Most libraries and software aimed at obtaining DNA sequence logos (e.g. ggseqlogo) or discovering sequence motifs (e.g. MEME tools) take as an input a fasta file containing a list of sequences:
>seq1 AGATCATCATCTCAT >seq2 GTCTAGCTACGTACT >seq3 TGCATGCATGCATCC
(in the case of motif finding, a list of negative sequences is often used as well)
However my list of sequences contain individual scores for each of my input sequences:
>seq1 53.4 AGATCATCATCTCAT >seq2 21.5 GTCTAGCTACGTACT >seq3 11.8 TGCATGCATGCATCC
I was wondering if anyone is aware of any tools that would take into account the sequence scores (53.4, 21.5, 11.8) to guide the creation of sequence logos or discovery of motifs.
Any hints would be quite useful.