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-L2873-HEPES_Hi-C -d /oak/stanford/groups/akundaje/marinovg/ENCODE4/DNAzoo/2023-09-26-Novogene-NovaSeq/juicer-L2873-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:  47,694,626
 Normal Paired: 22,833,831 (47.88%)
 Chimeric Paired: 21,280,373 (44.62%)
 Chimeric Ambiguous: 3,421,907 (7.17%)
 Unmapped: 158,515 (0.33%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 44,114,204 (92.49%)
WARN [2023-09-27T23:28:35,505]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 26,426,829 (55.41%)
PCR Duplicates: 16,026,395 (33.60%)
Optical Duplicates: 1,660,980 (3.48%)
Library Complexity Estimate: 40,944,649
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 276,011 (0.58% / 1.04%)
Hi-C Contacts: 26,150,818 (54.83% / 98.96%)
 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: 234,223  (0.49% / 0.89%)
Intra-chromosomal: 25,916,595  (54.34% / 98.07%)
Short Range (<20Kb): 4,538,218  (9.52% / 17.17%)
Long Range (>20Kb): 21,376,752  (44.82% / 80.89%)