Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 60 threads; java version "1.8.0_131"; scripts/juicer.sh -t 60 -D /oak/stanford/groups/akundaje/marinovg/ENCODE4/DNAzoo/2021-05-03-killifish-figures/juicer-L1523-Killifish-Hi-C-all_reads_final_assembly -d /oak/stanford/groups/akundaje/marinovg/ENCODE4/DNAzoo/2021-05-03-killifish-figures/juicer-L1523-Killifish-Hi-C-all_reads_final_assembly -p /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-Hi-C/L1523-Killifish-Hi-C/juicer-L1523-Killifish-Hi-C-additional_reads-against_scaffolding-3D_DNA/final-post-review/GCA_001465895.2_Nfu_20140520_genomic.FINAL.FINAL.chrom.sizes -y none -s none -z /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-Hi-C/L1523-Killifish-Hi-C/juicer-L1523-Killifish-Hi-C-additional_reads-against_scaffolding-3D_DNA/final-post-review/bwa-indexes/GCA_001465895.2_Nfu_20140520_genomic.FINAL.FINAL.fasta                                                                                                         
Sequenced Read Pairs:  814,717,494
 Normal Paired: 501,942,994 (61.61%)
 Chimeric Paired: 0 (0.00%)
 Chimeric Ambiguous: 0 (0.00%)
 Unmapped: 312,774,500 (38.39%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 501,942,994 (61.61%)
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 266,313,451 (32.69% / 70.47%)
Hi-C Contacts: 111,619,684 (13.70% / 29.53%)
 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: 32,408,148  (3.98% / 8.58%)
Intra-chromosomal: 79,211,536  (9.72% / 20.96%)
Short Range (<20Kb): 27,039,627  (3.32% / 7.15%)
Long Range (>20Kb): 52,167,967  (6.40% / 13.80%)