Command line: [exonerate -m p2g --showtargetgff -q DI01.aa.fa -t DI01_JSZB01004892.1.subseq.fa]
Hostname: [ws101086U]

C4 Alignment:
------------
         Query: SPP00000002_2.0 # Protein # Iodothyronine deiodinase 1 (DIO1) # Human 
        Target: JSZB01004892.1:subseq(100000,90000) Manis javanica isolate MP_PG03-UM SCAFFOLD5563, whole genome shotgun sequence
         Model: protein2genome:local
     Raw score: 1029
   Query range: 0 -> 248
  Target range: 52873 -> 65770

     1 : MetGlyLeuProGlnProGlyLeuTrpLeuLysArgLeuTrpValLeuLeuGluValAla :    20
         ||||||||||||!:!|||!.!||| !!||||||||||||||||||||||||:!!||||||
         MetGlyLeuProArgProAlaLeuGlyLeuLysArgLeuTrpValLeuLeuGlnValAla
 52874 : ATGGGGCTGCCCCGGCCAGCGCTGGGGCTGAAGAGGCTCTGGGTACTCTTGCAGGTGGCC : 52931

    21 : ValHisValValValGlyLysValLeuLeuIleLeuPheProAspArgValLysArgAsn :    40
         :!!||||||!.!||||||||||||||||||:!!|||! !|||! !|||||||||!:!:!!
         LeuHisValAlaValGlyLysValLeuLeuValLeuCysProGlyArgValLysGlnHis
 52932 : CTGCATGTGGCCGTGGGCAAAGTGCTACTGGTACTGTGTCCCGGCAGAGTCAAGCAGCAC : 52991

    41 : IleLeuAlaMetGlyGluLysThrGlyMetThrArgAsnProHisPheSerHisAspAsn :    60
         ||||||||||||..!:!!               !.!|||||||||||||||:!!||||||
         IleLeuAlaMetAsnLys---------------AsnAsnProHisPheSerTyrAspAsn
 52992 : ATCCTGGCCATGAACAAG---------------AACAACCCCCACTTCTCCTATGACAAC : 53036

    61 : TrpIleProThrPhePheSerThrGlnTyrPheTrpPheValLeuLysValArgTrpGln :    80
         |||  !||||||.!!!:!|||! !|||||||||||||||:!!||||||||||||||||||
         TrpAlaProThrLeuTyrSerIleGlnTyrPheTrpPheLeuLeuLysValArgTrpGln
 53037 : TGGGCCCCAACTCTCTACAGCATCCAGTACTTCTGGTTCCTTCTGAAGGTCCGTTGGCAG : 53096

    81 : ArgLeuGluAspThrThrGluLeuGlyGlyLeuAlaProAsnCysProValValArgLeu :   100
         ||||||||||||! !||||||! !||||||||||||||||||||||||||||||!.!|||
         ArgLeuGluAspLysThrGluGlnGlyGlyLeuAlaProAsnCysProValValHisLeu
 53097 : AGACTGGAGGACAAGACTGAGCAAGGGGGTCTGGCCCCAAACTGCCCTGTGGTCCACCTC : 53156

   101 : SerGlyGlnArgCysAsnIleTrpGluPheMetGln{G}  >>>> Target Intron  :   113
         ||||||!:: !!||||||||||||!!:|||||||||{|}           6152 bp   
         SerGlyArgTrpCysAsnIleTrpAspPheMetGln{G}++                   
 53157 : TCAGGACGTTGGTGCAACATTTGGGACTTCATGCAA{G}gt................... : 53198

   114 : 1 >>>>  {ly}AsnArgProLeuValLeuAsnPheGlySerCysThrUnkProSerPhe :   129
                 {||}||||||||||||||||||||||||||||||||||||   |||||||||
               ++{ly}AsnArgProLeuValLeuAsnPheGlySerCysThr***ProSerPhe
 53199 : ......ag{GC}AACAGGCCATTGGTGCTGAATTTTGGAAGTTGTACCTgaccttcattt : 59395

   130 : MetPheLysPheAspGlnPheLysArgLeuIleGluAspPheSerSerIleAlaAspPhe :   149
         :::||||||||||||||||||||| !!|||||||||||||||||||||||||||||||||
         LeuPheLysPheAspGlnPheLysGlyLeuIleGluAspPheSerSerIleAlaAspPhe
 59396 : cttttcaaatttgacCAATTCAAGGGACTGATTGAAGACTTTAGTTCCATAGCAGATTTT : 59455

   150 : LeuValIleTyrIleGluGluAlaHisAlaSer{A}  >>>> Target Intron 2 > :   161
         |||||||||||||||||||||||||||||||||{|}           4079 bp      
         LeuValIleTyrIleGluGluAlaHisAlaSer{A}++                      
 59456 : CTCGTCATTTACATTGAAGAAGCACATGCATCA{G}gt...................... : 59494

