Command line: [exonerate --exhaustive yes -m p2g --showtargetgff -q DIO1.anole.fa -t DIO1.extraccio.KQ757956.1.fa]
Hostname: [sitdoc]

C4 Alignment:
------------
         Query: SPP00002111_2.0 # Protein # Iodothyronine deiodinase 1 (DIO1) # Softshell turtle 
        Target: KQ757956.1:subseq(449588,45128) Gekko japonicus isolate JY-2015 unplaced genomic scaffold scaffold332, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 893
   Query range: 0 -> 245
  Target range: 25128 -> 17861

     1 : MetPheLysValArgValIleLeuGlnLysThrLeuIleLeuLeuTyrValSerLeuCys :    20
         ||||||!:!:!!!!!..!.!!:!!:!!||||||! !||||||||| ! |||!!!||||||
         MetPheArgIleSerThrPheValLysLysThrTrpIleLeuLeuGlnValCysLeuCys
 25128 : ATGTTCAGAATCAGCACATTTGTAAAAAAGACCTGGATTCTCTTGCAAGTGTGCTTGTGT : 25071

    21 : ValAlaValGlyLysMetLeuMetIleLeuPheProGluThrMetLysArgHisIleLeu :    40
         ..!|||:!!||||||:!:!!!|||||||||||||||!  |||:!:|||!!!:!!||||||
         ThrAlaLeuGlyLysLeuPheMetIleLeuPheProAlaThrValLysSerTyrIleLeu
 25070 : ACTGCTCTAGGTAAACTTTTTATGATCTTATTCCCAGCTACTGTAAAGAGCTATATATTG : 25011

    41 : LysArgGlyGlnLysSerSerIleSerLysAsnProLysPheSerTyrGluAsnTrpGly :    60
         !:!!:!|||:!!|||||||||!!:.!!!:!||||||||||||! !|||||||||||||||
         ArgGlnGlyGluLysSerSerMetGlyArgAsnProLysPheMetTyrGluAsnTrpGly
 25010 : AGACAAGGGGAAAAGAGCAGCATGGGGAGGAATCCCAAATTCATGTATGAGAACTGGGGA : 24951

    61 : ProThrPhePheSerPheLysTyrLeuLeuPheValLeuLysValLysTrpLysArgLeu :    80
         ||||||||||||||||||   |||||||||||||||||||||||||||||||||||||||
         ProThrPhePheSerPheProTyrLeuLeuPheValLeuLysValLysTrpLysArgLeu
 24950 : CCCACTTTCTTTAGCTTCCCCTACCTACTCTTTGTCTTGAAAgtcaaatggaaaaggctg : 24891

    81 : GluAspGluAlaPheGluGlyHisAsnAlaProAsnThrProValAlaAspPheSerAsn :   100
         |||||||||||||||:!!|||  !  !||||||||||||||||||  !|||.!!.!!...
         GluAspGluAlaPheGlnGlyCysProAlaProAsnThrProValIleAspLeuGlyGly
 24890 : gaAGATGAAGCGTTTCAAGGCTGCCCTGCTCCCAACACCCCCGTGATAGATCTTGGAGGG : 24831

   101 : GluIleHisHisIleLeuAspPheMetGln{A}  >>>> Target Intron 1 >>>> :   111
         |||:!!!.!|||||||||||||||||||||{|}           4256 bp         
         GluValArgHisIleLeuAspPheMetGln{A}++                         
 24830 : GAAGTTCGTCACATCTTGGATTTCATGCAA{G}gt......................... : 24795

   112 :   {sp}AsnArgProLeuValLeuAsnPheGlySerCysThrUnkProSerPheLeuPhe :   129
           {||}||||||||||||||||||!..|||||||||||||||   |||||||||:!!|||
         ++{sp}AsnArgProLeuValLeuThrPheGlySerCysThr***ProSerPheMetPhe
 24794 : ag{AT}AACAGGCCTTTGGTTCTGACATTTGGAAGCTGCACCTGACCTTCATTTATGTTC : 20488

   130 : LysPheAspGluPheAsnLysLeuValGluAspPheAsnSerIleAlaAspPheLeuIle :   149
         ||||||! !||||||!!.||||||||||||||||||!  ! !  !||||||||||||:!:
         LysPheGlyGluPheLysLysLeuValGluAspPheIlePheGlyAlaAspPheLeuVal
 20487 : AAATTTGGCGAGTTCAAGAAGCTTGTCGAAGATTTCATATTTGGAGCAGATTTCCTTGTG : 20428

   150 : IleTyrIleGluGluAlaHisAlaLys{A}  >>>> Target Intron 2 >>>>  { :   159
         ||||||:!!|||||||||||||||..!{|}            230 bp           {
         IleTyrValGluGluAlaHisAlaSer{A}++                         ++{
 20427 : ATCTACGTTGAAGAAGCCCACGCTTCA{G}gt.........................ag{ : 20167

