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Table 6 Alignment ratios and multiple alignment ratios of repeats on five data sets

From: RepAHR: an improved approach for de novo repeat identification by assembly of the high-frequency reads

Species Method Num Alignment                ratio (%) Multiple alignment          ratio (%)
Drosophila melanogaster RepARK CLC 818 97.43 92.42
RepARK Velvet 4561 99.28 94.04
REPdenovo 52 88.46 86.54
RepAHR 2647 97.96 95.35
Saccharomyces cerevisiae RepARK CLC 545 97.42 25.32
RepARK Velvet 1457 98.76 41.39
REPdenovo 3 100.0 33.33
RepAHR 392 97.70 90.56
Acromyrmex echinatior RepARK CLC 485 84.95 69.69
RepARK Velvet 3931 93.64 87.75
REPdenovo 249 65.46 61.45
RepAHR 2699 94.89 89.14
\(Homo \ sapiens\) chr14 RepARK CLC 105 97.14 95.24
RepARK Velvet 846 98.23 97.52
REPdenovo 14 100.0 100.0
RepAHR 1738 99.71 98.85
\(Mus\ musculus\) RepARK CLC 3839 96.77 92.81
RepARK Velvet 47,232 90.47 88.20
REPdenovo 9376 50.53 48.54
RepAHR 77,891 95.56 93.05
  1. \('alignment\ \ ratio'\) indicates the ratio of the number of repeats aligned to the reference genome at least one position to the total number of repeats. \('multiple\ \ alignment\ \ ratio'\) indicates the ratio of the number of repeats aligned to the reference genome multiple positions to the total number of repeats