Experiment description: Juicer version 1.6; BWA 0.7.18-r1243-dirty; 14 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/2025-04-24-BGI/B/Ezh3_K -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 14                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
Sequenced Read Pairs:  5,332,506
 Normal Paired: 2,646,120 (49.62%)
 Chimeric Paired: 2,054,150 (38.52%)
 Chimeric Ambiguous: 440,527 (8.26%)
 Unmapped: 191,709 (3.60%)
 Ligation Motif Present: 3,670,422 (68.83%)
Alignable (Normal+Chimeric Paired): 4,700,270 (88.14%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2025-05-17T16:53:30,907]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 1,828,360 (34.29%)
PCR Duplicates: 2,871,910 (53.86%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 2,028,178
Intra-fragment Reads: 127,482 (2.39% / 6.97%)
Below MAPQ Threshold: 370,906 (6.96% / 20.29%)
Hi-C Contacts: 1,457,454 (27.33% / 79.71%)
 Ligation Motif Present: 941,285  (17.65% / 51.48%)
 3' Bias (Long Range): 65% - 35%
 Pair Type intra chrom %(L-I-O-R): 15% - 56% - 15% - 15%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 39%
 Cis/all (FF and RR orient): 90.6%
Inter-chromosomal: 82,997  (1.56% / 4.54%)
Intra-chromosomal: 1,374,457  (25.78% / 75.17%)
Short Range (<20,000bp): 873,862  (16.39% / 47.79%)
Long Range (>20,000bp): 500,595  (9.39% / 27.38%)