Table 2.

Polymorphisms detected by SNP/DIP analysis

StrainReference position(s)aVariation typeReferencefVariation(s)Fold coveragebCountVariation frequency(ies) (%)Overlapping annotationcPosition within genedAmino acid change
A206948Complex SNPCC/A4023/1757.5/42.5EF0224, rpsE283/501L95I
C219603Complex SNPAA/C14886/6258.1/41.9EF0243, brnQ1101/1356S367R
A585518–585519DIPA262076.9EF0631, putative cardiolipin synthetase226-7/1446N77fse
B585945SNPGA113113100EF0631, putative cardiolipin synthetase653/1446R218Q
C585945SNPGA12812799.2EF0631, putative cardiolipin synthetase653/1446R218Q
A740197SNPCG7878100EF0782, rpoN296/1314T99R
B1699646DIPT988283.7EF1753, conserved hypothetical protein1168/1602I390fs
C1699646DIPT735575.3EF1753, conserved hypothetical protein1168/1602I390fs
A1739262DIPC6262100EF1797, conserved hypothetical protein88/645D30fs
B2613619SNPAT8383100EF2698, putative tellurite resistance protein TelA829/1188I277F
  • a Position in the E. faecalis V583 reference sequence.

  • b Fold coverage at the specified nucleotide in the resequencing assembly.

  • c Annotated open reading frames (ORFs) overlapping computationally predicted polymorphisms.

  • d Location of polymorphism relative to the gene sequence; shown as polymorphism position/total nucleotide positions within the gene.

  • e N77fs predicted by computational analysis prior to confirmation.

  • f Nucleotide in the E. faecalis V583 reference sequence.