| RED | =100 % Complementary sequence |
| . | =Identical residue |
| blue alphabets | =mismatch |
| _ | =Gap |
| Acc number | miRNA | Start | Alignment | End | % Identity |
| Query | 1 | ctcggagg | 8 | ||
| MIMAT0015376 | hsv2-miR-H9-5p | 1 | ........ | 8 | 100 |
| MIMAT0013966 | bhv1-miR-B5 | 1 | ........ | 8 | 100 |
| MIMAT0035753 | bfv-miR-BF1-5p | 2 | _....... | 8 | 87 |
| MIMAT0033244 | ppc-miR-8348-5p | 8 | ......._ | 2 | 87 |
| MIMAT0029854 | mmu-miR-3569-5p | 1 | _....... | 7 | 87 |
| MIMAT0025548 | bta-miR-3957 | 1 | ......._ | 7 | 87 |
| MIMAT0022108 | pti-miR5475 | 1 | _....... | 7 | 87 |
| MIMAT0019325 | oar-miR-3957-5p | 1 | ......._ | 7 | 87 |
| MIMAT0007609 | gga-miR-1713 | 1 | ......._ | 7 | 87 |
| MIMAT0025566 | bta-miR-6530 | 1 | .g...... | 8 | 87 |
| MIMAT0017982 | hsa-miR-3605-3p | 8 | .a...... | 1 | 87 |
| MIMAT0017727 | aly-miR3446-5p | 1 | ......a. | 8 | 87 |
| MIMAT0037042 | ssc-miR-9824-5p | 3 | __...... | 8 | 75 |
| MIMAT0035538 | bdi-miR5174f | 6 | __...... | 1 | 75 |
| MIMAT0035266 | gsa-miR-2a-5p | 7 | ......__ | 2 | 75 |
| MIMAT0035195 | efu-miR-9368 | 6 | ......__ | 1 | 75 |
| MIMAT0034918 | efu-miR-9280 | 8 | _......_ | 3 | 75 |
| MIMAT0034625 | eca-miR-9080 | 7 | ......__ | 2 | 75 |
| MIMAT0034608 | eca-miR-9063 | 6 | ......__ | 1 | 75 |
| MIMAT0034568 | eca-miR-9026 | 8 | ......__ | 3 | 75 |
| MIMAT0034384 | cfa-miR-8882 | 6 | ......__ | 1 | 75 |
| MIMAT0034175 | gra-miR8749 | 2 | ......__ | 7 | 75 |
| MIMAT0033916 | atr-miR166b | 2 | ......__ | 7 | 75 |
| MIMAT0033402 | str-miR-87a-5p | 3 | _......_ | 8 | 75 |
| MIMAT0033180 | ppc-miR-8320-5p | 8 | ......__ | 3 | 75 |
| MIMAT0030271 | bdi-miR7762-3p | 1 | ......__ | 6 | 75 |
| MIMAT0030188 | bdi-miR7728-5p | 3 | ......__ | 8 | 75 |
| MIMAT0030107 | bdi-miR5181c-5p | 6 | __...... | 1 | 75 |
| MIMAT0030105 | bdi-miR5174d-5p | 8 | __...... | 3 | 75 |
| MIMAT0030103 | bdi-miR5174c-5p | 8 | __...... | 3 | 75 |
| MIMAT0029994 | mtr-miR7697-5p | 6 | ......__ | 1 | 75 |
| MIMAT0029576 | ipu-miR-7577 | 1 | ......__ | 6 | 75 |
| MIMAT0028856 | mdo-miR-7386f-5p | 2 | ......__ | 7 | 75 |
| MIMAT0025828 | gga-miR-6557-5p | 2 | __...... | 7 | 75 |
| MIMAT0025639 | gga-miR-6567-5p | 8 | _......_ | 3 | 75 |
| MIMAT0025079 | mmu-miR-6336 | 2 | ......__ | 7 | 75 |
| MIMAT0024903 | gma-miR166u | 2 | ......__ | 7 | 75 |
| MIMAT0024592 | bta-miR-6121-5p | 1 | _......_ | 6 | 75 |
| MIMAT0024566 | cca-miR6118-3p | 7 | ......__ | 2 | 75 |
| MIMAT0023988 | cgr-miR-615-3p | 6 | ......__ | 1 | 75 |
| MIMAT0023439 | hco-miR-5943 | 3 | _......_ | 8 | 75 |
| MIMAT0023223 | gma-miR166k | 2 | ......__ | 7 | 75 |
| MIMAT0020687 | bdi-miR166e-3p | 1 | ......__ | 6 | 75 |
| MIMAT0020658 | bdi-miR166f | 2 | ......__ | 7 | 75 |
| MIMAT0020595 | ssc-miR-615 | 6 | ......__ | 1 | 75 |
| MIMAT0020984 | gma-miR166h-3p | 2 | ......__ | 7 | 75 |
| MIMAT0019614 | pma-miR-4581 | 2 | ......__ | 7 | 75 |
| MIMAT0018191 | hsa-miR-3917 | 2 | ......__ | 7 | 75 |
| MIMAT0018138 | pab-miR3706 | 3 | _......_ | 8 | 75 |
| MIMAT0016091 | ppy-miR-658 | 3 | __...... | 8 | 75 |
| MIMAT0016057 | ppy-miR-615-3p | 6 | ......__ | 1 | 75 |
| MIMAT0017775 | esi-miR3459-5p | 3 | __...... | 8 | 75 |
| MIMAT0017743 | esi-miR3464-5p | 1 | _......_ | 6 | 75 |
| MIMAT0015576 | bmo-miR-3382-3p | 8 | __...... | 3 | 75 |
| MIMAT0014455 | tgu-miR-2957 | 1 | _......_ | 6 | 75 |
| MIMAT0016948 | rlcv-miR-rL1-24-3p | 3 | _......_ | 8 | 75 |
| MIMAT0012977 | eca-miR-615-3p | 6 | ......__ | 1 | 75 |
| MIMAT0012714 | hvt-miR-H4-5p | 3 | __...... | 8 | 75 |
| MIMAT0010033 | mtr-miR1510a-3p | 1 | __...... | 6 | 75 |
| MIMAT0009694 | aqu-miR-2018-5p | 3 | _......_ | 8 | 75 |
| MIMAT0009362 | bta-miR-658 | 3 | __...... | 8 | 75 |
| MIMAT0008307 | ptr-miR-658 | 3 | __...... | 8 | 75 |
| MIMAT0008277 | ptr-miR-615 | 6 | ......__ | 1 | 75 |
| MIMAT0006466 | mml-miR-615-3p | 6 | ......__ | 1 | 75 |
| MIMAT0007348 | hsa-miR-1470 | 8 | __...... | 3 | 75 |
| MIMAT0017328 | mmu-miR-1188-3p | 6 | ......__ | 1 | 75 |
| MIMAT0005365 | tae-miR1130a | 6 | __...... | 1 | 75 |
| MIMAT0004000 | sme-miR-184-3p | 3 | __...... | 8 | 75 |
| MIMAT0003783 | mmu-miR-615-3p | 6 | ......__ | 1 | 75 |
| MIMAT0003336 | hsa-miR-658 | 3 | __...... | 8 | 75 |
| MIMAT0003283 | hsa-miR-615-3p | 6 | ......__ | 1 | 75 |
| MIMAT0026552 | hcmv-miR-UL112-5p | 6 | __...... | 1 | 75 |
