hmmpfam - search one or more sequences against HMM database
HMMER 2.3.2 (Oct 2003)
Copyright (C) 1992-2003 HHMI/Washington University School of Medicine
Freely distributed under the GNU General Public License (GPL)
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HMM file:                 /db/iprscan/data/Pfam.bin
Sequence file:            /db/iprscan/tmp/20080806/iprscan-20080806-22291729/chunk_1/iprscan-20080806-22291729.nocrc
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Query sequence: ah04440
Accession:      [none]
Description:    [none]

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N 
-------- -----------                                    -----    ------- ---
PF00856.18.ls SET domain                                     176.9    4.7e-50   1
PF00856.18.fs SET domain                                     175.4    1.3e-49   1
PF00076.12.fs RNA recognition motif. (a.k.a. RRM, RBD, or     26.5    1.1e-06   1
PF00076.12.ls RNA recognition motif. (a.k.a. RRM, RBD, or     24.5    0.00034   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
PF00076.12.ls   1/1      98   169 ..     1    74 []    24.5  0.00034
PF00076.12.fs   1/1     112   169 ..    15    74 .]    26.5  1.1e-06
PF00856.18.fs   1/1    1564  1693 ..     1   259 []   175.4  1.3e-49
PF00856.18.ls   1/1    1564  1693 ..     1   259 []   176.9  4.7e-50

Alignments of top-scoring domains:
PF00076.12.ls: domain 1 of 1, from 98 to 169: score 24.5, E = 0.00034
                   *->lfVgNLppdtteedLkdlFskfGpiesikivrDttretgrskGfaFV
                      +    L+ ++ e  Lkd+ +k+G++e+++i     + t ++ G a V
     ah04440    98    VTFARLNDNVRETFLKDMCRKYGEVEEVEILLH--PRTRKHLGLARV 142  

                   eFedeedAekAldalnGkelggrelrv<-*
                    F++ ++A++ +++l+ + ++g+ ++    
     ah04440   143 LFTSTRGAKETVKNLHLTSVMGNIIHA    169  

PF00076.12.fs: domain 1 of 1, from 112 to 169: score 26.5, E = 1.1e-06
                   *->LkdlFskfGpiesikivrDttretgrskGfaFVeFedeedAekAlda
                      Lkd+ +k+G++e+++i     + t ++ G a V F++ ++A++ +++
     ah04440   112    LKDMCRKYGEVEEVEILLH--PRTRKHLGLARVLFTSTRGAKETVKN 156  

                   lnGkelggrelrv<-*
                   l+ + ++g+ ++    
     ah04440   157 LHLTSVMGNIIHA    169  

PF00856.18.fs: domain 1 of 1, from 1564 to 1693: score 175.4, E = 1.3e-49
                   *->vqkgkwlrlegfkteikGwGlratedIpkGefiiEYpGelitseeae
                      ++k ++++l  ++++i+ wGl+a+e+I+++e++iEY+G  i++  a+
     ah04440  1564    QLKFRKKKLRFGRSRIHEWGLFAMEPIAADEMVIEYVGQNIRQMVAD 1610 

                   kreddllglklydndgdksldeYlfdldalfLlyEklkSfWkpYiiLPdy
                   +re      k+y ++g++s+  Ylf+ d+                     
     ah04440  1611 MRE------KRYVQEGIGSS--YLFRVDH--------------------- 1631 

                   sPlfWseeellLkGtqlletdkleleeydllaeeievvlqhklFpdveee
                                                                     
     ah04440     - -------------------------------------------------- -    

                   fsfedflWaasivsSRafslvegvnresensegslelviDAtrkGNiaRF
                                                      + +iDAt+ GN+aRF
     ah04440  1632 -----------------------------------DTIIDATKCGNLARF 1646 

                   iNHSCePNcevqvvfvdgedpgsdedaglepgdprivlfAlrdIpaGeEL
                   iNH C+PNc+++v++++              + ++iv++++++I  +eE+
     ah04440  1647 INHCCTPNCYAKVITIE--------------SQKKIVIYSKQPIGVDEEI 1682 

                   tydYgydksnge<-*
                   tydY+ ++ +++   
     ah04440  1683 TYDYK-FPLEDN    1693 

PF00856.18.ls: domain 1 of 1, from 1564 to 1693: score 176.9, E = 4.7e-50
                   *->vqkgkwlrlegfkteikGwGlratedIpkGefiiEYpGelitseeae
                      ++k ++++l  ++++i+ wGl+a+e+I+++e++iEY+G  i++  a+
     ah04440  1564    QLKFRKKKLRFGRSRIHEWGLFAMEPIAADEMVIEYVGQNIRQMVAD 1610 

                   kreddllglklydndgdksldeYlfdldalfLlyEklkSfWkpYiiLPdy
                   +re      k+y ++g++s+  Ylf+ d+                     
     ah04440  1611 MRE------KRYVQEGIGSS--YLFRVDH--------------------- 1631 

                   sPlfWseeellLkGtqlletdkleleeydllaeeievvlqhklFpdveee
                                                                     
     ah04440     - -------------------------------------------------- -    

                   fsfedflWaasivsSRafslvegvnresensegslelviDAtrkGNiaRF
                                                      + +iDAt+ GN+aRF
     ah04440  1632 -----------------------------------DTIIDATKCGNLARF 1646 

                   iNHSCePNcevqvvfvdgedpgsdedaglepgdprivlfAlrdIpaGeEL
                   iNH C+PNc+++v++++              + ++iv++++++I  +eE+
     ah04440  1647 INHCCTPNCYAKVITIE--------------SQKKIVIYSKQPIGVDEEI 1682 

                   tydYgydksnge<-*
                   tydY+ ++ +++   
     ah04440  1683 TYDYK-FPLEDN    1693 

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