Skip to main content

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.