Command line: [exonerate -m p2g --showtargetgff -q 1.query.dir/E.SelO.2.fa.x.fa -t 3.fastasub.dir/2.E.SelO.2.fa.x.fa]
Hostname: [ws116044]

C4 Alignment:
------------
         Query: SPP00000874_2.0 # Protein # Selenoprotein O (SelO) # Horse (Equus caballus)
        Target: gi|398923956|gb|JH767738.1|:subseq(9143809,110411) Ceratotherium simum simum unplaced genomic scaffold scaffold00016, whole genome shotgun sequence
         Model: protein2genome:local
     Raw score: 938
   Query range: 0 -> 230
  Target range: 49990 -> 60450

     1 : PheGlyIleTrpAlaAspGlnLeuGlyAspGlyArgAlaHisLeuIleGlyIleTyrMet :    20
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
         PheGlyIleTrpAlaAspGlnLeuGlyAspGlyArgAlaHisLeuIleGlyIleTyrMet
 49991 : TTTGGGATATGGGCAGACCAGCTTGGAGATGGAAGAGCCCATCTTATCGGAATTTACATG : 50048

    21 : Asn{Ar}  >>>> Target Intron 1 >>>>  {g}LysGlyGluLysTrpGluLeu :    29
         |||{||}            78 bp            {|}:!!||||||||||||||||||
         Asn{Ar}++                         ++{g}GlnGlyGluLysTrpGluLeu
 50049 : AAC{AG}gt.........................ag{G}CAGGGTGAAAAGTGGGAGCTC : 50153

    30 : GlnLeuLysGlySerGlyLysThrProTyrSer{Ar}  >>>> Target Intron 2  :    41
         |||||||||||||||||||||||||||||||||{||}            90 bp      
         GlnLeuLysGlySerGlyLysThrProTyrSer{Ar}++                     
 50154 : CAATTAAAAGGCTCAGGAAAGACCCCATACTCT{CG}gt..................... : 50193

    42 : >>>>  {g}HisGlyAspGlyArgAlaValLeuArgSerSerValArgGluPheLeuGly :    58
               {|} !!||||||||||||||||||||||||||||||||||||||||||||| !!
             ++{g}AspGlyAspGlyArgAlaValLeuArgSerSerValArgGluPheLeuCys
 50194 : ....ag{A}GATGGTGATGGCAGAGCTGTACTTCGCTCCTCAGTGAGAGAATTTTTGTGT : 50330

    59 : SerGluAlaValHisHisLeuGlyIleProThrSerArgAlaAla{Ar}  >>>> Targ :    74
         |||||||||:!!|||:!!|||||||||||||||||||||||||||{||}           
         SerGluAlaMetHisTyrLeuGlyIleProThrSerArgAlaAla{Ar}++         
 50331 : AGTGAGGCTATGCACTATCTTGGGATTCCAACCAGCAGAGCTGCG{AG}gt......... : 50382

    75 : et Intron 3 >>>>  {g}HisLeuGlySerGluGlnLysValPheMetAspGlyLeu :    87
         3051 bp           {|} ! !!!  !! !!   !      !.!.!  ! !..!!!!
                         --{g}***PheLysIleValTyrAlaLysIleAsnValSerPhe
 50383 : ................gc{A}TAGTTTAAAATAGTTTATGCTAAAATAAATGTTTCTTTT : 53468

    88 : GlnAlaAlaValValLeuArgValAlaLysSerTrpPheArgIleGlySerLeuGluIle :   107
         ..!!.!||||||||||||||||||||||||||||||||||||.!!|||||||||||||||
         SerGlyAlaValValLeuArgValAlaLysSerTrpPheArgPheGlySerLeuGluIle
 53469 : TCAGGTGCAGTAGTGCTGCGTGTTGCAAAATCATGGTTTAGATTTGGATCGTTAGAAATT : 53528

   108 : LeuAlaHisTyrGlyGluLeuAspLeuLeu{Ar}  >>>> Target Intron 4 >>> :   118
         ||||||||| !!||||||||||||||||||{||}           2578 bp        
         LeuAlaHisAspGlyGluLeuAspLeuLeu{Ar}++                        
 53529 : TTGGCTCATGATGGTGAACTGGATTTACTA{AG}gt........................ : 53565

   119 : >  {g}ThrLeuLeuAspPheIleIleGlnGluHisPheProSerValAspValGlyGlu :   136
            {|}||||||||||||||||||||||||||||||||||||||||||||||||  !|||
          ++{g}ThrLeuLeuAspPheIleIleGlnGluHisPheProSerValAspValLysGlu
 53566 : .ag{G}ACATTATTAGACTTCATCATCCAGGAACATTTCCCCTCAGTGGATGTCAAAGAA : 56193

   137 : ProAsnArgTyrVal  >>>> Target Intron 5 >>>>  AspPhePheSerValV :   147
         |||||||||||||||            760 bp           ||||||||||||:!!|
         ProAsnArgTyrVal++                         ++AspPhePheSerIleV
 56194 : CCTAATAGATACGTGgt.........................agGATTTTTTTTCTATTG : 56986

   148 : alValSerGluThrAlaGlnLeuIleAlaLeuTrpThrSerValGlyPheAlaHis{G}  :   166
         |||||||||||||||||||||||||||||||||||! !||||||||||||||||||{|} 
         alValSerGluThrAlaGlnLeuIleAlaLeuTrpMetSerValGlyPheAlaHis{G}+
 56987 : TGGTATCTGAGACAGCACAACTTATTGCCTTGTGGATGTCTGTTGGTTTTGCTCAT{G}g : 57044

   167 :  >>>> Target Intron 6 >>>>  {ly}ValCysAsnThrAspAsnPheSerLeuL :   176
                   2217 bp           {||}||||||||||||||||||||||||||||
         +                         ++{ly}ValCysAsnThrAspAsnPheSerLeuL
 57045 : t.........................ag{GT}GTTTGTAATACTGATAACTTCAGTTTGT : 59290

   177 : euSerIleThrIleAspTyrGlyProPheGlyPheMetGluAlaTyrAsnPro{A}  >> :   194
         |||||||||||||||||||||||||||||||||||||||||||||||||||||{|}    
         euSerIleThrIleAspTyrGlyProPheGlyPheMetGluAlaTyrAsnPro{A}++  
 59291 : TATCCATTACAATTGACTATGGTCCCTTTGGTTTTATGGAGGCCTATAATCCA{G}gt.. : 59347

   195 : >> Target Intron 7 >>>>  {sp}PheValProAsnThrSerAspAspGluArgA :   205
                 996 bp           {||}|||||||||||||||||||||||||||||||
                                ++{sp}PheValProAsnThrSerAspAspGluArgA
 59348 : .......................ag{AT}TTTGTACCAAACACATCTGATGATGAAAGAA : 60373

   206 : rgTyrLysIleGlyAsnGlnAlaAsnIleGlyMetPheAsnLeuAsnLysLeuLeuGlnA :   225
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
         rgTyrLysIleGlyAsnGlnAlaAsnIleGlyMetPheAsnLeuAsnLysLeuLeuGlnA
 60374 : GATATAAAATAGGAAATCAGGCCAATATTGGGATGTTTAATTTAAACAAGTTGTTACAAG : 60433

   226 : laLeuAsnProLeuLeu :   230
         |||||||||||||||||
         laLeuAsnProLeuLeu
 60434 : CTCTAAACCCACTACTG : 60450

vulgar: SPP00000874_2.0 0 230 . gi|398923956|gb|JH767738.1|:subseq(9143809,110411) 49990 60450 + 938 M 21 63 S 0 2 5 0 2 I 0 74 3 0 2 S 1 1 M 18 54 S 0 2 5 0 2 I 0 86 3 0 2 S 1 1 M 32 96 S 0 2 5 0 2 I 0 3047 3 0 2 S 1 1 M 43 129 S 0 2 5 0 2 I 0 2574 3 0 2 S 1 1 M 23 69 5 0 2 I 0 756 3 0 2 M 24 72 S 0 1 5 0 2 I 0 2213 3 0 2 S 1 2 M 27 81 S 0 1 5 0 2 I 0 992 3 0 2 S 1 2 M 36 108
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2014-11-24
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	gene	49991	60450	938	+	.	gene_id 1 ; sequence SPP00000874_2.0 ; gene_orientation +
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	cds	49991	50055	.	+	.	
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	exon	49991	50055	.	+	.	insertions 0 ; deletions 0
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	splice5	50056	50057	.	+	.	intron_id 1 ; splice_site "GT"
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	intron	50056	50133	.	+	.	intron_id 1
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	splice3	50132	50133	.	+	.	intron_id 0 ; splice_site "AG"
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	cds	50134	50190	.	+	.	
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	exon	50134	50190	.	+	.	insertions 0 ; deletions 0
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	splice5	50191	50192	.	+	.	intron_id 2 ; splice_site "GT"
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	intron	50191	50280	.	+	.	intron_id 2
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	splice3	50279	50280	.	+	.	intron_id 1 ; splice_site "AG"
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	cds	50281	50379	.	+	.	
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	exon	50281	50379	.	+	.	insertions 0 ; deletions 0
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	splice5	50380	50381	.	+	.	intron_id 3 ; splice_site "GT"
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	intron	50380	53430	.	+	.	intron_id 3
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	splice3	53429	53430	.	+	.	intron_id 2 ; splice_site "GC"
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	cds	53431	53562	.	+	.	
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	exon	53431	53562	.	+	.	insertions 0 ; deletions 0
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	splice5	53563	53564	.	+	.	intron_id 4 ; splice_site "GT"
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	intron	53563	56140	.	+	.	intron_id 4
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	splice3	56139	56140	.	+	.	intron_id 3 ; splice_site "AG"
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	cds	56141	56210	.	+	.	
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	exon	56141	56210	.	+	.	insertions 0 ; deletions 0
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	splice5	56211	56212	.	+	.	intron_id 5 ; splice_site "GT"
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	intron	56211	56970	.	+	.	intron_id 5
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	splice3	56969	56970	.	+	.	intron_id 4 ; splice_site "AG"
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	cds	56971	57043	.	+	.	
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	exon	56971	57043	.	+	.	insertions 0 ; deletions 0
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	splice5	57044	57045	.	+	.	intron_id 6 ; splice_site "GT"
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	intron	57044	59260	.	+	.	intron_id 6
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	splice3	59259	59260	.	+	.	intron_id 5 ; splice_site "AG"
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	cds	59261	59344	.	+	.	
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	exon	59261	59344	.	+	.	insertions 0 ; deletions 0
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	splice5	59345	59346	.	+	.	intron_id 7 ; splice_site "GT"
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	intron	59345	60340	.	+	.	intron_id 7
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	splice3	60339	60340	.	+	.	intron_id 6 ; splice_site "AG"
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	cds	60341	60450	.	+	.	
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	exon	60341	60450	.	+	.	insertions 0 ; deletions 0
gi|398923956|gb|JH767738.1|:subseq(9143809,110411)	exonerate:protein2genome:local	similarity	49991	60450	938	+	.	alignment_id 1 ; Query SPP00000874_2.0 ; Align 49991 1 63 ; Align 50135 23 54 ; Align 50282 42 96 ; Align 53432 75 129 ; Align 56142 119 69 ; Align 56971 142 72 ; Align 59263 167 81 ; Align 60343 195 108
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
