Command line: [exonerate -m p2g --showtargetgff -q 1B.query.dir/SPC.U1.1.fa.x.fa -t 3B.fastasub.dir/1.SPC.U1.1.fa.x.fa]
Hostname: [ws101159]

C4 Alignment:
------------
         Query: SPP00000109_2.0 # Protein # Selenoprotein U1 (SelU1) # Human (Homo sapiens)
        Target: gi|398922712|gb|JH767764.1|:subseq(20398371,110094) Ceratotherium simum simum unplaced genomic scaffold scaffold00042, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 1076
   Query range: 0 -> 228
  Target range: 60094 -> 49999

     1 : MetSerPheLeuGlnAspProSerPhePheThrMetGlyMetTrpSerIleGlyAlaGly :    20
         |||||||||||||||||||||||||||||||||:!!||||||||||||:!!|||||||||
         MetSerPheLeuGlnAspProSerPhePheThrValGlyMetTrpSerValGlyAlaGly
 60094 : ATGTCTTTCCTGCAGGATCCAAGTTTCTTCACCGTGGGGATGTGGTCCGTTGGCGCGGGG : 60037

    21 : AlaLeuGlyAlaAlaAlaLeuAlaLeuLeuLeuAlaAsnThrAspValPheLeuSerLys :    40
         |||||||||||||||||||||||||||||||||||||||||||||||||||||| !!:!!
         AlaLeuGlyAlaAlaAlaLeuAlaLeuLeuLeuAlaAsnThrAspValPheLeuProGlu
 60036 : GCTCTGGGGGCTGCTGCCTTGGCTCTGCTCCTGGCCAACACAGACGTGTTCCTGCCTGAG : 59977

    41 : ProGlnLysAlaAlaLeuGluTyrLeuGluAspIleAspLeuLysThrLeuGluLys{G} :    60
          !!|||:!!||||||||||||||||||||||||:!!|||||||||||||||||||||{|}
         SerGlnGluAlaAlaLeuGluTyrLeuGluAspValAspLeuLysThrLeuGluLys{G}
 59976 : TCCCAGGAAGCAGCGCTGGAGTATCTGGAGGATGTAGACCTGAAGACACTGGAGAAG{G} : 59917

    61 :   >>>> Target Intron 1 >>>>  {lu}ProArgThrPheLysAlaLysGluLeu :    69
                    2076 bp           {||}|||||||||||||||||||||||||||
         ++                         ++{lu}ProArgThrPheLysAlaLysGluLeu
 59916 : gt.........................ag{AA}CCAAGGACTTTCAAAGCAAAGGAGCTC : 57814

    70 : TrpGluLysAsnGlyAlaValIleMetAlaValArgArgProGlyCysPheLeuCysArg :    89
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
         TrpGluLysAsnGlyAlaValIleMetAlaValArgArgProGlyCysPheLeuCysArg
 57813 : TGGGAAAAAAATGGAGCTGTGATTATGGCTGTGCGGAGGCCAGGCTGTTTCCTCTGTCGA : 57754

    90 : Glu  >>>> Target Intron 2 >>>>  GluAlaAlaAspLeuSerSerLeuLysS :   100
         |||           3187 bp           |||||||||! !||||||||||||||| 
         Glu++                         ++GluAlaAlaGlyLeuSerSerLeuLysP
 57753 : GAGgt.........................agGAGGCTGCGGGCCTGTCCTCCCTGAAGC : 54534

   101 : erMetLeuAspGlnLeuGlyValProLeuTyrAlaValValLysGluHisIleArgThrG :   120
         !!! !||||||:!!|||||||||||||||||||||||||||||||||!!.||| !!||||
         roLysLeuAspGluLeuGlyValProLeuTyrAlaValValLysGluGlnIleGlyThrG
 54533 : CCAAGCTGGACGAGTTGGGTGTCCCCCTCTATGCAGTAGTGAAGGAGCAGATCGGGACTG : 54474

   121 : luValLysAspPheGlnProTyrPheLysGlyGluIlePheLeuAspGluLys  >>>>  :   138
         |||||||||||||||||||||||||||||||||||||||||||||||||||||       
         luValLysAspPheGlnProTyrPheLysGlyGluIlePheLeuAspGluLys++     
 54473 : AAGTGAAGGACTTCCAGCCTTATTTCAAAGGAGAAATCTTCCTGGATGAGAAGgt..... : 54418

   139 : Target Intron 3 >>>>  LysLysPheTyrGlyProGlnArgArgLysMetMetPh :   150
              948 bp           ||||||||||||||||||||||||||||||||||||||
                             ++LysLysPheTyrGlyProGlnArgArgLysMetMetPh
 54417 : ....................agAAAAAATTCTACGGTCCCCAGAGGCGGAAGATGATGTT : 53436

