| RED | =100 % Complementary sequence |
| . | =Identical residue |
| blue alphabets | =mismatch |
| _ | =Gap |
| Acc number | miRNA | Start | Alignment | End | % Identity |
| Query | 1 | ttaggacg | 8 | ||
| MIMAT0014699 | hsv2-miR-H12 | 1 | ........ | 8 | 100 |
| MIMAT0034705 | eca-miR-676 | 8 | _....... | 2 | 87 |
| MIMAT0034620 | eca-miR-9075 | 1 | ......._ | 7 | 87 |
| MIMAT0033549 | sma-miR-8422-3p | 1 | ......._ | 7 | 87 |
| MIMAT0030639 | prd-miR-7910a-3p | 1 | ......._ | 7 | 87 |
| MIMAT0024365 | ppy-miR-676 | 8 | _....... | 2 | 87 |
| MIMAT0024325 | mml-miR-676-3p | 8 | _....... | 2 | 87 |
| MIMAT0023189 | gma-miR5770b | 1 | ......._ | 7 | 87 |
| MIMAT0023167 | gma-miR5770a | 1 | ......._ | 7 | 87 |
| MIMAT0022054 | aca-miR-5433 | 2 | ......._ | 8 | 87 |
| MIMAT0014698 | hsv2-miR-H11-3p | 1 | ......._ | 7 | 87 |
| MIMAT0014688 | hsv1-miR-H11 | 1 | ......._ | 7 | 87 |
| MIMAT0013943 | ssc-miR-676-3p | 8 | _....... | 2 | 87 |
| MIMAT0006827 | oan-miR-1334 | 1 | ......a. | 8 | 87 |
| MIMAT0037264 | rno-miR-676 | 7 | __...... | 2 | 75 |
| MIMAT0037180 | ata-miR2118a-5p | 7 | ......__ | 2 | 75 |
| MIMAT0035917 | chi-miR-1197-3p | 1 | _......_ | 6 | 75 |
| MIMAT0035633 | dvi-miR-9541-3p | 3 | ......__ | 8 | 75 |
| MIMAT0035630 | dvi-miR-9545-5p | 1 | ......__ | 6 | 75 |
| MIMAT0035566 | dvi-miR-311-5p | 1 | __...... | 6 | 75 |
| MIMAT0034410 | cfa-miR-8900 | 1 | _......_ | 6 | 75 |
| MIMAT0033327 | str-miR-7880h-5p | 3 | ......__ | 8 | 75 |
| MIMAT0030906 | stu-miR8010 | 2 | _......_ | 7 | 75 |
| MIMAT0030848 | stu-miR7981-3p | 2 | _......_ | 7 | 75 |
| MIMAT0030403 | ptc-miR7827 | 3 | _......_ | 8 | 75 |
| MIMAT0029914 | mdo-miR-7301-5p | 7 | ......__ | 2 | 75 |
| MIMAT0026358 | bma-miR-5859 | 1 | ......__ | 6 | 75 |
| MIMAT0027977 | mmu-miR-7036a-3p | 7 | __...... | 2 | 75 |
| MIMAT0025805 | gga-miR-6698-3p | 1 | ......__ | 6 | 75 |
| MIMAT0024866 | osa-miR1440b | 2 | ......__ | 7 | 75 |
| MIMAT0024822 | hvu-miR6196 | 1 | __...... | 6 | 75 |
| MIMAT0024754 | nta-miR6153 | 1 | _......_ | 6 | 75 |
| MIMAT0024322 | mml-miR-1258 | 3 | ......__ | 8 | 75 |
| MIMAT0024274 | ggo-miR-651 | 2 | ......__ | 7 | 75 |
| MIMAT0024273 | ggo-miR-676 | 8 | _......_ | 3 | 75 |
| MIMAT0024245 | ggo-miR-1197 | 1 | _......_ | 6 | 75 |
| MIMAT0024050 | ptr-miR-3117 | 2 | _......_ | 7 | 75 |
| MIMAT0024049 | ptr-miR-676 | 8 | _......_ | 3 | 75 |
| MIMAT0023409 | hco-miR-5890f-5p | 2 | _......_ | 7 | 75 |
| MIMAT0023402 | hco-miR-5890e | 2 | _......_ | 7 | 75 |
| MIMAT0023370 | hco-miR-5890b-5p | 3 | _......_ | 8 | 75 |
| MIMAT0023292 | osa-miR5819 | 1 | __...... | 6 | 75 |
| MIMAT0023260 | osa-miR5793 | 3 | __...... | 8 | 75 |
| MIMAT0022258 | hsa-miR-5571-3p | 6 | _......_ | 1 | 75 |
