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/20090618/iprscan-20090618-16371951/chunk_1/iprscan-20090618-16371951.nocrc
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Query sequence: hk07083
Accession:      [none]
Description:    [none]

Scores for sequence family classification (score includes all domains):
Model           Description                             Score    E-value  N 
--------        -----------                             -----    ------- ---
PF04589.4.ls    RFX1 transcription activation region    376.9   2.9e-110   1
PF04589.4.fs    RFX1 transcription activation region    375.1     5e-110   2
PF02257.6.fs    RFX DNA-binding domain                  189.8    3.7e-58   1
PF02257.6.ls    RFX DNA-binding domain                  191.8    1.5e-54   1

Parsed for domains:
Model           Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------        ------- ----- -----    ----- -----      -----  -------
PF04589.4.fs      2/2     230   393 ..     1   168 []   375.0 5.4e-110
PF04589.4.ls      1/1     230   393 ..     1   168 []   376.9 2.9e-110
PF02257.6.fs      1/1     436   518 ..     1    84 []   189.8  3.7e-58
PF02257.6.ls      1/1     436   518 ..     1    84 []   191.8  1.5e-54

Alignments of top-scoring domains:
PF04589.4.fs: domain 2 of 2, from 230 to 393: score 375.0, E = 5.4e-110
                   *->mqsSeTgadstatVaqqLqvsaaaqsvpvtqeRsvVQAassaPKpsv
                      ++sS+T++++t+tV+qqLqv++++qsvpvtqeRsvVQA+++aPKp++
     hk07083   230    SSSSKTAGAPTGTVPQQLQVHGVQQSVPVTQERSVVQATPQAPKPGP 276  

                   vQpvsvqrqvQqVHVaQeVQqLqqVpVqHVYpAQVQYVEGgDAvYTngAI
                   vQp++vq+ +Q+VHVaQeVQqLqqVpV+HVY++QVQYVEGgDA+YT++AI
     hk07083   277 VQPLTVQG-LQPVHVAQEVQQLQQVPVPHVYSSQVQYVEGGDASYTASAI 325  

                   RtstysypEtqmYaqsasasYFeAaGsaaQVttaasSqavvssGSmvGit
                   R+stysypEt++Y+q+as+sY+eAaG+a+QV+t+a+Sqav+ssGS   ++
     hk07083   326 RSSTYSYPETPLYTQTASTSYYEAAGTATQVSTPATSQAVASSGS---MP 372  

                   MdVsGSqvVsSSgsTYliass<-*
                   M+VsGSqvV+SS+sT+++as+   
     hk07083   373 MYVSGSQVVASSASTGAGASN    393  

PF04589.4.ls: domain 1 of 1, from 230 to 393: score 376.9, E = 2.9e-110
                   *->mqsSeTgadstatVaqqLqvsaaaqsvpvtqeRsvVQAassaPKpsv
                      ++sS+T++++t+tV+qqLqv++++qsvpvtqeRsvVQA+++aPKp++
     hk07083   230    SSSSKTAGAPTGTVPQQLQVHGVQQSVPVTQERSVVQATPQAPKPGP 276  

                   vQpvsvqrqvQqVHVaQeVQqLqqVpVqHVYpAQVQYVEGgDAvYTngAI
                   vQp++vq+ +Q+VHVaQeVQqLqqVpV+HVY++QVQYVEGgDA+YT++AI
     hk07083   277 VQPLTVQG-LQPVHVAQEVQQLQQVPVPHVYSSQVQYVEGGDASYTASAI 325  

                   RtstysypEtqmYaqsasasYFeAaGsaaQVttaasSqavvssGSmvGit
                   R+stysypEt++Y+q+as+sY+eAaG+a+QV+t+a+Sqav+ssGS   ++
     hk07083   326 RSSTYSYPETPLYTQTASTSYYEAAGTATQVSTPATSQAVASSGS---MP 372  

                   MdVsGSqvVsSSgsTYliass<-*
                   M+VsGSqvV+SS+sT+++as+   
     hk07083   373 MYVSGSQVVASSASTGAGASN    393  

PF02257.6.fs: domain 1 of 1, from 436 to 518: score 189.8, E = 3.7e-58
                   *->ddaseqNresnrqvfPAtlqWLkenyEeqedvclPRsklYahYlkhC
                      + +++q+++++++++PAt+qWL++nyE++e+v+lPRs+lY+hYl hC
     hk07083   436    LGSASQSYSHTTRASPATVQWLLDNYETAEGVSLPRSTLYCHYLLHC 482  

                   eslaClkPlnaASFGKLIRsvFpdLkTRRLGtRGqSK<-*
                   ++++ l+P+naASFGKLIRsvF++L+TRRLGtRG+SK   
     hk07083   483 QEQK-LEPVNAASFGKLIRSVFMGLRTRRLGTRGNSK    518  

PF02257.6.ls: domain 1 of 1, from 436 to 518: score 191.8, E = 1.5e-54
                   *->ddaseqNresnrqvfPAtlqWLkenyEeqedvclPRsklYahYlkhC
                      + +++q+++++++++PAt+qWL++nyE++e+v+lPRs+lY+hYl hC
     hk07083   436    LGSASQSYSHTTRASPATVQWLLDNYETAEGVSLPRSTLYCHYLLHC 482  

                   eslaClkPlnaASFGKLIRsvFpdLkTRRLGtRGqSK<-*
                   ++++ l+P+naASFGKLIRsvF++L+TRRLGtRG+SK   
     hk07083   483 QEQK-LEPVNAASFGKLIRSVFMGLRTRRLGTRGNSK    518  

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