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: xxxxxH_S79.9_Dxxxxx score: 36.02 fg: 22/3123 bg: 2/3123 fg/bg: 11.0 unadjusted p-value: 1.7e-005 tests: 317 adjusted p-value: 5.5e-003
    sequence logo of motif


  • motif: xxxxxx_S79.9_NExxxx score: 33.55 fg: 90/3123 bg: 27/3123 fg/bg: 3.3 unadjusted p-value: 1.5e-009 tests: 313 adjusted p-value: 4.7e-007
    sequence logo of motif


  • motif: xxxxxx_S79.9_DxExxx score: 32.12 fg: 103/3123 bg: 34/3123 fg/bg: 3.0 unadjusted p-value: 9.8e-010 tests: 315 adjusted p-value: 3.1e-007
    sequence logo of motif


  • motif: Kxxxxx_S79.9_Pxxxxx score: 36.97 fg: 20/3123 bg: 1/3123 fg/bg: 20.0 unadjusted p-value: 1.0e-005 tests: 312 adjusted p-value: 3.2e-003
    sequence logo of motif


  • motif: xxxxNx_S79.9_xDExxx score: 39.95 fg: 24/3123 bg: 1/3123 fg/bg: 24.0 unadjusted p-value: 7.4e-007 tests: 316 adjusted p-value: 2.4e-004
    sequence logo of motif


  • motif: Kxxxxx_S79.9_xxxxxK score: 28.88 fg: 91/3123 bg: 28/3123 fg/bg: 3.2 unadjusted p-value: 2.1e-009 tests: 306 adjusted p-value: 6.4e-007
    sequence logo of motif


  • motif: xxxxxx_S79.9_xDxxKx score: 23.34 fg: 95/3123 bg: 36/3123 fg/bg: 2.6 unadjusted p-value: 9.6e-008 tests: 310 adjusted p-value: 3.0e-005
    sequence logo of motif


  • motif: Kxxxxx_S79.9_Dxxxxx score: 20.70 fg: 96/3123 bg: 34/3123 fg/bg: 2.8 unadjusted p-value: 1.8e-008 tests: 290 adjusted p-value: 5.2e-006
    sequence logo of motif


  • motif: xxKRxx_S79.9_xxxxxx score: 24.63 fg: 43/3123 bg: 7/3123 fg/bg: 6.1 unadjusted p-value: 9.5e-008 tests: 238 adjusted p-value: 2.3e-005
    sequence logo of motif


  • motif: xxxxxx_S79.9_xExxxx score: 10.45 fg: 488/3123 bg: 311/3123 fg/bg: 1.6 unadjusted p-value: 1.1e-011 tests: 289 adjusted p-value: 3.2e-009
    sequence logo of motif


  • motif: xxxxxx_S79.9_xDxxxx score: 12.41 fg: 551/3123 bg: 369/3123 fg/bg: 1.5 unadjusted p-value: 4.6e-011 tests: 293 adjusted p-value: 1.3e-008
    sequence logo of motif


  • motif: xxxxxx_S79.9_Pxxxxx score: 12.93 fg: 110/3123 bg: 51/3123 fg/bg: 2.2 unadjusted p-value: 1.4e-006 tests: 213 adjusted p-value: 3.1e-004
    sequence logo of motif


  • motif: xxxxxG_S79.9_xxxxxx score: 10.80 fg: 141/3123 bg: 88/3123 fg/bg: 1.6 unadjusted p-value: 2.2e-004 tests: 210 adjusted p-value: 4.5e-002
    sequence logo of motif


  • motif: RxxSxx_S79.9_xxxxxx score: 15.93 fg: 38/3123 bg: 7/3123 fg/bg: 5.4 unadjusted p-value: 1.4e-006 tests: 250 adjusted p-value: 3.6e-004
    sequence logo of motif


  • motif: xxxxxx_S79.9_Dxxxxx score: 9.85 fg: 552/3123 bg: 354/3123 fg/bg: 1.6 unadjusted p-value: 6.1e-013 tests: 250 adjusted p-value: 1.5e-010
    sequence logo of motif


  • motif: xLxxxx_S79.9_xxxxxx score: 8.45 fg: 229/3123 bg: 157/3123 fg/bg: 1.5 unadjusted p-value: 9.2e-005 tests: 210 adjusted p-value: 1.9e-002
    sequence logo of motif


  • motif: xxxxxx_S79.9_xNxxxx score: 8.16 fg: 514/3123 bg: 485/3123 fg/bg: 1.1 unadjusted p-value: 1.7e-001 tests: 263 adjusted p-value: 1.0e+000
    sequence logo of motif


  • motif: xxxRxx_S79.9_xxxxxx score: 6.06 fg: 207/3123 bg: 127/3123 fg/bg: 1.6 unadjusted p-value: 4.1e-006 tests: 180 adjusted p-value: 7.3e-004
    sequence logo of motif


  • motif: Kxxxxx_Y79.9_xxxxxx score: 8.79 fg: 50/233 bg: 20/233 fg/bg: 2.5 unadjusted p-value: 7.1e-005 tests: 48 adjusted p-value: 3.4e-003
    sequence logo of motif


  • motif: xxxxxx_T79.9_Pxxxxx score: 8.81 fg: 34/517 bg: 10/517 fg/bg: 3.4 unadjusted p-value: 1.5e-004 tests: 105 adjusted p-value: 1.5e-002
    sequence logo of motif


  • motif: xxxxxx_T79.9_xDxxxx score: 8.62 fg: 91/517 bg: 50/517 fg/bg: 1.8 unadjusted p-value: 1.3e-004 tests: 103 adjusted p-value: 1.4e-002
    sequence logo of motif


  • motif: xxLxxx_T79.9_xxxxxx score: 6.74 fg: 38/517 bg: 19/517 fg/bg: 2.0 unadjusted p-value: 6.8e-003 tests: 78 adjusted p-value: 4.1e-001
    sequence logo of motif



  • DEBUGGING INFORMATION

    Command line:

    momo motifx -oc momo_example_output_files --sequence-column 'Motif Peptide' --width 13 --min-occurrences 5 --min-occurrences 20 --protein-database ensembl_Plasmodium_falciparum_38.200.fa pr8b00062_si_002.ptm
    
    PARAMETERS:
    
    algorithm: motif-x
    post-translationally modified peptide filenames: 
    	file 1: pr8b00062_si_002.ptm
    PTM filetype: PSM
    modified peptide column: 'Motif Peptide'
    protein database filename: ensembl_Plasmodium_falciparum_38.200.fa
    protein database format: FASTA
    motif width: 13
    filter: false
    remove unknowns: true
    eliminate repeats: true
    	eliminate repeat width: 13
    min occurrences: 20
    single motif per mass: false
    hash fasta: false
    	hash fasta width: 0
    score threshold: 1e-06
    binomial p-value calculations: accurate
    
    
    

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


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