Command line: [exonerate -m p2g --showtargetgff --exhaustive yes -q SPS2_homo.fa -t fastasubseq_SPS2_P.polycephalum.fa]
Hostname: [localhost.localdomain]

C4 Alignment:
------------
         Query: SPP00000033_1.0 # Protein # Selenophosphate synthetase 2 (SPS2) # Homo sapiens # Complete
        Target: Contig2813  13099 14725:[revcomp]
         Model: protein2genome:local
     Raw score: 125
   Query range: 131 -> 347
  Target range: 6510 -> 5237

  132 : SerLeuValGlnThrThrAspPhePheTyrProLeuValGluAspProTyrMetMetGlyAr :  152
        !.!:!!:!! !!|||..!|||||||||   |||:!!|||!!:||| !!|||!  .!.|||  
        LysIleIle***ThrValAspPhePheThrProValValAspAspAlaTyrThrPheGlyAl
 6510 : AAAATTATATAGACGGTCGACTTTTTCACGCCAGTGGTAGACGACGCATATACCTTTGGCGC : 6450

  153 : gIleAlaCysAlaAsnValLeuSerAspLeuTyrAlaMet{G}  >>>> Target Intro :  166
        !||||||..!||||||  !|||||||||:!!|||||||||{|}            102 bp 
        aIleAlaAlaAlaAsnSerLeuSerAspValTyrAlaMet{G}++                 
 6449 : AATTGCGGCTGCTAACTCGCTGAGTGATGTATACGCAATG{G}gt................. : 6405

  167 : n 1 >>>>  {ly}Ile{Th}  >>>> Target Intron 2 >>>>  {r}GluCysAsp :  171
                  {||}|||{!:}            96 bp            {!}...  !:!!
                ++{ly}Ile{Se}++                         -+{r}SerIleAsn
 6404 : ........ag{GC}ATT{AG}gt.........................cg{C}TCTATTAAT : 6195

  172 : AsnMetLeuMetLeuLeuSerValSerGlnSerMetSerGluGluGluArgGluLysValTh :  192
        ...!    !.!.:!!! !! !:!!|||   |||  !! ! !!..!..!..!|||!..  !! 
        ArgLysThrPheIleSerMetIleSerIleSerAlaIle***SerArgGluGluSerSerAr
 6194 : CGAAAAACATTTATCTCAATGATCTCGATTAGCGCGATTTAATCACGAGAAGAGAGTTCTAG : 6132

  193 : rProLeuMetVal{Ly}  >>>> Target Intron 3 >>>>  {s}GlyPheArgAspA :  202
        !|||:!!:!!!.!{||}            132 bp           {|}|||     !||| 
        gProIleLeuAla{Ly}++                         ++{s}GlyAlaTyrAspL
 6131 : GCCAATTTTGGCC{AA}gt.........................ag{G}GGTGCATATGATA : 5970

  203 : laAlaGluGluGlyGlyThrAlaValThrGlyGlyGlnThrValValAsnProTrpIleIle :  222
         !|||! !|||!.!|||..!:!!:!!  !||||||!!.|||:!!! !:!! !!  !  !! !
        ysAlaAlaGluAlaGlyValSerIleLeuGlyGlyHisThrIleAspAspSerGluProLys
 5969 : AAGCTGCGGAAGCCGGCGTATCAATTCTTGGGGGCCACACCATTGACGATTCTGAGCCCAAA : 5910

  223 : IleGlyGlyValAlaThr{V}  >>>> Target Intron 4 >>>>  {al}ValCysGl :  232
        .!!|||  !  !!.!|||{!}            110 bp           { !}:!!   !!
        PheGlyLeuSerValThr{G}++                         ++{ly}IleValHi
 5909 : TTTGGACTTTCTGTTACC{G}gt.........................ag{GA}ATAGTACA : 5770

