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: simple
Number of Mods: 435
Number of Mod Types: 3
Number of Mods Passing Filters: 252
Number of Mod Types Passing Filters: 3
Results
motif: S79.9 fg_matches: 114
Show/Hide Motif Occurrences
IAEGKSLGIIG
TDKKQSGLARL
RQGALSRTHLM
MGRMHSAGKGI
YSELKSEGLAR
KFSSTSRYMQY
RDKRFSGSLKL
GVRGSSQQPRL
AGVRGSSQQPR
KRFSGSLKLPN
VRPAKSIEGFK
IAGIHSRRKFK
XXXMMSVNRFT
SRKRMSCIIKI
VKDNSSATKGY
LIPRNSTIPTK
KKKKLSSAELR
GLKSHSEGLKV
ALGLKSHSEGL
AAKTRSYNWGA
EKIKGSDLVGL
KEEYISRYEAL
FDNSRSGDTTY
KVTCLSNKEKR
WIDTASKFGKG
SFNDISKLLSI
REYLESGKLEV
FTKHASLILAK
LSEGTSFRRKX
LDRPGSKFHKR
KRHNKSHTLCN
KAPRDSDDNFR
PFCWRSDTPLL
DDTKGSMHDVV
TDKEISDVFAK
AKELQSLLGKD
VGSMGSGKSKH
VFLRKSPFYYS
TVWANSSRFSL
KSSDNSASSGP
SDNSASSGPKR
AEKIQSCQDLE
VGVLLSRHLRK
DNSASSGPKRT
GKPNPSTGKYT
VMIYSSRGVDL
DVVKNSPWVVD
VVMIYSSRGVD
TINGVSYGRAY
KNVLRSMELTA
YLVNNSFYKFL
PFRVISVSSNS
ELAQTSIDTLK
VISVSSNSNSR
SVIRDSVTYTE
ERENSSQNETL
SVSSNSNSRNG
ATSEQSKVKTS
TPAATSEQSKV
RLCPNSTGAEL
DDDMMSSSLRH
ETAQDSPELLA
GEGEVSVFVSR
SVHFLSYPVVK
LIDFGSAVVFR
TAVVESPEGER
MSETLSKVSLL
WMIRISEGIWP
WVPISSKYNSP
DDMMSSSLRHG
QWVPISSKYNS
DMMSSSLRHGI
KNVIVSGIVLA
TAHSSSHSIKY
QFKTASEFDSA
VTAHSSSHSIK
HSSSHSIKYFE
ASEFDSAIAQD
IVTAHSSSHSI
XXXXMSESNAH
NTHEHSKANTG
XXXXMSETNVD
PKDDRSKPVAL
ASKIISYAQGF
MVHLESVVRYI
EELNISGEFFR
PVALTSFLGYK
AIDEFSTKEDS
LELNFSRPWKR
MTDRYSFSLTT
ARPGDSLYCRL
DRYSFSLTTFS
TTFSPSGKLGQ
SLTTFSPSGKL
GYRLVSNGTDS
SNGTDSHMVLV
HEAEWSGLSND
TTHPVSHGHSG
EPVSISFLKAN
DSEPVSISFLK
NIPTESRKNFK
RLELLSHIADS
ALDCTSLLLGL
GLLSDSLHMAL
SLGLLSDSLHM
EWTLDSAQVKP
IIDAESALNEW
ENRKISAVSTY
KISAVSTYFES
VKPTLSFKQDY
SIGVVSKDTSV
GDEEQSINDTI
STLSSSIGVVS
AHDFLSKSLLE
motif: T79.9 fg_matches: 90
Show/Hide Motif Occurrences
SFVKGTDLPKS
LDDKKTGAEVR
KNMRITVNGKL
KRVRGTPVEKK
QARVITGNKIM
KKYGVTDKISH
KKFSSTSRYMQ
CLKQLTEGVKY
RAGMETARDES
IPRNSTIPTKK
VVKEQTEAAKK
LLERVTEPVTK
LLKDETVAPRF
VTEPVTKALAQ
DPKNVTDPIKK
NRTDATFIRVI
AVANRTDATFI
HKESVTEIKAT
FKSLDTFIKQT
NDKESTIDIKI
LKWIDTASKFG
DVGELTRSSTK
ETLKVTCLSNK
QWRFQTGEDRE
NLRIFTEEMKN
ETRRPTNPFRV
