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Table 5 Alignment statistics of reads mapped against typhus genomes

From: False positives complicate ancient pathogen identifications using high-throughput shotgun sequencing

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
  1. “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.