Table 5.
Alignment statistics of reads mapped against typhus genomes
| Platform | Sample Description | Reads Mapped (% Mapped) | Molecular Length (bp) | Total Mapped (bp) |
|---|---|---|---|---|
| HeliScope |
Grand Plaza Bulk 1 |
2,089 (0.01%) |
30.2 ± 5.9 |
63,008 |
| |
Grand Plaza Bulk 2 |
1,901 (0.01%) |
30.4 ± 6.1 |
57,799 |
| |
Grand Plaza Phos. 1 |
1,400 (0.00%) |
30.3 ± 5.8 |
42,381 |
| |
Grand Plaza Phos. 2 |
1,142 (0.00%) |
30.7 ± 6.2 |
35,032 |
| |
Churchyard Bulk 1 |
1,998 (0.01%) |
29.8 ± 6.0 |
59,602 |
| |
Churchyard Bulk 2 |
1,905 (0.01%) |
30.1 ± 6.2 |
57,251 |
| |
Churchyard Phos. 1 |
1,210 (0.00%) |
29.9 ± 6.0 |
36,209 |
| |
Churchyard Phos. 2 |
1,754 (0.01%) |
30.2 ± 6.2 |
53,055 |
| |
Grand Plaza Sheared |
2 (0.05%) |
24.5 ± 0.7 |
49 |
| |
Churchyard Sheared |
0 (0.00%) |
— |
0 |
| |
Soil Bulk |
30 (0.00%) |
27.0 ± 4.5 |
810 |
| |
Soil Sheared |
4 (0.00%) |
24.3 ± 0.5 |
97 |
| HiSeq 2500 |
TP04 |
0 (0.00%) |
— |
0 |
| |
TP09 |
0 (0.00%) |
— |
0 |
| |
TP10 |
1 (0.00%) |
156 |
156 |
| |
TP18 |
0 (0.00%) |
— |
0 |
| |
TP37 |
0 (0.00%) |
— |
0 |
| |
TP48 |
0 (0.00%) |
— |
0 |
| Soil Bulk | 0 (0.00%) | — | 0 |
“Bulk” samples are the unsheared bulks. “Phos.” samples are the phosphatase-treated unsheared bulks. “Sheared” samples are the sheared bulks. “% Mapped” indicates the percentage of the total number of reads comprised by the reads mapped onto the typhus genome. “Molecular Length” is the mean length (± standard deviation) of the mapped reads.