| RED | =100 % Complementary sequence |
| . | =Identical residue |
| blue alphabets | =mismatch |
| _ | =Gap |
| Acc number | miRNA | Start | Alignment | End | % Identity |
| Query | 1 | cgcacgtc | 8 | ||
| MIMAT0004416 | rrv-miR-rR1-7-3p | 1 | ........ | 8 | 100 |
| MIMAT0037213 | ata-miR164a-3p | 8 | ......._ | 2 | 87 |
| MIMAT0027715 | mmu-miR-6907-3p | 8 | ......._ | 2 | 87 |
| MIMAT0019638 | pma-miR-4604 | 7 | ......._ | 1 | 87 |
| MIMAT0016807 | cin-miR-4189-5p | 7 | ......._ | 1 | 87 |
| MIMAT0016659 | cin-miR-4085-5p | 2 | ......._ | 8 | 87 |
| MIMAT0015318 | zma-miR164f-3p | 8 | ......._ | 2 | 87 |
| MIMAT0035871 | bra-miR164e-3p | 7 | _......_ | 2 | 75 |
| MIMAT0032745 | ssa-miR-2184-3p | 1 | _......_ | 6 | 75 |
| MIMAT0030720 | prd-miR-1-5p | 6 | _......_ | 1 | 75 |
| MIMAT0030596 | prd-miR-7966a-5p | 1 | __...... | 6 | 75 |
| MIMAT0030487 | prd-miR-7871-3p | 1 | _......_ | 6 | 75 |
| MIMAT0029785 | lco-miR-7642-3p | 8 | __...... | 3 | 75 |
| MIMAT0029784 | sci-miR-7642-3p | 8 | __...... | 3 | 75 |
| MIMAT0027627 | hsa-miR-6863 | 8 | __...... | 3 | 75 |
| MIMAT0027435 | hsa-miR-6767-3p | 8 | _......_ | 3 | 75 |
| MIMAT0024554 | cca-miR6114-3p | 2 | __...... | 7 | 75 |
| MIMAT0021327 | mtr-miR5283 | 6 | ......__ | 1 | 75 |
| MIMAT0027044 | bdi-miR160a-3p | 7 | ......__ | 2 | 75 |
| MIMAT0019644 | pma-miR-4610 | 7 | _......_ | 2 | 75 |
| MIMAT0019640 | pma-miR-4606 | 8 | ......__ | 3 | 75 |
| MIMAT0019594 | pma-miR-4562 | 6 | ......__ | 1 | 75 |
| MIMAT0018268 | gma-miR4371c | 6 | __...... | 1 | 75 |
| MIMAT0018726 | tca-miR-3841-5p | 6 | ......__ | 1 | 75 |
| MIMAT0018679 | tca-miR-3825-3p | 8 | ......__ | 3 | 75 |
| MIMAT0014525 | tgu-miR-2989 | 1 | _......_ | 6 | 75 |
| MIMAT0015319 | zma-miR164g-3p | 7 | _......_ | 2 | 75 |
| MIMAT0012872 | hvt-miR-H17-5p | 3 | __...... | 8 | 75 |
| MIMAT0012212 | dme-miR-2499-5p | 6 | ......__ | 1 | 75 |
| MIMAT0012028 | bta-miR-2450c | 1 | __...... | 6 | 75 |
| MIMAT0008398 | hsv1-miR-H2-5p | 2 | ......__ | 7 | 75 |
| MIMAT0006385 | mml-miR-519b | 7 | _......_ | 2 | 75 |
| MIMAT0007690 | gga-miR-1779 | 7 | __...... | 2 | 75 |
| MIMAT0012546 | mdv2-miR-M30-3p | 8 | __...... | 3 | 75 |
| MIMAT0017274 | mmu-miR-466h-3p | 3 | ......__ | 8 | 75 |
| MIMAT0003341 | hcmv-miR-US4-5p | 8 | __...... | 3 | 75 |
| MIMAT0002078 | ptc-miR478c | 7 | __...... | 2 | 75 |
| MIMAT0002077 | ptc-miR478b | 7 | __...... | 2 | 75 |
| MIMAT0002076 | ptc-miR478a | 7 | __...... | 2 | 75 |
| MIMAT0015209 | zma-miR160f-3p | 7 | ......__ | 2 | 75 |
| MIMAT0015134 | zma-miR160d-3p | 7 | ......__ | 2 | 75 |
| MIMAT0022867 | osa-miR160e-3p | 7 | ......__ | 2 | 75 |
| MIMAT0022854 | osa-miR160d-3p | 7 | ......__ | 2 | 75 |
