TABLE 2.
Summary of data characterizing the quantity and quality of the sequences obtained
| Isolate | Median depthc | Coding sequencea
|
Overall sequenceb
|
||||
|---|---|---|---|---|---|---|---|
| Length (no. of bases)d | % Coveragee | No. (%) of Q40+ basesf | Length (no. of bases) | % Coverage | No. (%) of Q40+ bases | ||
| R65/2006 | 67 | 12,561 | 98.94 | 12,527 (99.73) | 13,105 | 96.65 | 13,063 (99.68) |
| R747/2006 | 45 | 12,568 | 98.99 | 12,537 (99.75) | 13,154 | 97.01 | 13,097 (99.57) |
| R1959/2007 | 98 | 12,696 | 100.00 | 12,665 (99.76) | 13,281 | 97.95 | 13,231 (99.62) |
| R1372/2007 | 32 | 12,358 | 97.34 | 12,251 (99.13) | 12,795 | 94.37 | 12,677 (99.08) |
Only the coding part in the de novo assembly is considered.
The whole-genome sequences in the assembly are considered.
Median of the overall sequence depth (the number of times that each nucleotide was sequenced).
Length of the assembly covering the portion of the genome considered.
Percent coverage of the reference sequence (GenBank accession numbers for segments 1 to 8 for isolate R65/2006, DQ464357, DQ464361, DQ464360, DQ464354, DQ464359, DQ464355, DQ464356, and DQ464358, respectively; accession numbers for segments 1 to 8 for for isolates R747/2006, R1372/07, and R1959/07, AM744956, AM744955, AM744954, AM492165, AM744952, AM492166, AM744957, and AM744953, respectively).
Number of bases with a quality score of ≥40 (Q40+), i.e., with a probability of ≥99.99% for the individual bases, and the percentage of bases with a quality score of ≥40 in the sequence portion considered.