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/C25D7.2
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Query:  C25D7.2  CE08388    status:Partially_confirmed TR:O17595 protein_id:CAB02773.1

Scores for sequence family classification (score includes all domains):
Model      Description                                  Score    E-value  N
--------   -----------                                  -----    ------- ---
MSP_domain MSP (Major sperm protein) domain             113.3    5.9e-32   1
Viral_P18  ssRNA positive strand viral 18kD cysteine      4.4        6.9   1

Parsed for domains:
Model      Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------   ------- ----- -----    ----- -----      -----  -------
Viral_P18    1/1      98   126 ..     1    31 [.     4.4      6.9
MSP_domain   1/1     172   286 .]     1   138 []   113.3  5.9e-32

Alignments of top-scoring domains:
Viral_P18: domain 1 of 1, from 98 to 126: score 4.4, E = 6.9
                   *->kakvkcvrKyRaevYkklglekeavkCkLna<-*
                       +++k++r +R +  kk +   +a+kC Ln+
     C25D7.2    98    DKSSKSERSRRSSKSKKCDK--SAKKCDLNK    126

MSP_domain: domain 1 of 1, from 172 to 286: score 113.3, E = 5.9e-32
                   *->elklePpvtvtvfpnnlpfdkqggtstltltNpsdkriaFKvKtTnn
                             +t++  pn+lpf+++gg +t+++ N++++r aFKvKt++n
     C25D7.2   172    GTASVKTSTLRASPNKLPFATTGGVQTVSIANNTKSRKAFKVKTSDN 218

                   klYrVrPvyGilePgesvniavtrnvvVtlqrfkglpkpddknkdKfvvq
                    lYrV+Pv+G++ePg++++i v         r++g+ k     +d+++v
     C25D7.2   219 LLYRVNPVFGFVEPGDKLSIDVL--------RHNGVEK-----TDHMIVL 255

                   yleapsedadrqqkraareafkaaaaagvlvgerkipvvfe<-*
                   +++a+se ++      a+ +f+++++++     ++ip+v++
     C25D7.2   256 TSNASSEQNC------AKGVFESDQPRE----LTVIPLVVN    286



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