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:            hmm5b/seq/ZK813.1
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Query:  ZK813.1  CE05110    status:Partially_confirmed TR:Q23606 protein_id:AAB52654.1

Scores for sequence family classification (score includes all domains):
Model          Description                              Score    E-value  N
--------       -----------                              -----    ------- ---
Chorion_2      Chorion family 2                         233.8    2.4e-66   1
Vitellogenin_N Lipoprotein amino terminal region          2.0        5.7   1

Parsed for domains:
Model          Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------       ------- ----- -----    ----- -----      -----  -------
Vitellogenin_N   1/1      46   109 ..   358   417 ..     2.0      5.7
Chorion_2        1/1       1   128 [.     1   191 []   233.8  2.4e-66

Alignments of top-scoring domains:
Vitellogenin_N: domain 1 of 1, from 46 to 109: score 2.0, E = 5.7
                   *->skkravrs..............nssssssssssssssssSSSSSSSS
                      +k +++r+++++++++++++++++s+ss+sss+s s+     SSS S
     ZK813.1    46    RKHHRRRHgrrgrhgrhgrhgrRHSDSSDSSSESRSR-----SSSGS 87

                   SSSessSssssysSEEylyqqp.leeAP<-*
                   SSSes+S +      +++y+ p+  +AP
     ZK813.1    88 SSSESRSYE------RDYYYVPrWPTAP    109

Chorion_2: domain 1 of 1, from 1 to 128: score 233.8, E = 2.4e-66
                   *->MKfLiiFVtLALiAcvsAnpYGgnqGYGSvPvGGqadyvqPALtvKA
                      MK+Li  V+LALiA+v+A++YG+           q+dy++
     ZK813.1     1    MKLLI--VLLALIAVVVASSYGA-----------QNDYPT------- 27

                   ivPnvGyGGGGyGnGNPFYgPakrvrseevvVpaHYgpsrGrYGiPAPtA
                      +vGyG++Gy+nGNPFY+P+k++r+++   ++ +g ++Gr+G
     ZK813.1    28 ---DVGYGNPGYDNGNPFYKPRKHHRRRH---GR-RG-RHGRHG------ 63

                   WNLSPRHAGAALtPVNARtiSgyGrppsLrSaSSgpsASAAAaaAsAgln
                                        ++Gr++s++S+SS++s+S++++++s++ +
     ZK813.1    64 ---------------------RHGRRHSDSSDSSSESRSRSSSGSSSS-E 91

                   pgsYkQDYyaVpsYeldgsynGpsrGNDVPAgAGqLSYGyGqga<-*
                   ++sY++DYy+Vp++++++sy G+ +GNDVPAg     ++yG++a
     ZK813.1    92 SRSYERDYYYVPRWPTAPSY-GN-TGNDVPAG-----TAYGSPA    128



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