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/202410241401workdec/Juicer-Out/2024-08-28_Rogachev/G1228 -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: 46,784,145 Normal Paired: 23,173,260 (49.53%) Chimeric Paired: 16,938,650 (36.21%) Chimeric Ambiguous: 6,443,391 (13.77%) Unmapped: 228,844 (0.49%) Ligation Motif Present: 0 (0.00%) Alignable (Normal+Chimeric Paired): 40,111,910 (85.74%) WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance. WARN [2024-09-10T02:28:13,784] [Globals.java:138] [main] Development mode is enabled Unique Reads: 37,374,875 (79.89%) PCR Duplicates: 2,737,035 (5.85%) Optical Duplicates: 0 (0.00%) Library Complexity Estimate: 280,396,378 Intra-fragment Reads: 0 (0.00% / 0.00%) Below MAPQ Threshold: 3,706,711 (7.92% / 9.92%) Hi-C Contacts: 33,668,164 (71.96% / 90.08%) Ligation Motif Present: 0 (0.00% / 0.00%) 3' Bias (Long Range): 0% - 0% Pair Type intra chrom %(L-I-O-R): 8% - 76% - 8% - 8% Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25% DE: 58% Cis/all (FF and RR orient): 66.6% Inter-chromosomal: 4,755,229 (10.16% / 12.72%) Intra-chromosomal: 28,912,935 (61.80% / 77.36%) Short Range (<20,000bp): 23,519,755 (50.27% / 62.93%) Long Range (>20,000bp): 5,393,180 (11.53% / 14.43%)