| MIMAT0021505 | asu-miR-236-5p | 6 | _......_ | 1 | 75 |
| MIMAT0021405 | rmi-miR-5332 | 7 | __...... | 2 | 75 |
| MIMAT0021174 | mtr-miR5216b | 1 | ......__ | 6 | 75 |
| MIMAT0021173 | mtr-miR5216a | 1 | ......__ | 6 | 75 |
| MIMAT0020545 | hvu-miR5049a | 6 | ......__ | 1 | 75 |
| MIMAT0021042 | hsa-miR-5009-3p | 6 | ......__ | 1 | 75 |
| MIMAT0020482 | bfl-miR-4892 | 1 | ......__ | 6 | 75 |
| MIMAT0020455 | bfl-miR-4875a-5p | 2 | _......_ | 7 | 75 |
| MIMAT0019905 | hsa-miR-4759 | 1 | _......_ | 6 | 75 |
| MIMAT0019616 | pma-miR-4583 | 1 | ......__ | 6 | 75 |
| MIMAT0019258 | oar-miR-1197-3p | 1 | _......_ | 6 | 75 |
| MIMAT0018283 | gma-miR4378a | 2 | _......_ | 7 | 75 |
| MIMAT0018269 | gma-miR4368b | 2 | __...... | 7 | 75 |
| MIMAT0018258 | gma-miR4362 | 3 | ......__ | 8 | 75 |
| MIMAT0018204 | hsa-miR-676-3p | 8 | _......_ | 3 | 75 |
| MIMAT0018581 | ame-miR-3796 | 8 | ......__ | 3 | 75 |
| MIMAT0017857 | rno-miR-3573-3p | 7 | ......__ | 2 | 75 |
| MIMAT0016149 | ppy-miR-1197 | 1 | _......_ | 6 | 75 |
| MIMAT0016084 | ppy-miR-651 | 2 | ......__ | 7 | 75 |
| MIMAT0015044 | hsa-miR-3169 | 1 | _......_ | 6 | 75 |
| MIMAT0014979 | hsa-miR-3117-3p | 2 | _......_ | 7 | 75 |
| MIMAT0014917 | mmu-miR-3098-5p | 6 | ......__ | 1 | 75 |
| MIMAT0020947 | osa-miR2867-3p | 3 | __...... | 8 | 75 |
| MIMAT0013125 | eca-miR-1197 | 1 | _......_ | 6 | 75 |
| MIMAT0012813 | ptr-miR-651 | 2 | ......__ | 7 | 75 |
| MIMAT0013745 | bmo-miR-2775b | 3 | _......_ | 8 | 75 |
| MIMAT0011762 | zma-miR2118c | 7 | ......__ | 2 | 75 |
| MIMAT0011751 | osa-miR2118l | 7 | ......__ | 2 | 75 |
| MIMAT0011746 | osa-miR2118g | 7 | ......__ | 2 | 75 |
| MIMAT0009966 | bta-miR-1197 | 1 | _......_ | 6 | 75 |
| MIMAT0009413 | mmu-miR-1947-5p | 1 | __...... | 6 | 75 |
| MIMAT0032099 | dvi-miR-92a-5p | 1 | __...... | 6 | 75 |
| MIMAT0007982 | ptr-miR-1258 | 3 | ......__ | 8 | 75 |
| MIMAT0007954 | ptr-miR-1197 | 1 | _......_ | 6 | 75 |
| MIMAT0007586 | gga-miR-1694 | 3 | __...... | 8 | 75 |
| MIMAT0007291 | gga-miR-454-5p | 6 | ......__ | 1 | 75 |
| MIMAT0007072 | oan-miR-1421m-5p | 1 | __...... | 6 | 75 |
| MIMAT0005955 | hsa-miR-1197 | 1 | _......_ | 6 | 75 |
| MIMAT0005909 | hsa-miR-1258 | 3 | ......__ | 8 | 75 |
| MIMAT0005858 | mmu-miR-1197-3p | 1 | _......_ | 6 | 75 |
| MIMAT0005377 | cre-miR1143-5p | 1 | __...... | 6 | 75 |
| MIMAT0005359 | tae-miR1124 | 3 | __...... | 8 | 75 |
| MIMAT0004457 | mdv2-miR-M17-3p | 1 | _......_ | 6 | 75 |
| MIMAT0003782 | mmu-miR-676-3p | 7 | __...... | 2 | 75 |
| MIMAT0003321 | hsa-miR-651-5p | 2 | ......__ | 7 | 75 |
| MIMAT0001578 | hcmv-miR-UL148D | 7 | __...... | 2 | 75 |
| MIMAT0020802 | dme-miR-92a-5p | 1 | __...... | 6 | 75 |
| MIMAT0015101 | cel-miR-59-5p | 7 | __...... | 2 | 75 |
