| RED | =100 % Complementary sequence |
| . | =Identical residue |
| blue alphabets | =mismatch |
| _ | =Gap |
| Acc number | miRNA | Start | Alignment | End | % Identity |
| Query | 1 | cggtcac | 7 | ||
| VMR_1101 | rrv-miR-rr1-15-5p | 2 | ....... | 8 | 100 |
| VMR_0432 | mcmv-miR-m108-2-5p.1 | 2 | ....... | 8 | 100 |
| VMR_0429 | mcmv-miR-m107-1-5p | 1 | ....... | 7 | 100 |
| VMR_1100 | rrv-miR-rr1-15-5p | 3 | ......_ | 8 | 85 |
| VMR_1099 | rrv-miR-rr1-15-5p | 3 | ......_ | 8 | 85 |
| VMR_1098 | rrv-miR-rr1-15-5p | 3 | ......_ | 8 | 85 |
| VMR_1097 | rrv-miR-rr1-15-5p | 3 | ......_ | 8 | 85 |
| VMR_1157 | rrv-miR-rr1-9-3p | 3 | ......_ | 8 | 85 |
| VMR_1156 | rrv-miR-rr1-9-3p | 2 | ......_ | 7 | 85 |
| VMR_1155 | rrv-miR-rr1-9-3p | 1 | ......_ | 6 | 85 |
| VMR_1154 | rrv-miR-rr1-9-3p | 2 | ......_ | 7 | 85 |
| VMR_1153 | rrv-miR-rr1-9-3p | 2 | ......_ | 7 | 85 |
| VMR_1152 | rrv-miR-rr1-9-3p | 2 | ......_ | 7 | 85 |
| VMR_0948 | rhcmv-miR-rh183-2 | 3 | ......_ | 8 | 85 |
| VMR_0482 | mdv1-miR-m8-3p | 6 | _...... | 1 | 85 |
| VMR_0446 | mcmv-miR-m88-1* | 7 | ......_ | 2 | 85 |
| VMR_0398 | kshv-miR-k12-11* | 1 | _...... | 6 | 85 |
