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_[CIR]xx score: 12.60 fg: 16/114 bg: 4/114 fg/bg: 4.0 unadjusted p-value: 4.3e-003
    sequence logo of motif


  • motif: xxx_S79.9_xx[GN] score: 8.99 fg: 15/114 bg: 5/114 fg/bg: 3.0 unadjusted p-value: 1.6e-002
    sequence logo of motif



  • Final DL: 2976.9484 ( Decrease: 48.59 )

  • motif: [FLV]xx_T79.9_xxx score: 43.93 fg: 26/90 bg: 7/90 fg/bg: 3.7 unadjusted p-value: 2.0e-004
    sequence logo of motif



  • Final DL: 2384.5046 ( Decrease: 43.93 )

  • motif: xx[EK]_Y79.9_xxx score: 13.64 fg: 15/48 bg: 5/48 fg/bg: 3.0 unadjusted p-value: 1.1e-002
    sequence logo of motif



  • Final DL: 1324.3170 ( Decrease: 13.64 )


  • DEBUGGING INFORMATION

    Command line:

    momo modl --oc results/momo17 --psm-type tide --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: false
    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.


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