| RED | =100 % Complementary sequence |
| . | =Identical residue |
| blue alphabets | =mismatch |
| _ | =Gap |
| Acc number | miRNA | Start | Alignment | End | % Identity |
| Query | 1 | cccgacgg | 8 | ||
| MIMAT0012713 | hvt-miR-H3-3p | 1 | ........ | 8 | 100 |
| MIMAT0014551 | tgu-miR-2994 | 7 | ......._ | 1 | 87 |
| MIMAT0012315 | dps-miR-2526-3p | 8 | _....... | 2 | 87 |
| MIMAT0007414 | gga-miR-1557 | 8 | _....... | 2 | 87 |
| MIMAT0036257 | chi-miR-496-5p | 8 | ......__ | 3 | 75 |
| MIMAT0035810 | tae-miR9657b-5p | 8 | _......_ | 3 | 75 |
| MIMAT0035212 | dme-miR-9374-3p | 7 | ......__ | 2 | 75 |
| MIMAT0033969 | esi-miR8630 | 3 | _......_ | 8 | 75 |
| MIMAT0025297 | mja-miR-6489-3p | 1 | __...... | 6 | 75 |
| MIMAT0025015 | hme-miR-6308-3p | 1 | __...... | 6 | 75 |
| MIMAT0024857 | mmu-miR-6236 | 7 | __...... | 2 | 75 |
| MIMAT0024776 | nta-miR482d | 3 | ......__ | 8 | 75 |
| MIMAT0023439 | hco-miR-5943 | 6 | _......_ | 1 | 75 |
| MIMAT0021545 | asu-miR-5347-3p | 1 | __...... | 6 | 75 |
| MIMAT0019319 | oar-miR-496-5p | 8 | ......__ | 3 | 75 |
| MIMAT0017765 | esi-miR3461-5p | 2 | __...... | 7 | 75 |
| MIMAT0013850 | bta-miR-2892 | 3 | __...... | 8 | 75 |
| MIMAT0013816 | osa-miR2869 | 2 | ......__ | 7 | 75 |
| MIMAT0013347 | mtr-miR2626 | 8 | _......_ | 3 | 75 |
| MIMAT0007949 | ptr-miR-1181 | 6 | __...... | 1 | 75 |
| MIMAT0005826 | hsa-miR-1181 | 6 | __...... | 1 | 75 |
