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Table 2 Alignment test

From: Estimation of bacterial diversity using next generation sequencing of 16S rDNA: a comparison of different workflows

  50 × 60 mutated (interleaved) 50 × 60 mutated (stacked)
  3% 5% 10% 3% 5% 10%
Reference expected values 59 57 52 59 57 52
CROP 1959 1954 1955 1865 1850 1850
ESPRIT 193 59 56 205 59 56
MAFFT+JC 141 101 85 132 113 113
MAFFT+MAFFT 2289 1708 80 2289 1777 1270
MAFFT+Mothur 261 119 96 279 121 121
Mothur+JC 2947 2947 2948 2985 2985 2985
Mothur+MAFFT 899 685 477 2999 2999 2999
Mothur+Mothur 1087 923 736 1100 930 888
Mothur+PreC+ JC 1198 1198 1198 1333 1333 1333
Mothur+PreC+MAFFT 1328 1328 1328 1346 1346 1346
Mothur+PreC+Mothur 1080 938 938 1087 940 915
MUSCLE+JC 70 59 44 2999 2999 2999
MUSCLE+MAFFT 2287 1707 80 2288 1785 1269
MUSCLE+Mothur 264 64 57 571 466 466
Otupipe 139 91 59 144 95 61
RDP 59 58 53 59 57 52
  1. OTUs observed with each of the workflows analysed at distances of 3, 5 and 10% for the datasets containing 50 different mutated replicas of the 60 test sequences stacked or interleaved.