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-L2872-LB_Hi-C -d /oak/stanford/groups/akundaje/marinovg/ENCODE4/DNAzoo/2023-09-26-Novogene-NovaSeq/juicer-L2872-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:  38,876,443
 Normal Paired: 17,396,497 (44.75%)
 Chimeric Paired: 19,840,851 (51.04%)
 Chimeric Ambiguous: 1,529,417 (3.93%)
 Unmapped: 109,678 (0.28%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 37,237,348 (95.78%)
WARN [2023-09-27T22:44:33,859]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 24,438,438 (62.86%)
PCR Duplicates: 11,541,518 (29.69%)
Optical Duplicates: 1,257,392 (3.23%)
Library Complexity Estimate: 43,307,520
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 318,827 (0.82% / 1.30%)
Hi-C Contacts: 24,119,611 (62.04% / 98.70%)
 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: 405,027  (1.04% / 1.66%)
Intra-chromosomal: 23,714,584  (61.00% / 97.04%)
Short Range (<20Kb): 5,396,292  (13.88% / 22.08%)
Long Range (>20Kb): 18,313,910  (47.11% / 74.94%)