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:                 trans_db
Sequence file:            megaplasmid.fasta
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Query sequence: lcl|gi|340783625|Plus1
Accession:      [none]
Description:    megaplasmid, complete sequence [UNKNOWN]

Scores for sequence family classification (score includes all domains):
Model                Description                        Score    E-value  N 
--------             -----------                        -----    ------- ---
IS66_ORF3.uniq                                          -30.0    1.7e-15   1

Parsed for domains:
Model                Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------             ------- ----- -----    ----- -----      -----  -------
IS66_ORF3.uniq         1/1   60792 61184 ..     1   558 []   -30.0  1.7e-15

Alignments of top-scoring domains:
IS66_ORF3.uniq: domain 1 of 1, from 60792 to 61184: score -30.0, E = 1.7e-15
                   *->mSSPLDLSLFPNLmtevvkmnaalpddlslLkAalqkqQavvea..l
                          L  S FP + +      aa+p+ l +    l    + v  + +
  lcl|gi|340 60792    SCTGLWDSEFPPVFPVNGSQRAATPF-LPVGPDELSSPPSSVLXscY 60837

                   dakianleelIEkLka.qldkLRRmkFGkrSEKkRhkLeldiaQiekale
                   d  +     l  +L ++q   LR    ++r                    
  lcl|gi|340 60838 DFPLCQSLSLCFRLGFpQALALRVRQRAPRGCH----------------- 60870

                   dLEddLnetqaeiaeaekkieaPAssppkeaPiaskPesPRqerkRkPLP
                         +  +a+    +      A+ +p++            + +   LP
  lcl|gi|340 60871 ------AHRRARGLFFTDTPHPVAVPRPQR----------DLTGSLVTLP 60904

                   eeLPReerRlePestvCPcggGqLkriGEDvsEqLDlvpaaFeVIqTvRp
                   + +P  e    P + + P             + + D vp+  +       
  lcl|gi|340 60905 APMPCSET---PVESQHPGH-----------TGRSDAVPTPNTMKTS--- 60937

                   KyACrqCdtiVQAPaPakpIErGiptaGLLArvlVSKyaEHlPLYRQsEI
                                                                     
  lcl|gi|340     - -------------------------------------------------- -    

                   yaRqGVeiaRstLadWVgrtgarLaPLvdALaeyVLkeGklHADeTPVqV
                         +i  s L   V++ + r                           
  lcl|gi|340 60938 ------AIMISGLIHGVSARCLRF-------------------------- 60955

                   LaPGnkKTKTGyLWAYvRDDRnagsSlppaVvfayspdRkGEHaqvhLae
                        k   TG      R D     Slp+ +    +  R G        e
  lcl|gi|340 60956 -----KRSVTG-----PRQD-----SLPADGL---RLCREG-------VE 60980

                   ysGkLqaDAyaGYnalyesgRVGGDpikEAgCwAHaRRKifDlhvrnpSe
                    sG      +   +   +           ++ wAH RR ++D+    pS+
  lcl|gi|340 60981 PSGSQXKVSVTSILLSRTXP---------VASWAHVRRHFYDVNQGAPSP 61021

                   lteEALerIaaLYeIEaeIRGspaEdRlavRqelSvPlvkslseWLtaqr
                    ++ AL rI +LYeIEaeI   p+E+    Rq+++ Pl+ s+  WL   r
  lcl|gi|340 61022 VAQTALLRIHELYEIEAEIKDDPPEQKMLARQQRAAPLLESFWTWLNDTR 61071

                   KtlsrgseLAKALaYlLnrWdALtryldDGqVpIDNNivENAiRrvAlGR
                     +  +s+ AKA  Y+L+rW ALt+yl+ G+  IDNN vE A+R vA+GR
  lcl|gi|340 61072 AQVAPKSAIAKAIGYALKRWKALTLYLQEGHLGIDNNPVERALRGVAIGR 61121

                   kNyLFaGSDrGGeraAliySLIgTCKmNgVePyaYLrdVltrLadwplnk
                   kN+LFaG D GGeraA++y LI TCK+NgVeP aYL+dVl++L++wp  +
  lcl|gi|340 61122 KNFLFAGNDAGGERAAAFYTLIETCKLNGVEPFAYLCDVLEKLPTWPNKR 61171

                   DideLLPWayasai<-*
                     +eLLPW++       
  lcl|gi|340 61172 -LHELLPWNWKNLT    61184

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