| RED | =100 % Complementary sequence |
| . | =Identical residue |
| blue alphabets | =mismatch |
| _ | =Gap |
| Acc number | miRNA | Start | Alignment | End | % Identity |
| Query | 1 | tcgcggtc | 8 | ||
| MIMAT0002194 | kshv-miR-K12-3-3p | 1 | ........ | 8 | 100 |
| MIMAT0032960 | ppc-miR-8248-5p | 1 | _....... | 7 | 87 |
| MIMAT0019658 | pma-miR-4624 | 2 | _....... | 8 | 87 |
| MIMAT0026616 | hsa-miR-579-5p | 1 | ......._ | 7 | 87 |
| MIMAT0030263 | bdi-miR7758-3p | 1 | .a...... | 8 | 87 |
| MIMAT0037137 | ata-miR169c-3p | 2 | __...... | 7 | 75 |
| MIMAT0034288 | cfa-miR-8798 | 2 | __...... | 7 | 75 |
| MIMAT0033225 | ppc-miR-8340-5p | 2 | ......__ | 7 | 75 |
| MIMAT0029563 | ipu-miR-7564 | 6 | _......_ | 1 | 75 |
| MIMAT0029561 | ipu-miR-7563b | 6 | _......_ | 1 | 75 |
| MIMAT0029560 | ipu-miR-7563a | 7 | _......_ | 2 | 75 |
| MIMAT0028621 | mdo-miR-7311-3p | 7 | ......__ | 2 | 75 |
| MIMAT0028191 | dev-miR-D17-3p | 6 | __...... | 1 | 75 |
| MIMAT0022330 | cin-miR-5602-3p | 7 | _......_ | 2 | 75 |
| MIMAT0019637 | pma-miR-4603 | 1 | _......_ | 6 | 75 |
| MIMAT0019588 | pma-miR-4556 | 6 | ......__ | 1 | 75 |
| MIMAT0019581 | pma-miR-4549 | 8 | __...... | 3 | 75 |
| MIMAT0018631 | tca-miR-2765-3p | 3 | __...... | 8 | 75 |
| MIMAT0018563 | ame-miR-3784 | 1 | ......__ | 6 | 75 |
| MIMAT0016610 | cin-miR-4061-5p | 3 | __...... | 8 | 75 |
| MIMAT0017782 | esi-miR3451-3p | 1 | ......__ | 6 | 75 |
| MIMAT0014986 | hsa-miR-3124-5p | 2 | ......__ | 7 | 75 |
| MIMAT0014260 | aae-miR-308-5p | 1 | _......_ | 6 | 75 |
| MIMAT0013770 | bmo-miR-2848 | 2 | ......__ | 7 | 75 |
| MIMAT0011490 | cbr-miR-64b | 8 | __...... | 3 | 75 |
| MIMAT0011290 | dre-miR-2185-3p | 7 | ......__ | 2 | 75 |
| MIMAT0009178 | oan-miR-1421i-3-3p | 8 | ......__ | 3 | 75 |
| MIMAT0009177 | oan-miR-1421i-2-3p | 8 | ......__ | 3 | 75 |
| MIMAT0007233 | oan-miR-1413-3p | 8 | ......__ | 3 | 75 |
| MIMAT0007151 | oan-miR-1385 | 7 | _......_ | 2 | 75 |
| MIMAT0005560 | mcmv-miR-m108-2-5p.1 | 1 | __...... | 6 | 75 |
| MIMAT0001582 | hcmv-miR-US25-2-5p | 2 | __...... | 7 | 75 |
| MIMAT0026431 | sbi-miR169d-3p | 3 | __...... | 8 | 75 |
