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/K8 -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:  7,986,104
 Normal Paired: 4,179,137 (52.33%)
 Chimeric Paired: 2,821,396 (35.33%)
 Chimeric Ambiguous: 844,507 (10.57%)
 Unmapped: 141,064 (1.77%)
 Ligation Motif Present: 5,249,119 (65.73%)
Alignable (Normal+Chimeric Paired): 7,000,533 (87.66%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2025-03-05T11:43:56,587]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 881,804 (11.04%)
PCR Duplicates: 0 (0.00%)
Optical Duplicates: 6,118,729 (76.62%)
Library Complexity Estimate: 0
Intra-fragment Reads: 65,808 (0.82% / 7.46%)
Below MAPQ Threshold: 339,496 (4.25% / 38.50%)
Hi-C Contacts: 542,308 (6.79% / 61.50%)
 Ligation Motif Present: 276,682  (3.46% / 31.38%)
 3' Bias (Long Range): 63% - 37%
 Pair Type intra chrom %(L-I-O-R): 14% - 57% - 14% - 14%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 36%
 Cis/all (FF and RR orient): 74.0%
Inter-chromosomal: 90,535  (1.13% / 10.27%)
Intra-chromosomal: 451,773  (5.66% / 51.23%)
Short Range (<20,000bp): 238,863  (2.99% / 27.09%)
Long Range (>20,000bp): 212,910  (2.67% / 24.14%)