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: xxx_S79.9_xxL score: 26.57 fg: 17/111 bg: 174/2056 fg/bg: 1.8 unadjusted p-value: 1.5e-002
    sequence logo of motif



  • Final DL: 2862.6534 ( Decrease: 26.57 )

  • motif: xxx_T79.9_xx[DP] score: 22.09 fg: 20/90 bg: 176/1629 fg/bg: 2.1 unadjusted p-value: 1.9e-003
    sequence logo of motif



  • Final DL: 2311.1014 ( Decrease: 22.09 )

  • motif: xxx_Y79.9_xx[GV] score: 10.61 fg: 16/48 bg: 115/944 fg/bg: 2.7 unadjusted p-value: 1.9e-004
    sequence logo of motif



  • Final DL: 1214.3815 ( Decrease: 10.61 )


  • DEBUGGING INFORMATION

    Command line:

    momo modl --oc results/momo18 --psm-type tide --db-background --remove-unknowns T --protein-database momo/small-yeast.fasta momo/small-tide-mod.txt
    
    PARAMETERS:
    
    algorithm: MoDL
    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: 5
    single motif per mass: false
    hash fasta: false
    	hash fasta width: 0
    max motifs: 100
    max iterations: 50
    max no decrease iterations: 10
    
    
    

    This information can be useful in the event you wish to report a problem with the MoMo software.


    Go to top