Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 10 threads; openjdk version "17.0.8.1" 2023-08-24; /storage2/dreamworld/Tools/juicer1.6_compact/scripts/juicer.sh -g hg19 -d /storage3/nyt/Projects/Juicer-Out/2023-08-HiC-data_Sciara/SC5 -s DpnII -y /storage/nyt/Data/Genomes/Sciara/juicer.rs/sciara_merged_Prim_on_Gerbi_soft_WG.rawchrom.assembly_DpnII.txt -p /storage/nyt/Data/Genomes/Sciara/sciara_merged_Prim_on_Gerbi_soft_WG.rawchrom.assembly.chromsizes -z /storage/nyt/Data/Genomes/Sciara/sciara_merged_Prim_on_Gerbi_soft_WG.rawchrom.assembly.fasta -D /storage2/dreamworld/Tools/juicer1.6_compact -t 10                                                                                                                                                                                                                                                                                                                                                                                              
Sequenced Read Pairs:  533,660,953
 Normal Paired: 60,670,333 (11.37%)
 Chimeric Paired: 28,509,746 (5.34%)
 Chimeric Ambiguous: 16,386,674 (3.07%)
 Unmapped: 428,094,200 (80.22%)
 Ligation Motif Present: 71,934,145 (13.48%)
Alignable (Normal+Chimeric Paired): 89,180,079 (16.71%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2023-09-09T18:21:03,679]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 82,622,688 (15.48%)
PCR Duplicates: 6,268,749 (1.17%)
Optical Duplicates: 288,642 (0.05%)
Library Complexity Estimate: 600,251,882
Intra-fragment Reads: 3,393,490 (0.64% / 4.11%)
Below MAPQ Threshold: 29,697,674 (5.56% / 35.94%)
Hi-C Contacts: 49,531,524 (9.28% / 59.95%)
 Ligation Motif Present: 29,200,318  (5.47% / 35.34%)
 3' Bias (Long Range): 58% - 42%
 Pair Type intra chrom %(L-I-O-R): 19% - 43% - 19% - 19%
 Pair Type inter chrom %(L-I-O-R): 24% - 25% - 25% - 26%
 DE: 19%
 Cis/all (FF and RR orient): 77.4%
Inter-chromosomal: 9,003,686  (1.69% / 10.90%)
Intra-chromosomal: 40,527,838  (7.59% / 49.05%)
Short Range (<20,000bp): 16,255,942  (3.05% / 19.67%)
Long Range (>20,000bp): 24,271,896  (4.55% / 29.38%)