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_05_29_ENC_2024-07-29_ENC/Hepatocytes/87T_concatenated -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:  6,189,744
 Normal Paired: 3,640,959 (58.82%)
 Chimeric Paired: 1,927,763 (31.14%)
 Chimeric Ambiguous: 533,965 (8.63%)
 Unmapped: 87,057 (1.41%)
 Ligation Motif Present: 3,153,890 (50.95%)
Alignable (Normal+Chimeric Paired): 5,568,722 (89.97%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2024-08-01T17:11:54,462]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 4,898,412 (79.14%)
PCR Duplicates: 643,921 (10.40%)
Optical Duplicates: 26,389 (0.43%)
Library Complexity Estimate: 21,966,259
Intra-fragment Reads: 1,363,426 (22.03% / 27.83%)
Below MAPQ Threshold: 810,982 (13.10% / 16.56%)
Hi-C Contacts: 4,087,430 (66.04% / 83.44%)
 Ligation Motif Present: 1,905,823  (30.79% / 38.91%)
 3' Bias (Long Range): 67% - 33%
 Pair Type intra chrom %(L-I-O-R): 5% - 84% - 6% - 5%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 65%
 Cis/all (FF and RR orient): 51.2%
Inter-chromosomal: 698,397  (11.28% / 14.26%)
Intra-chromosomal: 3,389,033  (54.75% / 69.19%)
Short Range (<20,000bp): 2,768,939  (44.73% / 56.53%)
Long Range (>20,000bp): 620,094  (10.02% / 12.66%)