Experiment description: Juicer version 1.6; BWA 0.7.17-r1188; 10 threads; openjdk version "17.0.11" 2024-04-16; juicer.sh -g Trichoplax -d /storage3/artem/Trichoplax/T1 -s DpnII -p /storage3/artem/Genomes/Trichoplax/triadV2_030816_SP.sizes -y /storage3/artem/Genomes/Trichoplax/Trichoplax_DpnII.txt -z /storage3/artem/Genomes/Trichoplax/triadV2_030816_SP.fasta -t 10 -D /storage2/dreamworld/Tools/juicer1.6_compact/                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
Sequenced Read Pairs:  247,724
 Normal Paired: 118,885 (47.99%)
 Chimeric Paired: 57,792 (23.33%)
 Chimeric Ambiguous: 8,265 (3.34%)
 Unmapped: 62,782 (25.34%)
 Ligation Motif Present: 53,272 (21.50%)
Alignable (Normal+Chimeric Paired): 176,677 (71.32%)
WARNING: sun.reflect.Reflection.getCallerClass is not supported. This will impact performance.
WARN [2024-06-17T23:43:33,254]  [Globals.java:138] [main]  Development mode is enabled
Unique Reads: 174,729 (70.53%)
PCR Duplicates: 1,901 (0.77%)
Optical Duplicates: 47 (0.02%)
Library Complexity Estimate: 8,146,739
Intra-fragment Reads: 57,949 (23.39% / 33.17%)
Below MAPQ Threshold: 5,864 (2.37% / 3.36%)
Hi-C Contacts: 168,865 (68.17% / 96.64%)
 Ligation Motif Present: 38,280  (15.45% / 21.91%)
 3' Bias (Long Range): 57% - 43%
 Pair Type intra chrom %(L-I-O-R): 5% - 86% - 4% - 5%
 Pair Type inter chrom %(L-I-O-R): 25% - 26% - 25% - 24%
 DE: 66%
 Cis/all (FF and RR orient): 47.7%
Inter-chromosomal: 30,547  (12.33% / 17.48%)
Intra-chromosomal: 138,318  (55.84% / 79.16%)
Short Range (<20,000bp): 124,809  (50.38% / 71.43%)
Long Range (>20,000bp): 13,509  (5.45% / 7.73%)