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/ENCODE4/DNAzoo/2023-09-26-Novogene-NovaSeq/juicer-reoriented-rerun-L2869-HEPES_Hi-C -d /oak/stanford/groups/akundaje/marinovg/ENCODE4/DNAzoo/2023-09-26-Novogene-NovaSeq/juicer-reoriented-rerun-L2869-HEPES_Hi-C -p /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-gDNA/L2786-bdellovibrio_bacteriovorus-ICPB_3264_gDNA_cloudy/SPAdes-3.15.4-2023-04-19-B_b_gDNA_check.pass-V2/scaffolds_reoriented.chrom.sizes -y none -s none -z /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-gDNA/L2786-bdellovibrio_bacteriovorus-ICPB_3264_gDNA_cloudy/SPAdes-3.15.4-2023-04-19-B_b_gDNA_check.pass-V2/bwa-indexes-reoriented/scaffolds_reoriented.fa                                                                                                                                                                                                  
Sequenced Read Pairs:  38,233,031
 Normal Paired: 24,979,297 (65.33%)
 Chimeric Paired: 6,699,014 (17.52%)
 Chimeric Ambiguous: 3,772,713 (9.87%)
 Unmapped: 2,782,007 (7.28%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 31,678,311 (82.86%)
Unique Reads: 15,360,097 (40.17%)
PCR Duplicates: 14,997,524 (39.23%)
Optical Duplicates: 1,320,690 (3.45%)
Library Complexity Estimate: 19,436,945
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 52,278 (0.14% / 0.34%)
Hi-C Contacts: 15,307,819 (40.04% / 99.66%)
 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: 0  (0.00% / 0.00%)
Intra-chromosomal: 15,307,819  (40.04% / 99.66%)
Short Range (<20Kb): 4,704,068  (12.30% / 30.63%)
Long Range (>20Kb): 10,603,062  (27.73% / 69.03%)