MoMo version 5.0.1 (Release date: Wed Aug 22 15:26:53 2018 -0700)
For further information on how to interpret these results please access http://meme-suite.org/doc/momo-output-format.html.
To get a copy of the MoMo software please access http://meme-suite.org.
If you use MoMo in your research, please cite the following paper:
Alice Cheng, Charles Grant, Timothy L. Bailey and William Noble, "MoMo: Discovery of post-translational modification motifs", bioRxiv, preprint, 2017.
[full text]
High-scoring Motif Occurences | Debugging Information | Results in TSV format | Results in MEME format |
Command line:
momo motifx --oc results/momo12 --psm-type tide --db-background --protein-database momo/small-yeast.fasta --score-threshold 0.05 --min-occurrences 1 --single-motif-per-mass --harvard momo/small-tide-mod.txt
PARAMETERS: algorithm: motif-x post-translationally modified peptide filenames: file 1: momo/small-tide-mod.txt PTM filetype: tide modified peptide column: 'sequence' protein database filename: momo/small-yeast.fasta protein database format: FASTA motif width: 7 filter: false remove unknowns: true eliminate repeats: true eliminate repeat width: 7 min occurrences: 1 single motif per mass: true hash fasta: false hash fasta width: 0 score threshold: 0.05 binomial p-value calculations: inaccurate (emulate original motif-x)
This information can be useful in the event you wish to report a problem with the MoMo software.