| |
Simulated SNPs
|
Real SNPs
|
|---|
|
Program
|
Reads
|
Time (s)
|
Accuracy (%)
|
Reads
|
Time (s)
|
Accuracy (%)
|
|---|
|
Bowtie-35
|
24326
|
2
|
76.4
|
72241
|
4
|
90.5
|
|
BWA-35
|
24326
|
5
|
83.4
|
72241
|
8
|
90.2
|
|
Bowtie-76
|
24359
|
3
|
89.2
|
72241
|
4
|
93.4
|
|
BWA-76
|
24359
|
9
|
92.8
|
72241
|
19
|
92.8
|
|
Bowtie-128
|
24373
|
2
|
90.1
|
72241
|
5
|
92.4
|
|
BWA-128
|
24373
|
5
|
94.7
|
72241
|
49
|
93.4
|
|
Bowtie-512
|
24373
|
3
|
93.8
|
72241
|
9
|
93.5
|
|
BWA-512
|
24373
|
23
|
97.2
|
72241
|
132
|
91.7
|
- Totally 94771 reads of 35, 76, 128 and 512bp were simulated from human genome build 37.1 with error rates following Sanger sequencing pattern. Such that for each read, average amount of mismatches and indels is 1 and 0.02. CPU time on a quad core of a 2.4 GHz Xeon E5620 processor with 8G RAM and accuracy in percentage are given.
