| RED | =100 % Complementary sequence |
| . | =Identical residue |
| blue alphabets | =mismatch |
| _ | =Gap |
| Acc number | miRNA | Start | Alignment | End | % Identity |
| Query | 1 | gatgtacg | 8 | ||
| MIMAT0009807 | nve-miR-2042-3p | 7 | _....... | 1 | 87 |
| MIMAT0009706 | cte-miR-1995 | 7 | ......._ | 1 | 87 |
| MIMAT0004414 | rrv-miR-rR1-6-3p | 2 | ......._ | 8 | 87 |
| MIMAT0036801 | oha-miR-1c-5p | 6 | _......_ | 1 | 75 |
| MIMAT0036253 | chi-miR-493-5p | 8 | _......_ | 3 | 75 |
| MIMAT0035340 | gsa-miR-9397-5p | 2 | ......__ | 7 | 75 |
| MIMAT0035325 | gsa-miR-184c-3p | 1 | ......__ | 6 | 75 |
| MIMAT0035094 | efu-miR-1185 | 2 | _......_ | 7 | 75 |
| MIMAT0034929 | efu-miR-493 | 8 | _......_ | 3 | 75 |
| MIMAT0034233 | gra-miR8783 | 3 | __...... | 8 | 75 |
| MIMAT0034076 | gra-miR8695 | 3 | ......__ | 8 | 75 |
| MIMAT0033953 | esi-miR8618b | 7 | __...... | 2 | 75 |
| MIMAT0033863 | atr-miR8579 | 3 | ......__ | 8 | 75 |
| MIMAT0032741 | ssa-miR-8158-3p | 3 | __...... | 8 | 75 |
| MIMAT0030955 | stu-miR8041b-3p | 3 | ......__ | 8 | 75 |
| MIMAT0030954 | stu-miR8041a-3p | 3 | ......__ | 8 | 75 |
| MIMAT0030846 | stu-miR7979 | 8 | _......_ | 3 | 75 |
| MIMAT0030324 | bdi-miR7784b-5p | 6 | _......_ | 1 | 75 |
| MIMAT0030322 | bdi-miR7784a-5p | 6 | _......_ | 1 | 75 |
| MIMAT0026445 | sbi-miR6232a-3p | 3 | ......__ | 8 | 75 |
| MIMAT0025377 | ssc-miR-493-5p | 8 | _......_ | 3 | 75 |
| MIMAT0024982 | hme-miR-3338 | 1 | _......_ | 6 | 75 |
| MIMAT0027336 | ppe-miR6297b | 1 | ......__ | 6 | 75 |
| MIMAT0024505 | mse-miR-6097 | 2 | __...... | 7 | 75 |
| MIMAT0024432 | mse-miR-3338 | 1 | _......_ | 6 | 75 |
| MIMAT0024249 | ggo-miR-493 | 8 | _......_ | 3 | 75 |
| MIMAT0023154 | mtr-miR2593d | 7 | ......__ | 2 | 75 |
| MIMAT0023148 | mtr-miR2593e | 7 | ......__ | 2 | 75 |
| MIMAT0022576 | ola-miR-33 | 3 | _......_ | 8 | 75 |
| MIMAT0023015 | bra-miR1885b | 6 | ......__ | 1 | 75 |
| MIMAT0022352 | cin-miR-5612-3p | 8 | ......__ | 3 | 75 |
| MIMAT0019237 | oar-miR-493-5p | 8 | _......_ | 3 | 75 |
| MIMAT0018759 | tca-miR-3851a-3p | 8 | _......_ | 3 | 75 |
| MIMAT0018685 | tca-miR-3811a-3p | 2 | _......_ | 7 | 75 |
| MIMAT0018677 | tca-miR-3811b-3p | 2 | _......_ | 7 | 75 |
| MIMAT0018665 | tca-miR-3811e-3p | 2 | _......_ | 7 | 75 |
| MIMAT0018651 | tca-miR-3811d-3p | 2 | _......_ | 7 | 75 |
| MIMAT0018645 | tca-miR-3811c-3p | 2 | _......_ | 7 | 75 |
| MIMAT0018639 | tca-miR-3808-3p | 2 | _......_ | 7 | 75 |
| MIMAT0018102 | hsa-miR-3678-5p | 8 | __...... | 3 | 75 |
| MIMAT0016756 | cin-miR-4152-5p | 2 | ......__ | 7 | 75 |
| MIMAT0016552 | cin-miR-4031-3p | 3 | _......_ | 8 | 75 |
| MIMAT0017757 | esi-miR3450-5p | 6 | ......__ | 1 | 75 |
| MIMAT0017440 | aly-miR160c-3p | 7 | __...... | 2 | 75 |
| MIMAT0017438 | aly-miR160b-3p | 7 | __...... | 2 | 75 |
| MIMAT0015608 | bmo-miR-3347b | 6 | ......__ | 1 | 75 |
| MIMAT0015533 | bmo-miR-3347a | 6 | ......__ | 1 | 75 |
| MIMAT0015526 | bmo-miR-3338-3p | 1 | _......_ | 6 | 75 |
| MIMAT0015046 | hsa-miR-3171 | 2 | ......__ | 7 | 75 |
| MIMAT0012039 | bta-miR-1434-5p | 6 | _......_ | 1 | 75 |
| MIMAT0026884 | mml-miR-493-5p | 8 | _......_ | 3 | 75 |
| MIMAT0007284 | gga-miR-1397-3p | 1 | ......__ | 6 | 75 |
| MIMAT0017276 | mmu-miR-493-5p | 8 | _......_ | 3 | 75 |
| MIMAT0020347 | cel-miR-784-3p | 2 | _......_ | 7 | 75 |
| MIMAT0017217 | rno-miR-493-5p | 8 | _......_ | 3 | 75 |
| MIMAT0002813 | hsa-miR-493-5p | 8 | _......_ | 3 | 75 |
| MIMAT0031875 | ath-miR160c-3p | 6 | __...... | 1 | 75 |
