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



Peptide Preprocessing



Results

  • motif: xRx_X79.9_xxx score: 2.20 fg: 21/249 bg: 214/4629 fg/bg: 1.8 unadjusted p-value: 8.1e-003
    sequence logo of motif



  • DEBUGGING INFORMATION

    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.


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