Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 16 threads; openjdk version "17.0.12" 2024-07-16; /home/estsoi/juicer1.6_compact/scripts/juicer.sh -g triadV2 -d /storage3/estsoi/Trihoplax -s none -z /storage3/estsoi/Trihoplax/triadV2_030816_SP_V2_new.fasta -D /home/estsoi/juicer1.6_compact -S final                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
Sequenced Read Pairs:  59,761,661
 Normal Paired: 31,207,675 (52.22%)
 Chimeric Paired: 17,511,724 (29.30%)
 Chimeric Ambiguous: 2,969,507 (4.97%)
 Unmapped: 8,072,755 (13.51%)
 Ligation Motif Present: 0 (0.00%)
Alignable (Normal+Chimeric Paired): 48,719,399 (81.52%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2024-08-19T19:54:50,614]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 44,745,434 (74.87%)
PCR Duplicates: 0 (0.00%)
Optical Duplicates: 3,973,965 (6.65%)
Library Complexity Estimate: 0
Intra-fragment Reads: 0 (0.00% / 0.00%)
Below MAPQ Threshold: 1,709,128 (2.86% / 3.82%)
Hi-C Contacts: 43,036,306 (72.01% / 96.18%)
 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: 60%
 Cis/all (FF and RR orient): 48.5%
Inter-chromosomal: 8,767,190  (14.67% / 19.59%)
Intra-chromosomal: 34,269,116  (57.34% / 76.59%)
Short Range (<20,000bp): 28,096,188  (47.01% / 62.79%)
Long Range (>20,000bp): 6,172,928  (10.33% / 13.80%)