   151 : eMetGlyPheIleArgLeuGlyValTrpTyrAsnPhePheArgAlaTrpAsnGlyGlyPh :   170
         ||||||||||:!!|||||||||||||||||||||||||||||||||||||||||||||||
         eMetGlyPheValArgLeuGlyValTrpTyrAsnPhePheArgAlaTrpAsnGlyGlyPh
 53435 : TATGGGATTTGTCCGCCTGGGTGTCTGGTACAACTTCTTCCGGGCCTGGAACGGAGGCTT : 53376

   171 : eSerGlyAsnLeuGluGlyGluGlyPheIleLeuGlyGlyValPheValValGlySerGl :   190
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
         eSerGlyAsnLeuGluGlyGluGlyPheIleLeuGlyGlyValPheValValGlySerGl
 53375 : CTCTGGAAACCTGGAAGGCGAAGGCTTCATCCTTGGGGGAGTTTTTGTGGTGGGGTCAGG : 53316

   191 : yLysGln  >>>> Target Intron 4 >>>>  GlyIleLeuLeuGluHisArgGlu :   200
         |||||||           3200 bp           ||||||||||||||||||||||||
         yLysGln++                         ++GlyIleLeuLeuGluHisArgGlu
 53315 : AAAGCAGgt.........................agGGCATTCTTCTTGAGCACCGAGAA : 50086

   201 : LysGluPheGlyAspLysValAsnLeuLeuSerValLeuGluAlaAlaLysMetIleLys :   220
         ||||||||||||||||||||||||! !:!!||||||||||||||||||  !! !||||||
         LysGluPheGlyAspLysValAsnProValSerValLeuGluAlaAlaGlyLysIleLys
 50085 : AAAGAATTTGGAGACAAAGTAAACCCAGTTTCTGTTCTGGAAGCTGCTGGAAAGATCAAG : 50026

   221 : ProGlnThrLeuAlaSerGluLys :   228
         |||||||||! !||||||||||||
         ProGlnThrSerAlaSerGluLys
 50025 : CCACAGACTTCGGCCTCAGAGAAA : 50000

vulgar: SPP00000109_2.0 0 228 . gi|398922712|gb|JH767764.1|:subseq(20398371,110094) 60094 49999 - 1076 M 59 177 S 0 1 5 0 2 I 0 2072 3 0 2 S 1 2 M 30 90 5 0 2 I 0 3183 3 0 2 M 47 141 5 0 2 I 0 944 3 0 2 M 55 165 5 0 2 I 0 3196 3 0 2 M 36 108
# --- 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|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	gene	50000	60094	1076	-	.	gene_id 1 ; sequence SPP00000109_2.0 ; gene_orientation +
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	cds	59917	60094	.	-	.	
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	exon	59917	60094	.	-	.	insertions 0 ; deletions 0
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	splice5	59915	59916	.	-	.	intron_id 1 ; splice_site "GT"
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	intron	57841	59916	.	-	.	intron_id 1
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	splice3	57841	57842	.	-	.	intron_id 0 ; splice_site "AG"
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	cds	57749	57840	.	-	.	
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	exon	57749	57840	.	-	.	insertions 0 ; deletions 0
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	splice5	57747	57748	.	-	.	intron_id 2 ; splice_site "GT"
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	intron	54562	57748	.	-	.	intron_id 2
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	splice3	54562	54563	.	-	.	intron_id 1 ; splice_site "AG"
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	cds	54421	54561	.	-	.	
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	exon	54421	54561	.	-	.	insertions 0 ; deletions 0
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	splice5	54419	54420	.	-	.	intron_id 3 ; splice_site "GT"
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	intron	53473	54420	.	-	.	intron_id 3
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	splice3	53473	53474	.	-	.	intron_id 2 ; splice_site "AG"
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	cds	53308	53472	.	-	.	
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	exon	53308	53472	.	-	.	insertions 0 ; deletions 0
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	splice5	53306	53307	.	-	.	intron_id 4 ; splice_site "GT"
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	intron	50108	53307	.	-	.	intron_id 4
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	splice3	50108	50109	.	-	.	intron_id 3 ; splice_site "AG"
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	cds	50000	50107	.	-	.	
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	exon	50000	50107	.	-	.	insertions 0 ; deletions 0
gi|398922712|gb|JH767764.1|:subseq(20398371,110094)	exonerate:protein2genome:local	similarity	50000	60094	1076	-	.	alignment_id 1 ; Query SPP00000109_2.0 ; Align 60095 1 177 ; Align 57839 61 90 ; Align 54562 91 141 ; Align 53473 138 165 ; Align 50108 193 108
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
