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/C38D4.6
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Query: C38D4.6 CE27837 locus:pal-1 homeobox protein (cad subfamily) status:Confirmed SW:P34766 protein_id:CAA86322.2
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
homeobox Homeobox domain 87.3 3.1e-22 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
homeobox 1/1 208 263 .. 2 57 .] 87.3 3.1e-22
Alignments of top-scoring domains:
homeobox: domain 1 of 1, from 208 to 263: score 87.3, E = 3.1e-22
*->rkRTtFtpeQleeLEkeFqknpYPsreeReeLAkkLgLterqVkvWF
+ R +++++Q++eLEkeF+ +p +++++ +L+ +L Lterq+k+WF
C38D4.6 208 KYRMVYSDYQRLELEKEFHTSPFITSDRKSQLSTMLSLTERQIKIWF 254
QNRRaKwKk<-*
QNRRaK ++
C38D4.6 255 QNRRAKDRR 263