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: xNx_S79.9_xxx score: 4.14 fg: 7/111 bg: 1/111 fg/bg: 7.0 unadjusted p-value: 3.3e-002 tests: 146 adjusted p-value: 9.9e-001
    sequence logo of motif


  • motif: Dxx_S79.9_xxx score: 2.65 fg: 9/104 bg: 3/110 fg/bg: 3.2 unadjusted p-value: 5.5e-002 tests: 149 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxx_S79.9_Hxx score: 2.69 fg: 5/95 bg: 1/107 fg/bg: 5.6 unadjusted p-value: 8.1e-002 tests: 135 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxx_S79.9_Gxx score: 2.16 fg: 9/90 bg: 4/106 fg/bg: 2.6 unadjusted p-value: 7.2e-002 tests: 148 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxx_S79.9_xxF score: 2.07 fg: 4/81 bg: 1/102 fg/bg: 5.0 unadjusted p-value: 1.2e-001 tests: 127 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxx_S79.9_xxP score: 2.13 fg: 4/77 bg: 1/101 fg/bg: 5.2 unadjusted p-value: 1.1e-001 tests: 127 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxD_S79.9_xxx score: 2.20 fg: 7/73 bg: 3/100 fg/bg: 3.2 unadjusted p-value: 6.7e-002 tests: 135 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xTx_S79.9_xxx score: 1.79 fg: 6/66 bg: 3/97 fg/bg: 2.9 unadjusted p-value: 9.9e-002 tests: 128 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxx_S79.9_xYx score: 1.58 fg: 3/60 bg: 1/94 fg/bg: 4.7 unadjusted p-value: 1.6e-001 tests: 114 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxx_S79.9_xRx score: 1.46 fg: 4/57 bg: 2/93 fg/bg: 3.3 unadjusted p-value: 1.5e-001 tests: 116 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxx_S79.9_xGx score: 1.48 fg: 10/53 bg: 9/91 fg/bg: 1.9 unadjusted p-value: 1.0e-001 tests: 131 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxx_S79.9_xLx score: 1.35 fg: 6/43 bg: 5/82 fg/bg: 2.3 unadjusted p-value: 1.3e-001 tests: 116 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xFx_T79.9_xxx score: 3.28 fg: 6/90 bg: 1/90 fg/bg: 6.0 unadjusted p-value: 5.9e-002 tests: 130 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxL_T79.9_xxx score: 2.67 fg: 9/84 bg: 3/89 fg/bg: 3.2 unadjusted p-value: 5.4e-002 tests: 134 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxx_T79.9_xAx score: 2.10 fg: 9/75 bg: 4/86 fg/bg: 2.6 unadjusted p-value: 7.8e-002 tests: 139 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxx_T79.9_xPx score: 1.83 fg: 8/66 bg: 4/82 fg/bg: 2.5 unadjusted p-value: 9.7e-002 tests: 132 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxx_T79.9_Fxx score: 1.78 fg: 5/58 bg: 2/78 fg/bg: 3.4 unadjusted p-value: 1.2e-001 tests: 119 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxx_T79.9_xTx score: 1.90 fg: 5/53 bg: 2/76 fg/bg: 3.6 unadjusted p-value: 1.0e-001 tests: 119 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xIx_T79.9_xxx score: 1.90 fg: 6/48 bg: 3/74 fg/bg: 3.1 unadjusted p-value: 8.4e-002 tests: 119 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxx_T79.9_xxG score: 2.54 fg: 4/42 bg: 1/71 fg/bg: 6.8 unadjusted p-value: 6.3e-002 tests: 109 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxE_Y79.9_xxx score: 1.84 fg: 6/48 bg: 2/48 fg/bg: 3.0 unadjusted p-value: 1.3e-001 tests: 121 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: Txx_Y79.9_xxx score: 1.89 fg: 4/42 bg: 1/46 fg/bg: 4.4 unadjusted p-value: 1.5e-001 tests: 113 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxF_Y79.9_xxx score: 2.01 fg: 4/38 bg: 1/45 fg/bg: 4.7 unadjusted p-value: 1.3e-001 tests: 107 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: Ixx_Y79.9_xxx score: 1.75 fg: 5/34 bg: 2/44 fg/bg: 3.2 unadjusted p-value: 1.2e-001 tests: 111 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxx_Y79.9_Exx score: 1.51 fg: 3/29 bg: 1/42 fg/bg: 4.3 unadjusted p-value: 1.8e-001 tests: 101 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xLx_Y79.9_xxx score: 1.98 fg: 7/26 bg: 4/41 fg/bg: 2.8 unadjusted p-value: 6.7e-002 tests: 112 adjusted p-value: 1.0e+000
    sequence logo of motif



  • DEBUGGING INFORMATION

    Command line:

    momo motifx --oc results/momo11 --psm-type tide --protein-database momo/small-yeast.fasta --score-threshold 0.05 --min-occurrences 1 --harvard --seed 273 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: false
    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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