| RED | =100 % Complementary sequence |
| . | =Identical residue |
| blue alphabets | =mismatch |
| _ | =Gap |
| Acc number | miRNA | Start | Alignment | End | % Identity |
| Query | 1 | cgggccaa | 8 | ||
| MIMAT0013972 | bhv1-miR-B9 | 8 | ........ | 1 | 100 |
| MIMAT0032979 | ppc-miR-8255-3p | 7 | _....... | 1 | 87 |
| MIMAT0030177 | bdi-miR7724b-3p | 7 | _....... | 1 | 87 |
| MIMAT0030175 | bdi-miR7724a-3p | 7 | _....... | 1 | 87 |
| MIMAT0028479 | mdo-miR-7256-3p | 2 | _....... | 8 | 87 |
| MIMAT0019879 | hsa-miR-4745-3p | 7 | ......._ | 1 | 87 |
| MIMAT0012409 | dps-miR-2568b-3p | 8 | ......._ | 2 | 87 |
| MIMAT0012010 | bta-miR-2284r | 7 | _....... | 1 | 87 |
| MIMAT0011068 | mtr-miR166d | 2 | ......._ | 8 | 87 |
| MIMAT0035116 | efu-miR-9346 | 8 | .a...... | 1 | 87 |
| MIMAT0020214 | dme-miR-4981-3p | 8 | .c...... | 1 | 87 |
| MIMAT0017786 | esi-miR3456-3p | 8 | .a...... | 1 | 87 |
| MIMAT0036996 | tae-miR9653b | 2 | __...... | 7 | 75 |
| MIMAT0036581 | tch-miR-328 | 7 | _......_ | 2 | 75 |
| MIMAT0036139 | chi-miR-328-3p | 7 | _......_ | 2 | 75 |
| MIMAT0034738 | eca-miR-9161 | 2 | ......__ | 7 | 75 |
| MIMAT0034322 | cfa-miR-8829 | 6 | __...... | 1 | 75 |
| MIMAT0034080 | gra-miR8699 | 2 | _......_ | 7 | 75 |
| MIMAT0033279 | ppc-miR-8358-3p | 7 | __...... | 2 | 75 |
| MIMAT0033099 | ppc-miR-8293-5p | 3 | __...... | 8 | 75 |
| MIMAT0031258 | stu-miR171c-5p | 8 | __...... | 3 | 75 |
| MIMAT0031256 | stu-miR171a-5p | 8 | __...... | 3 | 75 |
| MIMAT0030173 | bdi-miR7723a-3p | 3 | _......_ | 8 | 75 |
| MIMAT0028661 | mdo-miR-7329-3p | 2 | __...... | 7 | 75 |
| MIMAT0028467 | mdo-miR-7250-3p | 6 | _......_ | 1 | 75 |
| MIMAT0028320 | mml-miR-7184-5p | 3 | _......_ | 8 | 75 |
| MIMAT0028221 | hsa-miR-7155-3p | 6 | _......_ | 1 | 75 |
| MIMAT0028060 | mmu-miR-7077-5p | 1 | __...... | 6 | 75 |
| MIMAT0027973 | mmu-miR-7034-3p | 6 | __...... | 1 | 75 |
| MIMAT0027867 | mmu-miR-6982-3p | 6 | _......_ | 1 | 75 |
| MIMAT0027690 | hsa-miR-6895-5p | 3 | _......_ | 8 | 75 |
| MIMAT0027603 | hsa-miR-6851-3p | 6 | _......_ | 1 | 75 |
| MIMAT0027590 | hsa-miR-6845-5p | 3 | _......_ | 8 | 75 |
| MIMAT0027462 | hsa-miR-6781-5p | 1 | ......__ | 6 | 75 |
| MIMAT0027424 | hsa-miR-6762-5p | 3 | _......_ | 8 | 75 |
| MIMAT0027398 | hsa-miR-6749-5p | 2 | ......__ | 7 | 75 |
| MIMAT0025637 | gga-miR-6566-5p | 8 | ......__ | 3 | 75 |
| MIMAT0025473 | hsa-miR-6508-3p | 2 | _......_ | 7 | 75 |
| MIMAT0025146 | mmu-miR-6395 | 7 | _......_ | 2 | 75 |
| MIMAT0024827 | hvu-miR6200 | 7 | __...... | 2 | 75 |
| MIMAT0027250 | pgi-miR6135i | 8 | __...... | 3 | 75 |
| MIMAT0024208 | ggo-miR-1291 | 7 | _......_ | 2 | 75 |
| MIMAT0024166 | ggo-miR-328 | 7 | _......_ | 2 | 75 |
| MIMAT0023914 | cgr-miR-328 | 7 | _......_ | 2 | 75 |
| MIMAT0022075 | aca-miR-5452-5p | 6 | _......_ | 1 | 75 |
| MIMAT0021623 | gma-miR171j-5p | 8 | __...... | 3 | 75 |
| MIMAT0019883 | hsa-miR-4747-3p | 8 | ......__ | 3 | 75 |
| MIMAT0019845 | hsa-miR-4726-5p | 2 | _......_ | 7 | 75 |
