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/ALK_16 -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:  61,854,659
 Normal Paired: 43,327,764 (70.05%)
 Chimeric Paired: 15,810,377 (25.56%)
 Chimeric Ambiguous: 2,328,600 (3.76%)
 Unmapped: 387,918 (0.63%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 59,138,141 (95.61%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2024-11-22T17:12:28,065]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 32,480,810 (52.51%)
PCR Duplicates: 26,483,946 (42.82%)
Optical Duplicates: 173,385 (0.28%)
Library Complexity Estimate: 44,001,998
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 3,874,672 (6.26% / 11.93%)
Hi-C Contacts: 28,606,138 (46.25% / 88.07%)
 Ligation Motif Present: 0  (0.00% / 0.00%)
 3' Bias (Long Range): 0% - 0%
 Pair Type intra chrom %(L-I-O-R): 8% - 78% - 7% - 8%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 63%
 Cis/all (FF and RR orient): 75.1%
Inter-chromosomal: 2,601,609  (4.21% / 8.01%)
Intra-chromosomal: 26,004,529  (42.04% / 80.06%)
Short Range (<20,000bp): 22,057,070  (35.66% / 67.91%)
Long Range (>20,000bp): 3,947,459  (6.38% / 12.15%)