Command line: [exonerate -m p2g --showtargetgff -q SELENOU.fa -t SELENOU.subseq]
Hostname: [ws101098U]

C4 Alignment:
------------
         Query: SPP00000109_2.0 # Protein # Selenoprotein U1 (SELENOU1) # Human 
        Target: JSZB01001214.1:subseq(190000,100000) Manis javanica isolate MP_PG03-UM SCAFFOLD1338, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 941
   Query range: 0 -> 229
  Target range: 49995 -> 49254

     1 : MetSerPheLeuGlnAspProSerPhePheThrMetGlyMetTrpSerIleGlyAlaGly :    20
         |||||||||||||||||| !!||||||||||||!!:||||||||||||||||||!.!|||
         MetSerPheLeuGlnAspThrSerPhePheThrIleGlyMetTrpSerIleGlyValGly
 49995 : ATGTCTTTCCTCCAGGATACAAGTTTCTTCACCATAGGAATGTGGTCCATTGGTGTGGGG : 49938

    21 : AlaLeuGlyAlaAlaAlaLeuAlaLeuLeuLeuAlaAsnThrAspValPheLeuSerLys :    40
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
         AlaLeuGlyAlaAlaAlaLeuAlaLeuLeuLeuAlaAsnThrAspValPheLeuSerLys
 49937 : GCTCTTGGGGCTGCTGCCTTAGCACTGCTCCTGGCCAACACAGACGTGTTTCTGTCCAAG : 49878

    41 : ProGlnLysAlaAlaLeuGluTyrLeuGluAspIleAspLeuLysThrLeuGluLysGlu :    60
          !!|||||||||.!!|||||||||||||||||||||||||||||||||||||||||||||
         ThrGlnLysAlaThrLeuGluTyrLeuGluAspIleAspLeuLysThrLeuGluLysGlu
 49877 : ACCCAGAAAGCAACGCTGGAGTATCTGGAGGATATAGACCTGAAAACTCTGGAGAAGGAA : 49818

    61 : ProArgThrPheLysAlaLysGluLeuTrpGluLysAsnGlyAlaValIleMetAlaVal :    80
         ||||||||||||||||||||||||||||||||||||!:!|||||||||||||||||||||
         ProArgThrPheLysAlaLysGluLeuTrpGluLysSerGlyAlaValIleMetAlaVal
 49817 : CCAAGGACTTTCAAAGCAAAGGAGCTCTGGGAAAAGAGTGGGGCTGTGATTATGGCTGTG : 49758

    81 : ArgArgProGlyCysPheLeuCysArgGluGluAlaAlaAspLeuSerSerLeuLysSer :   100
          !!|||||||||||||||||||||||||||||||||! !|||||||||||||||||| !!
         TrpArgProGlyCysPheLeuCysArgGluGluAlaGluAspLeuSerSerLeuLysPro
 49757 : TGGAGGCCAGGCTGTTTCCTATGTCGAGAGGAGGCTGAGGACCTGTCCTCCCTGAAGCCC : 49698

   101 : MetLeuAspGlnLeuGlyValProLeuTyrAla{V}  >>>> Target Intron 1 > :   112
         ! !||||||:!!|||||||||||||||||||||{|}            55 bp       
         LysLeuAspGluLeuGlyValProLeuTyrAla{V}--                      
 49697 : AAGTTGGATGAGCTGGGTGTCCCCCTCTATGCA{G}tg...................... : 49659

   113 : >>>  {al}ValLysGluHisIleArgThrGluValLysAspPheGlnProTyrPheLys :   129
              {||}|||||||||!!.|||||||||||||||:!!|||||||||||||||||||||
            ++{al}ValLysGluGlnIleArgThrGluValGluAspPheGlnProTyrPheLys
 49658 : ...ag{TG}GTGAAGGAGCAGATTAGGACTGAAGTGGAGGACTTCCAGCcttatttcaaa : 49556

   130 : GlyGluIlePheLeuAspGluLysLysLysPheTyrGlyProGlnArgArgLysMetMet :   149
            ||||||||||||||||||||||||||||||||||||! !|||||||||!:!||||||
         GluGluIlePheLeuAspGluLysLysLysPheTyrGlyLeuGlnArgArgArgMetMet
 49555 : gaagaaatcttcctggatgaaaagaaaaagttctaTGGTCTCCAAAGGCGGAGGATGATG : 49496

