Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 10 threads; openjdk version "17.0.14" 2025-01-21; juicer.sh -g T2T -d /storage3/artem/MGNC_Feb2025/mCherry-aux-sR -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:  942,649
 Normal Paired: 325,647 (34.55%)
 Chimeric Paired: 329,952 (35.00%)
 Chimeric Ambiguous: 278,389 (29.53%)
 Unmapped: 8,661 (0.92%)
 Ligation Motif Present: 519,648 (55.13%)
Alignable (Normal+Chimeric Paired): 655,599 (69.55%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2025-02-19T02:46:35,994]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 646,332 (68.57%)
PCR Duplicates: 1,734 (0.18%)
Optical Duplicates: 7,533 (0.80%)
Library Complexity Estimate: 120,888,131
Intra-fragment Reads: 74,399 (7.89% / 11.51%)
Below MAPQ Threshold: 226,699 (24.05% / 35.07%)
Hi-C Contacts: 419,633 (44.52% / 64.93%)
 Ligation Motif Present: 211,661  (22.45% / 32.75%)
 3' Bias (Long Range): 64% - 36%
 Pair Type intra chrom %(L-I-O-R): 11% - 67% - 11% - 11%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 50%
 Cis/all (FF and RR orient): 78.7%
Inter-chromosomal: 44,306  (4.70% / 6.85%)
Intra-chromosomal: 375,327  (39.82% / 58.07%)
Short Range (<20,000bp): 254,858  (27.04% / 39.43%)
Long Range (>20,000bp): 120,469  (12.78% / 18.64%)