MoMo Results
Modification Motifs
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]
Peptide Preprocessing
Algorithm: motif-x
Number of Mods: 435
Number of Mod Types: 3
Number of Mods Passing Filters: 249
Number of Mod Types Passing Filters: 3
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
Show/Hide Motif Occurrences
DNSSATK
HNKSHTL
PNPSTGK
VNNSFYK
ENSSQNE
LNISGEF
LNFSRPW
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
Show/Hide Motif Occurrences
DTASKFG
DMMSSSL
DFGSAVV
DDRSKPV
DEFSTKE
DRYSFSL
DCTSLLL
DAESALN
DFLSKSL
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
Show/Hide Motif Occurrences
GLKSHSE
HSSSHSI
GTDSHMV
HPVSHGH
ELLSHIA
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
Show/Hide Motif Occurrences
KKQSGLA
KRFSGSL
NSRSGDT
YLESGKL
SMGSGKS
SASSGPK
VIVSGIV
FSPSGKL
AEWSGLS
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
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KEISDVF
WANSSRF
EPVSISF
SAVSTYF
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
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RGSSQQP
PRNSTIP
CWRSDTP
NSASSGP
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
Show/Hide Motif Occurrences
PRDSDDN
IRDSVTY
AQDSPEL
EFDSAIA
PGDSLYC
LSDSLHM
TLDSAQV
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
Show/Hide Motif Occurrences
KTRSYNW
ETLSKVS
KTASEFD
TTFSPSG
PTESRKN
PTLSFKQ
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
Show/Hide Motif Occurrences
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
Show/Hide Motif Occurrences
GIHSRRK
EGTSFRR
MIYSSRG
MSSSLRH
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
Show/Hide Motif Occurrences
EGKSLGI
RMHSAGK
ELKSEGL
KSHSEGL
IYSSRGV
NGVSYGR
CPNSTGA
IRISEGI
RLVSNGT
LSSSIGV
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
Show/Hide Motif Occurrences
IKGSDLV
NDISKLL
ELQSLLG
MMSSSLR
ALTSFLG
VSISFLK
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
Show/Hide Motif Occurrences
RFQTGED
NFETRRP
IFKTDLP
QFKTASE
EFSTKED
EFPTGKE
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
Show/Hide Motif Occurrences
KQLTEGV
GELTRSS
KDLTEFL
MELTANE
FNLTEND
EELTGVR
VALTSFL
VPLTEGD
FSLTTFS
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
Show/Hide Motif Occurrences
DKKTGAE
KEQTEAA
KDETVAP
EPVTKAL
ANRTDAT
AAATAAM
KTTTPAA
PNSTGAE
VDCTLAT
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
Show/Hide Motif Occurrences
RNSTIPT
ERVTEPV
KNVTDPI
RRPTNPF
FDDTNPE
VKTTTPA
VKTTHPV
NGITGPY
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
Show/Hide Motif Occurrences
TDATFIR
SLDTFIK
VDRTFSD
SLTTFSP
DETTFQY
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
Show/Hide Motif Occurrences
AGVTPTK
YVKTTTP
VNNTRTH
VDDTRTT
YGTTETQ
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
Show/Hide Motif Occurrences
WIDTASK
RIFTEEM
LIETQRS
SIDTLKL
NIPTESR
FIYTDVL
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
Show/Hide Motif Occurrences
MRITVNG
PAMTTRG
KKCTING
ELFTSLG
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
Show/Hide Motif Occurrences
VREYLES
AKEYILG
LQEYLDK
AFEYARA
AKEYVQG
VNEYVNV
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
Show/Hide Motif Occurrences
TIKYVLE
TDRYSFS
TGPYGKA
TFQYTKG
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
Show/Hide Motif Occurrences
NSFYKFL
GRFYNDV
QFFYKNV
GRFYSLW
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
Show/Hide Motif Occurrences
IAKYEAL
IGRYTGK
IISYAQG
IGLYKVI
IFIYTDV
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
Show/Hide Motif Occurrences
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
Show/Hide Motif Occurrences
PLLYRSV
FLSYPVV
ALCYSIS
FLGYKAG
ALIYRVT
GLDYHHP
VLLYNAK
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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