Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 20 threads; openjdk version "17.0.8-internal" 2023-07-18; /data/nyt/MMO/Tools/juicer1.6_compact/scripts/juicer.sh -g T2T -d /data/nyt/Projects/Juicer-Out/2024-07-29_ENC/Hepatocytes/87c_Rep2 -s DpnII -y /data/nyt/Databases/T2T-CHM13v2.0/juicer.rs/T2T-CHM13v2.0_DpnII.txt -p /data/nyt/Databases/T2T-CHM13v2.0/hgT2T.chromsizes -z /data/nyt/Databases/T2T-CHM13v2.0/hgT2T.fa -D /data/nyt/MMO/Tools/juicer1.6_compact -t 20                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
Sequenced Read Pairs:  84,676
 Normal Paired: 48,777 (57.60%)
 Chimeric Paired: 28,444 (33.59%)
 Chimeric Ambiguous: 6,296 (7.44%)
 Unmapped: 1,159 (1.37%)
 Ligation Motif Present: 44,905 (53.03%)
Alignable (Normal+Chimeric Paired): 77,221 (91.20%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2024-08-01T16:39:14,290]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 68,299 (80.66%)
PCR Duplicates: 8,555 (10.10%)
Optical Duplicates: 367 (0.43%)
Library Complexity Estimate: 319,085
Intra-fragment Reads: 14,102 (16.65% / 20.65%)
Below MAPQ Threshold: 11,075 (13.08% / 16.22%)
Hi-C Contacts: 57,224 (67.58% / 83.78%)
 Ligation Motif Present: 27,052  (31.95% / 39.61%)
 3' Bias (Long Range): 64% - 36%
 Pair Type intra chrom %(L-I-O-R): 3% - 88% - 7% - 3%
 Pair Type inter chrom %(L-I-O-R): 25% - 24% - 25% - 25%
 DE: 64%
 Cis/all (FF and RR orient): 20.3%
Inter-chromosomal: 16,343  (19.30% / 23.93%)
Intra-chromosomal: 40,881  (48.28% / 59.86%)
Short Range (<20,000bp): 39,758  (46.95% / 58.21%)
Long Range (>20,000bp): 1,123  (1.33% / 1.64%)