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Table 1 Summary of the number of peaks per profile, homoplasy rate and maximum number of co-migrating fragments obtained in silico with different numbers of selective bases for each species.

From: Amplified fragment length homoplasy: in silico analysis for model and non-model species

  Primer combinations No. of peaks Homoplasy rate (%)  
Species No. of sba GC contb No tested Mean Range Mean Range Max fragmc
Bacillus thuringiensis ser. Konkukian 1 AT 2 260 260 - 260 68.5 67.7 - 69.2 18
   GC 2 184 162 - 206 45.4 45.2 - 45.7 18
  2 AT 4 140 122 - 165 37.2 28.4 - 41.8 16
   m 8 98 47 - 136 22.8 8.5 - 42.8 6
   GC 4 60 42 - 76 13.9 8.2 - 22.3 14
  3 AT 32 46 18 - 96 8.9 0 - 24.6 14
   GC 32 21 5 - 47 7.8 0 - 15.4 14
Arabidopsis thaliana 4 AT 27 207 139 - 283 46.6 27.3 - 58.5 64
   m 17 129 56 - 185 29.3 21.9 - 45.1 21
   GC 9 62 28 - 94 13.3 3.6 - 21.3 5
  5 AT 12 77 32 - 115 18.5 8.8 - 30.4 8
   GC 9 35 18 - 50 12.1 2.8 - 22 38
  6 AT 5 26 12 - 54 8.8 0 - 20.4 3
   m 11 12 4 - 21 4.3 0 - 15.4 3
   GC 10 7 2 - 12 6.6 0 - 28.5 33
Aedes aegypti 5 AT 6 266 232 - 294 58.4 47.8 - 66.6 61
   GC 8 253 209 - 293 53.2 41.6 - 62.4 582
  6 AT 17 156 94 - 234 36.7 27.5 - 59.8 400
   m 22 109 61 - 148 27.8 18.1 - 40.2 284
   GC 14 58 33 - 97 15.8 7 - 32 180
  7 AT 8 44 27 - 62 13.6 6.5 - 22.6 7
   GC 5 25 17 - 39 11.6 0 - 18 6
  8 AT 10 10 3 - 28 7.0 0 - 33.3 2
   m 5 8 5 - 12 1.7 0 - 8.3 3
   GC 5 6 3 - 11 6.7 0 - 33.3 2
  1. aTotal number of selective bases added for the 2 primers.
  2. b"GC cont" is composed of three classes of selective bases differing according to the proportion of their GC content: "AT" corresponds to selective bases containing a larger number of A or T, "GC" to selective bases containing a larger number of C or G, "m" to selective bases containing same number of A or T and C or G.
  3. cMaximum number of co-migrating fragments in one single peak.