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Table 3 Results on synthetic genomes: We constructed several synthetic chromsomes with randomly generated direct repeats mutated at a given percentage of nucleotides (0–30%) to assess performance at different levels of LTR conservation

From: LtrDetector: A tool-suite for detecting long terminal repeat retrotransposons de-novo

Tool Total TP GT
Mutation 0%    
 LTRharvest 90 90 90
 LtrDetector 90 90 90
Mutation 5%    
 LTRharvest 92 91 92
 LtrDetector 90 90 92
Mutation 10%    
 LTRharvest 78 74 91
 LtrDetector 88 88 91
Mutation 15%    
 LTRharvest 32 29 92
 LtrDetector 74 74 92
Mutation 20%    
 LTRharvest 10 8 93
 LtrDetector 40 40 93
Mutation 30%    
 LTRharvest 1 0 90
 LtrDetector 2 2 90
  1. Total is the number of proposed LTR-RTs, TP is number of true positives, GT is number of elements in the synthetic ground truth