   150 : PheMetGlyPheIleArgLeuGlyValTrpTyrAsnPhePheArgAlaTrpAsnGlyGly :   169
         |||:!!||||||:!!|||||||||||||||||||||||||||!:!|||||||||||||||
         PheLeuGlyPheValArgLeuGlyValTrpTyrAsnPhePheGlnAlaTrpAsnGlyGly
 49495 : TTTCTGGGATTTGTCCGTCTGGGTGTCTGGTACAACTTCTTCCAGGCCTGGAATGGAGGC : 49436

   170 : PheSer--GlyAsnLeuGluGlyGluGlyPheIleLeuGlyGlyValPheValValGlyS :   189
         .!!|||##   |||||||||||||||||||||||||||||||||||||||:!!|||||||
         IleSer##---AsnLeuGluGlyGluGlyPheIleLeuGlyGlyValPheMetValGlyS
 49435 : ATCTCTGG---AACCTGGAAGGCGAAGGCTTCATCCTTGGGGGAGTTTTTATGGTGGGAT : 49377

   190 : erGlyLysGlnGlyIleLeuLeuGluHisArgGluLysGluPheGlyAspLysValAsnL :   209
         ||||||||:!!||||||||||||||||||:::|||||||||||||||||||||!.!!!.!
         erGlyLysGluGlyIleLeuLeuGluHisGlnGluLysGluPheGlyAspLysAlaLysP
 49376 : CAGGAAAGGAGGGCATTCTTCTTGAGcatcaagaaaaagaatttgGAGACAAAGCAAAGC : 49317

   210 : euLeuSerValLeuGluAlaAlaLysMetIleLysProGlnThrLeuAlaSerGluLysL :   229
          !:!!||||||||||||!.!|||!:!! !||||||  !||||||! !|||||||||||||
         roIleSerValLeuGluValAlaArgLysIleLysValGlnThrSerAlaSerGluLysL
 49316 : CAATTTCTGTTCTGGAAGTTGCTAGGAAGATCAAAGTACAGACTTCAGCCTCAGAGAAAA : 49257

   230 : ys :   229
         ||
         ys
 49256 : AA : 49255

vulgar: SPP00000109_2.0 0 229 . JSZB01001214.1:subseq(190000,100000) 49995 49254 - 941 M 111 333 S 0 1 5 0 2 I 0 51 3 0 2 S 1 2 M 59 177 F 0 2 G 1 0 M 57 171
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2016-11-09
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
JSZB01001214.1:subseq(190000,100000)	exonerate:protein2genome:local	gene	49255	49995	941	-	.	gene_id 1 ; sequence SPP00000109_2.0 ; gene_orientation +
JSZB01001214.1:subseq(190000,100000)	exonerate:protein2genome:local	cds	49662	49995	.	-	.	
JSZB01001214.1:subseq(190000,100000)	exonerate:protein2genome:local	exon	49662	49995	.	-	.	insertions 0 ; deletions 0
JSZB01001214.1:subseq(190000,100000)	exonerate:protein2genome:local	splice5	49660	49661	.	-	.	intron_id 1 ; splice_site "TG"
JSZB01001214.1:subseq(190000,100000)	exonerate:protein2genome:local	intron	49607	49661	.	-	.	intron_id 1
JSZB01001214.1:subseq(190000,100000)	exonerate:protein2genome:local	splice3	49607	49608	.	-	.	intron_id 0 ; splice_site "AG"
JSZB01001214.1:subseq(190000,100000)	exonerate:protein2genome:local	cds	49255	49606	.	-	.	
JSZB01001214.1:subseq(190000,100000)	exonerate:protein2genome:local	exon	49255	49606	.	-	.	insertions 0 ; deletions 1 ; frameshifts 2
JSZB01001214.1:subseq(190000,100000)	exonerate:protein2genome:local	similarity	49255	49995	941	-	.	alignment_id 1 ; Query SPP00000109_2.0 ; Align 49996 1 333 ; Align 49605 113 177 ; Align 49426 173 171
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis