Command line: [exonerate -m p2g --showtargetgff -q SELENOW3.fa -t genomic.fa]
Hostname: [ws116076U]

C4 Alignment:
------------
         Query: SPP00000657_2.0 # Protein # Selenoprotein W (SELENOW) # Zebrafish 
        Target: CM004415.1:subseq(8030000,150000) Ictalurus punctatus breed USDA103 chromosome 2, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 415
   Query range: 0 -> 95
  Target range: 11987 -> 5754

     1 : MetGlyValGlnIleLysValGluTyr{Cy}  >>>> Target Intron 1 >>>>   :    10
         |||||||||||||||!:!|||||||||{||}           5236 bp           
         MetGlyValGlnIleArgValGluTyr{Cy}++                         ++
 11987 : ATGGGTGTACAAATCAGAGTGGAATAT{TG}gt.........................ag :  6724

    11 : {s}GlyGlyUnkGlyTyrGluProArgTyrGlnGluLeuLysArgValValThrAlaGlu :    29
         {|}||||||   |||||||||||||||||||||||||||||||||||||||..!||||||
         {s}GlyGly***GlyTyrGluProArgTyrGlnGluLeuLysArgValValValAlaGlu
  6723 : {T}GGCGGATGAGGCTACGAGCCCCGCTATCAGGAGCTCAAGCGAGTCGTCGTCGCTGAG :  6667

    30 : PheThrAspAlaAspValSerGlyPheValGlyArgGln{G}  >>>> Target Intr :    43
         ||| !!!!:|||!!:||||||||||||||||||||||||{|}            91 bp 
         PheProGluAlaGluValSerGlyPheValGlyArgGln{G}++                
  6666 : TTTCCTGAGGCGGAGGTGTCCGGCTTCGTCGGCAGACAA{G}gt................ :  6622

    44 : on 2 >>>>  {ly}SerPheGluIleGluIleAsnGlyGlnLeuIlePheSerLysLeu :    58
                    {||}||||||||||||||||||||||||||||||:!!||||||||||||
                  ++{ly}SerPheGluIleGluIleAsnGlyGlnLeuValPheSerLysLeu
  6621 : .........ag{GG}AGCTTTGAGATTGAGATCAACGGACAGCTGGTTTTCTCAAAGCTA :  6489

    59 : GluThrSerGlyPheProTyrGluAspAsp  >>>> Target Intron 3 >>>>  I :    69
         ||||||||||||||||||||||||||||||            621 bp           :
         GluThrSerGlyPheProTyrGluAspAsp++                         ++V
  6488 : GAAACCAGCGGTTTTCCCTATGAAGACGACgt.........................agG :  5835

    70 : leMetGlyValIleGlnArgAlaTyrAspGlyGlnProValGluLysIleThrLysSerG :    89
         !!|||! !!.!||||||!:!|||:!!||||||:!!|||||||||||||||! !||||||!
         alMetGluAlaIleGlnLysAlaHisAspGlyLysProValGluLysIleIleLysSerA
  5834 : TCATGGAGGCCATCCAGAAAGCCCACGATGGAAAACCAGTGGAGAAGATCATAAAGAGCC :  5775

    90 : lnProProCysValIleLeu :    95
         ::||||||||||||||||||
         rgProProCysValIleLeu
  5774 : GCCCACCTTGCGTCATACTC :  5755

vulgar: SPP00000657_2.0 0 95 . CM004415.1:subseq(8030000,150000) 11987 5754 - 415 M 9 27 S 0 2 5 0 2 I 0 5232 3 0 2 S 1 1 M 32 96 S 0 1 5 0 2 I 0 87 3 0 2 S 1 2 M 25 75 5 0 2 I 0 617 3 0 2 M 27 81
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2016-11-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	gene	5755	11987	415	-	.	gene_id 1 ; sequence SPP00000657_2.0 ; gene_orientation +
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	cds	11959	11987	.	-	.	
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	exon	11959	11987	.	-	.	insertions 0 ; deletions 0
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	splice5	11957	11958	.	-	.	intron_id 1 ; splice_site "GT"
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	intron	6723	11958	.	-	.	intron_id 1
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	splice3	6723	6724	.	-	.	intron_id 0 ; splice_site "AG"
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	cds	6625	6722	.	-	.	
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	exon	6625	6722	.	-	.	insertions 0 ; deletions 0
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	splice5	6623	6624	.	-	.	intron_id 2 ; splice_site "GT"
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	intron	6534	6624	.	-	.	intron_id 2
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	splice3	6534	6535	.	-	.	intron_id 1 ; splice_site "AG"
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	cds	6457	6533	.	-	.	
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	exon	6457	6533	.	-	.	insertions 0 ; deletions 0
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	splice5	6455	6456	.	-	.	intron_id 3 ; splice_site "GT"
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	intron	5836	6456	.	-	.	intron_id 3
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	splice3	5836	5837	.	-	.	intron_id 2 ; splice_site "AG"
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	cds	5755	5835	.	-	.	
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	exon	5755	5835	.	-	.	insertions 0 ; deletions 0
CM004415.1:subseq(8030000,150000)	exonerate:protein2genome:local	similarity	5755	11987	415	-	.	alignment_id 1 ; Query SPP00000657_2.0 ; Align 11988 1 27 ; Align 6722 11 96 ; Align 6532 44 75 ; Align 5836 69 81
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis