Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 14 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/2024-03-04_ENC/FFPE/Ng025 -s none -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 14                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
Sequenced Read Pairs:  229,151,621
 Normal Paired: 184,892,111 (80.69%)
 Chimeric Paired: 35,217,646 (15.37%)
 Chimeric Ambiguous: 6,962,306 (3.04%)
 Unmapped: 2,079,558 (0.91%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 220,109,757 (96.05%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2024-03-21T20:26:43,224]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 169,545,572 (73.99%)
PCR Duplicates: 48,206,460 (21.04%)
Optical Duplicates: 2,357,725 (1.03%)
Library Complexity Estimate: 416,166,504
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 23,123,456 (10.09% / 13.64%)
Hi-C Contacts: 146,422,116 (63.90% / 86.36%)
 Ligation Motif Present: 0  (0.00% / 0.00%)
 3' Bias (Long Range): 0% - 0%
 Pair Type intra chrom %(L-I-O-R): 7% - 79% - 7% - 7%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 61%
 Cis/all (FF and RR orient): 62.6%
Inter-chromosomal: 21,527,970  (9.39% / 12.70%)
Intra-chromosomal: 124,894,146  (54.50% / 73.66%)
Short Range (<20,000bp): 99,377,470  (43.37% / 58.61%)
Long Range (>20,000bp): 25,516,676  (11.14% / 15.05%)