Command line: [exonerate -m p2g --showtargetgff -q 1B.query.dir/SPC.SelT.1.fa.x.fa -t 3B.fastasub.dir/1.SPC.SelT.1.fa.x.fa]
Hostname: [ws116063]

C4 Alignment:
------------
         Query: SPP00000105_2.0 # Protein # Selenoprotein T (SelT) # Human (Homo sapiens)
        Target: gi|398925264|gb|JH767725.1|:subseq(1013951,104627) Ceratotherium simum simum unplaced genomic scaffold scaffold00003, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 691
   Query range: 0 -> 137
  Target range: 54627 -> 49999

     1 : MetArgValIleSerGlnArgTyrProAspIleArgIleGluGlyGluAsnTyrLeuPro :    20
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
         MetArgValIleSerGlnArgTyrProAspIleArgIleGluGlyGluAsnTyrLeuPro
 54627 : ATGCGGGTGATTAGCCAGCGGTACCCGGACATCCGCATTGAAGGTGAGAATTACCTCCCT : 54570

    21 : GlnProIleTyr{Ar}  >>>> Target Intron 1 >>>>  {g}HisIleAlaSer :    29
         ||||||||||||{||}            551 bp           {|}||||||||||||
         GlnProIleTyr{Ar}++                         ++{g}HisIleAlaSer
 54569 : CAGCCGATATAC{AG}gt.........................ag{A}CACATAGCATCT : 53992

    30 : PheLeuSerValPheLysLeuValLeuIleGlyLeuIleIleValGlyLysAspProPhe :    49
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
         PheLeuSerValPheLysLeuValLeuIleGlyLeuIleIleValGlyLysAspProPhe
 53991 : TTCCTGTCAGTCTTCAAACTAGTATTAATAGGCTTAATAATTGTTGGCAAGGATCCTTTT : 53932

    50 : AlaPhePheGlyMetGlnAlaProSerIleTrpGlnTrpGlyGlnGluAsnLys  >>>> :    68
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||      
         AlaPhePheGlyMetGlnAlaProSerIleTrpGlnTrpGlyGlnGluAsnLys++    
 53931 : GCTTTCTTTGGCATGCAAGCTCCTAGCATCTGGCAGTGGGGCCAAGAAAATAAGgt.... : 53873

    69 :  Target Intron 2 >>>>  ValTyrAlaCysMetMetValPhePheLeuSerAsnM :    80
              2187 bp           |||||||||||||||||||||||||||||||||||||
                              ++ValTyrAlaCysMetMetValPhePheLeuSerAsnM
 53872 : .....................agGTTTATGCGTGTATGATGGTCTTCTTCTTGAGCAACA : 51652

    81 : etIleGluAsnGlnCysMetSerThrGlyAlaPheGluIleThrLeuAsn{A}  >>>>  :    97
         ||||||||||||||||||||||||||||||||||||||||||||||||||{|}       
         etIleGluAsnGlnCysMetSerThrGlyAlaPheGluIleThrLeuAsn{A}++     
 51651 : TGATTGAGAACCAGTGTATGTCAACAGGTGCATTTGAGATAACTTTGAAT{G}gt..... : 51598

    98 : Target Intron 3 >>>>  {sp}ValProValTrpSerLysLeuGluSerGlyHisL :   109
             1479 bp           {||}||||||||||||||||||||||||||||||||||
                             ++{sp}ValProValTrpSerLysLeuGluSerGlyHisL
 51597 : ....................ag{AT}GTACCTGTGTGGTCTAAGCTGGAATCTGGTCACC : 50086

   110 : euProSerMetGlnGlnLeuValGlnIleLeuAspAsnGluMetLysLeuAsnValHisM :   129
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||!.!|
         euProSerMetGlnGlnLeuValGlnIleLeuAspAsnGluMetLysLeuAsnValArgM
 50085 : TTCCATCCATGCAACAGCTTGTTCAAATTCTTGACAATGAAATGAAGCTCAATGTGCGTA : 50026

   130 : etAspSerIleProHisHisArgSer :   137
         ||||||||||||||! !|||||||||
         etAspSerIleProProHisArgSer
 50025 : TGGATTCAATCCCACCTCATCGATCA : 50000

vulgar: SPP00000105_2.0 0 137 . gi|398925264|gb|JH767725.1|:subseq(1013951,104627) 54627 49999 - 691 M 24 72 S 0 2 5 0 2 I 0 547 3 0 2 S 1 1 M 42 126 5 0 2 I 0 2183 3 0 2 M 29 87 S 0 1 5 0 2 I 0 1475 3 0 2 S 1 2 M 40 120
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2014-11-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	gene	50000	54627	691	-	.	gene_id 1 ; sequence SPP00000105_2.0 ; gene_orientation +
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	cds	54554	54627	.	-	.	
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	exon	54554	54627	.	-	.	insertions 0 ; deletions 0
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	splice5	54552	54553	.	-	.	intron_id 1 ; splice_site "GT"
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	intron	54003	54553	.	-	.	intron_id 1
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	splice3	54003	54004	.	-	.	intron_id 0 ; splice_site "AG"
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	cds	53876	54002	.	-	.	
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	exon	53876	54002	.	-	.	insertions 0 ; deletions 0
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	splice5	53874	53875	.	-	.	intron_id 2 ; splice_site "GT"
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	intron	51689	53875	.	-	.	intron_id 2
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	splice3	51689	51690	.	-	.	intron_id 1 ; splice_site "AG"
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	cds	51601	51688	.	-	.	
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	exon	51601	51688	.	-	.	insertions 0 ; deletions 0
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	splice5	51599	51600	.	-	.	intron_id 3 ; splice_site "GT"
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	intron	50122	51600	.	-	.	intron_id 3
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	splice3	50122	50123	.	-	.	intron_id 2 ; splice_site "AG"
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	cds	50000	50121	.	-	.	
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	exon	50000	50121	.	-	.	insertions 0 ; deletions 0
gi|398925264|gb|JH767725.1|:subseq(1013951,104627)	exonerate:protein2genome:local	similarity	50000	54627	691	-	.	alignment_id 1 ; Query SPP00000105_2.0 ; Align 54628 1 72 ; Align 54002 26 126 ; Align 51689 68 87 ; Align 50120 98 120
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
