Command line: [exonerate -m p2g --showtargetgff -q secS.fa -t contigsecS.fa]
Hostname: [localhost]

C4 Alignment:
------------
         Query: ENSMUST00000031069 peptide:ENSMUSP00000031069 pep:KNOWN_protein_coding
        Target: gi|56500068|emb|CAAI01000796.1| Plasmodium berghei whole genome shotgun assembly, contig PB_RP0901, whole genome shotgun sequence
         Model: protein2genome
     Raw score: 526
   Query range: 96 -> 380
  Target range: 4492 -> 5344

   97 : ArgSerGlyAspIleSerAlaValGlnProLysAlaAlaGlySerSerLeuLeuAsnLysIl :  117
        |||||||||:!!:!:..!! !||||||||||||::!.!!|||!:!|||||||||  !|||||
        ArgSerGlyAsnLeuAspAspValGlnProLysSerThrGlyAsnSerLeuLeuCysLysIl
 4493 : AGATCAGGAAACTTGGACGATGTGCAGCCCAAAAGCACAGGGAACAGCTTATTGTGTAAAAT : 4553

  118 : eThrAsnSerLeuValLeuAsnValIleLysLeuAlaGlyValHisSerValAlaSerCysP :  138
        ||||!..!:!:!!:!!  ! !!:!!||||||  !  !|||:!! ! !.!  !! !..!   !
        eThrThrAsnMetLeuLysTyrLeuIleLysSerPheGlyIleLysLysCysGluAspValT
 4554 : AACAACGAATATGTTAAAATATTTAATAAAAAGCTTTGGAATAAAAAAATGTGAAGATGTAT : 4616

  139 : heValValProMetAlaThrGlyMetSerLeuThrLeuCysPheLeuThrLeuArgHisLys :  158
        :!:!!:!!|||   ||||||||||||!!!:!!!:!  !|||!!.|||  !|||!:! !   !
        yrIleLeuProTyrAlaThrGlyMetCysIleSerThrCysLeuLeuTyrLeuLysLysVal
 4617 : ATATATTGCCATATGCAACGGGTATGTGTATAAGTACATGTTTATTGTATTTAAAAAAAGTG : 4676

  159 : ArgProLysAlaLysTyrIleIleTrpProArgIleAspGlnLysSerCysPheLysSerMe :  179
        |||  !!!.::!:!!|||:!!|||    !!|||||||||!!.|||!!!|||!:!|||!!!:!
        ArgLysAsnSerGluTyrValIleIleSerArgIleAspHisLysThrCysTyrLysCysLe
 4677 : AGAAAAAATAGTGAATATGTTATAATATCTAGAATAGATCATAAAACTTGCTATAAATGTTT : 4739

  180 : tValThrAlaGlyPheGluProValValIleGluAsnValLeuGluGlyAspGluLeuArgT :  200
        :! !  !..!! !.!.:!!  !:!!|||:!!!!:!  :!!!!!.!...!|||||||||!.!|
        uAspPheCysAspLeuLysTyrIleValValAspMetIlePheAsnAsnAspGluLeuAsnT
 4740 : AGATTTTTGTGATCTAAAATACATTGTAGTAGATATGATATTTAATAATGATGAATTAAATA : 4802

  201 : hrAspLeuLysAlaValGluAlaLysIleGlnGluLeuGlyProGluHisIleLeuCysLeu :  220
        |||||  !|||.!!:!!|||::!  !!!::!!:!!|||..!   ||| ! |||! !|||:!!
        hrAspGluLysThrIleGluSerLeuMetLysLysLeuAsn---GluLysIleCysCysIle
 4803 : CAGATGAAAAAACAATAGAAAGTTTAATGAAAAAATTAAAT---GAAAAAATATGTTGTATT : 4859

  221 : HisSerThrThrAlaCysPheAlaProArgValProAspArgLeuGluGluLeuAlaValIl :  241
           !!!..!|||:!! !!!:!|||||||||  ! !!|||!.!:!!  !:!!:!!:!!  !:!
        IleThrValThrSerSerTyrAlaProArgAsnSerAspAsnIleLeuLysIleSerGlnLe
 4860 : ATAACAGTAACATCTAGTTATGCACCTCGAAATTCAGATAATATTTTAAAAATTTCACAATT : 4922