  233 : nProAsnGluPheIleMetProAspSerAlaValValGlyAspValLeuValLeuThrLysP :  253
        .|||:!!:!!.!.   !    !:!!!!!|||  !! !||||||!.!:!!:!!|||||||||!
        sProHisLysIleTrpLysAsnAsnThrAlaArgAspGlyAspAlaIleIleLeuThrLysA
 5769 : CCCTCACAAGATATGGAAAAACAACACGGCGAGGGACGGGGACGCGATCATCCTCACGAAAC : 5707

  254 : roLeuGlyThrGlnValAlaValAsnAlaHisGlnTrpLeuAspAsnProGluArgTrpAsn :  273
         !:!!||||||  !:!!..!..!!.!|||   :!! !!  !       !!     !      
        rgIleGlyThrGlyIleCysThrThrAlaMetLysArgAsnMetAlaSerProAlaThrAla
 5706 : GAATTGGAACAGGAATATGTACGACTGCGATGAAAAGGAATATGGCGTCCCCCGCAACAGCG : 5647

  274 : LysValLysMetValValSerArgGluGlu{V}  >>>> Target Intron 5 >>>>   :  284
        :!!!.!   !!:  !..!! !  !|||  !{:}            121 bp           
        GlnAlaAlaIleLysThrMetSerGluLeu{I}-+                         +-
 5646 : CAAGCGGCTATAAAAACTATGTCCGAGCTG{A}at.........................at : 5494

  285 : {al}GluLeuAlaTyrGlnGluAlaMetPheAsnMetAlaThrLeuAsnArgThrAlaAlaG :  304
        {!!}     !.!!   ||||||!.!!!:   !.!|||:!!  !||||||!:!  !||||||!
        {le}ProAlaThrAlaGlnGluValIleLysThrMetSerGluLeuAsnLysTyrAlaAlaG
 5493 : {TT}CCTGCAACAGCGCAAGAGGTCATAAAAACTATGTCCGAGCTGAATAAATACGCAGCCG : 5433

  305 : lyLeuMetHisThrPheAsnAlaHisAlaAlaThrAspIleThr{G}  >>>> Target I :  319
         !:!!:!:!  ! !!:!!!.!.!  !::!!.!.!!|||:!!|||{ }            64 
        luValLeuLeuLysTyrLysValSerSerGlyAlaAspValThr{*}+-             
 5432 : AAGTTTTACTAAAATACAAGGTAAGTAGTGGCGCTGATGTTACA{T}gg............. : 5385

  320 : ntron 6 >>>>  {ly}PheGlyIleLeuGlyHisSerGlnAsnLeuAlaLysGlnGlnAr :  334
        bp            {!!}||||||:!:  !||||||! !  !.!.:!!||||||......  
                    ++{**}PheGlyLeuAlaGlyHisMetTrpGluMetAlaLysSerSerAs
 5384 : ............ag{GA}TTTGGATTGGCAGGCCACATGTGGGAAATGGCAAAATCCAGTGA : 5279

  335 : gAsnGluValSerPheValIleHisAsnLeuProIleIle :  347
        !  !...|||  !!!.  !.!! !!.!.:!!|||:!:|||
        pLeuSerValHisLeuTyrPheAspGlnIleProLeuIle
 5278 : CCTTTCTGTCCATTTGTATTTCGACCAAATTCCCCTGATC : 5238

