
MoMo Results
Modification Motifs
MoMo version 5.0.0 (Release date: Fri Sep 29 13:40:17 2017 -0700)
For further information on how to interpret these results
or to get a copy of the MoMo software please access
http://meme.nbcr.net
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]
Results
-
The full set of motif occurences can be seen in the
tab-delimited plain text output file
momo.txt.
-
SUMMARY:
- Number of Mods: 435
- Number of Mod Types: 1
- Number of Mods Passing Filters: 252
- Number of Mod Types Passing Filters: 1
final_pattern: 79.9 foreground_size: 252
- XXXSLGI
- XXQSGLA
- XXGTDLP
- XXXTGAE
- GALSRXX
- XMHSAGK
- XXITVNG
- XXGTPVE
- XXXSEGL
- XVITGNK
- YGVTDKX
- SSTSRXX
- FSSTSRX
- XXFSGSL
- XGSSQQP
- XXGSSQQ
- FSGSLKX
- XXXSIEG
- XQLTEGV
- GMETARX
- GIHSRXX
- XMMSVNR
- XXMSCII
- XXSYEIL
- DNSSATK
- XXXYEAL
- XXXYNDN
- XXNSTIP
- XNSTIPT
- XEQTEAA
- XXLSSAE
- XXXYEDV
- XSHSEGL
- XXXSHSE
- XXXSYNW
- XXVTEPV
- XDETVAP
- XXGSDLV
- EPVTKXX
- EYISRXX
- XNVTDPI
- TDATFIR
- XXXTDAT
- XXXSGDT
- ESVTEIK
- SLDTFIK
- XESTIDI
- WIDTASK
- GELTRXX
- XXVTCLS
- XFQTGED
- TCLSNKX
- XXEYLES
- DTASKXX
- NDISKXX
- YLESGKX
- XHASLIL
- XIFTEEM
- EGTSFRX
- RPGSKXX
- XXAYVQF
- XRPTNPF
- XXEYILG
- XXXSHTL
- XXDSDDN
- PLLYRXX
- NFETRXX
- AAATAAM
- XDLTEFL
- XXXSDTP
- FDDTNPE
- XXGSMHD
- LQEYLDK
- FWVTNLK
- XXXTYFF
- XEISDVF
- XXTYFFS
- LIETQRX
- ELQSLLG
- QGIYRXX
- XXXTTQD
- XXXYLIE
- MELTANE
- SMGSGKX
- XXXYAFE
- XXXTVWA
- XXXSPFY
- WANSSRX
- XXXYVLE
- AFEYARX
- FNLTEND
- PAMTTRX
- XXXTFSD
- XXXYKPG
- SDNSASS
- XXXYWYF
- XXXYEVG
- NSASSGP
- XIQSCQD
- VLLSRXX
- SASSGPK
- PNPSTGK
- NPSTGKX
- NSFYKXX
- XXCTING
- AGVTPTK
- EELTGVR
- IYSSRXX
- XXNSPWV
- MIYSSRX
- NGVSYGR
- FNLYRXX
- XXXSMEL
- VNNSFYK
- XGITIDI
- XXFYNDV
- GVSYGRX
- XXTTTPA
- XXXTTTP
- PAATSEQ
- XXEYVQG
- XTTTPAA
- VNEYVNV
- SIDTLKX
- XXXYLVN
- XVISVSS
- AQTSIDT
- SVSSNSN
- XXDSVTY
- VEGYVGR
- XXYTGKP
- XXXYTGK
- ENSSQNE
- SSNSNSR
- SEQSKXX
- XXDTIDF
- AATSEQS
- XXXTHEP
- CPNSTGA
- PNSTGAE
- DMMSSSL
- FLSYPVV
- AQDSPEL
- GEVSVFV
- XXVTAVV
- XXXYYGG
- XXETAQD
- HFLSYPV
- DFGSAVV
- XXXTVLD
- XXXTDLP
- VVESPEG
- VNNTRXX
- ETLSKXX
- XXISEGI
- PISSKXX
- MMSSSLR
- VPISSKX
- MSSSLRX
- LAFTLGV
- PPPTHND
- VIVSGIV
- HSSSHSI
- XTASEFD
- VDDTRXX
- AHSSSHS
- XXXTASE
- QFFYKXX
- XXYTSVS
- SSHSIKX
- EFDSAIA
- TAHSSSH
- XXMSESN
- XXXYTSV
- HEHSKXX
- ALCYSIS
- XXMSETN
- MSETNVD
- XXXSKPV
- XIISYAQ
- HLESVVR
- LWDTNYA
- TTETQRX
- LNISGEF
- DTNYAKX
- ALTSFLG
- VALTSFL
- FLGYKXX
- EFSTKXX
- DEFSTKX
- IISYAQG
- SLTTFSP
- XXFYSLW
- LNFSRPW
- XXYSFSL
- XXXYSFS
- PGDSLYC
- YGTTETQ
- VPLTEGD
- YSFSLTT
- FSPSGKX
- TTFSPSG
- XLVSNGT
- GTDSHMV
- SNGTDSH
- AEWSGLS
- XXTTHPV
- FSLTTFS
- XXXTTHP
- ALIYRXX
- HPVSHGH
- XXXYAVA
- TGPYGKX
- NGITGPY
- IGLYKXX
- VSISFLK
- NIPTESR
- EPVSISF
- PTESRXX
- GLDYHHP
- TFQYTKX
- ELFTSLG
- FQYTKXX
- DETTFQY
- PDETTFQ
- ELLSHIA
- IFIYTDV
- FIYTDVL
- EFPTGKX
- SFVYVVS
- VLLYNAK
- TLATVDH
- VDCTLAT
- DCTSLLL
- LSDSLHM
- GLLSDSL
- LDCTSLL
- NEWTLDS
- TLDSAQV
- DAESALN
- XXISAVS
- AVSTYFE
- SAVSTYF
- PTLSFKX
- VKPTLSF
- MEQYRXX
- GVVSKXX
- EEQSIND
- LSSSIGV
- DFLSKXX
- XWYTLLE
- XXWYTLL
DEBUGGING INFORMATION
Command line:
/Users/t.bailey/meme_hg/meme/src/parallel/momo simple --oc results/momo3 --psm-type tide --single-motif-per-mass T 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'
motif width: 7
filter: false
remove unknowns: false
eliminate repeats: true
eliminate repeat width: 7
min occurrences: 5
single motif per mass: true
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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