Command line: [exonerate -m p2g --showtargetgff -q 1B.query.dir/MM.SelR1.1.fa.x.fa -t 3B.fastasub.dir/1.MM.SelR1.1.fa.x.fa]
Hostname: [ws101145]

C4 Alignment:
------------
         Query: SPP00001582_2.0 # Protein # Methionine-R-sufoxide reductase 1 (SelR1) # Mouse (Mus musculus)
        Target: gi|398921774|gb|JH767793.1|:subseq(10053490,102598) Ceratotherium simum simum unplaced genomic scaffold scaffold00071, whole genome shotgun sequence
         Model: protein2genome:local
     Raw score: 529
   Query range: 0 -> 113
  Target range: 49999 -> 52592

     1 : MetSerPheCysSerPhePheGlyGlyGluValPheGlnAsnHisPheGluPro{G}  > :    19
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||{|}   
         MetSerPheCysSerPhePheGlyGlyGluValPheGlnAsnHisPheGluPro{G}++ 
 50000 : ATGTCGTTCTGCAGCTTCTTCGGGGGCGAGGTTTTCCAGAACCACTTTGAGCCG{G}gt. : 50057

    20 : >>> Target Intron 1 >>>>  {ly}ValTyrValCysAlaLysCysSerTyrGlu :    29
                 1916 bp           {||}:!!||||||||||||||||||.!!||||||
                                 ++{ly}IleTyrValCysAlaLysCysGlyTyrGlu
 50058 : ........................ag{GC}ATCTACGTGTGCGCCAAGTGTGGTTACGAG : 52000

    30 : LeuPheSerSerHisSerLysTyrAlaHisSerSerProTrpProAlaPheThrGluThr :    49
         ||||||||||||!.!|||||||||||||||||||||||||||||||||||||||||||||
         LeuPheSerSerArgSerLysTyrAlaHisSerSerProTrpProAlaPheThrGluThr
 52001 : CTCTTCTCCAGCCGCTCAAAGTACGCACACTCATCCCCATGGCCGGCCTTCACCGAGACC : 52060

    50 : IleHisProAspSerValThrLysCysProGluLysAsnArgProGluAlaLeuLys  > :    69
         |||||| !!|||||||||.!!||| !!|||||| ! |||||||||! !|||!!!|||   
         IleHisAlaAspSerValAlaLysArgProGluHisAsnArgProGlyAlaPheLys++ 
 52061 : ATCCACGCTGACAGCGTGGCCAAGCGTCCAGAGCACAATCGGCCGGGAGCCTTCAAGgt. : 52122

    70 : >>> Target Intron 2 >>>>  ValSerCysGlyLysCysGlyAsnGlyLeuGlyH :    80
                  338 bp           ||||||||||||!:!|||||||||||||||||||
                                 ++ValSerCysGlyArgCysGlyAsnGlyLeuGlyH
 52123 : ........................agGTGTCCTGTGGCAGGTGTGGCAACGGGCTGGGCC : 52491

    81 : isGluPheLeuAsnAspGlyProLysArgGlyGlnSerArgPheUnkIlePheSerSerS :   100
         ||||||||||||||||||||||||||||||||||||||||||||   |||||||||||||
         isGluPheLeuAsnAspGlyProLysArgGlyGlnSerArgPhe***IlePheSerSerS
 52492 : ATGAGTTCCTGAATGACGGCCCCAAGCGGGGGCAGTCCCGCTTCTGAATATTCAGCAGCT : 52551

   101 : erLeuLysPheValProLysGlyLysGluAlaAlaAlaSer :   113
         |||||||||||:!!|||||||||:!!  !|||:!!.!!|||
         erLeuLysPheIleProLysGlyGluLeuAlaSerThrSer
 52552 : CACTGAAGTTCATCCCCAAAGGTGAGCTAGCCTCCACCAGT : 52592

vulgar: SPP00001582_2.0 0 113 . gi|398921774|gb|JH767793.1|:subseq(10053490,102598) 49999 52592 + 529 M 18 54 S 0 1 5 0 2 I 0 1912 3 0 2 S 1 2 M 49 147 5 0 2 I 0 334 3 0 2 M 45 135
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2014-11-26
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|398921774|gb|JH767793.1|:subseq(10053490,102598)	exonerate:protein2genome:local	gene	50000	52592	529	+	.	gene_id 1 ; sequence SPP00001582_2.0 ; gene_orientation +
gi|398921774|gb|JH767793.1|:subseq(10053490,102598)	exonerate:protein2genome:local	cds	50000	50054	.	+	.	
gi|398921774|gb|JH767793.1|:subseq(10053490,102598)	exonerate:protein2genome:local	exon	50000	50054	.	+	.	insertions 0 ; deletions 0
gi|398921774|gb|JH767793.1|:subseq(10053490,102598)	exonerate:protein2genome:local	splice5	50055	50056	.	+	.	intron_id 1 ; splice_site "GT"
gi|398921774|gb|JH767793.1|:subseq(10053490,102598)	exonerate:protein2genome:local	intron	50055	51970	.	+	.	intron_id 1
gi|398921774|gb|JH767793.1|:subseq(10053490,102598)	exonerate:protein2genome:local	splice3	51969	51970	.	+	.	intron_id 0 ; splice_site "AG"
gi|398921774|gb|JH767793.1|:subseq(10053490,102598)	exonerate:protein2genome:local	cds	51971	52119	.	+	.	
gi|398921774|gb|JH767793.1|:subseq(10053490,102598)	exonerate:protein2genome:local	exon	51971	52119	.	+	.	insertions 0 ; deletions 0
gi|398921774|gb|JH767793.1|:subseq(10053490,102598)	exonerate:protein2genome:local	splice5	52120	52121	.	+	.	intron_id 2 ; splice_site "GT"
gi|398921774|gb|JH767793.1|:subseq(10053490,102598)	exonerate:protein2genome:local	intron	52120	52457	.	+	.	intron_id 2
gi|398921774|gb|JH767793.1|:subseq(10053490,102598)	exonerate:protein2genome:local	splice3	52456	52457	.	+	.	intron_id 1 ; splice_site "AG"
gi|398921774|gb|JH767793.1|:subseq(10053490,102598)	exonerate:protein2genome:local	cds	52458	52592	.	+	.	
gi|398921774|gb|JH767793.1|:subseq(10053490,102598)	exonerate:protein2genome:local	exon	52458	52592	.	+	.	insertions 0 ; deletions 0
gi|398921774|gb|JH767793.1|:subseq(10053490,102598)	exonerate:protein2genome:local	similarity	50000	52592	529	+	.	alignment_id 1 ; Query SPP00001582_2.0 ; Align 50000 1 54 ; Align 51973 20 147 ; Align 52458 69 135
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
