|
Species
|
Length of queries [bp]
|
Gap occurrence frequency
|
gapmis
|
gm -f 2
|
gm -f 3
|
gm -onf 2
|
gm -onf 3
|
needle
|
|---|
|
AT
|
100
|
2.4 × 10-5
|
999,099
|
998,404
|
997,561
|
999,207
|
999,259
|
999,126
|
|
AT
|
150
|
2.4 × 10-5
|
998,805
|
998,171
|
997,542
|
999,024
|
999,152
|
999,115
|
|
BV
|
100
|
1.7 × 10-5
|
999,361
|
998,868
|
998,229
|
999,432
|
999,459
|
999,353
|
|
BV
|
150
|
1.7 × 10-5
|
999,196
|
998,771
|
998,249
|
999,347
|
999,432
|
999,378
|
|
HS
|
100
|
5.7 × 10-6
|
999,809
|
999,615
|
999,419
|
999,822
|
999,825
|
999,782
|
|
HS
|
150
|
5.7 × 10-6
|
999,795
|
999,606
|
999,408
|
999,817
|
999,825
|
999,793
|
- The correct alignments of 1, 000, 000 pairs of simulated sequences with various observed gap occurrence frequencies using gapmis, gapmis_one_to_one_f, gapmis_one_to_one_onf, and needle. Each of the datasets consists of 1,000,000 pairs of sequences; the highest number of correct alignments for each dataset is shown in bold.
