Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 10 threads; openjdk version "17.0.13" 2024-10-15; juicer.sh -g T2T -d /storage3/artem/MGNC_Dec24/hsRAD-aux-R1 -s DpnII -p /storage3/artem/Genomes/T2T-CHM13v2.0/hgT2T.chromsizes -y /storage3/artem/Genomes/T2T-CHM13v2.0/juicer.rs/T2T-CHM13v2.0_DpnII.txt -z /storage3/artem/Genomes/T2T-CHM13v2.0/hgT2T.fa -t 10 -D /storage2/dreamworld/Tools/juicer1.6_compact/                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
Sequenced Read Pairs:  101,651
 Normal Paired: 60,171 (59.19%)
 Chimeric Paired: 33,517 (32.97%)
 Chimeric Ambiguous: 6,441 (6.34%)
 Unmapped: 1,522 (1.50%)
 Ligation Motif Present: 68,833 (67.72%)
Alignable (Normal+Chimeric Paired): 93,688 (92.17%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2024-12-22T23:56:44,708]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 91,327 (89.84%)
PCR Duplicates: 493 (0.48%)
Optical Duplicates: 1,868 (1.84%)
Library Complexity Estimate: 8,519,986
Intra-fragment Reads: 6,064 (5.97% / 6.64%)
Below MAPQ Threshold: 14,297 (14.06% / 15.65%)
Hi-C Contacts: 77,030 (75.78% / 84.35%)
 Ligation Motif Present: 50,609  (49.79% / 55.42%)
 3' Bias (Long Range): 80% - 20%
 Pair Type intra chrom %(L-I-O-R): 8% - 77% - 8% - 8%
 Pair Type inter chrom %(L-I-O-R): 25% - 23% - 26% - 26%
 DE: 67%
 Cis/all (FF and RR orient): 91.7%
Inter-chromosomal: 2,089  (2.06% / 2.29%)
Intra-chromosomal: 74,941  (73.72% / 82.06%)
Short Range (<20,000bp): 58,031  (57.09% / 63.54%)
Long Range (>20,000bp): 16,910  (16.64% / 18.52%)