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/VLA7-VLA12                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
Sequenced Read Pairs:  60,360,303
 Normal Paired: 34,993,997 (57.98%)
 Chimeric Paired: 16,631,652 (27.55%)
 Chimeric Ambiguous: 5,591,821 (9.26%)
 Unmapped: 3,142,833 (5.21%)
 Ligation Motif Present: 23,906,795 (39.61%)
Alignable (Normal+Chimeric Paired): 51,625,649 (85.53%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2022-03-20T23:47:09,414]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 45,974,894 (76.17%)
PCR Duplicates: 5,463,263 (9.05%)
Optical Duplicates: 187,492 (0.31%)
Library Complexity Estimate: 224,684,273
Intra-fragment Reads: 9,173,965 (15.20% / 19.95%)
Below MAPQ Threshold: 4,328,645 (7.17% / 9.42%)
Hi-C Contacts: 32,472,284 (53.80% / 70.63%)
 Ligation Motif Present: 14,521,711  (24.06% / 31.59%)
 3' Bias (Long Range): 65% - 35%
 Pair Type %(L-I-O-R): 25% - 25% - 25% - 25%
Inter-chromosomal: 11,066,977  (18.33% / 24.07%)
Intra-chromosomal: 21,405,307  (35.46% / 46.56%)
Short Range (<20Kb): 4,964,441  (8.22% / 10.80%)
Long Range (>20Kb): 16,440,859  (27.24% / 35.76%)