Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 20 threads; openjdk version "1.8.0_152-release"; /home/aapopov/tool/juicer1.6_compact-main/scripts/juicer.sh -g hg38 -d /data/aapopov/Projects/HumanDros/03_03_BGI_data/hsRad_aux_2/ -s none -p /data/aapopov/Projects/HumanDros/CTCF_Aux_data_for_juicer/genome/Homo_sapiens.GRCh38.dna.primary_assembly.chrom.sizes -z /data/aapopov/Projects/HumanDros/CTCF_Aux_data_for_juicer/genome/Homo_sapiens.GRCh38.dna.primary_assembly.fa -D /home/aapopov/tool/juicer1.6_compact-main -t 20 Sequenced Read Pairs: 26,592,156 Normal Paired: 13,450,261 (50.58%) Chimeric Paired: 10,762,197 (40.47%) Chimeric Ambiguous: 2,302,055 (8.66%) Unmapped: 77,643 (0.29%) Ligation Motif Present: 0 (0.00%) Alignable (Normal+Chimeric Paired): 24,212,458 (91.05%) WARN [2025-03-04T04:35:20,137] [Globals.java:138] [main] Development mode is enabled Unique Reads: 23,461,745 (88.23%) PCR Duplicates: 0 (0.00%) Optical Duplicates: 750,713 (2.82%) Library Complexity Estimate: 0 Intra-fragment Reads: 0 (0.00% / 0.00%) Below MAPQ Threshold: 2,256,687 (8.49% / 9.62%) Hi-C Contacts: 21,205,058 (79.74% / 90.38%) Ligation Motif Present: 0 (0.00% / 0.00%) 3' Bias (Long Range): 0% - 0% Pair Type intra chrom %(L-I-O-R): 10% - 69% - 10% - 10% Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25% DE: 54% Cis/all (FF and RR orient): 86.3% Inter-chromosomal: 1,323,122 (4.98% / 5.64%) Intra-chromosomal: 19,881,936 (74.77% / 84.74%) Short Range (<20,000bp): 13,295,774 (50.00% / 56.67%) Long Range (>20,000bp): 6,586,162 (24.77% / 28.07%)