Command line: [exonerate -m p2g --showtargetgff -q DIO2.aa.fa -t DIO2_JSZB01004262.1.subseq.fa]
Hostname: [ws101066u]

C4 Alignment:
------------
         Query: SPP00000008_2.0 # Protein # Iodothyronine deiodinase 2 (DIO2) # Human 
        Target: JSZB01004262.1:subseq(120000,110000) Manis javanica isolate MP_PG03-UM SCAFFOLD4833, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 1240
   Query range: 0 -> 265
  Target range: 64376 -> 55840

     1 : MetGlyIleLeuSerValAspLeuLeuIleThrLeuGlnIleLeuProValPhePheSer :    20
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
         MetGlyIleLeuSerValAspLeuLeuIleThrLeuGlnIleLeuProValPhePheSer
 64376 : ATGGGCATCCTCAGCGTAGACTTGCTGATCACACTGCAAATTCTGCCAGTTTTTTTCTCC : 64319

    21 : AsnCysLeuPheLeuAlaLeuTyrAspSerValIleLeuLeuLysHisValValLeuLeu :    40
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
         AsnCysLeuPheLeuAlaLeuTyrAspSerValIleLeuLeuLysHisValValLeuLeu
 64318 : AACTGCCTCTTCCTGGCACTCTATGACTCGGTCATTCTCCTCAAGCACGTGGTGCTGCTG : 64259

    41 : LeuSerArgSerLysSerThrArgGlyGluTrpArgArgMetLeuThrSerGluGlyLeu :    60
         |||||||||||||||||||||||||||||||||||||||||||||||||||||||||:!!
         LeuSerArgSerLysSerThrArgGlyGluTrpArgArgMetLeuThrSerGluGlyMet
 64258 : CTGAGCCGCTCCAAGTCCACTCGCGGTGAGTGGAGGCGCATGCTGACCTCAGAGGGAATG : 64199

    61 : ArgCysValTrpLysSerPheLeuLeuAspAlaTyrLysGln  >>>> Target Intr :    75
         ||||||:!!|||||||||||||||||||||||||||||||||           7750 bp
         ArgCysIleTrpLysSerPheLeuLeuAspAlaTyrLysGln++                
 64198 : CGTTGCATCTGGAAGAGCTTCCTCCTGGACGCCTACAAACAGgt................ : 64152

    76 : on 1 >>>>  ValLysLeuGlyGluAspAlaProAsnSerSerValValHisValSerS :    91
                    |||||||||||||||||||||||||||||||||||||||||||||||||
                  ++ValLysLeuGlyGluAspAlaProAsnSerSerValValHisValSerS
 64151 : .........agGTGAAACTGGGTGAAGATGCCCCCAATTCCAGTGTGGTGCATGTATCCA : 56356

    92 : erThrGluGlyGlyAspAsnSerGlyAsnGlyThrGlnGluLysIleAlaGluGlyAlaT :   111
         ||  !|||||||||||||||||||||!:!|||.!!|||||||||:!!.!!!!:|||||| 
         erArgGluGlyGlyAspAsnSerGlySerGlyAlaGlnGluLysValThrAspGlyAlaG
 56355 : GTCGTGAAGGAGGTGACAACAGTGGCAGTGGTGCCCAGGAGAAGGTAACTGATGGAGCCG : 56296

   112 : hrCysHisLeuLeuAspPheAlaSerProGluArgProLeuValValAsnPheGlySerA :   131
          !|||||||||||||||||||||  !||||||||||||||||||||||||||||||||||
         luCysHisLeuLeuAspPheAlaHisProGluArgProLeuValValAsnPheGlySerA
 56295 : AGTGCCACCTTCTTGACTTTGCCCACCCGGAGCGCCCACTGGTGGTCAACTTTGGCTCAG : 56236

   132 : laThrUnkProProPheThrSerGlnLeuProAlaPheArgLysLeuValGluGluPheS :   151
         |||||   |||||||||||||||||||||||||||||||||! !||||||!!:|||||||
         laThr***ProProPheThrSerGlnLeuProAlaPheArgThrLeuValAspGluPheS
 56235 : CCACTTGACCTCCTTTTACTAGCCAGCTGCCAGCCTTCCGCACACTGGTGGACGAGTTCT : 56176

