TABLE 2

Summary of the error types affecting the results of BIGSdb GC and SeqSphere+ in comparison with GePa

Type of errorError present in:Locus tag
GePBIGSdb GCSeqSphere+
INoYesYesBN867_06930
IINoYesNoBN867_14050
IIINoYesYesBN867_03400
IVNoYesNoBN867_09770
VNoYesNoBN867_02990
VINoNoYesBN867_00440
  • a An example of a locus affected by the error type is shown. Error type I, failing to choose the orthologous locus from the paralogous locus; error type II, treating a missing gene as a special allele; error type III, failing to identify an orthologous locus due to high nucleotide sequence divergence; error type IV, failing to exclude a sequence containing nucleotide ambiguity; error type V, allele sequence overlapping the neighboring locus; error type VI, failing to recognize a sequence containing simple sequence repeat variation as a new allele.