PepAlign takes list(s) of peptides as input and aligns the peptides on one (or more) Fasta sequences. PepAlign can calculate the protein sequence coverage, the post-translational modification (PTM) coverage and the list of PTMs positions for any PTM.
peptides list
⬇
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PepAlign Results
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Sequence Coverage : 80.0 %
PTMs Coverage (STY) : 66.67 %
Protein sequence :
MLKFKYGARN PLDAGAAEPI ASRASRLNLF FQGKPPFMTQ QQMSPLSREG
--|---- ---------- -|--|----- --------| + + --
(...)
Manual :
1- install Julia v1.0.3 or JuliaPro 1.0.3 free programming language
2- unzip the software
3- copy your fasta sequence(s) in the fasta directory
4- copy your peptides list(s) in text files in the peptides directory, one peptide / row
for example :
KKFWGKYLYE
KQIKKQTALVE
GPKLVVSTQTALA
5- execute the software by the command : julia software_name
6- results tables are in the table directory.
7- sequence alignement are in the results directory,
peptides and PTMs tables are in the table directory,
PTMs positions are listed in the PTMsites directory.