   152 : erSerValAlaAspPheLeuLeuValTyrIleAspGluAlaHisProSerAspGlyTrpA :   171
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
         erSerValAlaAspPheLeuLeuValTyrIleAspGluAlaHisProSerAspGlyTrpA
 56175 : CATCAGTGGCTGACTTTCTCTTGGTCTACATTGATGAGGCTCATCCTTCAGATGGCTGGG : 56116

   172 : laIleProGlyAspSerSerLeuSerPheGluValLysLysHisGlnAsnGlnGluAspA :   191
         ||:!:|||         |||||||||||||||||||||||||||!:!|||||||||||||
         laValPro---------SerLeuSerPheGluValLysLysHisArgAsnGlnGluAspA
 56115 : CGGTGCCT---------TCTCTGTCTTTTGAGGTAAAGAAGCACCGGAACCAGGAAGACC : 56065

   192 : rgCysAlaAlaAlaGlnGlnLeuLeuGluArgPheSerLeuProProGlnCysArgValV :   211
         |||||||||||||||||||||||||||||||||||||||||||||||||||||!:!||||
         rgCysAlaAlaAlaGlnGlnLeuLeuGluArgPheSerLeuProProGlnCysGlnValV
 56064 : GATGTGCCGCAGCCCAGCAGCTCCTGGAGCGTTTCTCCTTGCCGCCCCAGTGCCAAGTTG : 56005

   212 : alAlaAspArgMetAspAsnAsnAlaAsnIleAlaTyrGlyValAlaPheGluArgValC :   231
         |||||||||||||||||||||||||||||:!!||||||||||||||||||||||||||||
         alAlaAspArgMetAspAsnAsnAlaAsnValAlaTyrGlyValAlaPheGluArgValC
 56004 : TGGCTGACCGCATGGACAATAATGCCAATGTAGCTTACGGGGTAGCCTTTGAACGTGTGT : 55945

   232 : ysIleValGlnArgGlnLysIleAlaTyrLeuGlyGlyLysGlyProPheSerTyrAsnL :   251
         ||||||||||||||||||||||||||||||||||||||||||||||||||!!!|||||||
         ysIleValGlnArgGlnLysIleAlaTyrLeuGlyGlyLysGlyProPheCysTyrAsnL
 55944 : GTATTGTGCAGAGACAGAAAATTGCTTATCTGGGAGGAAAGGGCCCCTTCTGCTACAACC : 55885

   252 : euGlnGluValArgHisTrpLeuGluLysAsnPheSerLysArg :   265
         ||||||||||||||  !|||||||||||||||||||||||||||
         euGlnGluValArgCysTrpLeuGluLysAsnPheSerLysArg
 55884 : TTCAAGAAGTCCGGTGTTGGCTGGAGAAGAATTTCAGCAAGAGA : 55841

vulgar: SPP00000008_2.0 0 265 . JSZB01004262.1:subseq(120000,110000) 64376 55840 - 1240 M 74 222 5 0 2 I 0 7746 3 0 2 M 99 297 G 3 0 M 89 267
# --- 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
#
JSZB01004262.1:subseq(120000,110000)	exonerate:protein2genome:local	gene	55841	64376	1240	-	.	gene_id 1 ; sequence SPP00000008_2.0 ; gene_orientation +
JSZB01004262.1:subseq(120000,110000)	exonerate:protein2genome:local	cds	64155	64376	.	-	.	
JSZB01004262.1:subseq(120000,110000)	exonerate:protein2genome:local	exon	64155	64376	.	-	.	insertions 0 ; deletions 0
JSZB01004262.1:subseq(120000,110000)	exonerate:protein2genome:local	splice5	64153	64154	.	-	.	intron_id 1 ; splice_site "GT"
JSZB01004262.1:subseq(120000,110000)	exonerate:protein2genome:local	intron	56405	64154	.	-	.	intron_id 1
JSZB01004262.1:subseq(120000,110000)	exonerate:protein2genome:local	splice3	56405	56406	.	-	.	intron_id 0 ; splice_site "AG"
JSZB01004262.1:subseq(120000,110000)	exonerate:protein2genome:local	cds	55841	56404	.	-	.	
JSZB01004262.1:subseq(120000,110000)	exonerate:protein2genome:local	exon	55841	56404	.	-	.	insertions 0 ; deletions 3
JSZB01004262.1:subseq(120000,110000)	exonerate:protein2genome:local	similarity	55841	64376	1240	-	.	alignment_id 1 ; Query SPP00000008_2.0 ; Align 64377 1 222 ; Align 56405 75 297 ; Align 56108 177 267
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis