Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 10 threads; openjdk version "11.0.18" 2023-01-17; /storage2/dreamworld/Tools/juicer1.6_compact/scripts/juicer.sh -g mm10 -d /storage2/nyt/Projects/Juicer-Out/2023-02-28-BGI-dMcph_PICO_TomilinStarkovaRNA-seqHi-C/B2-15r1 -s DpnII -y /storage2/dreamworld/Databases/mm10_canonical/juicer.rs/mm10_canonical.rs.DpnII.txt -p /storage2/dreamworld/Databases/mm10_canonical/mm10_canonical.chrom.sizes -z /storage2/dreamworld/Databases/mm10_canonical/mm10_canonical.fa -D /storage2/dreamworld/Tools/juicer1.6_compact -t 10                                                                                                                                                                                                                                                                                                                                                                                                                                           
Sequenced Read Pairs:  104,171,171
 Normal Paired: 53,364,920 (51.23%)
 Chimeric Paired: 39,315,440 (37.74%)
 Chimeric Ambiguous: 10,741,991 (10.31%)
 Unmapped: 748,820 (0.72%)
 Ligation Motif Present: 92,595,680 (88.89%)
Alignable (Normal+Chimeric Paired): 92,680,360 (88.97%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2023-03-01T18:55:55,333]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 87,964,432 (84.44%)
PCR Duplicates: 0 (0.00%)
Optical Duplicates: 4,715,928 (4.53%)
Library Complexity Estimate: 0
Intra-fragment Reads: 14,579,865 (14.00% / 16.57%)
Below MAPQ Threshold: 10,013,229 (9.61% / 11.38%)
Hi-C Contacts: 63,371,338 (60.83% / 72.04%)
 Ligation Motif Present: 56,263,344  (54.01% / 63.96%)
 3' Bias (Long Range): 71% - 29%
 Pair Type intra chrom %(L-I-O-R): 14% - 58% - 14% - 14%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 28%
 Cis/all (FF and RR orient): 48.3%
Inter-chromosomal: 23,651,496  (22.70% / 26.89%)
Intra-chromosomal: 39,719,842  (38.13% / 45.15%)
Short Range (<20,000bp): 19,340,992  (18.57% / 21.99%)
Long Range (>20,000bp): 20,378,850  (19.56% / 23.17%)