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Table 3 The number of the full set alignments at various levels of the overall identity. Fractions give the differences in the number of alignments by each method and Splign expressed as percentage of the total of sequences in the set.

From: Splign: algorithms for computing spliced alignments with identification of paralogs

  80% 85% 90% 95% 99% 99.5% 99.9% 100%
Splign 212875 209895 203460 195939 182123 169058 107267 76542
Sim4 212533 208571 203016 195513 177784 162761 97812 69359
  -0.16 -0.61 -0.20 -0.19 -1.98 -2.88 -4.32 -3.29
Spidey 199870 195159 190753 186356 172385 159021 100338 72225
  -5.95 -6.74 -5.81 -4.38 -4.45 -4.59 -3.17 -1.97
BLAT 209899 206260 201207 194640 177345 163157 104338 74815
  -1.36 -1.66 -1.03 -0.59 -2.19 -2.70 -1.34 -0.79
GMAP 208849 205793 202732 196734 180048 166488 105452 74975
  -1.84 -1.88 -0.33 +0.36 -0.95 -1.18 -0.83 -0.72
SPA 203942 199548 195926 192595 180273 167815 105835 74911
  -4.09 -4.73 -3.45 -1.53 -0.85 -0.57 -0.65 -0.75