| RED | =100 % Complementary sequence |
| . | =Identical residue |
| blue alphabets | =mismatch |
| _ | =Gap |
| Acc number | miRNA | Start | Alignment | End | % Identity |
| Query | 1 | gccggcgc | 8 | ||
| VMR_0023 | bhv1-miR-b2 | 1 | ........ | 8 | 100 |
| VMR_0023 | bhv1-miR-b2 | 6 | ......__ | 1 | 75 |
| VMR_0233 | hcmv-miR-us22-3p6 | 8 | ......._ | 2 | 87 |
| VMR_0233 | hcmv-miR-us22-3p6 | 3 | ......__ | 8 | 75 |
| VMR_0176 | hbv-miR-b21rc-5p | 7 | _....... | 1 | 87 |
| VMR_0174 | hbv-miR-b21rc-5p | 8 | _....... | 2 | 87 |
| VMR_0173 | hbv-miR-b21rc-5p | 7 | _....... | 1 | 87 |
| VMR_0172 | hbv-miR-b21rc-5p | 8 | _....... | 2 | 87 |
| VMR_0171 | hbv-miR-b21rc-5p | 7 | _....... | 1 | 87 |
| VMR_0331 | hsv2-miR-h24 | 3 | _......_ | 8 | 75 |
| VMR_0287 | hsv1-miR-59899 | 3 | _......_ | 8 | 75 |
| VMR_0175 | hbv-miR-b21rc-5p | 6 | _......_ | 1 | 75 |
| VMR_0035 | bhv5-miR-b13 | 2 | _......_ | 7 | 75 |
