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/VLA2-VLA5-CapM1-CapM2                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
Sequenced Read Pairs:  70,719,137
 Normal Paired: 45,717,795 (64.65%)
 Chimeric Paired: 18,422,688 (26.05%)
 Chimeric Ambiguous: 4,035,678 (5.71%)
 Unmapped: 2,542,976 (3.60%)
 Ligation Motif Present: 16,602,765 (23.48%)
Alignable (Normal+Chimeric Paired): 64,140,483 (90.70%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2022-03-20T11:44:59,019]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 51,590,725 (72.95%)
PCR Duplicates: 5,660,807 (8.00%)
Optical Duplicates: 6,888,951 (9.74%)
Library Complexity Estimate: 270,095,443
Intra-fragment Reads: 16,690,126 (23.60% / 32.35%)
Below MAPQ Threshold: 4,931,187 (6.97% / 9.56%)
Hi-C Contacts: 29,969,412 (42.38% / 58.09%)
 Ligation Motif Present: 9,665,511  (13.67% / 18.73%)
 3' Bias (Long Range): 68% - 32%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 14,453,115  (20.44% / 28.01%)
Intra-chromosomal: 15,516,297  (21.94% / 30.08%)
Short Range (<20Kb): 5,140,064  (7.27% / 9.96%)
Long Range (>20Kb): 10,376,229  (14.67% / 20.11%)