| RED | =100 % Complementary sequence |
| . | =Identical residue |
| blue alphabets | =mismatch |
| _ | =Gap |
| Acc number | miRNA | Start | Alignment | End | % Identity |
| Query | 1 | ccgcccg | 7 | ||
| MIMAT0032916 | ppc-miR-63j-5p | 1 | ....... | 7 | 100 |
| MIMAT0029105 | gga-miR-7475-3p | 8 | ....... | 2 | 100 |
| MIMAT0025740 | gga-miR-6642-3p | 7 | ....... | 1 | 100 |
| MIMAT0020637 | mmu-miR-5126 | 8 | ....... | 2 | 100 |
| MIMAT0014696 | hsv1-miR-H18 | 2 | ....... | 8 | 100 |
| MIMAT0012009 | bta-miR-2436-3p | 2 | ....... | 8 | 100 |
| MIMAT0037287 | ame-miR-9883 | 8 | _...... | 3 | 85 |
| MIMAT0036998 | tae-miR9677b | 8 | ......_ | 3 | 85 |
| MIMAT0034456 | eca-miR-8928 | 3 | ......_ | 8 | 85 |
| MIMAT0033748 | pxy-miR-8528a | 6 | ......_ | 1 | 85 |
| MIMAT0029109 | gga-miR-7477-3p | 3 | ......_ | 8 | 85 |
| MIMAT0028797 | mdo-miR-7375-3p | 8 | ......_ | 3 | 85 |
| MIMAT0028705 | mdo-miR-7346-3p | 8 | _...... | 3 | 85 |
| MIMAT0028262 | mml-miR-7165-5p | 6 | ......_ | 1 | 85 |
| MIMAT0028114 | hsa-miR-7108-3p | 3 | ......_ | 8 | 85 |
| MIMAT0027532 | hsa-miR-6816-5p | 8 | ......_ | 3 | 85 |
| MIMAT0025450 | hsa-miR-6499-5p | 7 | _...... | 2 | 85 |
| MIMAT0024573 | bta-miR-3141 | 8 | ......_ | 3 | 85 |
| MIMAT0024229 | ggo-miR-1228 | 8 | ......_ | 3 | 85 |
| MIMAT0022824 | sha-miR-1549 | 3 | ......_ | 8 | 85 |
| MIMAT0022191 | cel-miR-5550-5p | 3 | ......_ | 8 | 85 |
| MIMAT0021572 | asu-miR-5356a-5p | 1 | ......_ | 6 | 85 |
| MIMAT0019919 | hsa-miR-4767 | 8 | _...... | 3 | 85 |
| MIMAT0019887 | hsa-miR-4750-5p | 8 | _...... | 3 | 85 |
| MIMAT0019688 | hsa-miR-4632-3p | 3 | ......_ | 8 | 85 |
| MIMAT0018925 | hsa-miR-1268b | 6 | _...... | 1 | 85 |
| MIMAT0018178 | hsa-miR-3180 | 8 | ......_ | 3 | 85 |
| MIMAT0016192 | ppy-miR-1268 | 6 | _...... | 1 | 85 |
| MIMAT0015080 | hsa-miR-3196 | 8 | ......_ | 3 | 85 |
| MIMAT0015058 | hsa-miR-3180-3p | 8 | ......_ | 3 | 85 |
| MIMAT0015010 | hsa-miR-3141 | 8 | ......_ | 3 | 85 |
| MIMAT0012715 | hvt-miR-H4-3p | 6 | ......_ | 1 | 85 |
| MIMAT0013679 | bmo-miR-2783 | 6 | _...... | 1 | 85 |
| MIMAT0013641 | bmo-miR-2766-5p | 1 | ......_ | 6 | 85 |
| MIMAT0012046 | bta-miR-1777b | 8 | ......_ | 3 | 85 |
| MIMAT0011965 | bta-miR-2407 | 8 | ......_ | 3 | 85 |
| MIMAT0007870 | mmu-miR-1900 | 3 | ......_ | 8 | 85 |
| MIMAT0007688 | gga-miR-1777 | 8 | ......_ | 3 | 85 |
| MIMAT0007670 | gga-miR-1763 | 8 | ......_ | 3 | 85 |
| MIMAT0007473 | gga-miR-1607 | 8 | ......_ | 3 | 85 |
| MIMAT0007437 | gga-miR-1576 | 8 | _...... | 3 | 85 |
| MIMAT0006149 | mdo-miR-1549-3p | 3 | ......_ | 8 | 85 |
| MIMAT0005922 | hsa-miR-1268a | 6 | _...... | 1 | 85 |
| MIMAT0005582 | hsa-miR-1228-5p | 8 | ......_ | 3 | 85 |
| MIMAT0004397 | cre-miR914 | 6 | _...... | 1 | 85 |
| MIMAT0026431 | sbi-miR169d-3p | 6 | ......_ | 1 | 85 |
