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: hmm2/seq/F28C6.7a
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Query: F28C6.7a CE03278 locus:rpl-26 ribosomal protein L26 like status:Confirmed SW:Q19869 protein_id:CAA92674.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
KOW KOW motif 36.8 3.6e-08 1
Nepo_coat Nepovirus coat protein, central domain 3.1 10 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
KOW 1/1 49 82 .. 1 40 [] 36.8 3.6e-08
Nepo_coat 1/1 77 88 .. 164 176 .] 3.1 10
Alignments of top-scoring domains:
KOW: domain 1 of 1, from 49 to 82: score 36.8, E = 3.6e-08
*->fkkGdvVrVisGpfkGkkGkVvevdpkkGHGslknrVvve<-*
++ +d+V+V++G++kG +G+V++ ++kk ++++
F28C6.7a 49 IRTDDEVVVMRGRHKGNTGRVLRCYRKK------FVIHID 82
Nepo_coat: domain 1 of 1, from 77 to 88: score 3.1, E = 10
*->fmihIegIeadYp<-*
f+ihI+ I++ +
F28C6.7a 77 FVIHIDKITRE-K 88