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-L2871-LB_Hi-C -d /oak/stanford/groups/akundaje/marinovg/ENCODE4/DNAzoo/2023-09-26-Novogene-NovaSeq/juicer-L2871-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:  34,299,529
 Normal Paired: 15,442,903 (45.02%)
 Chimeric Paired: 17,636,320 (51.42%)
 Chimeric Ambiguous: 1,096,097 (3.20%)
 Unmapped: 124,209 (0.36%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 33,079,223 (96.44%)
WARN [2023-09-27T23:09:28,687]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 19,511,939 (56.89%)
PCR Duplicates: 12,653,747 (36.89%)
Optical Duplicates: 913,537 (2.66%)
Library Complexity Estimate: 29,255,049
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 208,160 (0.61% / 1.07%)
Hi-C Contacts: 19,303,779 (56.28% / 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: 305,566  (0.89% / 1.57%)
Intra-chromosomal: 18,998,213  (55.39% / 97.37%)
Short Range (<20Kb): 5,151,227  (15.02% / 26.40%)
Long Range (>20Kb): 13,844,003  (40.36% / 70.95%)