Table 2.
Genome sequencing and metabolic SNP detection
| Sequencing Parameter | S288c | CEN.PK113-7D |
|---|---|---|
| MAQ Software Determination | ||
| No. of Reads | 5,301,907 | 6,603,200 |
| Total No. of SNPs | 3,032 | 27,868 |
| Total No. of Non-Ambiguous SNPs | 1,013 | 24,663 |
| Total No. of Filtered SNPsA,B | 311 | 13,787 |
| Metabolism Focused Detection | ||
| Total No. of Metabolic Genes ConsideredC | 782 | 782 |
| Total No. of Metabolic Bases (bp) | 1.16M | 1.16M |
| No. of Aligned Reads | 477,565 | 623,400 |
| Total Gap Size (bp) | 0 | 0 |
| Metabolic Genome Percent Reference Coverage (%) | 99.7 | 99.4 |
| Total No. of Metabolic SNPs detected | 36 | 939 |
| Total No. Nonsynonymous Metabolic SNPs Detected | 3 | 219 |
| Percent of SNPs Detected Nonsynonymous (%) | 8.3 | 23.3 |
| Total No. of Metabolic Genes Containing SNP | 14 | 158 |
| Total No. of Metabolic Genes with Nonsynonymous SNP | 3 | 85 |
Notes: Base pairs (bp). (A) Filtered SNPs determined based on cut-off criteria within the Mapping and Assembling with Quality (MAQ) software environment. (B) Detected SNPs with estimated error < 0.003% (C) The total number of genes classified as metabolic was based on the Saccharomyces Genome Database, Strain S288c, version 12.0. The "S288c" designation in Table 2 refers to the resequencing of S. cerevisiae S288c using Illumnia/Solexa sequencing technology.