A single nucleotide sequence can input to the text box.
Multiple Sequences (FASTA)
Multiple nucleotide sequences in FASTA format can be uploaded in a file.
Upload a motif file in MEME format. MEME format is explained here
Genomic interval file
Genomic interval file can be uploaded. It is similar to BED format. An example can be download here.
Identify all somatic motifs
Identify all possible somatic motifs based on input somatic mutations.
Length of Motif 5
Flanking length on either side of the mutation. For single nucleotide mutation, if 5 is chosen, a motif or sequence of length 11 will be generated.
Enter a single sequence (max length = 25)
Predefined miRNA seedgenomic interval files
Somatic Motif Type
Select a Genome (chromosome list)
Human (GRCh38)Human (GRCh37)
Mouse (GRCm38)Mouse (GRCm37)
Black cottonwood (Poptr2_0)Cattle (Btau_5.0.1)
Chicken (Gallus_gallus-5.0)Chimpanzee (Pan_tro3.0)
Dog (CanFam3.1)Fruitfly (Release_6)
Gray short-tailed opossum (MonDom5)Honey bee (AMEL4.5)
Maize (B73_RefGen_v4)Nematodes (CB4)
Norway rat (Rnor_6.0)Rhesus monkey (Mmul_8.0.1)
Roundworm (WBcel235)Thale cress (TAIR10)
Torafugu (FUGU5)Tropical clawed frog (Xenopus_tropicalis_v9.1)
Wine grape (12X)Zebrafish (GRCz11)
Yellow fever mosquito (AaegL1)Epstein Barr virus (EMBL:AJ507799.2)
Human cytomegalovirus (EMBL:X17403.1)Kaposi sarcoma-associated herpesvirus (EMBL:U75698.1)
Mouse gammaherpesvirus (EMBL:U97553.1)