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/C06C6.5a
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Query: C06C6.5a CE15599 locus:nhr-50 Zinc finger, C4 type (two domains) status:Partially_confirmed TR:O62031 protein_id:CAB07555.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
zf-C4 Zinc finger, C4 type (two domains) 37.9 4.6e-10 2
hormone_rec Ligand-binding domain of nuclear hormone 12.1 0.0094 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
zf-C4 1/2 14 29 .. 14 29 .. 12.1 0.026
zf-C4 2/2 52 73 .. 56 77 .] 27.4 6.7e-07
hormone_rec 1/1 261 304 .. 101 145 .. 12.1 0.0094
Alignments of top-scoring domains:
zf-C4: domain 1 of 2, from 14 to 29: score 12.1, E = 0.026
*->HYGvlTCEGCKGFFrR<-*
H+G+l+C C +FFrR
C06C6.5a 14 HFGALSCRACAAFFRR 29
zf-C4: domain 2 of 2, from 52 to 73: score 27.4, E = 6.7e-07
*->CQyCRLkKCLeVGMskeaVrfg<-*
C+ CR kKCL++GM+ e V+++
C06C6.5a 52 CRECRIKKCLSIGMNPEKVQEK 73
hormone_rec: domain 1 of 1, from 261 to 304: score 12.1, E = 0.0094
*->ldeeEyalLkAIvLfnPsdvpgLsesarelveklqekylsaLlqy<-
ld+ E+ +L I+Lf+ ++ ++s ++ e ++ +++ + ++L++y
C06C6.5a 261 LDQPEFMALALIILFDG-AYSNISVECSEMCRTIRNLIFRELKNY 304
*
C06C6.5a - -