vulgar: SPP00000033_1.0 131 347 . Contig2813 6510 5237 - 125 M 34 102 S 0 1 5 0 2 I 0 98 3 0 2 S 1 2 M 1 3 S 0 2 5 0 2 I 0 92 3 0 2 S 1 1 M 28 84 S 0 2 5 0 2 I 0 128 3 0 2 S 1 1 M 31 93 S 0 1 5 0 2 I 0 106 3 0 2 S 1 2 M 54 162 S 0 1 5 0 2 I 0 117 3 0 2 S 1 2 M 34 102 S 0 1 5 0 2 I 0 60 3 0 2 S 1 2 M 28 84
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2011-12-01
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
Contig2813	exonerate:protein2genome:local	gene	5238	6510	125	-	.	gene_id 1 ; sequence SPP00000033_1.0 ; gene_orientation +
Contig2813	exonerate:protein2genome:local	cds	6408	6510	.	-	.	
Contig2813	exonerate:protein2genome:local	exon	6408	6510	.	-	.	insertions 0 ; deletions 0
Contig2813	exonerate:protein2genome:local	splice5	6406	6407	.	-	.	intron_id 1 ; splice_site "GT"
Contig2813	exonerate:protein2genome:local	intron	6306	6407	.	-	.	intron_id 1
Contig2813	exonerate:protein2genome:local	splice3	6306	6307	.	-	.	intron_id 0 ; splice_site "AG"
Contig2813	exonerate:protein2genome:local	cds	6299	6305	.	-	.	
Contig2813	exonerate:protein2genome:local	exon	6299	6305	.	-	.	insertions 0 ; deletions 0
Contig2813	exonerate:protein2genome:local	splice5	6297	6298	.	-	.	intron_id 2 ; splice_site "GT"
Contig2813	exonerate:protein2genome:local	intron	6203	6298	.	-	.	intron_id 2
Contig2813	exonerate:protein2genome:local	splice3	6203	6204	.	-	.	intron_id 1 ; splice_site "CG"
Contig2813	exonerate:protein2genome:local	cds	6116	6202	.	-	.	
Contig2813	exonerate:protein2genome:local	exon	6116	6202	.	-	.	insertions 0 ; deletions 0
Contig2813	exonerate:protein2genome:local	splice5	6114	6115	.	-	.	intron_id 3 ; splice_site "GT"
Contig2813	exonerate:protein2genome:local	intron	5984	6115	.	-	.	intron_id 3
Contig2813	exonerate:protein2genome:local	splice3	5984	5985	.	-	.	intron_id 2 ; splice_site "AG"
Contig2813	exonerate:protein2genome:local	cds	5889	5983	.	-	.	
Contig2813	exonerate:protein2genome:local	exon	5889	5983	.	-	.	insertions 0 ; deletions 0
Contig2813	exonerate:protein2genome:local	splice5	5887	5888	.	-	.	intron_id 4 ; splice_site "GT"
Contig2813	exonerate:protein2genome:local	intron	5779	5888	.	-	.	intron_id 4
Contig2813	exonerate:protein2genome:local	splice3	5779	5780	.	-	.	intron_id 3 ; splice_site "AG"
Contig2813	exonerate:protein2genome:local	cds	5614	5778	.	-	.	
Contig2813	exonerate:protein2genome:local	exon	5614	5778	.	-	.	insertions 0 ; deletions 0
Contig2813	exonerate:protein2genome:local	splice5	5612	5613	.	-	.	intron_id 5 ; splice_site "AT"
Contig2813	exonerate:protein2genome:local	intron	5493	5613	.	-	.	intron_id 5
Contig2813	exonerate:protein2genome:local	splice3	5493	5494	.	-	.	intron_id 4 ; splice_site "AT"
Contig2813	exonerate:protein2genome:local	cds	5388	5492	.	-	.	
Contig2813	exonerate:protein2genome:local	exon	5388	5492	.	-	.	insertions 0 ; deletions 0
Contig2813	exonerate:protein2genome:local	splice5	5386	5387	.	-	.	intron_id 6 ; splice_site "GG"
Contig2813	exonerate:protein2genome:local	intron	5324	5387	.	-	.	intron_id 6
Contig2813	exonerate:protein2genome:local	splice3	5324	5325	.	-	.	intron_id 5 ; splice_site "AG"
Contig2813	exonerate:protein2genome:local	cds	5238	5323	.	-	.	
Contig2813	exonerate:protein2genome:local	exon	5238	5323	.	-	.	insertions 0 ; deletions 0
Contig2813	exonerate:protein2genome:local	similarity	5238	6510	125	-	.	alignment_id 1 ; Query SPP00000033_1.0 ; Align 6511 132 102 ; Align 6304 167 3 ; Align 6202 169 84 ; Align 5983 198 93 ; Align 5777 230 162 ; Align 5491 285 102 ; Align 5322 320 84
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
