Command line: [exonerate -m p2g --showtargetgff -q ../Sel.human/SELH.fa -t gi|397463590|gb|JH731911.1|subseq.fa]
Hostname: [ws101062]

C4 Alignment:
------------
         Query: SPP00000071_2.0 # Protein # Selenoprotein H (SelH) # Human (Homo sapiens)
        Target: gi|397463590|gb|JH731911.1|:subseq(180000,100000) Alligator mississippiensis unplaced genomic scaffold scaffold-1455, whole genome shotgun sequence
         Model: protein2genome:local
     Raw score: 269
   Query range: 0 -> 122
  Target range: 46808 -> 47843

     1 : MetAlaProArgGlyArgLysArgLysAlaGluAlaAlaValValAlaValAlaGluLys :    20
         |||||||||!:!|||!:!|||||||||||||||||| !!|||!.!  !!.!! !:!!..!
         MetAlaProLysGlyGlnLysArgLysAlaGluAlaProValAlaLysAlaGluLysSer
 46809 : ATGGCTCCCAAGGGGCAGAAGAGGAAGGCAGAGGCCCCCGTGGCAAAGGCTGAGAAATCG : 46866

    21 : ArgGluLysLeuAlaAsnGlyGlyGlu{G}  >>>> Target Intron 1 >>>>  { :    30
          !!!  ..!! !|||!!.! !..!   {|}            352 bp           {
         GlyAlaSerGlnAlaLysAspAsnLeu{G}-+                         --{
 46867 : GGGGCTTCGCAGGCCAAGGACAACCTC{G}at.........................ct{ : 47249

    31 : ly}MetGluGluAlaThrValValIleGluHisCysThrSerUnkArgValTyrGlyArg :    49
         ||}  !  !!    ! !!:!! !!  !...  ! !!  !|||   |||||||||||||||
         ly}ProTrpValAsnProLeuPheSerSerCysSerGlnSer***ArgValTyrGlyArg
 47250 : GC}CCGTGGGTTAACCCCCTCTTCTCTTCCTGCAGTCAAAGCTGACGAGTGTATGGGCGC : 47305

    50 : AsnAlaAlaAlaLeuSerGlnAlaLeuArgLeuGluAlaProGluLeuProValLysVal :    69
         ||||||::!|||||||||:!!|||||||||! !!  !.!  !.!.||| !!|||:!!:!!
         AsnAlaSerAlaLeuSerGluAlaLeuArgHisAlaValAspAsnLeuAlaValGluIle
 47306 : AATGCCAGTGCTCTGAGCGAGGCGCTGCGCCATGCTGTTGACAACCTGGCAGTGGAAATC : 47365

    70 : AsnProThrLysProArgArgGlySerPheGluValThrLeuLeuArgProAspGlySer :    89
         ||||||  !||||||||||||..!||||||||||||:!!|||:!!!:!  !|||||||||
         AsnProGluLysProArgArgAsnSerPheGluValSerLeuValLysGluAspGlySer
 47366 : AACCCTGAGAAACCACGTAGGAATAGCTTCGAGGTGTCCCTGGTGAAGGAGGATGGAAGC : 47425

    90 : {S}  >>>> Target Intron 2 >>>>  {er}AlaGluLeuTrpThrGlyIleLys :    98
         {!}            317 bp           { !}!.!|||||||||!:!|||||||||
         {M}++                         ++{et}ValGluLeuTrpSerGlyIleLys
 47426 : {A}gt.........................ag{TG}GTGGAGTTATGGAGTGGCATTAAG : 47769

    99 : LysGlyProProArgLysLeuLysPheProGluProGlnGluValValGluGluLeuLys :   118
         ||||||||||||||||||||||||||||||||||||:!!:!!|||||||||! !||||||
         LysGlyProProArgLysLeuLysPheProGluProGluLysValValGluAlaLeuLys
 47770 : AAGGGGCCGCCTCGCAAGCTCAAATTTCCTGAGCCGGAGAAGGTGGTTGAAGCACTGAAG : 47829

   119 : LysTyrLeuSer :   122
         !..  !|||:!!
         SerSerLeuAla
 47830 : AGCAGCTTGGCA : 47843

vulgar: SPP00000071_2.0 0 122 . gi|397463590|gb|JH731911.1|:subseq(180000,100000) 46808 47843 + 269 M 29 87 S 0 1 5 0 2 I 0 348 3 0 2 S 1 2 M 59 177 S 0 1 5 0 2 I 0 313 3 0 2 S 1 2 M 32 96
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-15
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|397463590|gb|JH731911.1|:subseq(180000,100000)	exonerate:protein2genome:local	gene	46809	47843	269	+	.	gene_id 1 ; sequence SPP00000071_2.0 ; gene_orientation +
gi|397463590|gb|JH731911.1|:subseq(180000,100000)	exonerate:protein2genome:local	cds	46809	46896	.	+	.	
gi|397463590|gb|JH731911.1|:subseq(180000,100000)	exonerate:protein2genome:local	exon	46809	46896	.	+	.	insertions 0 ; deletions 0
gi|397463590|gb|JH731911.1|:subseq(180000,100000)	exonerate:protein2genome:local	splice5	46897	46898	.	+	.	intron_id 1 ; splice_site "AT"
gi|397463590|gb|JH731911.1|:subseq(180000,100000)	exonerate:protein2genome:local	intron	46897	47248	.	+	.	intron_id 1
gi|397463590|gb|JH731911.1|:subseq(180000,100000)	exonerate:protein2genome:local	splice3	47247	47248	.	+	.	intron_id 0 ; splice_site "CT"
gi|397463590|gb|JH731911.1|:subseq(180000,100000)	exonerate:protein2genome:local	cds	47249	47428	.	+	.	
gi|397463590|gb|JH731911.1|:subseq(180000,100000)	exonerate:protein2genome:local	exon	47249	47428	.	+	.	insertions 0 ; deletions 0
gi|397463590|gb|JH731911.1|:subseq(180000,100000)	exonerate:protein2genome:local	splice5	47429	47430	.	+	.	intron_id 2 ; splice_site "GT"
gi|397463590|gb|JH731911.1|:subseq(180000,100000)	exonerate:protein2genome:local	intron	47429	47745	.	+	.	intron_id 2
gi|397463590|gb|JH731911.1|:subseq(180000,100000)	exonerate:protein2genome:local	splice3	47744	47745	.	+	.	intron_id 1 ; splice_site "AG"
gi|397463590|gb|JH731911.1|:subseq(180000,100000)	exonerate:protein2genome:local	cds	47746	47843	.	+	.	
gi|397463590|gb|JH731911.1|:subseq(180000,100000)	exonerate:protein2genome:local	exon	47746	47843	.	+	.	insertions 0 ; deletions 0
gi|397463590|gb|JH731911.1|:subseq(180000,100000)	exonerate:protein2genome:local	similarity	46809	47843	269	+	.	alignment_id 1 ; Query SPP00000071_2.0 ; Align 46809 1 87 ; Align 47251 31 177 ; Align 47748 91 96
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis