| RED | =100 % Complementary sequence |
| . | =Identical residue |
| blue alphabets | =mismatch |
| _ | =Gap |
| Acc number | miRNA | Start | Alignment | End | % Identity |
| Query | 1 | cgggcac | 7 | ||
| MIMAT0012544 | mdv2-miR-M26-3p | 2 | ....... | 8 | 100 |
| MIMAT0034404 | cfa-miR-8896 | 3 | ......_ | 8 | 85 |
| MIMAT0034146 | gra-miR399 | 1 | _...... | 6 | 85 |
| MIMAT0031417 | mmu-miR-8111 | 3 | ......_ | 8 | 85 |
| MIMAT0031398 | mmu-miR-8096 | 1 | _...... | 6 | 85 |
| MIMAT0030840 | prd-miR-7969-5p | 8 | _...... | 3 | 85 |
| MIMAT0029901 | mmu-miR-290b-3p | 8 | _...... | 3 | 85 |
| MIMAT0031068 | oan-miR-124a-2-3p | 3 | _...... | 8 | 85 |
| MIMAT0028752 | mdo-miR-1545c-5p | 7 | _...... | 2 | 85 |
| MIMAT0028154 | ssc-miR-7139-3p | 3 | _...... | 8 | 85 |
| MIMAT0028070 | mmu-miR-7082-5p | 3 | ......_ | 8 | 85 |
| MIMAT0027625 | hsa-miR-6862-5p | 1 | ......_ | 6 | 85 |
| MIMAT0025774 | gga-miR-6672-3p | 2 | _...... | 7 | 85 |
| MIMAT0025664 | gga-miR-6578-3p | 1 | _...... | 6 | 85 |
| MIMAT0023057 | tur-miR-5731-3p | 2 | _...... | 7 | 85 |
| MIMAT0022994 | gma-miR169l-3p | 1 | ......_ | 6 | 85 |
| MIMAT0021571 | asu-miR-5355-3p | 8 | _...... | 3 | 85 |
| MIMAT0019893 | hsa-miR-371b-3p | 8 | _...... | 3 | 85 |
| MIMAT0017968 | ssc-miR-4335 | 6 | _...... | 1 | 85 |
| MIMAT0016764 | cin-miR-4158-5p | 6 | ......_ | 1 | 85 |
| MIMAT0013970 | bhv1-miR-B8-5p | 3 | ......_ | 8 | 85 |
| MIMAT0013967 | bhv1-miR-B6-5p | 8 | _...... | 3 | 85 |
| MIMAT0012855 | rno-miR-666-5p | 3 | ......_ | 8 | 85 |
| MIMAT0011898 | bta-miR-2360 | 1 | ......_ | 6 | 85 |
| MIMAT0009443 | mmu-miR-1946b | 3 | ......_ | 8 | 85 |
| MIMAT0007447 | gga-miR-1585 | 7 | _...... | 2 | 85 |
| MIMAT0007421 | gga-miR-1562-3p | 7 | _...... | 2 | 85 |
| MIMAT0003737 | mmu-miR-666-5p | 3 | ......_ | 8 | 85 |
| MIMAT0015138 | zma-miR164b-3p | 8 | _...... | 3 | 85 |
| MIMAT0000329 | cel-miR-273 | 6 | ......_ | 1 | 85 |
