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_46 -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: 57,373,986 Normal Paired: 41,396,053 (72.15%) Chimeric Paired: 13,004,812 (22.67%) Chimeric Ambiguous: 2,526,278 (4.40%) Unmapped: 446,843 (0.78%) Ligation Motif Present: 0 (0.00%) Alignable (Normal+Chimeric Paired): 54,400,865 (94.82%) WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance. WARN [2024-11-21T23:08:27,340] [Globals.java:138] [main] Development mode is enabled Unique Reads: 34,278,107 (59.75%) PCR Duplicates: 19,935,088 (34.75%) Optical Duplicates: 187,670 (0.33%) Library Complexity Estimate: 54,246,632 Intra-fragment Reads: 0 (0.00% / 0.00%) Below MAPQ Threshold: 3,618,448 (6.31% / 10.56%) Hi-C Contacts: 30,659,659 (53.44% / 89.44%) 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: 65% Cis/all (FF and RR orient): 68.1% Inter-chromosomal: 3,455,628 (6.02% / 10.08%) Intra-chromosomal: 27,204,031 (47.42% / 79.36%) Short Range (<20,000bp): 23,588,261 (41.11% / 68.81%) Long Range (>20,000bp): 3,615,770 (6.30% / 10.55%)