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-L1111-Cyanophora_paradoxa_Hi-C -y none -s none -p /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-gDNA/L1359-Cyanophora_paradoxa_gDNA/SPAdes-3.14-L1359-Cyanophora_paradoxa_gDNA/scaffolds.chrom.sizes -y none -s none -z /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-gDNA/L1359-Cyanophora_paradoxa_gDNA/SPAdes-3.14-L1359-Cyanophora_paradoxa_gDNA/bwa-indexes/scaffolds.fa                                                                                                                                                                                                                                                                                                                                                                                                               
Sequenced Read Pairs:  235,223,354
 Normal Paired: 138,733,807 (58.98%)
 Chimeric Paired: 0 (0.00%)
 Chimeric Ambiguous: 0 (0.00%)
 Unmapped: 96,489,547 (41.02%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 138,733,807 (58.98%)
Unique Reads: 118,195,492 (50.25%)
PCR Duplicates: 20,494,247 (8.71%)
Optical Duplicates: 44,068 (0.02%)
Library Complexity Estimate: 421,806,079
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 2,288,009 (0.97% / 1.94%)
Hi-C Contacts: 115,907,483 (49.28% / 98.06%)
 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: 59,473,440  (25.28% / 50.32%)
Intra-chromosomal: 56,434,043  (23.99% / 47.75%)
Short Range (<20Kb): 46,900,303  (19.94% / 39.68%)
Long Range (>20Kb): 9,495,315  (4.04% / 8.03%)