Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 20 threads; java version "1.8.0_131"; scripts/juicer.sh -t 20 -D /oak/stanford/groups/akundaje/marinovg/ENCODE4/DNAzoo/2023-09-26-Novogene-NovaSeq/juicer-L2870-HEPES_Hi-C -d /oak/stanford/groups/akundaje/marinovg/ENCODE4/DNAzoo/2023-09-26-Novogene-NovaSeq/juicer-L2870-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/bwa-indexes/scaffolds.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/scaffolds.fa                                                                                                                                                                                                                                                          
Sequenced Read Pairs:  54,690,701
 Normal Paired: 34,372,861 (62.85%)
 Chimeric Paired: 18,289,543 (33.44%)
 Chimeric Ambiguous: 1,838,971 (3.36%)
 Unmapped: 189,326 (0.35%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 52,662,404 (96.29%)
WARN [2023-09-28T01:04:23,613]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 22,089,374 (40.39%)
PCR Duplicates: 28,798,529 (52.66%)
Optical Duplicates: 1,774,501 (3.24%)
Library Complexity Estimate: 25,593,996
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 244,813 (0.45% / 1.11%)
Hi-C Contacts: 21,844,561 (39.94% / 98.89%)
 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: 239,194  (0.44% / 1.08%)
Intra-chromosomal: 21,605,367  (39.50% / 97.81%)
Short Range (<20Kb): 5,601,091  (10.24% / 25.36%)
Long Range (>20Kb): 16,003,048  (29.26% / 72.45%)