The following genes have been classified as inactive in the S. pyogenes SF370 genome.

 Gene Putative Product Reason for classification
 SPy0088  isopentenyl monophosphate kinase  Multiple mutations within this gene have been confirmed by sequence analysis
 SPy0217  IS1548 transposase  There is a 10bp deletion confirmed by sequence analysis that results in a frame shift mutation located near the center of this gene.
 SPy0355  IS1548 transposase  There is a 10bp deletion confirmed by sequence analysis that results in a frame shift mutation located near the center of this gene.
 SPy0481  Transposase; IS905-like  There are several sequence confirmed mutation within this region inactivating this gene.
 SPy0647  putative acetion reductase (budC)  There is a point mutation that introduces a stop codon in the middle of this gene
 SPy0725  transposase  partial gene fragment
 SPy0735  rofA regulatory gene homolog  This gene contains a sequence supported frame shift mutation
 SPy0890  putative super-antigen / toxin  This gene encodes only the 3' portion of a peptide with similarity to the C-terminal region of SpeC
 SPy0973  bacteriophage portal protein  There is a point mutation that introduces a stop codon in the middle of this gene
 SPy1129  putative oxidoreductase; short chain dehydrogenease / reductase; There is a sequence confirmed frame shift mutation within this gene
 SPy1221 pantothenate metabolism flavoprotein. This fragment appears to contain the 3'-end of the gene
 SPy1319  PTS System; cellobiose-specific IIC component  There is a point mutation that introduces a stop codon within this gene
 SPy1553  histidine kinase  This gene appears to contain a sequence supported frame shift mutation
 SPy1705  Tagatose-6-phosphate kinase  This appears to encode only the N-terminus of the gene. There are also several sequence confirmed frame shift mutations within the gene
 SPy2214  transposase  This gene contains multiple sequence confirmed frame shift mutations

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