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+L2870+L2873+L2874_HEPES -d /oak/stanford/groups/akundaje/marinovg/ENCODE4/DNAzoo/2023-09-26-Novogene-NovaSeq/juicer-L2869+L2870+L2873+L2874_HEPES -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:  205,873,661
 Normal Paired: 111,633,275 (54.22%)
 Chimeric Paired: 81,732,687 (39.70%)
 Chimeric Ambiguous: 11,852,224 (5.76%)
 Unmapped: 655,475 (0.32%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 193,365,962 (93.92%)
WARN [2023-09-29T08:35:16,727]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 93,178,175 (45.26%)
PCR Duplicates: 93,496,820 (45.41%)
Optical Duplicates: 6,690,967 (3.25%)
Library Complexity Estimate: 116,802,348
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 775,817 (0.38% / 0.83%)
Hi-C Contacts: 92,402,358 (44.88% / 99.17%)
 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: 816,935  (0.40% / 0.88%)
Intra-chromosomal: 91,585,423  (44.49% / 98.29%)
Short Range (<20Kb): 12,386,226  (6.02% / 13.29%)
Long Range (>20Kb): 79,194,058  (38.47% / 84.99%)