Due to next-generation sequencing (NGS) technology, genome sequencing is able to 
process much more data at low cost. In NGS data analysis, the mapping of 
sequences into a reference genome takes the largest amount of time to process. 
Although the Burrows-Wheeler Aligner (BWA) tool is one of the most widely used 
open-source software tools to align read sequences, it is still limited in that 
it does not fully support multi-thread mechanisms during the alignment steps. In 
this paper, we propose a BWA-MT tool, evolved from BWA but supporting 
multi-thread computation, designed to fully utilize the underlying multi-core 
architecture of computing resources. By using multi-thread computation, BWA-MT 
can significantly shorten the time needed to generate an alignment for 
single-end read sequences. Meanwhile, it generates an identical Sequence 
Alignment Map (SAM) result file as BWA. To evaluate BWA-MT, we use an evaluation 
system equipped with twelve cores and 32 GB memory. As a workload, we used the 
hg19 human genome reference sequence and various numbers of read sequences from 
1M to 40M. In our evaluation, BWA-MT displays up to 3.7 times faster performance 
and generates an identical SAM result file to BWA. Although the increased speed 
might be dependent on computing resources, we confirm that BWA-MT is highly 
efficient and effective.