Table 1.
Average absolute error and standard deviation (parentheses) are shown for each group & parameterization.
| Allele type | |||||
|---|---|---|---|---|---|
| Reference | Program | QC | Observations | Consensus | Minority |
| Flu gene segment consensuses | Bowtie2 | - | 1.73Gb | 0.30 % (2.97 %) | 0.15 % (2.22 %) |
| + | 1.61Gb | 0.28 % (2.86 %) | 0.15 % (2.36 %) | ||
| IRMA | - | 1.99Gb | 0.17 % (0.47 %) | 0.08 % (0.29 %) | |
| + | 1.97Gb | 0.12 % (0.42 %) | 0.05 % (0.27 %) | ||
| Assembly controls: both unmixed genomes | IRMA* | + | 1.97Gb | 0.12 % (0.40 %) | 0.05 % (0.26 %) |
| Bowtie2 | + | 1.97Gb | 0.12 % (0.40 %) | 0.05 % (0.26 %) | |
Observations are the total number of assembled nucleotides for all genes and mixtures in triplicate. Allele type is per mixture-replicate-gene-position showing consensus (99.994% majority, 0.006% plurality) allele error and minority allele (non-consensus) error. Bowtie2 was set to very sensitive, local assembly.
*IRMA with a single round of read gathering iterations, final assembly using original references