MANFETRRPTN
VKAAATAAMTK
FEKDLTEFLTK
LRFDDTNPEKE
FRFWVTNLKTT
VESLKTYFFSF
KYLIETQRSVN
PRRAKTTQDIA
RSMELTANERR
QSLMKTVWANS
KRFNLTENDKF
GAPAMTTRGMG
KLVDRTFSDIE
KPNPSTGKYTV
EFKKCTINGVS
INAGVTPTKKS
ELEELTGVRNI
RERGITIDIAL
SYVKTTTPAAT
YSYVKTTTPAA
TTPAATSEQSK
YVKTTTPAATS
QTSIDTLKLLY
SIGRYTGKPNP
ELVKDTIDFEA
QELRKTHEPNP
LCPNSTGAELR
VSKKVTAVVES
KQNKETAQDSP
EDSRRTVLDLE
YGIFKTDLPEG
LEVNNTRTHIL
ALLAFTLGVRQ
FLPPPTHNDKL
DEVDDTRTTLH
VTQFKTASEFD
ALKRYTSVSGT
XXMSETNVDSL
YSLWDTNYAKI
YGTTETQRAVS
KPVALTSFLGY
IDEFSTKEDSL
SFSLTTFSPSG
NMYGTTETQRA
KIVPLTEGDIQ
LVSNGTDSHMV
INVKTTHPVSH
YSFSLTTFSPS
HINVKTTHPVS
SLNGITGPYGK
DHNIPTESRKN
KEELFTSLGGE
TTFQYTKGRPL
KPDETTFQYTK
IKPDETTFQYT
AIFIYTDVLLY
VMEFPTGKESG
DCTLATVDHNI
RRVDCTLATVD
MALDCTSLLLG
ALNEWTLDSAQ
ISAVSTYFESF
AQVKPTLSFKQ
VSRWYTLLEMD
motif: Y79.9 fg_matches: 48
Show/Hide Motif Occurrences
PEEKSYEILKE
KTIAKYEALDK
LGHMKYNDNGR
SVGWKYEDVVA
EQVREYLESGK
DPAKAYVQFLK
AFAKEYILGLK
DTPLLYRSVPA
VKLQEYLDKKT
ESLKTYFFSFK
TSQGIYRYLNH
RPYAKYLIETQ
ERVIRYAFEYA
LPTIKYVLEHH
RYAFEYARAIG
MRDGKYKPGEA
IAKSRYWYFLQ
KTKEKYEVGVL
VNNSFYKFLNW
GLFNLYRGWGW
GDGRFYNDVIM
INGVSYGRAYT
DVAKEYVQGIL
AKVNEYVNVDL
YRATKYLVNNS
VGVEGYVGRTQ
PSIGRYTGKPN
VHFLSYPVVKK
YPGARYYGGNE
IPQFFYKNVIF
LALKRYTSVSG
RDALCYSISCP
LWDTNYAKIHI
TSFLGYKAGMT
SKIISYAQGFM
WTGRFYSLWDT
XMTDRYSFSLT
WAALIYRVTGD
SFSNKYAVALS
GITGPYGKAIF
DWIGLYKVIDT
IIGLDYHHPDF
ETTFQYTKGRP
QAIFIYTDVLL
ADSFVYVVSRM
TDVLLYNAKLD
VFMEQYRWDWF
NVSRWYTLLEM
DEBUGGING INFORMATION
Command line:
momo simple --oc results/momo4 --psm-type tide --protein-database momo/small-yeast.fasta --width 11 --hash-fasta 0 momo/small-tide-mod.txt
PARAMETERS:
algorithm: simple
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: 11
filter: false
remove unknowns: false
eliminate repeats: true
eliminate repeat width: 11
min occurrences: 5
single motif per mass: false
hash fasta: false
hash fasta width: 0
This information can be useful in the event you wish to report a
problem with the MoMo software.
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