|
SIGI's performance in predicting the donor genome for synthetic genes modelling the amelioration process. |
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| Acceptor |
Cut-off AMELI |
Donor |
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|
|
|||||||||
| I |
II |
III |
IV |
V |
VI |
VII |
VIII |
||
|
|
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| Mesorhizobium loti |
0.05 |
0.50 7/2 |
0.50 69/1 |
0.50 34/11 |
0.50 26/1 |
0.50 115/0 |
0.10 1/2 |
0.50 54/89 |
0.50 51/52 |
| 0.10 |
0.75 286/16 |
0.75 329/3 |
0.50 82/17 |
0.50 298/7 |
0.50 360/7 |
0.50 399/6 |
0.50 154/251 |
0.50 193/265 |
|
| 0.25 |
0.75 360/23 |
0.75 359/3 |
0.50 90/20 |
0.95 485/8 |
0.25 58/8 |
0.50 482/7 |
0.50 161/259 |
0.50 207/277 |
|
| 0.95 476/13 |
0.95 486/2 |
0.95 489/7 |
0.95 485/8 |
0.95 497/1 |
0.95 499/0 |
0.95 499/0 |
0.95 302/198 |
||
| Escherichia coli K-12 |
0.05 |
1.00 32/6 |
0.50 38/0 |
0.50 69/1 |
0.95 10/2 |
0.75 73/1 |
0.90 88/3 |
0.75 45/3 |
0.75 133/7 |
| 0.10 |
0.95 349/39 |
0.75 455/1 |
0.75 454/8 |
0.50 392/6 |
1.00 444/4 |
0.90 455/6 |
0.50 433/21 |
0.75 446/27 |
|
| 0.25 |
1.00 378/69 |
0.75 484/1 |
0.75 490/8 |
0.50 471/8 |
1.00 496/4 |
0.90 492/8 |
0.50 473/27 |
0.75 469/31 |
|
| 0.95 386/44 |
0.95 499/0 |
0.95 497/2 |
0.95 497/2 |
0.95 498/2 |
0.95 495/5 |
0.95 499/1 |
0.95 499/1 |
||
| Pyrococcus horikoshii |
0.05 |
0.75 134/1 |
0.50 1/0 |
0.75 5/0 |
0.50 8/0 |
0.75 98/2 |
0.75 58/1 |
0.50 23/11 |
0.90 303/84 |
| 0.10 |
0.75 389/1 |
0.95 358/2 |
0.75 137/0 |
0.50 120/1 |
0.75 455/8 |
0.75 440/5 |
0.50 258/153 |
0.90 381/110 |
|
| 0.25 |
0.75 411/1 |
0.95 466/2 |
0.50 23/0 |
0.50 177/1 |
0.75 484/9 |
0.75 494/6 |
0.50 324/176 |
0.90 388/112 |
|
| 0.95 498/0 |
0.95 428/0 |
0.95 500/0 |
0.95 494/6 |
0.95 496/4 |
0.95 476/26 |
0.95 460/40 |
|||
| Clostridium acetobutylicum |
0.05 |
1.00 20/7 |
0.50 5/1 |
0.75 134/42 |
0.50 46/37 |
0.75 157/6 |
0.50 50/32 |
0.25 60/20 |
0.75 121/242 |
| 0.10 |
1.00 60/39 |
0.00 4/2 |
0.75 335/137 |
0.50 309/148 |
0.75 452/19 |
0.50 299/167 |
0.25 312/151 |
0.75 181/306 |
|
| 0.25 |
1.00 79/44 |
0.00 7/2 |
0.75 354/146 |
0.50 338/162 |
0.50 472/23 |
0.25 378/122 |
0.25 339/161 |
0.75 188/312 |
|
| 0.95 66/35 |
0.95 155/0 |
0.95 405/95 |
0.95 495/5 |
0.95 494/6 |
0.95 496/4 |
0.95 470/30 |
0.95 405/95 |
||
|
For each pair of donor and acceptor, the worst case is given for three values of AMELI. Each entry lists the fraction FRAC and the number of correct/incorrect prediction generated for a dataset consisting of 500 sequences. The last line gives the number of correct/incorrect predictions for a FRAC value of 0.95. | |||||||||
Merkl BMC Bioinformatics 2004 5:22 doi:10.1186/1471-2105-5-22 |
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