Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 22 threads; openjdk version "17.0.8-internal" 2023-07-18; /mnt/storage/home/nytorgunakov/soft/juicer1.6_compact/scripts/juicer.sh -g hg38 -d /mnt/scratch/ws/nytorgunakov/202412201534workoct/Juicer-Out/2024-11-13_ENC/Oncobox/SgC_2 -s none -p /mnt/storage/home/nytorgunakov/Databases/hg38_canonical/GRCh38_no_alt_analysis_set_GCA_000001405.15.canonical.fasta.chromsizes -z /mnt/storage/home/nytorgunakov/Databases/hg38_canonical/GRCh38_no_alt_analysis_set_GCA_000001405.15.canonical.fasta -D /mnt/storage/home/nytorgunakov/soft/juicer1.6_compact -t 22 Sequenced Read Pairs: 80,000,039 Normal Paired: 58,976,126 (73.72%) Chimeric Paired: 18,309,491 (22.89%) Chimeric Ambiguous: 2,167,760 (2.71%) Unmapped: 546,662 (0.68%) Ligation Motif Present: 0 (0.00%) Alignable (Normal+Chimeric Paired): 77,285,617 (96.61%) WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance. WARN [2024-11-21T20:19:44,212] [Globals.java:138] [main] Development mode is enabled Unique Reads: 30,320,217 (37.90%) PCR Duplicates: 46,785,527 (58.48%) Optical Duplicates: 179,873 (0.22%) Library Complexity Estimate: 33,759,640 Intra-fragment Reads: 0 (0.00% / 0.00%) Below MAPQ Threshold: 3,877,754 (4.85% / 12.79%) Hi-C Contacts: 26,442,463 (33.05% / 87.21%) Ligation Motif Present: 0 (0.00% / 0.00%) 3' Bias (Long Range): 0% - 0% Pair Type intra chrom %(L-I-O-R): 7% - 79% - 7% - 7% Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25% DE: 68% Cis/all (FF and RR orient): 83.8% Inter-chromosomal: 1,388,500 (1.74% / 4.58%) Intra-chromosomal: 25,053,963 (31.32% / 82.63%) Short Range (<20,000bp): 20,982,063 (26.23% / 69.20%) Long Range (>20,000bp): 4,071,900 (5.09% / 13.43%)