t/data/hmmpfam_HSPdashline.txt

   1 hmmpfam - search one or more sequences against HMM database
   2 HMMER 2.3.2 (Oct 2003)
   3 Copyright (C) 1992-2003 HHMI/Washington University School of Medicine
   4 Freely distributed under the GNU General Public License (GPL)
   5 - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
   6 HMM file:                 trans_db
   7 Sequence file:            megaplasmid.fasta
   8 - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
   9
  10 Query sequence: lcl|gi|340783625|Plus1
  11 Accession:      [none]
  12 Description:    megaplasmid, complete sequence [UNKNOWN]
  13
  14 Scores for sequence family classification (score includes all domains):
  15 Model                Description                        Score    E-value  N
  16 --------             -----------                        -----    ------- ---
  17 IS66_ORF3.uniq                                          -30.0    1.7e-15   1
  18
  19 Parsed for domains:
  20 Model                Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
  21 --------             ------- ----- -----    ----- -----      -----  -------
  22 IS66_ORF3.uniq         1/1   60792 61184 ..     1   558 []   -30.0  1.7e-15
  23
  24 Alignments of top-scoring domains:
  25 IS66_ORF3.uniq: domain 1 of 1, from 60792 to 61184: score -30.0, E = 1.7e-15
  26                    *->mSSPLDLSLFPNLmtevvkmnaalpddlslLkAalqkqQavvea..l
  27                           L  S FP + +      aa+p+ l +    l    + v  + +
  28   lcl|gi|340 60792    SCTGLWDSEFPPVFPVNGSQRAATPF-LPVGPDELSSPPSSVLXscY 60837
  29
  30                    dakianleelIEkLka.qldkLRRmkFGkrSEKkRhkLeldiaQiekale
  31                    d  +     l  +L ++q   LR    ++r
  32   lcl|gi|340 60838 DFPLCQSLSLCFRLGFpQALALRVRQRAPRGCH----------------- 60870
  33
  34                    dLEddLnetqaeiaeaekkieaPAssppkeaPiaskPesPRqerkRkPLP
  35                          +  +a+    +      A+ +p++            + +   LP
  36   lcl|gi|340 60871 ------AHRRARGLFFTDTPHPVAVPRPQR----------DLTGSLVTLP 60904
  37
  38                    eeLPReerRlePestvCPcggGqLkriGEDvsEqLDlvpaaFeVIqTvRp
  39                    + +P  e    P + + P             + + D vp+  +
  40   lcl|gi|340 60905 APMPCSET---PVESQHPGH-----------TGRSDAVPTPNTMKTS--- 60937
  41
  42                    KyACrqCdtiVQAPaPakpIErGiptaGLLArvlVSKyaEHlPLYRQsEI
  43
  44   lcl|gi|340     - -------------------------------------------------- -
  45
  46                    yaRqGVeiaRstLadWVgrtgarLaPLvdALaeyVLkeGklHADeTPVqV
  47                          +i  s L   V++ + r
  48   lcl|gi|340 60938 ------AIMISGLIHGVSARCLRF-------------------------- 60955
  49
  50                    LaPGnkKTKTGyLWAYvRDDRnagsSlppaVvfayspdRkGEHaqvhLae
  51                         k   TG      R D     Slp+ +    +  R G        e
  52   lcl|gi|340 60956 -----KRSVTG-----PRQD-----SLPADGL---RLCREG-------VE 60980
  53
  54                    ysGkLqaDAyaGYnalyesgRVGGDpikEAgCwAHaRRKifDlhvrnpSe
  55                     sG      +   +   +           ++ wAH RR ++D+    pS+
  56   lcl|gi|340 60981 PSGSQXKVSVTSILLSRTXP---------VASWAHVRRHFYDVNQGAPSP 61021
  57
  58                    lteEALerIaaLYeIEaeIRGspaEdRlavRqelSvPlvkslseWLtaqr
  59                     ++ AL rI +LYeIEaeI   p+E+    Rq+++ Pl+ s+  WL   r
  60   lcl|gi|340 61022 VAQTALLRIHELYEIEAEIKDDPPEQKMLARQQRAAPLLESFWTWLNDTR 61071
  61
  62                    KtlsrgseLAKALaYlLnrWdALtryldDGqVpIDNNivENAiRrvAlGR
  63                      +  +s+ AKA  Y+L+rW ALt+yl+ G+  IDNN vE A+R vA+GR
  64   lcl|gi|340 61072 AQVAPKSAIAKAIGYALKRWKALTLYLQEGHLGIDNNPVERALRGVAIGR 61121
  65
  66                    kNyLFaGSDrGGeraAliySLIgTCKmNgVePyaYLrdVltrLadwplnk
  67                    kN+LFaG D GGeraA++y LI TCK+NgVeP aYL+dVl++L++wp  +
  68   lcl|gi|340 61122 KNFLFAGNDAGGERAAAFYTLIETCKLNGVEPFAYLCDVLEKLPTWPNKR 61171
  69
  70                    DideLLPWayasai<-*
  71                      +eLLPW++
  72   lcl|gi|340 61172 -LHELLPWNWKNLT    61184
  73
  74 //