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: 103,248,813 (18.92% / 45.04%)
Hi-C Contacts: 125,989,568 (23.09% / 54.96%)
 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: 9,026,871  (1.65% / 3.94%)
Intra-chromosomal: 116,962,697  (21.43% / 51.02%)
Short Range (<20Kb): 109,847,499  (20.13% / 47.92%)
Long Range (>20Kb): 7,067,895  (1.30% / 3.08%)