,935,446 (49.01% / 91.44%)
 Ligation Motif Present: 0  (0.00% / 0.00%)
 3' Bias (Long Range): 0% - 0%
 Pair Type %(L-I-O-R): 25% - 25% - 24% - 25%
Inter-chromosomal: 70,878,417  (31.89% / 59.50%)
Intra-chromosomal: 38,057,029  (17.12% / 31.95%)
Short Range (<20Kb): 37,844,533  (17.03% / 31.77%)
Long Range (>20Kb): 208,690  (0.09% / 0.18%)