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|
Aligner
|
Arg
|
Sen (%)
|
Acc (%)
|
Uniq (%)
|
Unmapped
|
T1
|
T4
|
|---|
|
dataset 1: real-100
|
|---|
|
SALT.snp
|
-r 21
|
99.15
|
99.76
|
90.43
|
33,981
|
9 m 37 s
|
2 m 37 s
|
|
-r 10
|
99.24
|
99.76
|
90.19
|
30,341
|
11 m 41 s
|
3 m 8 s
|
|
-r 5
|
99.27
|
99.76
|
90.09
|
29,380
|
13 m 24 s
|
3 m 38 s
|
|
SALT.linear
|
-r 21
|
99.13
|
99.76
|
90.51
| |
9 m 30 s
|
2 m 26 s
|
|
-r 10
|
99.23
|
99.76
|
90.29
|
30,619
|
10 m 34 s
|
2 m 52 s
|
|
-r 5
|
99.26
|
99.76
|
90.21
|
29,478
|
11 m 37 s
|
3 m 16 s
|
|
BWA-MEM
| |
99.99
|
97.59
|
91.60
|
374
|
18 m 59 s
|
5 m 42 s
|
|
dataset 2: real-148
|
|
SALT.snp
|
-r 21
|
97.39
|
99.95
|
89.35
|
104,347
|
18 m 13 s
|
4 m 35 s
|
|
-r 10
|
97.44
|
99.94
|
89.30
|
102,474
|
19 m 45 s
|
6 m 23 s
|
|
-r 5
|
97.47
|
99.94
|
89.21
|
101,457
|
26 m 34 s
|
7 m 25 s
|
|
SALT.linear
|
-r 21
|
97.38
|
99.96
|
89.49
|
104,839
|
14 m 14 s
|
3 m 47 s
|
|
-r 10
|
97.43
|
99.95
|
89.47
|
102,905
|
19 m 38 s
|
5 m 12 s
|
|
-r 5
|
97.46
|
99.95
|
89.39
|
101,795
|
25 m 20 s
|
6 m 40 s
|
|
BWA-MEM
| |
99.51
|
97.28
|
93.55
|
19,450
|
23 m 18 s
|
6 m 29 s
|
- SALT.linear and SALT.snp seed alignments with a linear reference and an SNP-augmented reference, respectively
- SALT selects seeds in reads every X nt with the setting “-r X”
- T1 and T4 are escaped time with 1 thread and 4 threads, respectively
- Best results are shown in bold
