Motif confirmation by HMMer
hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
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HMM file: /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file: hmm1/seq/C14A4.10
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Query: C14A4.10 CE02139 locus:taf-13 FUN81 protein status:Predicted TR:Q17957 protein_id:CAA90114.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
TFIID-18 Transcription initiation factor IID, 18kD su 187.9 8.1e-55 1
Srg C.elegans Srg family integral membrane prote 11.4 0.057 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
TFIID-18 1/1 27 116 .. 1 93 [] 187.9 8.1e-55
Srg 1/1 182 230 .. 114 163 .. 11.4 0.057
Alignments of top-scoring domains:
TFIID-18: domain 1 of 1, from 27 to 116: score 187.9, E = 8.1e-55
*->hlFrkeLqsMMYafGDdqnPlpeTvdllEeiVrgyiiEmllqAakva
h++r++L+sM+Y+fGDd++P+++T+d+lE+iV++yi+E+++ A+kv+
C14A4.10 27 HVLRRDLRSMVYGFGDDKEPYDKTLDTLEAIVLNYIKELCQLAMKVG 73
qnrGsrkitvEDlkFLiRkDpkKlgRvkeLLsmkellkkarKqfde<-*
+++ k+++ED+++LiR+DpkK++Rvk+LLsm+e+lkkarKqf++
C14A4.10 74 KPD---KMALEDIHYLIRRDPKKFSRVKDLLSMSEELKKARKQFED 116
Srg: domain 1 of 1, from 182 to 230: score 11.4, E = 0.057
*->lmkIyypllnYlqafKtliQiflsfNRMtCNVLfPvdyskiWkkiLk
l k+ + +++Y+ + + +Q +ls NR++ + P+ ++k+W k+++
C14A4.10 182 LAKMGFMISQYSVLVEMCAQLLLSINRLSA-IVYPIQHNKFWTKKIT 227
pvl<-*
+ l
C14A4.10 228 LLL 230