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:                 /data11/genetics/InterProScan/iprscan/data/smart.HMMs
Sequence file:            /cdna4/rodent/full/goal/mbp/mbp09110/w3open/interpro/cnk_1/seq.in
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Query:  mFLJ00139  ( 992 res)   mbp09110

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N 
-------- -----------                                    -----    ------- ---
CH       Calponin homology domain                        47.9    1.4e-09   1
LIM      Zinc-binding domain present in Lin-11, Isl-1    32.8    4.5e-05   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
CH         1/1       5    85 ..     1   100 []    47.9  1.4e-09
LIM        1/1     170   224 ..     1    52 []    32.8  4.5e-05

Alignments of top-scoring domains:
CH: domain 1 of 1, from 5 to 85: score 47.9, E = 1.4e-09
                   *->eeeallrWinsllkvtnfssdlkDGvvLckLlnslsPagsvdkkk..
                                    +tn +++++DG+++c+ l++++P +++++   +
   mFLJ00139     5    -------------SITNMTTSFRDGLAFCAILHRHRP-DLINFSAlr 37   

                   rfkkleNinlalsfaeklgafLGvgkvvlfdpeDlvegnenkklilgviw
                   +++  eN +la+++ae++     +g++ l+d+eD+v    + ++ l++++
   mFLJ00139    38 KENIYENNKLAFQVAEEQ-----LGIPALLDAEDMVAL--KVPDRLSILT 80   

                   tLirl<-*
                   +++++   
   mFLJ00139    81 YVSQY    85   

LIM: domain 1 of 1, from 170 to 224: score 32.8, E = 4.5e-05
                   *->kCagCgkpItgdevlralgkvwHpeCFkCskCkkpLgg...tffekd
                      +C+ Cgk++   ++  a+g+ +H +CF+C +C+ +L ++  +   + 
   mFLJ00139   170    ICGVCGKHVHLVQRHLADGRLYHRSCFRCKQCSSTLHSgayRATGEP 216  

                   gklyCkdc<-*
                   g + C ++   
   mFLJ00139   217 GVFVCTHH    224  

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