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/gDNAandEXTR/ -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:  221,892
 Normal Paired: 115,935 (52.25%)
 Chimeric Paired: 42,519 (19.16%)
 Chimeric Ambiguous: 7,203 (3.25%)
 Unmapped: 56,235 (25.34%)
 Ligation Motif Present: 4,567 (2.06%)
Alignable (Normal+Chimeric Paired): 158,454 (71.41%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2024-08-02T14:11:10,905]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 151,801 (68.41%)
PCR Duplicates: 17 (0.01%)
Optical Duplicates: 6,636 (2.99%)
Library Complexity Estimate: 677,852,485
Intra-fragment Reads: 77,910 (35.11% / 51.32%)
Below MAPQ Threshold: 18,247 (8.22% / 12.02%)
Hi-C Contacts: 133,554 (60.19% / 87.98%)
 Ligation Motif Present: 1,407  (0.63% / 0.93%)
 3' Bias (Long Range): 48% - 52%
 Pair Type intra chrom %(L-I-O-R): 2% - 96% - 0% - 2%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 24% - 26%
 DE: 83%
 Cis/all (FF and RR orient): 41.2%
Inter-chromosomal: 13,492  (6.08% / 8.89%)
Intra-chromosomal: 120,062  (54.11% / 79.09%)
Short Range (<20,000bp): 119,186  (53.71% / 78.51%)
Long Range (>20,000bp): 876  (0.39% / 0.58%)