Experiment description: Juicer version 1.6; BWA 0.7.18-r1243-dirty; 10 threads; openjdk version "17.0.8-internal" 2023-07-18; /data/amivanov/Tools/juicer1.6_compact-main/scripts/juicer.sh -g T2T -d /data/amivanov/Projects/Embryos/2025-01-31_BGI/A/K11 -s DpnII -y /data/amivanov/Databases/T2T-CHM13v2.0/juicer.rs/T2T-CHM13v2.0_DpnII.txt -p /data/amivanov/Databases/T2T-CHM13v2.0/hgT2T.chromsizes -z /data/amivanov/Databases/T2T-CHM13v2.0/hgT2T.fa -D /data/amivanov/Tools/juicer1.6_compact-main -t 10                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
Sequenced Read Pairs:  9,367,596
 Normal Paired: 5,657,903 (60.40%)
 Chimeric Paired: 2,778,121 (29.66%)
 Chimeric Ambiguous: 707,737 (7.56%)
 Unmapped: 223,835 (2.39%)
 Ligation Motif Present: 2,325,573 (24.83%)
Alignable (Normal+Chimeric Paired): 8,436,024 (90.06%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2025-03-05T11:25:28,764]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 2,100,392 (22.42%)
PCR Duplicates: 0 (0.00%)
Optical Duplicates: 6,335,632 (67.63%)
Library Complexity Estimate: 0
Intra-fragment Reads: 407,964 (4.36% / 19.42%)
Below MAPQ Threshold: 554,241 (5.92% / 26.39%)
Hi-C Contacts: 1,546,151 (16.51% / 73.61%)
 Ligation Motif Present: 298,208  (3.18% / 14.20%)
 3' Bias (Long Range): 55% - 45%
 Pair Type intra chrom %(L-I-O-R): 9% - 74% - 9% - 9%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 54%
 Cis/all (FF and RR orient): 63.0%
Inter-chromosomal: 263,627  (2.81% / 12.55%)
Intra-chromosomal: 1,282,524  (13.69% / 61.06%)
Short Range (<20,000bp): 896,502  (9.57% / 42.68%)
Long Range (>20,000bp): 386,022  (4.12% / 18.38%)