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:            hmm5/seq/Y110A2AL.9
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Query:  Y110A2AL.9  CE23219    status:Partially_confirmed TR:Q9N499 protein_id:AAF60397.1

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
CC       CC domain                                       83.8    4.1e-23   3

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
CC         1/3       3    16 ..    23    36 .]    12.8    0.041
CC         2/3      19    54 ..     1    36 []    63.2    5e-17
CC         3/3      72    99 ..     9    36 .]    19.1  0.00057

Alignments of top-scoring domains:
CC: domain 1 of 3, from 3 to 16: score 12.8, E = 0.041
                   *->GqVlvvgdrCCaak<-*
                      ++V+v+g+ CC++k
  Y110A2AL.9     3    DTVMVNGNMCCESK    16

CC: domain 2 of 3, from 19 to 54: score 63.2, E = 5e-17
                   *->ssssalsCKsptgPaifGvCpaGqVlvvgdrCCaak<-*
                      ++ss lsCKs+++Pa +G+C++G++l++g+rCCa+k
  Y110A2AL.9    19    AVSSLLSCKSDMTPAGYGLCRPGYTLMYGYRCCATK    54

CC: domain 3 of 3, from 72 to 99: score 19.1, E = 0.00057
                   *->KsptgPaifGvCpaGqVlvvgdrCCaak<-*
                      +s +g a++GvCp G+ ++ g+ CC+++
  Y110A2AL.9    72    NSVMGSAVNGVCPTGYSVTKGNLCCKTA    99



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