Table 4.
Reference positiona | Allele frequency (in %)b | SNPc | Coveraged | Annotatione | Amino acid changee | Gene/Proteinf |
---|---|---|---|---|---|---|
43576 | 100 | A > T | 5 | FPSM_00026 | Met1Leu | Multimodular transpeptidase-transglycosylase PBP 1A |
155877 | 100 | A > T | 43 | FPSM_00129 | Leu71Phe | Putative exported protein |
283611 | 80 | A > T | 10 | FPSM_00250 | Asn522Ile | Amino acid permease |
325469 | 100 | T > A | 4 | FPSM_00287 | Met1Leu | Thioredoxin |
488182 | 100 | A > C | 4 | FPSM_00425 | Gln466Pro | DNA primase |
514297 | 86.4 | C > T | 162 | FPSM_00445 | Ala11Thr | Malonyl-CoA-[acyl-carrier-protein] transacylase |
548737 | 100 | A > T | 5 | FPSM_00479 | Met1Leu | Ribosome recycling factor (RRF) |
846079 | 100 | T > A | 4 | FPSM_00743 | Phe98Tyr | Putative membrane spanning protein |
856484 | 85.7 | T > A | 7 | FPSM_00754 | Met13Leu | Hypothetical protein |
1334056 | 100 | A > C | 39 | FPSM_01204 | Phe470Cys | Glucose/galactose transporter |
1480580 | 80 | A > T | 5 | FPSM_01337 | Asn41Ile | Hypothetical protein |
1498680 | 100 | T > A | 4 | FPSM_01353 | Asn123Ile | Phosphoribosyl-ATP cyclohydrolase |
1522077 | 80 | T > A | 5 | FPSM_01375 | Met1Leu | Protein translation elongation factor P (EF-P) |
1537329 | 100 | C > G | 51 | FPSM_01388 | Arg547Thr | TonB-dependent outer membrane receptor |
aReference position (in bp) for reference sequence (listed under annotation field) are based on CSF 259–93 sequence from ERGO-Integrated genomics
bAllele frequency refers to the proportion of sequences showing a given single-nucleotide polymorphism (SNP) at the started reference position
cShows the SNP change represents the change from nucleotide X to Y (X > Y) at the reference position
dCoverage refers to the total number of sequencing reads that align to each base within the sample DNA
ePredicted amino acid change for the identified SNP
fAnnotation shows the name and putative function for the identified gene. Annotation is presented from the CSF 259–93 sequence from ERGO-Integrated genomics