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Input Sequences

Please paste your mature miRNA sequences in FASTA format in the box below:



Please note:
To promote the fair use of this web-service, the amount of sequences that
can be uploaded is limited to 50 pasted sequences or 60Kb of file upload at a time.
For the same reason, the number of species per run has also been limited to 12.

If you have a large dataset that you would like to analyze please contact us.


Basic Options

Scoring Threshold



Repeat Element Pre-Filtering



Ensembl Metazoa Species
(Release 13)


Aedes aegypti
Atta cephalotes
Anopheles gambiae
Apis mellifera
Acyrthosiphon pisum
Amphimedon queenslandica
Bombyx mori
Caenorhabditis brenneri
Caenorhabditis briggsae
Caenorhabditis elegans
Caenorhabditis japonica
Culex quinquefasciatus
Caenorhabditis remanei
Drosophila ananassae
Drosophila erecta
Drosophila grimshawi
Drosophila melanogaster



Drosophila mojavensis
Drosophila persimilis
Drosophila pseudoobscura
Daphnia pulex
Drosophila sechellia
Drosophila simulans
Drosophila virilis
Drosophila willistoni
Drosophila yakuba
Ixodes scapularis
Nematostella vectensis
Pediculus humanus
Pristionchus pacificus
Schistosoma mansoni
Strongylocentrotus purpuratus
Trichoplax adhaerens
Tribolium castaneum
Trichinella spiralis



Ensembl Species
(Release 66)


Anolis carolinensis
Ailuropoda melanoleuca
Bos taurus
Caenorhabditis elegans
Canis familiaris
Choloepus hoffmanni
Ciona intestinalis
Callithrix jacchus
Cavia porcellus
Ciona savignyi
Drosophila melanogaster
Dasypus novemcinctus
Dipodomys ordii
Danio rerio
Equus caballus
Erinaceus europaeus
Echinops telfairi
Felis catus
Gasterosteus aculeatus
Gallus gallus
Gorilla gorilla
Gadus morhua
Homo sapiens
Loxodonta africana
Latimeria chalumnae
Monodelphis domestica
Macropus eugenii
Meleagris gallopavo

Myotis lucifugus
Macaca mulatta
Microcebus murinus
Mus musculus
Nomascus leucogenys
Ornithorhynchus anatinus
Oryctolagus cuniculus
Otolemur garnettii
Oryzias latipes
Ochotona princeps
Pongo abelii
Procavia capensis
Petromyzon marinus
Pan troglodytes
Pteropus vampyrus
Rattus norvegicus
Sorex araneus
Saccharomyces cerevisiae
Sarcophilus harrisii
Sus scrofa
Spermophilus tridecemlineatus
Tupaia belangeri
Taeniopygia guttata
Tetraodon nigroviridis
Takifugu rubripes
Tarsius syrichta
Tursiops truncatus
Vicugna pacos
Xenopus tropicalis

      

Advanced Options

Long match extention (bp):
Short match extention (bp):
Maximum mature mismatches:
Mature mismatch penalty:
Bowtie -m parameter (0=disable):
Exclude candidates in loop (boolean):
Maximum loop overlap:


      

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