Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 10 threads; openjdk version "17.0.13" 2024-10-15; juicer.sh -g T2T -d /storage3/artem/MGNC_Dec24/hsRAD-aux-R2 -s DpnII -p /storage3/artem/Genomes/T2T-CHM13v2.0/hgT2T.chromsizes -y /storage3/artem/Genomes/T2T-CHM13v2.0/juicer.rs/T2T-CHM13v2.0_DpnII.txt -z /storage3/artem/Genomes/T2T-CHM13v2.0/hgT2T.fa -t 10 -D /storage2/dreamworld/Tools/juicer1.6_compact/                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
Sequenced Read Pairs:  101,812
 Normal Paired: 54,971 (53.99%)
 Chimeric Paired: 36,804 (36.15%)
 Chimeric Ambiguous: 8,628 (8.47%)
 Unmapped: 1,409 (1.38%)
 Ligation Motif Present: 84,360 (82.86%)
Alignable (Normal+Chimeric Paired): 91,775 (90.14%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2024-12-22T23:57:40,295]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 89,902 (88.30%)
PCR Duplicates: 435 (0.43%)
Optical Duplicates: 1,438 (1.41%)
Library Complexity Estimate: 9,350,062
Intra-fragment Reads: 5,168 (5.08% / 5.75%)
Below MAPQ Threshold: 15,455 (15.18% / 17.19%)
Hi-C Contacts: 74,447 (73.12% / 82.81%)
 Ligation Motif Present: 60,565  (59.49% / 67.37%)
 3' Bias (Long Range): 82% - 18%
 Pair Type intra chrom %(L-I-O-R): 9% - 74% - 9% - 9%
 Pair Type inter chrom %(L-I-O-R): 25% - 26% - 25% - 25%
 DE: 62%
 Cis/all (FF and RR orient): 87.7%
Inter-chromosomal: 3,485  (3.42% / 3.88%)
Intra-chromosomal: 70,962  (69.70% / 78.93%)
Short Range (<20,000bp): 51,270  (50.36% / 57.03%)
Long Range (>20,000bp): 19,692  (19.34% / 21.90%)