  242 : eCysAlaAsnTyrAspIleProHisValValAsnAsnAlaTyrGlyLeuGlnSerSerLysC :  262
        :|||  !.!.|||||||||||||||:!!:!!||||||!.!!:!|||||||||!!!!!! !  
        uCysLysGlnTyrAspIleProHisIleIleAsnAsnGlyPheGlyLeuGlnCysThrTyrI
 4923 : GTGTAAGCAATATGATATACCACATATTATTAATAATGGATTTGGTTTGCAATGTACATATA : 4985

  263 : ysMetHisLeuIleGlnGlnGlyAlaArgVal<->GlyArgIleAspAlaPheValGlnSer :  281
         !    !   !||||||:!! !!  !  !:!!   |||!:!||||||  ! !!|||||||||
        leCysLysGluIleGlnLysCysTyrAspLeuAsnGlyLysIleAspPheValValGlnSer
 4986 : TTTGTAAAGAAATTCAAAAGTGTTATGATTTAAATGGAAAAATAGATTTTGTTGTTCAAAGT : 5045

  282 : LeuAspLysAsnPheMetValProValGlyGlyAlaIleIleAlaGlyPheAsnGluProPh :  302
        ! !||||||||||||:!::!!|||:!!..!|||!.!|||:!!  !.!!!  |||.!.  !.!
        CysAspLysAsnPheLeuLeuProIleAsnGlyGlyIleValPheSerSerAsnHisLysIl
 5046 : TGCGATAAAAATTTCCTTTTACCAATTAATGGAGGTATTGTATTTAGTTCGAACCACAAAAT : 5108

  303 : eIleGlnAspIleSerLysMetTyrProGlyArgAlaSerAlaSerProSerLeuAspValL :  323
        !!!:  !!!::!!!.!|||!  ||||||||||||.!! !!!.!!:!  !! !||||||:!!!
        eMetAlaGluLeuLysLysThrTyrProGlyArgThrProValAsnValTyrLeuAspLeuP
 5109 : TATGGCAGAATTAAAAAAAACATACCCAGGAAGAACGCCAGTTAATGTATATTTAGATTTAT : 5171

  324 : euIleThrLeuLeuSerLeuGlyCysSerGlyTyrArgLysLeuLeuLysGluArgLysGlu :  343
        !!||||||||||||..!||||||   !:!  !   ! !||||||  !:!!||||||  !:!!
        heIleThrLeuLeuGluLeuGlyLysAsnLysIleMetLysLeuArgGluGluArgValLys
 5172 : TTATTACTTTACTAGAATTAGGTAAAAATAAAATAATGAAATTAAGAGAAGAAAGAGTGAAA : 5231

  344 : MetPheValTyrLeuSerThrGlnLeuLysLysLeuAlaGluAlaHisAsnGluArgLeuLe :  364
        !  |||  !!:::!!|||  !:!!:!!:!!|||:!!..!..!  !:!!|||  !!:!|||:!
        AsnPheAsnTrpIleSerAspLysIleGlnLysIleCysSerLysTyrAsnLeuLysLeuIl
 5232 : AATTTTAATTGGATAAGTGATAAAATTCAAAAGATATGCTCAAAATATAATTTAAAATTAAT : 5294

  365 : uGlnThrProHisAsnProIleSerLeuAlaMetThrLeuLysThrIle :  380
        !:!!|||  ! ! |||  !||||||:!!|||!!:!.!|||!!.!.!:!!
        eLysThrSerLysAsnLysIleSerIleAlaIleAsnLeuAsnAsnLeu
 5295 : AAAAACAAGTAAAAATAAAATTTCTATTGCTATTAATCTTAATAATTTA : 5344

vulgar: ENSMUST00000031069 96 380 . gi|56500068|emb|CAAI01000796.1| 4492 5344 + 526 M 117 351 G 1 0 M 58 174 G 0 3 M 108 324
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome 1.4.0
##date 2009-02-27
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|56500068|emb|CAAI01000796.1|	exonerate:protein2genome	gene	4493	5344	526	+	.	gene_id 1 ; sequence ENSMUST00000031069 ; gene_orientation .
gi|56500068|emb|CAAI01000796.1|	exonerate:protein2genome	cds	4493	5344	.	+	.	
gi|56500068|emb|CAAI01000796.1|	exonerate:protein2genome	exon	4493	5344	.	+	.	insertions 3 ; deletions 1
gi|56500068|emb|CAAI01000796.1|	exonerate:protein2genome	similarity	4493	5344	526	+	.	alignment_id 1 ; Query ENSMUST00000031069 ; Align 4493 97 351 ; Align 4844 215 174 ; Align 5021 273 324
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
