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/LuC_100 -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: 80,966,722 Normal Paired: 61,844,961 (76.38%) Chimeric Paired: 16,772,734 (20.72%) Chimeric Ambiguous: 2,005,301 (2.48%) Unmapped: 343,726 (0.42%) Ligation Motif Present: 0 (0.00%) Alignable (Normal+Chimeric Paired): 78,617,695 (97.10%) WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance. WARN [2024-11-28T18:16:12,181] [Globals.java:138] [main] Development mode is enabled Unique Reads: 33,027,424 (40.79%) PCR Duplicates: 45,410,904 (56.09%) Optical Duplicates: 179,367 (0.22%) Library Complexity Estimate: 37,756,107 Intra-fragment Reads: 0 (0.00% / 0.00%) Below MAPQ Threshold: 3,752,103 (4.63% / 11.36%) Hi-C Contacts: 29,275,321 (36.16% / 88.64%) Ligation Motif Present: 0 (0.00% / 0.00%) 3' Bias (Long Range): 0% - 0% Pair Type intra chrom %(L-I-O-R): 7% - 80% - 7% - 7% Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25% DE: 67% Cis/all (FF and RR orient): 75.0% Inter-chromosomal: 2,399,676 (2.96% / 7.27%) Intra-chromosomal: 26,875,645 (33.19% / 81.37%) Short Range (<20,000bp): 22,992,179 (28.40% / 69.62%) Long Range (>20,000bp): 3,883,466 (4.80% / 11.76%)