Table 2.
Whole genome ranks for predicted miRNA-IE target pairs in four herpesviruses
| Virus | 3′ UTR* | Length | miRNA | Seed | Count | Rank A† | Percentile | Rank B |
|---|---|---|---|---|---|---|---|---|
| HSV-1 | ICP0 | 186 | hsv1-miR-LAT | 3–8 | 1 | 4 of 154 | 97.40 | 12 of 154 |
| EBV | BZLF1, BRLF1 | 53 | ebv-miR-BART15 | 2–8 | 1 | 3 of 2,720 | 99.89 | 4 of 2,720 |
| EBV | BZLF1, BRLF1 | 53 | ebv-miR-BHRF1-3 | 2–8 | 1 | 4 of 2,720 | 99.85 | 3 of 2,720 |
| HCMV | IE1 | 92 | hcmv-miR-UL112-1 | 2–8 | 1 | 10 of 4,896 | 99.80 | 9 of 4,896 |
| KSHV | Zta, Rta | 1,144 | kshv-miR-K12-6-3p | 3–8 | 4 | 1 of 1,394 | 99.93 | 1 of 1,394 |
The table reports the top miRNA-IE target pairs for HSV-1, EBV, KSHV, and HCMV after sorting by PVSH score.
*BZLF1 and BRLF1 as well as Zta and Rta give rise to 3′ coterminal transcripts and therefore genes in each pair have the same 3′UTRs.
†Rank A (resp. rank B) denotes the rank among all possible miRNA—3′UTR pairs sorted by P values computed for the random sequence based on the first-order local (resp. the third-order global) MM. Percentile corresponds to Rank A.