Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 14 threads; openjdk version "17.0.12" 2024-07-16; /home/estsoi/juicer1.6_compact/scripts/juicer.sh -d /storage3/estsoi/Trihoplax -g Trihoplax -s none -z /storage3/estsoi/Trihoplax/genome/triadV2_030816_SP.fasta -D /home/estsoi/juicer1.6_compact -t 14                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
Sequenced Read Pairs:  29,061,770
 Normal Paired: 13,585,426 (46.75%)
 Chimeric Paired: 7,410,611 (25.50%)
 Chimeric Ambiguous: 1,129,043 (3.88%)
 Unmapped: 6,936,690 (23.87%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 20,996,037 (72.25%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2024-08-14T17:24:04,328]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 19,223,751 (66.15%)
PCR Duplicates: 374,816 (1.29%)
Optical Duplicates: 1,397,470 (4.81%)
Library Complexity Estimate: 505,835,956
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 1,353,995 (4.66% / 7.04%)
Hi-C Contacts: 17,869,756 (61.49% / 92.96%)
 Ligation Motif Present: 0  (0.00% / 0.00%)
 3' Bias (Long Range): 0% - 0%
 Pair Type intra chrom %(L-I-O-R): 4% - 87% - 4% - 4%
 Pair Type inter chrom %(L-I-O-R): 25% - 25% - 25% - 25%
 DE: 66%
 Cis/all (FF and RR orient): 43.2%
Inter-chromosomal: 3,410,147  (11.73% / 17.74%)
Intra-chromosomal: 14,459,609  (49.75% / 75.22%)
Short Range (<20,000bp): 12,973,896  (44.64% / 67.49%)
Long Range (>20,000bp): 1,485,713  (5.11% / 7.73%)