Command line: [exonerate -m p2g --showtargetgff -q ../Sel.human/SELK.fa -t gi|397459294|gb|JH736207.1|subseq.fa]
Hostname: [ws101062]

C4 Alignment:
------------
         Query: SPP00000076_2.0 # Protein # Selenoprotein K (SelK) # Human (Homo sapiens)
        Target: gi|397459294|gb|JH736207.1|:subseq(0,100000) Alligator mississippiensis unplaced genomic scaffold scaffold-8455, whole genome shotgun sequence
         Model: protein2genome:local
     Raw score: 275
   Query range: 0 -> 91
  Target range: 54271 -> 57652

     1 : MetValTyrIleSerAsn{G}  >>>> Target Intron 1 >>>>  {ly}GlnVal :     9
         ||||||||||||||||||{|}            808 bp           {||}||||||
         MetValTyrIleSerAsn{G}++                         ++{ly}GlnVal
 54272 : ATGGTTTACATCTCCAAC{G}gt.........................ag{GA}CAAGTG : 55104

    10 : LeuAspSerArgSerGlnSerProTrpArgLeuSerLeuIleThrAspPhePheTrpGly :    29
         |||! !!:!!:!!:!!:!:!!||||||!!!||||||! !||||||||||||||||||!.!
         LeuGlyAsnGlnAsnArgAlaProTrpSerLeuSerSerIleThrAspPhePheTrpAla
 55105 : TTGGGTAACCAGAATCGGGCTCCTTGGAGTTTATCATCTATAACAGATTTCTTCTGGGCA : 55164

    30 : IleAlaGluPheValValLeu{Ph}  >>>> Target Intron 2 >>>>  {e}Phe :    38
         ||||||!!:||||||||||||{||}           1507 bp           {|}|||
         IleAlaAspPheValValLeu{Ph}++                         ++{e}Phe
 55165 : ATAGCAGATTTTGTGGTCTTG{TT}gt.........................ag{T}TTC : 56698

    39 : LysThrLeuLeuGlnGlnAspValLysLysArgArgSerTyrGlyAsnSerSerAspSer :    58
         :!!!:!:!!:!!|||! !|||:!!   !:!|||!:!.!! !!  !::!|||||| !!|||
         GlnSerIleIleGlnProAspLeu---ArgArgLysGlyAsnThrSerSerSerTyrSer
 56699 : CAGAGTATTATTCAACCAGACTTG---AGAAGGAAGGGGAACACATCTTCCTCATATTCA : 56755

    59 : ArgTyrAspAspGlyArg{Gl}  >>>> Target Intron 3 >>>>  {y}ProPro :    67
         ||||||||||||||||||{||}            793 bp           {|}||||||
         ArgTyrAspAspGlyArg{Gl}++                         ++{y}ProPro
 56756 : AGATACGATGATGGAAGA{GG}gt.........................ag{G}CCTCCA : 57575

    68 : GlyAsnProProArgArgMetGlyArgIleAsnHisLeu<->ArgGlyProSerProPro :    86
         |||||||||! !||||||||||||||||||||||||!!!    !!|||||||||||||||
         GlyAsnProArgArgArgMetGlyArgIleAsnHisPheGlyGlyGlyProSerProPro
 57576 : GGAAATCCTCGCCGTAGAATGGGTCGAATAAATCACTTTGGTGGAGGTCCCAGTCCACCA : 57635

    87 : ProMetAlaGlyGly :    91
         |||||||||||||||
         ProMetAlaGlyGly
 57636 : CCCATGGCTGGAGGT : 57652

vulgar: SPP00000076_2.0 0 91 . gi|397459294|gb|JH736207.1|:subseq(0,100000) 54271 57652 + 275 M 6 18 S 0 1 5 0 2 I 0 804 3 0 2 S 1 2 M 29 87 S 0 2 5 0 2 I 0 1503 3 0 2 S 1 1 M 9 27 G 1 0 M 17 51 S 0 2 5 0 2 I 0 789 3 0 2 S 1 1 M 15 45 G 0 3 M 11 33
# --- 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|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	gene	54272	57652	275	+	.	gene_id 1 ; sequence SPP00000076_2.0 ; gene_orientation +
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	cds	54272	54290	.	+	.	
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	exon	54272	54290	.	+	.	insertions 0 ; deletions 0
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	splice5	54291	54292	.	+	.	intron_id 1 ; splice_site "GT"
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	intron	54291	55098	.	+	.	intron_id 1
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	splice3	55097	55098	.	+	.	intron_id 0 ; splice_site "AG"
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	cds	55099	55189	.	+	.	
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	exon	55099	55189	.	+	.	insertions 0 ; deletions 0
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	splice5	55190	55191	.	+	.	intron_id 2 ; splice_site "GT"
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	intron	55190	56696	.	+	.	intron_id 2
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	splice3	56695	56696	.	+	.	intron_id 1 ; splice_site "AG"
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	cds	56697	56777	.	+	.	
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	exon	56697	56777	.	+	.	insertions 0 ; deletions 1
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	splice5	56778	56779	.	+	.	intron_id 3 ; splice_site "GT"
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	intron	56778	57570	.	+	.	intron_id 3
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	splice3	57569	57570	.	+	.	intron_id 2 ; splice_site "AG"
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	cds	57571	57652	.	+	.	
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	exon	57571	57652	.	+	.	insertions 3 ; deletions 0
gi|397459294|gb|JH736207.1|:subseq(0,100000)	exonerate:protein2genome:local	similarity	54272	57652	275	+	.	alignment_id 1 ; Query SPP00000076_2.0 ; Align 54272 1 18 ; Align 55101 8 87 ; Align 56698 38 27 ; Align 56725 48 51 ; Align 57572 66 45 ; Align 57620 81 33
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis