Command line: [exonerate -m p2g --showtargetgff -q dio1_zf.aa.fa.canviat -t genomedio1_JXSJ01000014.1.fa]
Hostname: [ws116069U]

C4 Alignment:
------------
         Query: SPP00000611_2.0 # Protein # Iodothyronine deiodinase 1 (DIO1) # Zebrafish 
        Target: JXSJ01000014.1:subseq(2346940,101317) Miichthys miiuy scaffold14, whole genome shotgun sequence
         Model: protein2genome:local
     Raw score: 699
   Query range: 0 -> 226
  Target range: 49999 -> 51317

     1 : LeuArgLysLeuPheValTyrIleSerAlaValLeuMetValCysAlaAlaIleLeuArg :    20
         |||!:!!:!|||.!!:!!|||!!:|||.!!!.!! !!  :!!|||  !  !:!!! !! !
         LeuGlnArgLeuLeuLeuTyrMetSerThrAlaTrpAsnLeuCysPheMetLeuSerLeu
 50000 : TTGCAAAGGCTGCTTTTGTACATGTCGACAGCATGGAATCTTTGTTTTATGCTATCACTG : 50057

    21 : MetSerMetLeuLysLeuLeuSerPheIleSerProGlyArgMetArgLysIleHisMet :    40
         !    !!!:! !!:!:!!|||   ||||||||||||...! !   !:!|||:!!  !:!:
         AsnLeuIleCysArgIleLeuHisPheIleSerProSerLeuAlaLysLysValIleLeu
 50058 : AATCTCATATGCAGGATCTTgcactttatttcaccaagtCTTGCCAAGAAGGTAATCCTC : 50117

    41 : LysMetGlyGluArgThrThrMetThrGlnAsnProLysPheArgTyrGluAspTrpGly :    60
         |||||||||||||||! !||||||||||||||||||...|||:::|||||||||||||||
         LysMetGlyGluArgIleThrMetThrGlnAsnProAsnPheLysTyrGluAspTrpGly
 50118 : AAAATGGGTGAAAGGATCACCATGACCCAGAACCCCaattttaaatatgaagattGGGGT : 50177

    61 : ProAlaPhePheSerLeuAlaPheIleLysThrLeuPhePheValAsnTrpCysSerLeu :    80
              !      |||  !.!!||||||||||||! !!!.     !!  |||   ||||||
         ---LeuThrThrSerThrThrPheIleLysThrSerLeuLysHisMetTrpValSerLeu
 50178 : ---CTGACAACGTCTACAACGTTCATCAAAACCTCGTTGAAGCACATGTGGGTGTCTCTT : 50234

    81 : GlyLeuGluAlaPheGluGlyHisSerAlaProAspSerAlaLeuIleThrLeuAspArg :   100
         |||! !|||||||||! !|||  !..!|||||||||||| !!:!!:!!!::::::::   
         GlyGlnGluAlaPheValGlyGlyGluAlaProAspSerProValValSerMetGluGly
 50235 : GGACAAGAGGCTTTTGTGGGAGGTGAAGCTCCAGACTCACCTGTGGTCAgcatggaggga : 50294

   101 : GlnLysThrSerValHisArgPheLeuLys{G}  >>>> Target Intron 1 >>>> :   111
         :::|||:::|||:!!  !!:!!:!||||||{|}            88 bp          
         GluLysSerSerIleCysLysTyrLeuLys{G}++                         
 50295 : gagaaatcaAGTATCTGCAAGTACCTGAAA{G}gt......................... : 50330

   112 :   {ly}AsnArgProLeuValLeuSerPheGlySerCysThrUnkProProPheLeuTyr :   129
           {||}||||||||||||||||||||||||||||||||||||   |||||||||:!!!:!
         ++{ly}AsnArgProLeuValLeuSerPheGlySerCysThr***ProProPheMetPhe
 50331 : ag{gc}aaCAGACCGCTGGTGTTGAGTTTTGGGAGTTGCACCTGACCCCCGTTTATGTTC : 50469

   130 : LysLeuAspGluPheLysGlnLeuValLysAspPheSerAsnValAlaAspPheLeuIle :   149
         ||||||!!:||||||||||||||||||||||||||| !!:!!|||||||||||||||:!:
         LysLeuGluGluPheLysGlnLeuValLysAspPheArgAspValAlaAspPheLeuVal
 50470 : AAACTTGAGGAGTTCAAGCAACTCGTCAAGGACTTCCGTGATGTAGCTGACTTTCTTGTG : 50529

   150 : ValTyrLeuAlaGluAlaHisAlaThr{A}  >>>> Target Intron 2 >>>>  { :   159
         :!!|||:!!||||||||||||:!!|||{|}            555 bp           {
         IleTyrIleAlaGluAlaHisSerThr{A}++                         ++{
 50530 : ATCTACATCGCTGAGGCACACTCAACA{G}gt.........................ag{ : 51115

   160 : sp}AlaTrpAlaPheLysAsnAsnValAspIleSerValHisLysAsnLeuGluGluArg :   178
         ||}!.!|||||||||!  |||||| !!||||||!:!  !|||::!|||||||||||||||
         sp}GlyTrpAlaPheThrAsnAsnPheAspIleAsnGlnHisArgAsnLeuGluGluArg
 51116 : AT}GGTTGGGCCTTTACCAACAACTTTGACATCAATCAGCACCGGAACCTGGAGGAAAGG : 51171

   179 : LeuAlaAlaAlaArgThrLeuLeuLysGluAspProProCysProValValValAspGlu :   198
         |||:!!||||||!:!! !|||:!!:!!:!!!!:|||! !|||||||||||||||||||||
         LeuSerAlaAlaGlnIleLeuValGlnLysGluProLeuCysProValValValAspGlu
 51172 : TTGTCCGCTGCACAGATCCTGGTACAGAAAGAGCCTCTGTGTCCAGTGGTTgtggatgaa : 51231

   199 : MetAsnAsnIleThrAlaSerLysTyrGlyAlaLeuProGluArgLeuTyrValIleGln :   218
         |||...|||   ..!|||! !|||||||||||||||||||||||||||||||||:!:|||
         MetLysAsnAlaAlaAlaIleLysTyrGlyAlaLeuProGluArgLeuTyrValLeuGln
 51232 : atgaaaaatgcagcTGCCATAAAGTATGGTGCTCTGCCAGAGAGGCTTTATGTGCTGCAG : 51291

   219 : SerGlyLysValIleTyrGlnVal :   226
         :!!|||||||||:!:|||:!!|||
         AlaGlyLysValValTyrLysVal
 51292 : GCTGGGAAAGTTGTGTACAAGGTG : 51317

vulgar: SPP00000611_2.0 0 226 . JXSJ01000014.1:subseq(2346940,101317) 49999 51317 + 699 M 60 180 G 1 0 M 49 147 S 0 1 5 0 2 I 0 84 3 0 2 S 1 2 M 47 141 S 0 1 5 0 2 I 0 551 3 0 2 S 1 2 M 67 201
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2016-11-18
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
JXSJ01000014.1:subseq(2346940,101317)	exonerate:protein2genome:local	gene	50000	51317	699	+	.	gene_id 1 ; sequence SPP00000611_2.0 ; gene_orientation +
JXSJ01000014.1:subseq(2346940,101317)	exonerate:protein2genome:local	cds	50000	50327	.	+	.	
JXSJ01000014.1:subseq(2346940,101317)	exonerate:protein2genome:local	exon	50000	50327	.	+	.	insertions 0 ; deletions 1
JXSJ01000014.1:subseq(2346940,101317)	exonerate:protein2genome:local	splice5	50328	50329	.	+	.	intron_id 1 ; splice_site "GT"
JXSJ01000014.1:subseq(2346940,101317)	exonerate:protein2genome:local	intron	50328	50415	.	+	.	intron_id 1
JXSJ01000014.1:subseq(2346940,101317)	exonerate:protein2genome:local	splice3	50414	50415	.	+	.	intron_id 0 ; splice_site "ag"
JXSJ01000014.1:subseq(2346940,101317)	exonerate:protein2genome:local	cds	50416	50559	.	+	.	
JXSJ01000014.1:subseq(2346940,101317)	exonerate:protein2genome:local	exon	50416	50559	.	+	.	insertions 0 ; deletions 0
JXSJ01000014.1:subseq(2346940,101317)	exonerate:protein2genome:local	splice5	50560	50561	.	+	.	intron_id 2 ; splice_site "GT"
JXSJ01000014.1:subseq(2346940,101317)	exonerate:protein2genome:local	intron	50560	51114	.	+	.	intron_id 2
JXSJ01000014.1:subseq(2346940,101317)	exonerate:protein2genome:local	splice3	51113	51114	.	+	.	intron_id 1 ; splice_site "AG"
JXSJ01000014.1:subseq(2346940,101317)	exonerate:protein2genome:local	cds	51115	51317	.	+	.	
JXSJ01000014.1:subseq(2346940,101317)	exonerate:protein2genome:local	exon	51115	51317	.	+	.	insertions 0 ; deletions 0
JXSJ01000014.1:subseq(2346940,101317)	exonerate:protein2genome:local	similarity	50000	51317	699	+	.	alignment_id 1 ; Query SPP00000611_2.0 ; Align 50000 1 180 ; Align 50180 62 147 ; Align 50418 112 141 ; Align 51117 160 201
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis