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/B/K13 -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:  3,395,226
 Normal Paired: 1,640,519 (48.32%)
 Chimeric Paired: 1,320,571 (38.89%)
 Chimeric Ambiguous: 394,692 (11.62%)
 Unmapped: 39,444 (1.16%)
 Ligation Motif Present: 2,412,479 (71.06%)
Alignable (Normal+Chimeric Paired): 2,961,090 (87.21%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2025-03-06T17:03:22,265]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 861,741 (25.38%)
PCR Duplicates: 0 (0.00%)
Optical Duplicates: 2,099,349 (61.83%)
Library Complexity Estimate: 0
Intra-fragment Reads: 45,849 (1.35% / 5.32%)
Below MAPQ Threshold: 181,847 (5.36% / 21.10%)
Hi-C Contacts: 679,894 (20.02% / 78.90%)
 Ligation Motif Present: 426,769  (12.57% / 49.52%)
 3' Bias (Long Range): 67% - 33%
 Pair Type intra chrom %(L-I-O-R): 16% - 51% - 16% - 16%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 30%
 Cis/all (FF and RR orient): 79.0%
Inter-chromosomal: 99,663  (2.94% / 11.57%)
Intra-chromosomal: 580,231  (17.09% / 67.33%)
Short Range (<20,000bp): 308,831  (9.10% / 35.84%)
Long Range (>20,000bp): 271,400  (7.99% / 31.49%)