   162 : >>>  {sp}GlyTrpAlaPheLysAsnAsnMetAspIleArgAsnHisGlnAsnLeuGln :   178
              {||}|||||||||||||||||||||:!!|||||||||!.!|||! !|||||||||
            ++{sp}GlyTrpAlaPheLysAsnAsnValAspIleArgThrHisLeuAsnLeuGln
 59495 : ...ag{AT}GGCTGGGCTTTTAAGAACAACGTGGACATCAGGACTCACCTGAATCTCCAG : 63621

   179 : AspArgLeuGlnAlaAlaHisLeuLeuLeuAlaArgSerProGlnCysProValValVal :   198
         |||||||||!:!||||||||||||||||||||||||||||||||||||||||||||||||
         AspArgLeuArgAlaAlaHisLeuLeuLeuAlaArgSerProGlnCysProValValVal
 63622 : GACCGCCTGCGGGCAGCCCACCTGCTGCTGGCCAGGAGCCCCCAGTGCCCGGTGGTGGTA : 63681

   199 : AspThrMetGlnAsnGlnSerSerGlnLeuTyrAlaAlaLeuProGluArgLeuTyrIle :   218
         |||||||||:!!|||||||||||||||! !|||||||||||||||||||||||||||:::
         AspThrMetLysAsnGlnSerSerGlnGlnTyrAlaAlaLeuProGluArgLeuTyrVal
 63682 : GACACCATGAAGAACCAGAGCAGCCAGCAATACGCAGCACTGCCTGAGAGGCTTTACgtg : 63741

   219 : IleGlnGluGlyArgIleLeuTyrLys  >>>> Target Intron 3 >>>>  GlyL :   229
         :::||||||||||||||||||||||||           1937 bp           ||||
         LeuGlnGluGlyArgIleLeuTyrLys++                         ++GlyL
 63742 : ctccaggagggcaggatcCTCTACAAGgt.........................agGGTA : 65711

   230 : ysSerGlyProTrpAsnTyrAsnProGluGluValArgAlaValLeuGluLysLeuHis :   248
         || !!|||||||||||||||:!!||||||||||||||||||||||||||||||||||||
         ysProGlyProTrpAsnTyrHisProGluGluValArgAlaValLeuGluLysLeuHis
 65712 : AACCTGGCCCTTGGAACTACCATCCAGAGGAAGTTCGAGCTGTTCTGGAAAAGCTCCAT : 65770

vulgar: SPP00000002_2.0 0 248 . JSZB01004892.1:subseq(100000,90000) 52873 65770 + 1029 M 46 138 G 5 0 M 61 183 S 0 1 5 0 2 I 0 6148 3 0 2 S 1 2 M 47 141 S 0 1 5 0 2 I 0 4075 3 0 2 S 1 2 M 66 198 5 0 2 I 0 1933 3 0 2 M 21 63
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2016-11-03
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	gene	52874	65770	1029	+	.	gene_id 1 ; sequence SPP00000002_2.0 ; gene_orientation +
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	cds	52874	53195	.	+	.	
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	exon	52874	53195	.	+	.	insertions 0 ; deletions 5
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	splice5	53196	53197	.	+	.	intron_id 1 ; splice_site "GT"
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	intron	53196	59347	.	+	.	intron_id 1
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	splice3	59346	59347	.	+	.	intron_id 0 ; splice_site "AG"
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	cds	59348	59491	.	+	.	
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	exon	59348	59491	.	+	.	insertions 0 ; deletions 0
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	splice5	59492	59493	.	+	.	intron_id 2 ; splice_site "GT"
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	intron	59492	63570	.	+	.	intron_id 2
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	splice3	63569	63570	.	+	.	intron_id 1 ; splice_site "AG"
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	cds	63571	63770	.	+	.	
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	exon	63571	63770	.	+	.	insertions 0 ; deletions 0
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	splice5	63771	63772	.	+	.	intron_id 3 ; splice_site "GT"
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	intron	63771	65707	.	+	.	intron_id 3
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	splice3	65706	65707	.	+	.	intron_id 2 ; splice_site "AG"
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	cds	65708	65770	.	+	.	
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	exon	65708	65770	.	+	.	insertions 0 ; deletions 0
JSZB01004892.1:subseq(100000,90000)	exonerate:protein2genome:local	similarity	52874	65770	1029	+	.	alignment_id 1 ; Query SPP00000002_2.0 ; Align 52874 1 138 ; Align 53012 52 183 ; Align 59350 114 141 ; Align 63573 162 198 ; Align 65708 228 63
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis