| RED | =100 % Complementary sequence |
| . | =Identical residue |
| blue alphabets | =mismatch |
| _ | =Gap |
| Acc number | miRNA | Start | Alignment | End | % Identity |
| Query | 1 | cgcggtc | 7 | ||
| VMR_0405 | kshv-miR-k12-3-3p | 2 | ....... | 8 | 100 |
| VMR_0404 | kshv-miR-k12-3* | 2 | ....... | 8 | 100 |
| VMR_1101 | rrv-miR-rr1-15-5p | 1 | _...... | 6 | 85 |
| VMR_1100 | rrv-miR-rr1-15-5p | 2 | _...... | 7 | 85 |
| VMR_1099 | rrv-miR-rr1-15-5p | 2 | _...... | 7 | 85 |
| VMR_1098 | rrv-miR-rr1-15-5p | 2 | _...... | 7 | 85 |
| VMR_1097 | rrv-miR-rr1-15-5p | 2 | _...... | 7 | 85 |
| VMR_1157 | rrv-miR-rr1-9-3p | 2 | _...... | 7 | 85 |
| VMR_1156 | rrv-miR-rr1-9-3p | 1 | _...... | 6 | 85 |
| VMR_1154 | rrv-miR-rr1-9-3p | 1 | _...... | 6 | 85 |
| VMR_1153 | rrv-miR-rr1-9-3p | 1 | _...... | 6 | 85 |
| VMR_1152 | rrv-miR-rr1-9-3p | 1 | _...... | 6 | 85 |
| VMR_0432 | mcmv-miR-m108-2-5p.1 | 1 | _...... | 6 | 85 |
| VMR_0238 | hcmv-miR-us25-2-5p | 2 | _...... | 7 | 85 |
| VMR_0072 | dev-miR-d17-3p | 6 | _...... | 1 | 85 |
