Experiment description: Juicer version 1.6; BWA 0.7.18-r1243-dirty; 48 threads; openjdk version "17.0.8-internal" 2023-07-18; /home/torgunakov/Tools/juicer1.6_compact/scripts/juicer.sh -g T2T -d /beegfs/scratch/ws/ws1/torgunakov-workoct/Juicer-Out/2024-11-13_ENC/Embryo/P184 -s none -p /beegfs/scratch/ws/ws1/torgunakov-workoct/Databases/T2T-CHM13v2.0/hgT2T.chromsizes -z /beegfs/scratch/ws/ws1/torgunakov-workoct/Databases/T2T-CHM13v2.0/hgT2T.fa -D /home/torgunakov/Tools/juicer1.6_compact -t 48 Sequenced Read Pairs: 19,088,601 Normal Paired: 12,840,865 (67.27%) Chimeric Paired: 4,658,007 (24.40%) Chimeric Ambiguous: 1,342,942 (7.04%) Unmapped: 246,787 (1.29%) Ligation Motif Present: 0 (0.00%) Alignable (Normal+Chimeric Paired): 17,498,872 (91.67%) WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance. WARN [2024-11-21T15:18:30,664] [Globals.java:138] [main] Development mode is enabled Unique Reads: 16,300,917 (85.40%) PCR Duplicates: 1,129,108 (5.92%) Optical Duplicates: 68,847 (0.36%) Library Complexity Estimate: 128,658,528 Intra-fragment Reads: 0 (0.00% / 0.00%) Below MAPQ Threshold: 2,461,009 (12.89% / 15.10%) Hi-C Contacts: 13,839,908 (72.50% / 84.90%) Ligation Motif Present: 0 (0.00% / 0.00%) 3' Bias (Long Range): 0% - 0% Pair Type intra chrom %(L-I-O-R): 9% - 72% - 9% - 9% Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25% DE: 49% Cis/all (FF and RR orient): 55.3% Inter-chromosomal: 3,171,627 (16.62% / 19.46%) Intra-chromosomal: 10,668,281 (55.89% / 65.45%) Short Range (<20,000bp): 7,803,632 (40.88% / 47.87%) Long Range (>20,000bp): 2,864,649 (15.01% / 17.57%)