Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 10 threads; openjdk version "11.0.14" 2022-01-18; /Data/Tools/juicer1.6_compact/scripts/juicer.sh -t 10 -D /Data/Tools/juicer1.6_compact/ -g mm10 -z /Data/Tools/exoclasma/databases/mm10_Canonic/mm10_Canonic.fasta -p /Data/Tools/exoclasma/databases/mm10_Canonic/mm10_Canonic.chromsizes.txt -s DpnII -y /Data/Tools/exoclasma/databases/mm10_Canonic/mm10_Canonic.restriction_sites.DpnII.txt -d /Data/NGS_Data/20210714_INC_COST_3DBenchmark/Benchmark_Kit30/VLA4-VLA6                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
Sequenced Read Pairs:  56,636,397
 Normal Paired: 31,319,731 (55.30%)
 Chimeric Paired: 17,310,226 (30.56%)
 Chimeric Ambiguous: 5,129,608 (9.06%)
 Unmapped: 2,876,832 (5.08%)
 Ligation Motif Present: 22,580,918 (39.87%)
Alignable (Normal+Chimeric Paired): 48,629,957 (85.86%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2022-03-20T17:34:20,458]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 43,215,768 (76.30%)
PCR Duplicates: 5,218,118 (9.21%)
Optical Duplicates: 196,071 (0.35%)
Library Complexity Estimate: 208,326,002
Intra-fragment Reads: 7,437,496 (13.13% / 17.21%)
Below MAPQ Threshold: 3,995,553 (7.05% / 9.25%)
Hi-C Contacts: 31,782,719 (56.12% / 73.54%)
 Ligation Motif Present: 13,903,339  (24.55% / 32.17%)
 3' Bias (Long Range): 66% - 34%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 14,726,523  (26.00% / 34.08%)
Intra-chromosomal: 17,056,196  (30.12% / 39.47%)
Short Range (<20Kb): 4,466,677  (7.89% / 10.34%)
Long Range (>20Kb): 12,589,516  (22.23% / 29.13%)