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:            hmm4/seq/W02A2.6
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Query:  W02A2.6  CE21236  locus:rec-8  status:Partially_confirmed TR:Q9XUB3 protein_id:CAB05309.1

Scores for sequence family classification (score includes all domains):
Model        Description                                Score    E-value  N
--------     -----------                                -----    ------- ---
Rad21_Rec8_N N terminus of Rad21 / Rec8 like protein    172.2      4e-51   1
DUF173       Uncharacterised ACR, COG1354                12.3       0.02   1
Phage_F      Capsid protein (F protein)                   2.0        7.7   1

Parsed for domains:
Model        Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------     ------- ----- -----    ----- -----      -----  -------
Rad21_Rec8_N   1/1       1   114 [.     1   136 []   172.2    4e-51
Phage_F        1/1     208   230 ..     1    23 [.     2.0      7.7
DUF173         1/1     729   776 ..   226   283 .]    12.3     0.02

Alignments of top-scoring domains:
Rad21_Rec8_N: domain 1 of 1, from 1 to 114: score 172.2, E = 4e-51
                   *->MFYshfvLskeKGPLakIWLAAiLGtghwekKLkKkqvletdIpetc
                      M++s++v++k +++++++W   iLGtg++ kKL+++++l++++pe+c
     W02A2.6     1    MVVSAEVIRK-DAVFHVAW---ILGTGDS-KKLSRREILDQNLPELC 42

                   eeIlnpvlvRVvPererGsevdplALRlSghLLlGVVRiYsrKvkyLldD
                   ++I+++     vPer+rGs++ +++L+l++ L++G+V+i++++v++L++D
     W02A2.6    43 HSIIEM-----VPERHRGSAT-KTGLYLLSLLTYGTVLIHQVQVDFLKRD 86

                   cneallklkkaFrsgqkdfevdlPeenrtarinsnltlP<-*
                   ++++++ +kk      k+f+++++e     r+++n++l+
     W02A2.6    87 VEKLKELMKK------KSFILLMAE-----RFDRNQELQ    114

Phage_F: domain 1 of 1, from 208 to 230: score 2.0, E = 7.7
                   *->skvqtlasrmphdfShlpfahiq<-*
                       ++ + +++++ dfS+l f  i+
     W02A2.6   208    HNKERRNDAVIADFSQLLFPEIP    230

DUF173: domain 1 of 1, from 729 to 776: score 12.3, E = 0.02
                   *->wisFfeLvkdcHHHLDPnhliskkdlVgaFlALLeLannqkVeleQe
                      w++F e+ +d           ++k  ++aF  LL+  +n kVe  Qe
     W02A2.6   729    WVNFNEFTAD----------HDRKKAATAFEGLLLSLKNMKVEAKQE 765

                   effgdlyiqll<-*
                   +++ ++++  +
     W02A2.6   766 DPYFPILVRHI    776



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