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/20080810/iprscan-20080810-05393717/chunk_1/iprscan-20080810-05393717.nocrc
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Query sequence: fj01677
Accession:      [none]
Description:    [none]

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N 
-------- -----------                                    -----    ------- ---
PF00035.15.fs Double-stranded RNA binding motif              173.7    4.2e-49   4
PF00035.15.ls Double-stranded RNA binding motif              168.9    1.2e-47   4

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
PF00035.15.ls   2/4     103   158 ..     1    67 []    26.8  7.2e-05
PF00035.15.fs   2/4     122   158 ..    30    67 .]    32.4  2.1e-08
PF00035.15.fs   3/4     187   251 ..     1    67 []    56.4  3.6e-15
PF00035.15.ls   3/4     187   251 ..     1    67 []    58.4  2.2e-14
PF00035.15.fs   4/4     287   352 ..     1    67 []    69.7  6.5e-19
PF00035.15.ls   4/4     287   352 ..     1    67 []    71.7  2.2e-18

Alignments of top-scoring domains:
PF00035.15.ls: domain 2 of 4, from 103 to 158: score 26.8, E = 7.2e-05
                   *->pks..lLqEllcqkkgkkppyeyiee.gpphnpptFtvtvtvngkey
                      ++ +  +  ++ q+++         +++p    ++F+v++tv+++e+
     fj01677   103    YRAnyNFRGMYNQRYH---------CpVP----KIFYVQLTVGNNEF 136  

                   gtGkgssKKeAkqlAAekALrkL<-*
                     G+g+++++A+++AA+kAL+ L   
     fj01677   137 F-GEGKTRQAARHNAAMKALQAL    158  

PF00035.15.fs: domain 2 of 4, from 122 to 158: score 32.4, E = 2.1e-08
                   *->pptFtvtvtvngkeygtGkgssKKeAkqlAAekALrkL<-*
                      p++F+v++tv+++e+  G+g+++++A+++AA+kAL+ L   
     fj01677   122    PKIFYVQLTVGNNEFF-GEGKTRQAARHNAAMKALQAL    158  

PF00035.15.fs: domain 3 of 4, from 187 to 251: score 56.4, E = 3.6e-15
                   *->pkslLqEllcqkkgkkppyeyiee.gpphnpptFtvtvtvngkeygt
                       +sl  E ++ k+++++++e+i+e+gpph  ++F+++v v+++   +
     fj01677   187    EISLVFE-IALKRNMPVSFEVIKEsGPPHM-KSFVTRVSVGEFSA-E 230  

                   GkgssKKeAkqlAAekALrkL<-*
                   G+g+sKK++k++AA  +L++L   
     fj01677   231 GEGNSKKLSKKRAATTVLQEL    251  

PF00035.15.ls: domain 3 of 4, from 187 to 251: score 58.4, E = 2.2e-14
                   *->pkslLqEllcqkkgkkppyeyiee.gpphnpptFtvtvtvngkeygt
                       +sl  E ++ k+++++++e+i+e+gpph  ++F+++v v+++   +
     fj01677   187    EISLVFE-IALKRNMPVSFEVIKEsGPPHM-KSFVTRVSVGEFSA-E 230  

                   GkgssKKeAkqlAAekALrkL<-*
                   G+g+sKK++k++AA  +L++L   
     fj01677   231 GEGNSKKLSKKRAATTVLQEL    251  

PF00035.15.fs: domain 4 of 4, from 287 to 352: score 69.7, E = 6.5e-19
                   *->pkslLqEllcqkkg.kkppyeyiee.gpphnpptFtvtvtvngkeyg
                      p+s+L + + q k++k+p+y++++e+g p + ++F+++v+v g+e++
     fj01677   287    PISRLAQ-IQQAKKeKEPDYVLLSErGMPRR-REFVMQVKV-GNEVA 330  

                   tGkgssKKeAkqlAAekALrkL<-*
                   tG+g++KK Ak++AAe++L +L   
     fj01677   331 TGTGPNKKIAKKNAAEAMLLQL    352  

PF00035.15.ls: domain 4 of 4, from 287 to 352: score 71.7, E = 2.2e-18
                   *->pkslLqEllcqkkg.kkppyeyiee.gpphnpptFtvtvtvngkeyg
                      p+s+L + + q k++k+p+y++++e+g p + ++F+++v+v g+e++
     fj01677   287    PISRLAQ-IQQAKKeKEPDYVLLSErGMPRR-REFVMQVKV-GNEVA 330  

                   tGkgssKKeAkqlAAekALrkL<-*
                   tG+g++KK Ak++AAe++L +L   
     fj01677   331 TGTGPNKKIAKKNAAEAMLLQL    352  

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