Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 16 threads; openjdk version "17.0.8-internal" 2023-07-18; /data/nyt/MMO/Tools/juicer1.6_compact/scripts/juicer.sh -g hg19 -d /data/nyt/Projects/Juicer-Out/2023-12-4-Sirius/Embryo/XAH_K13 -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 16                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
Sequenced Read Pairs:  14,852,547
 Normal Paired: 6,759,978 (45.51%)
 Chimeric Paired: 5,624,787 (37.87%)
 Chimeric Ambiguous: 1,670,670 (11.25%)
 Unmapped: 797,112 (5.37%)
 Ligation Motif Present: 11,152,503 (75.09%)
Alignable (Normal+Chimeric Paired): 12,384,765 (83.38%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2023-12-15T13:14:39,208]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 2,849,365 (19.18%)
PCR Duplicates: 9,481,676 (63.84%)
Optical Duplicates: 53,724 (0.36%)
Library Complexity Estimate: 2,889,894
Intra-fragment Reads: 113,932 (0.77% / 4.00%)
Below MAPQ Threshold: 814,024 (5.48% / 28.57%)
Hi-C Contacts: 1,921,409 (12.94% / 67.43%)
 Ligation Motif Present: 1,483,548  (9.99% / 52.07%)
 3' Bias (Long Range): 75% - 25%
 Pair Type intra chrom %(L-I-O-R): 16% - 51% - 16% - 16%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 26%
 DE: 30%
 Cis/all (FF and RR orient): 83.2%
Inter-chromosomal: 224,799  (1.51% / 7.89%)
Intra-chromosomal: 1,696,610  (11.42% / 59.54%)
Short Range (<20,000bp): 875,105  (5.89% / 30.71%)
Long Range (>20,000bp): 821,505  (5.53% / 28.83%)