Skip to main content

Table 8 Percent of 100,000 ancient horse DNA reads (SRR111892) of length 76 bp mapped to the horse genome Equus_caballus EquCab2 (GCA_000002305.1) and human reference genome

From: MaxSSmap: a GPU program for mapping divergent short reads to genomes with the maximum scoring subsequence

Horse genome

BWA

NextGenMap

NextGenMap+

NextGenMap+

NextGenMap+

  

MaxSSmap_fast

MaxSSmap

CUDASW++

2.2

16

20.5

23.1

26 (estimated)

 

Time in minutes to map reads

0.6

2.4

1609.6

2836

14820 (estimated)

Human genome

BWA

NextGenMap

NextGenMap+

NextGenMap+

NextGenMap+

  

MaxSSmap_fast

MaxSSmap

CUDASW++

0.16

14

18.6

21

NA

 

Time in minutes to map reads

0.82

2.9

2375.5

4108

NA

  1. We ran NextGenMap+CUDA-SW++ for a maximum of 168 hours and estimated the time to align all rejected reads. Also shown is time in minutes.
Back to article page

BMC Genomics

ISSN: 1471-2164

Contact us