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:            hmm3/seq/K07A1.6
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Query:  K07A1.6  CE18856    status:Confirmed TR:P90911 protein_id:CAB03176.1

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
TIL      Trypsin Inhibitor like cysteine rich domain     68.0    5.1e-20   1
TNFR_c6  TNFR/NGFR cysteine-rich region                   6.8        1.5   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
TIL        1/1      38    97 ..     1    67 []    68.0  5.1e-20
TNFR_c6    1/1      77    99 ..     1    24 [.     6.8      1.5

Alignments of top-scoring domains:
TIL: domain 1 of 1, from 38 to 97: score 68.0, E = 5.1e-20
                   *->CpaneqyteCgpsCepsCsnpdgplettppCegtSpkvPstCkeg.C
                      Cp  e++++Cg+ Ce sC++p++p  +  +C+       ++C++ +C
     K07A1.6    38    CPRYETWRKCGNGCEKSCTHPRQP--PFSQCK-------LPCIPYsC 75

                   vCqpGyVrnndgd.kCVprseC<-*
                    C+pG++r+n+g+++CV+ + C
     K07A1.6    76 RCNPGFYRDNQGTgRCVRLRRC    97

TNFR_c6: domain 1 of 1, from 77 to 99: score 6.8, E = 1.5
                   *->CeegvtYtd.enhleqClsCsrCep<-*
                      C +g +Y d++++ ++C++ +rC +
     K07A1.6    77    CNPG-FYRDnQGT-GRCVRLRRCKK    99



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