| MIMAT0019798 | hsa-miR-4701-5p | 6 | __...... | 1 | 75 |
| MIMAT0019699 | hsa-miR-4640-5p | 2 | _......_ | 7 | 75 |
| MIMAT0019665 | pma-miR-4631 | 3 | ......__ | 8 | 75 |
| MIMAT0019641 | pma-miR-4607 | 1 | _......_ | 6 | 75 |
| MIMAT0018201 | hsa-miR-3926 | 2 | __...... | 7 | 75 |
| MIMAT0018691 | tca-miR-3830-3p | 6 | __...... | 1 | 75 |
| MIMAT0018556 | ame-miR-3779 | 3 | ......__ | 8 | 75 |
| MIMAT0017904 | rno-miR-328b-3p | 7 | _......_ | 2 | 75 |
| MIMAT0016235 | ppy-miR-1538 | 7 | ......__ | 2 | 75 |
| MIMAT0016213 | ppy-miR-1291 | 6 | _......_ | 1 | 75 |
| MIMAT0016093 | ppy-miR-663b | 8 | _......_ | 3 | 75 |
| MIMAT0016030 | ppy-miR-588 | 6 | __...... | 1 | 75 |
| MIMAT0016016 | ppy-miR-575 | 1 | _......_ | 6 | 75 |
| MIMAT0015831 | ppy-miR-328 | 7 | _......_ | 2 | 75 |
| MIMAT0017681 | aly-miR402-5p | 6 | __...... | 1 | 75 |
| MIMAT0017515 | aly-miR171a-5p | 8 | __...... | 3 | 75 |
| MIMAT0017513 | aly-miR170-5p | 8 | __...... | 3 | 75 |
| MIMAT0015069 | hsa-miR-3187-3p | 6 | __...... | 1 | 75 |
| MIMAT0015061 | hsa-miR-3181 | 3 | ......__ | 8 | 75 |
| MIMAT0019203 | hsa-miR-3136-3p | 6 | _......_ | 1 | 75 |
| MIMAT0014987 | hsa-miR-548s | 3 | __...... | 8 | 75 |
| MIMAT0014950 | mmu-miR-3109-3p | 3 | _......_ | 8 | 75 |
| MIMAT0014904 | mmu-miR-3091-3p | 1 | ......__ | 6 | 75 |
| MIMAT0014491 | tgu-miR-2981 | 2 | ......__ | 7 | 75 |
| MIMAT0013949 | ssc-miR-328 | 7 | _......_ | 2 | 75 |
| MIMAT0012968 | eca-miR-1291a | 6 | _......_ | 1 | 75 |
| MIMAT0012929 | eca-miR-328 | 7 | _......_ | 2 | 75 |
| MIMAT0011957 | bta-miR-2284q | 1 | __...... | 6 | 75 |
| MIMAT0011811 | bta-miR-2284s | 6 | _......_ | 1 | 75 |
| MIMAT0009956 | bta-miR-1291 | 6 | _......_ | 1 | 75 |
| MIMAT0009287 | bta-miR-328 | 7 | _......_ | 2 | 75 |
| MIMAT0008310 | ptr-miR-663b | 8 | _......_ | 3 | 75 |
| MIMAT0008260 | ptr-miR-588 | 6 | __...... | 1 | 75 |
| MIMAT0008100 | ptr-miR-328 | 7 | _......_ | 2 | 75 |
| MIMAT0008009 | ptr-miR-1291 | 6 | _......_ | 1 | 75 |
| MIMAT0007767 | osa-miR1847.2 | 6 | _......_ | 1 | 75 |
| MIMAT0006688 | cfa-miR-328 | 7 | _......_ | 2 | 75 |
| MIMAT0020360 | cel-miR-1824-3p | 7 | __...... | 2 | 75 |
| MIMAT0007400 | hsa-miR-1538 | 7 | ......__ | 2 | 75 |
| MIMAT0006036 | odi-miR-1483-3p | 2 | _......_ | 7 | 75 |
| MIMAT0007212 | oan-miR-1405-5p | 2 | __...... | 7 | 75 |
| MIMAT0007208 | oan-miR-1401-3p | 2 | __...... | 7 | 75 |
| MIMAT0005881 | hsa-miR-1291 | 6 | _......_ | 1 | 75 |
| MIMAT0005867 | hsa-miR-663b | 8 | _......_ | 3 | 75 |
| MIMAT0005398 | cre-miR1153-5p.1 | 2 | _......_ | 7 | 75 |
| MIMAT0004834 | ppt-miR1221-3p | 6 | _......_ | 1 | 75 |
| MIMAT0003255 | hsa-miR-588 | 6 | __...... | 1 | 75 |
| MIMAT0022878 | osa-miR171d-5p | 8 | __...... | 3 | 75 |
| MIMAT0000752 | hsa-miR-328-3p | 7 | _......_ | 2 | 75 |
| MIMAT0000565 | mmu-miR-328-3p | 7 | _......_ | 2 | 75 |
| MIMAT0000564 | rno-miR-328a-3p | 7 | _......_ | 2 | 75 |
| MIMAT0031888 | ath-miR171a-5p | 8 | __...... | 3 | 75 |
| MIMAT0031887 | ath-miR170-5p | 8 | __...... | 3 | 75 |
