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-L2869-HEPES_Hi-C -d /oak/stanford/groups/akundaje/marinovg/ENCODE4/DNAzoo/2023-09-26-Novogene-NovaSeq/juicer-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/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:  38,233,031
 Normal Paired: 24,926,311 (65.20%)
 Chimeric Paired: 11,650,392 (30.47%)
 Chimeric Ambiguous: 1,536,342 (4.02%)
 Unmapped: 119,986 (0.31%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 36,576,703 (95.67%)
WARN [2023-09-27T22:44:10,332]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 17,642,771 (46.15%)
PCR Duplicates: 17,628,148 (46.11%)
Optical Duplicates: 1,305,784 (3.42%)
Library Complexity Estimate: 22,147,982
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 187,930 (0.49% / 1.07%)
Hi-C Contacts: 17,454,841 (45.65% / 98.93%)
 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: 172,129  (0.45% / 0.98%)
Intra-chromosomal: 17,282,712  (45.20% / 97.96%)
Short Range (<20Kb): 4,659,383  (12.19% / 26.41%)
Long Range (>20Kb): 12,622,331  (33.01% / 71.54%)