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/2024-06-18_MGNC/FFPE/LnC46 -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 20                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
Sequenced Read Pairs:  828,524
 Normal Paired: 523,944 (63.24%)
 Chimeric Paired: 223,201 (26.94%)
 Chimeric Ambiguous: 63,707 (7.69%)
 Unmapped: 17,672 (2.13%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 747,145 (90.18%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2024-06-20T16:13:41,519]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 738,395 (89.12%)
PCR Duplicates: 8,570 (1.03%)
Optical Duplicates: 180 (0.02%)
Library Complexity Estimate: 32,303,432
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 114,243 (13.79% / 15.47%)
Hi-C Contacts: 624,152 (75.33% / 84.53%)
 Ligation Motif Present: 0  (0.00% / 0.00%)
 3' Bias (Long Range): 0% - 0%
 Pair Type intra chrom %(L-I-O-R): 6% - 82% - 6% - 6%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 70%
 Cis/all (FF and RR orient): 73.2%
Inter-chromosomal: 50,032  (6.04% / 6.78%)
Intra-chromosomal: 574,120  (69.29% / 77.75%)
Short Range (<20,000bp): 501,663  (60.55% / 67.94%)
Long Range (>20,000bp): 72,457  (8.75% / 9.81%)