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/CapF3-CapF4                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
Sequenced Read Pairs:  15,724,928
 Normal Paired: 8,317,958 (52.90%)
 Chimeric Paired: 6,049,410 (38.47%)
 Chimeric Ambiguous: 1,101,440 (7.00%)
 Unmapped: 256,120 (1.63%)
 Ligation Motif Present: 12,669,038 (80.57%)
Alignable (Normal+Chimeric Paired): 14,367,368 (91.37%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2022-03-18T20:39:52,590]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 12,702,978 (80.78%)
PCR Duplicates: 0 (0.00%)
Optical Duplicates: 1,664,390 (10.58%)
Library Complexity Estimate: 0
Intra-fragment Reads: 2,189,553 (13.92% / 17.24%)
Below MAPQ Threshold: 1,068,143 (6.79% / 8.41%)
Hi-C Contacts: 9,445,282 (60.07% / 74.35%)
 Ligation Motif Present: 7,814,760  (49.70% / 61.52%)
 3' Bias (Long Range): 66% - 34%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 3,249,502  (20.66% / 25.58%)
Intra-chromosomal: 6,195,780  (39.40% / 48.77%)
Short Range (<20Kb): 2,895,046  (18.41% / 22.79%)
Long Range (>20Kb): 3,300,716  (20.99% / 25.98%)