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/Tok1_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:  2,661
 Normal Paired: 795 (29.88%)
 Chimeric Paired: 112 (4.21%)
 Chimeric Ambiguous: 24 (0.90%)
 Unmapped: 1,730 (65.01%)
 Ligation Motif Present: 211 (7.93%)
Alignable (Normal+Chimeric Paired): 907 (34.08%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2025-05-17T17:32:21,056]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 223 (8.38%)
PCR Duplicates: 684 (25.70%)
Optical Duplicates: 0 (0.00%)
Library Complexity Estimate: 227
Intra-fragment Reads: 33 (1.24% / 14.80%)
Below MAPQ Threshold: 40 (1.50% / 17.94%)
Hi-C Contacts: 183 (6.88% / 82.06%)
 Ligation Motif Present: 92  (3.46% / 41.26%)
 3' Bias (Long Range): 63% - 37%
 Pair Type intra chrom %(L-I-O-R): 10% - 74% - 8% - 8%
 Pair Type inter chrom %(L-I-O-R): 30% - 20% - 35% - 15%
 DE: 56%
 Cis/all (FF and RR orient): 76.9%
Inter-chromosomal: 20  (0.75% / 8.97%)
Intra-chromosomal: 163  (6.13% / 73.09%)
Short Range (<20,000bp): 124  (4.66% / 55.61%)
Long Range (>20,000bp): 39  (1.47% / 17.49%)