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_5 -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:  27,175,880
 Normal Paired: 21,337,537 (78.52%)
 Chimeric Paired: 4,686,760 (17.25%)
 Chimeric Ambiguous: 757,826 (2.79%)
 Unmapped: 393,757 (1.45%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 26,024,297 (95.76%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2024-11-22T04:23:59,144]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 10,558,997 (38.85%)
PCR Duplicates: 15,401,384 (56.67%)
Optical Duplicates: 63,916 (0.24%)
Library Complexity Estimate: 11,903,300
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 1,986,142 (7.31% / 18.81%)
Hi-C Contacts: 8,572,855 (31.55% / 81.19%)
 Ligation Motif Present: 0  (0.00% / 0.00%)
 3' Bias (Long Range): 0% - 0%
 Pair Type intra chrom %(L-I-O-R): 4% - 89% - 4% - 4%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 80%
 Cis/all (FF and RR orient): 69.9%
Inter-chromosomal: 509,097  (1.87% / 4.82%)
Intra-chromosomal: 8,063,758  (29.67% / 76.37%)
Short Range (<20,000bp): 7,465,491  (27.47% / 70.70%)
Long Range (>20,000bp): 598,267  (2.20% / 5.67%)