Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 10 threads; openjdk version "17.0.12" 2024-07-16; juicer.sh -g T2T -d /storage3/artem/NuclearExtracts/Aug24/gDNA/ -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:  319,779
 Normal Paired: 221,425 (69.24%)
 Chimeric Paired: 85,317 (26.68%)
 Chimeric Ambiguous: 11,248 (3.52%)
 Unmapped: 1,789 (0.56%)
 Ligation Motif Present: 3,118 (0.98%)
Alignable (Normal+Chimeric Paired): 306,742 (95.92%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2024-08-02T14:09:23,525]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 296,034 (92.57%)
PCR Duplicates: 63 (0.02%)
Optical Duplicates: 10,645 (3.33%)
Library Complexity Estimate: 695,722,197
Intra-fragment Reads: 179,014 (55.98% / 60.47%)
Below MAPQ Threshold: 32,145 (10.05% / 10.86%)
Hi-C Contacts: 263,889 (82.52% / 89.14%)
 Ligation Motif Present: 1,569  (0.49% / 0.53%)
 3' Bias (Long Range): 43% - 57%
 Pair Type intra chrom %(L-I-O-R): 2% - 95% - 1% - 2%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 83%
 Cis/all (FF and RR orient): 45.0%
Inter-chromosomal: 23,988  (7.50% / 8.10%)
Intra-chromosomal: 239,901  (75.02% / 81.04%)
Short Range (<20,000bp): 238,340  (74.53% / 80.51%)
Long Range (>20,000bp): 1,561  (0.49% / 0.53%)