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/2020-05-24-assembly-redo/juicer-L856+L857 -y /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-Hi-C/L856+L857/GCA_001417965.1_Aiptasia_genome_1.1_genomic.FINAL/bwa-indexes/GCA_001417965.1_Aiptasia_genome_1.1_genomic.FINAL_MboI.txt -p /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-Hi-C/L856+L857/GCA_001417965.1_Aiptasia_genome_1.1_genomic.FINAL/GCA_001417965.1_Aiptasia_genome_1.1_genomic.FINAL.chrom.sizes -y none -s none -z /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-Hi-C/L856+L857/GCA_001417965.1_Aiptasia_genome_1.1_genomic.FINAL/bwa-indexes/GCA_001417965.1_Aiptasia_genome_1.1_genomic.FINAL.fa                                                                                                                                                                                                
Sequenced Read Pairs:  545,744,282
 Normal Paired: 342,356,331 (62.73%)
 Chimeric Paired: 0 (0.00%)
 Chimeric Ambiguous: 0 (0.00%)
 Unmapped: 203,387,951 (37.27%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 342,356,331 (62.73%)
Unique Reads: 229,238,381 (42.00%)
PCR Duplicates: 113,069,564 (20.72%)
Optical Duplicates: 48,386 (0.01%)
Library Complexity Estimate: 396,338,314
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 85,689,520 (15.70% / 37.38%)
Hi-C Contacts: 143,548,861 (26.30% / 62.62%)
 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: 12,955,310  (2.37% / 5.65%)
Intra-chromosomal: 130,593,551  (23.93% / 56.97%)
Short Range (<20Kb): 121,984,052  (22.35% / 53.21%)
Long Range (>20Kb): 8,550,856  (1.57% / 3.73%)