|
(a) Percent of 100,000 251 bp reads mapped correctly to the E.coli genome. Shown in parenthesis are incorrectly mapped reads and remaining are rejected
|
|---|
|
Div
|
MaxSSmap_fast
|
MaxSSmap
|
CUDASW++
|
SSW
|
|---|
|
Reads without gaps
| |
|
.1
|
95 (0.4)
|
96 (0.4)
|
94 (0.9)
|
97 (3)
|
|
.2
|
95 (0.6)
|
95.3 (0.6)
|
94 (1)
|
97 (3)
|
|
.3
|
90 (1.1)
|
94.2 (0.9)
|
93 (1.3)
|
96 (4)
|
|
Reads with gaps
| |
|
.1
|
92 (1.5)
|
93.1 (1.9)
|
94 (0.9)
|
97 (3)
|
|
.2
|
90 (1.7)
|
92.5 (2.1)
|
92 (1)
|
96 (4)
|
|
.3
|
81 (2.8)
|
89.9 (3.5)
|
92 (1.4)
|
95 (5)
|
|
(b) Time in minutes to map 100,000 251 bp reads to the E.coli genome
|
|
Div
|
MaxSSmap_fast
|
MaxSSmap
|
CUDASW++
|
SSW
|
|
Reads without gaps
| |
|
.1
|
20
|
28
|
164
|
1288
|
|
.2
|
20
|
28
|
164
|
1275
|
|
.3
|
20
|
28
|
164
|
1255
|
|
Reads with gaps
| |
|
.1
|
20
|
28
|
163
|
1283
|
|
.2
|
20
|
28
|
162
|
1266
|
|
.3
|
20
|
28
|
162
|
1235
|
- These are simulated Illumina reads and contain realistic base qualities generated from Illumina short reads. Each divergence represents the average percent of mismatches in the reads. So 0.1 means 10% mismatches on the average. The gaps are randomly chosen to occur in the read or the genome and are of length at most 30.