   160 : sp}GlyTrpAlaPheLysAsnAsnIleValIleLysAsnHisGlnSerLeuGlnGluArg :   178
         ||}   ||||||||||||...||||||   ||||||!:!|||!::!!!||||||!!:|||
         sp}GluTrpAlaPheLysLysAsnIleSerIleLysSerHisArgThrLeuGlnAspArg
 20166 : AT}gaatgggcttttaaaaaaaatatttctattaAAAGTCACCGTACTCTCCAAGACCGC : 20111

   179 : LysLysAlaAlaGlnPheLeuLeu-LysLysAsnProLeuCysProValValLeuAspTh :   198
         ! !:!!|||||||||.!!||||||#|||!  ..!||||||||||||||||||||||||||
         IleGlnAlaAlaGlnIleLeuLeu#LysIleArgProLeuCysProValValLeuAspTh
 20110 : ATACAGGCTGCACAGATCCTTTTGGAAGATTCGTCCCTTGTGCCCAGTGGTTTTAGATAC : 20050

   199 : rMetGluAsnLeuSerGlySerLysTyrAlaAlaLeuProGluArgLeuTyrValValGl :   218
         ||||||||||  !|||.!!||||||||||||||||||||||||||||||||||||:!!||
         rMetGluAsnLysSerSerSerLysTyrAlaAlaLeuProGluArgLeuTyrValLeuGl
 20049 : TATGGAAAACAAAAGCAGTTCTAAATATGCAGCTCTGCCAGAAAGACTTTATGTGCTTCA : 19990

   219 : nGlyGlyLysValValTyrLys  >>>> Target Intron 3 >>>>  GlyGlyGlu :   228
         | !!||||||||||||||||||           2045 bp           ||||||! !
         nArgGlyLysValValTyrLys++                         ++GlyGlyVal
 19989 : AAGAGGAAAAGTTGTCTATAAGgt.........................aggGTGGAGTG : 17915

   229 : GlyProTrpAsnTyrHisProGlnAspIleArgAlaIleLeuGluAsnLeu :   245
         |||||||||||||||  !||||||!!::!:|||! !:!!|||:!!.!.|||
         GlyProTrpAsnTyrSerProGlnGluValArgGluValLeuLysGlnLeu
 17914 : GGACCTTGGAACTATAGCCCTCAAGAAGTGCGTGAAGTTTTGAAACAACTA : 17862

vulgar: SPP00002111_2.0 0 245 . KQ757956.1:subseq(449588,45128) 25128 17861 - 893 M 110 330 S 0 1 5 0 2 I 0 4252 3 0 2 S 1 2 M 47 141 S 0 1 5 0 2 I 0 226 3 0 2 S 1 2 M 27 81 F 0 1 M 39 117 5 0 2 I 0 2041 3 0 2 M 20 60
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2016-12-03
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	gene	17862	25128	893	-	.	gene_id 1 ; sequence SPP00002111_2.0 ; gene_orientation +
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	cds	24798	25128	.	-	.	
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	exon	24798	25128	.	-	.	insertions 0 ; deletions 0
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	splice5	24796	24797	.	-	.	intron_id 1 ; splice_site "GT"
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	intron	20542	24797	.	-	.	intron_id 1
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	splice3	20542	20543	.	-	.	intron_id 0 ; splice_site "AG"
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	cds	20398	20541	.	-	.	
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	exon	20398	20541	.	-	.	insertions 0 ; deletions 0
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	splice5	20396	20397	.	-	.	intron_id 2 ; splice_site "GT"
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	intron	20168	20397	.	-	.	intron_id 2
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	splice3	20168	20169	.	-	.	intron_id 1 ; splice_site "AG"
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	cds	19967	20167	.	-	.	
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	exon	19967	20167	.	-	.	insertions 0 ; deletions 0 ; frameshifts 1
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	splice5	19965	19966	.	-	.	intron_id 3 ; splice_site "GT"
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	intron	17922	19966	.	-	.	intron_id 3
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	splice3	17922	17923	.	-	.	intron_id 2 ; splice_site "ag"
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	cds	17862	17921	.	-	.	
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	exon	17862	17921	.	-	.	insertions 0 ; deletions 0
KQ757956.1:subseq(449588,45128)	exonerate:protein2genome:local	similarity	17862	25128	893	-	.	alignment_id 1 ; Query SPP00002111_2.0 ; Align 25129 1 330 ; Align 20540 112 141 ; Align 20166 160 81 ; Align 20084 187 117 ; Align 17922 226 60
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis