If I have a list of amino acid sequence motifs in a java regular expression format, what is the best way to identify all occurrences of these motifs in all ORFs. (I have the ORFs in a .fasta file)
Preferably, I would like to filter genes which match 3/4 motifs I have identified.
Is there a bioinformatics program or server which would allow me to do this? [I do not have much coding experience]
Thank you!
You can use TextPad.
You open your fasta file with TextPad then you can search for the amino acid motifs, you can also replace them by what you want, kind of numbers and others.
Hi,
Motif is a region (a sub sequence) of protein or DNA sequence that has a specific structure ... to find motifs in the absence of multiple sequence .... The ith occurrence of character X in the last column corresponds to the same text.
Best wishes..
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