| RED | =100 % Complementary sequence |
| . | =Identical residue |
| blue alphabets | =mismatch |
| _ | =Gap |
| Acc number | miRNA | Start | Alignment | End | % Identity |
| Query | 1 | ggggggc | 7 | ||
| VMR_0336 | hsv2-miR-h5 | 2 | ....... | 8 | 100 |
| VMR_0336 | hsv2-miR-h5 | 1 | ......_ | 6 | 85 |
| VMR_0897 | rcmv-miR-r111.1-3 | 3 | _...... | 8 | 85 |
| VMR_0896 | rcmv-miR-r111.1-3 | 3 | _...... | 8 | 85 |
| VMR_0820 | prv-miR-8-5p | 1 | _...... | 6 | 85 |
| VMR_0819 | prv-miR-8-5p | 2 | _...... | 7 | 85 |
| VMR_0818 | prv-miR-8-5p | 3 | _...... | 8 | 85 |
| VMR_0817 | prv-miR-8-5p | 2 | _...... | 7 | 85 |
| VMR_0816 | prv-miR-8-5p | 3 | _...... | 8 | 85 |
| VMR_0813 | prv-miR-8-5p | 2 | _...... | 7 | 85 |
| VMR_0812 | prv-miR-8-5p | 3 | _...... | 8 | 85 |
| VMR_0810 | prv-miR-8-5p | 2 | _...... | 7 | 85 |
| VMR_0809 | prv-miR-8-5p | 3 | _...... | 8 | 85 |
| VMR_0804 | prv-miR-8-5p | 2 | _...... | 7 | 85 |
| VMR_0803 | prv-miR-8-5p | 3 | _...... | 8 | 85 |
| VMR_0799 | prv-miR-8-5p | 3 | _...... | 8 | 85 |
| VMR_0797 | prv-miR-8-5p | 3 | _...... | 8 | 85 |
| VMR_0795 | prv-miR-8-5p | 2 | _...... | 7 | 85 |
| VMR_0780 | prv-miR-7-5p | 2 | ......_ | 7 | 85 |
| VMR_0779 | prv-miR-7-5p | 3 | ......_ | 8 | 85 |
| VMR_0776 | prv-miR-7-5p | 2 | ......_ | 7 | 85 |
| VMR_0774 | prv-miR-7-5p | 3 | ......_ | 8 | 85 |
| VMR_0772 | prv-miR-7-5p | 2 | ......_ | 7 | 85 |
| VMR_0771 | prv-miR-7-5p | 3 | ......_ | 8 | 85 |
| VMR_0768 | prv-miR-7-5p | 2 | ......_ | 7 | 85 |
| VMR_0767 | prv-miR-7-5p | 3 | ......_ | 8 | 85 |
| VMR_0764 | prv-miR-7-5p | 3 | ......_ | 8 | 85 |
| VMR_0465 | mdv1-miR-m3* | 2 | ......_ | 7 | 85 |
| VMR_0438 | mcmv-miR-m23-2 | 3 | _...... | 8 | 85 |
| VMR_0311 | hsv1-miR-h5-5p | 1 | ......_ | 6 | 85 |
| VMR_0311 | hsv1-miR-h5-5p | 2 | ......_ | 7 | 85 |
| VMR_0318 | hsv1-miR-h8* | 6 | _...... | 1 | 85 |
| VMR_0036 | bhv5-miR-b14 | 2 | ......_ | 7 | 85 |
