Table 4.
Primers found for each subtype of avian influenza HA and comparison with number of probes generated by related tools
| Subtype | Number of targets | Number of Nontargets | Avg. percentage of diss. | Number of FP | Number of RP | Number of PP | Number of probes SlicSel | Number of probes OligoSpawn |
|---|---|---|---|---|---|---|---|---|
| H1 | 48 | 526 | 8.4 | 51 | 52 | 70 | 20 | 2 |
| H2 | 41 | 533 | 9.1 | 42 | 43 | 187 | 14 | 2 |
| H3 | 72 | 502 | 11.1 | 41 | 61 | 135 | 7 | 1 |
| H4 | 67 | 507 | 7.4 | 265 | 225 | 3724 | 18 | 2 |
| H5 | 69 | 505 | 9.1 | 68 | 66 | 160 | 17 | 1 |
| H6 | 100 | 474 | 15.4 | 36 | 27 | 3 | 4 | 3 |
| H7 | 55 | 519 | 8.9 | 77 | 81 | 260 | 2 | 1 |
| H8 | 9 | 565 | 6.3 | 489 | 482 | 14415 | 100 | 1 |
| H9 | 23 | 551 | 8.7 | 140 | 152 | 1222 | 58 | 1 |
| H10 | 16 | 558 | 6.8 | 243 | 302 | 3712 | 35 | 1 |
| H11 | 45 | 529 | 5.9 | 267 | 262 | 4117 | 32 | 1 |
| H12 | 15 | 559 | 7.1 | 472 | 494 | 12895 | 52 | 1 |
| H13 | 10 | 564 | 14.4 | 41 | 33 | 98 | 1 | 2 |
| H16 | 4 | 570 | 9.5 | 367 | 352 | 7629 | 68 | 1 |
The dissimilarity within a subtype is calculated as the average pairwise Hamming distance in the multiple sequence alignment expressed as percentage of the average sequence length. (FP: forward primers; RP: reverse primers; PP: primer pairs)