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/CapF1-CapF2                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
Sequenced Read Pairs:  15,177,955
 Normal Paired: 6,933,012 (45.68%)
 Chimeric Paired: 6,733,542 (44.36%)
 Chimeric Ambiguous: 1,247,456 (8.22%)
 Unmapped: 263,945 (1.74%)
 Ligation Motif Present: 11,164,486 (73.56%)
Alignable (Normal+Chimeric Paired): 13,666,554 (90.04%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2022-03-18T19:00:35,498]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 12,480,400 (82.23%)
PCR Duplicates: 0 (0.00%)
Optical Duplicates: 1,186,154 (7.81%)
Library Complexity Estimate: 0
Intra-fragment Reads: 1,902,900 (12.54% / 15.25%)
Below MAPQ Threshold: 1,149,235 (7.57% / 9.21%)
Hi-C Contacts: 9,428,265 (62.12% / 75.54%)
 Ligation Motif Present: 7,312,300  (48.18% / 58.59%)
 3' Bias (Long Range): 67% - 33%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 3,923,868  (25.85% / 31.44%)
Intra-chromosomal: 5,504,397  (36.27% / 44.10%)
Short Range (<20Kb): 2,135,794  (14.07% / 17.11%)
Long Range (>20Kb): 3,368,600  (22.19% / 26.99%)