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-L2876-LB_Hi-C -d /oak/stanford/groups/akundaje/marinovg/ENCODE4/DNAzoo/2023-09-26-Novogene-NovaSeq/juicer-L2876-LB_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:  70,511,118
 Normal Paired: 25,759,710 (36.53%)
 Chimeric Paired: 40,732,941 (57.77%)
 Chimeric Ambiguous: 3,752,146 (5.32%)
 Unmapped: 266,321 (0.38%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 66,492,651 (94.30%)
WARN [2023-09-28T06:44:13,139]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 32,293,657 (45.80%)
PCR Duplicates: 32,015,401 (45.40%)
Optical Duplicates: 2,183,593 (3.10%)
Library Complexity Estimate: 40,649,275
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 387,500 (0.55% / 1.20%)
Hi-C Contacts: 31,906,157 (45.25% / 98.80%)
 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: 528,718  (0.75% / 1.64%)
Intra-chromosomal: 31,377,439  (44.50% / 97.16%)
Short Range (<20Kb): 6,510,801  (9.23% / 20.16%)
Long Range (>20Kb): 24,863,088  (35.26% / 76.99%)