Table 1.
Average Running Time to Produce a Multiple Alignment of the Given Sequences
|
Program |
Running time, human-mouse-rat (sec) |
Running time, nine mammals (sec) |
|---|---|---|
| MULTIZ | 7.5 | NA |
| TBA | 7.7 | 70.2 |
| TBA (R = 50) | 8.3 | 82.8 |
| CLUSTALW | 700.4 | 3000.9 |
| MLAGAN | 31.2 | 166.8 |
| MAVID | 6.7 | 38.5 |
| DIALIGN | 2894.2 | 35,954.4 |
| DIALIGN/CHAOS
|
764.4
|
13,580.7
|
-
Each sequence is ∼50 kb. The time for masking repeats using Repeat-Masker is not included. Programs were run on 866-MHz Pentium III processors with 1 Gb of memory.
