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Table 4 Alignment statistics of reads mapped against the Yersinia pestis genome

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

3,880 (0.01%)

28.8 ± 5.6

111,646

Grand Plaza Bulk 2

3,451 (0.01%)

30.0 ± 5.7

99,916

Grand Plaza Phos. 1

2,626 (0.01%)

28.5 ± 5.4

74,846

Grand Plaza Phos. 2

2,198 (0.01%)

28.9 ± 5.8

63,479

Churchyard Bulk 1

3,794 (0.01%)

28.8 ± 5.8

109,284

Churchyard Bulk 2

3,672 (0.01%)

28.9 ± 5.9

106,060

Churchyard Phos. 1

2,595 (0.01%)

28.1 ± 5.4

72,809

Churchyard Phos. 2

3,723 (0.01%)

28.5 ± 5.7

106,284

Grand Plaza Sheared

0 (0.00%)

0

Churchyard Sheared

2 (0.04%)

24.0 ± 0.0

48

Soil Bulk

63 (0.01%)

26.3 ± 3.7

1,656

Soil Sheared

3 (0.00%)

25.3 ± 1.2

76

HiSeq 2500

TP04

0 (0.00%)

0

 

TP09

0 (0.00%)

0

 

TP10

0 (0.00%)

0

 

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 Yersinia pestis genome. “Molecular Length” is the mean length (± standard deviation) of the mapped reads.