Command line: [exonerate -m p2g --showtargetgff -q pstkseq.fa -t genomicpstk.fa -E]
Hostname: [luke]

C4 Alignment:
------------
         Query: SPP00000052_2.0 # Protein # Phosphoseryl-tRNA kinase  (PSTK) # Human (Homo sapiens)
        Target: gi|411115821|gb|JH977742.1|:subseq(3219639,301365) Eptesicus fuscus unplaced genomic scaffold scaffold00132, whole genome shotgun sequence
         Model: protein2genome:local
     Raw score: 101
   Query range: 0 -> 265
  Target range: 39020 -> 239923

      1 : MetLysThrAlaGluAsnIleArgGlyThrGlySerAspGlyProArgLysArg  >> :     19
          |||!:!|||::!...!:!   !:!|||.!!||||||    !! !! !!!:!!:!    
          MetArgThrSerSerSerGluLysGlyAlaGlySerArgArgAlaGlyArgGln++  
  39021 : ATGAGGACCAGCAGCAGCGAGAAGGGGGCTGGAAGCCGGAGAGCCGGAAGGCAGgt.. :  39077

     20 : >> Target Intron 1 >>>>  GlyLeuCysValLeuCysGlyLeuProAlaAla :     29
                 11679 bp          |||  !|||:!!|||||| !!|||! !||||||
                                 -+GlySerCysLeuLeuCysArgLeuLeuAlaAla
  39078 : .......................cgGGGAGCTGCCTCCTGTGCCGGCTGCTCGCTGCG :  50784

     30 : {Gl}  >>>> Target Intron 2 >>>>  {y}LysSerThrPheAlaArgAlaL :     38
          {!.}           16042 bp          {!}::!!!!:!!.!!||||||:!!!
          {Al}++                         ++{a}ArgThrSerLeuAlaArgSerA
  50785 : {GC}gt.........................ag{G}CGGACATCCCTCGCAAGGTCCC :  66853

     39 : euAlaHisArgLeuGln  >>>> Target Intron 3 >>>>  GlnGluGlnGly :     47
           !|||.!.|||  !|||           29281 bp          |||.....!  !
          rgAlaGluArgAlaGln+-                         +-GlnSerSerHis
  66854 : GGGCTGAGAGGGCGCAGgc.........................acCAGTCCTCACAC :  96161

     48 : TrpAlaIleGlyValValAlaTyrAspAspValMetPro{As}  >>>> Target I :     61
          |||  !:!!  !:!!  !:!!!:!:!! ! :!!||| !!{  }           6259
          TrpLeuLeuProLeuSerSerPheAsnLysLeuMetAla{Ar}++             
  96162 : TGGCTTCTCCCTCTCTCCTCTTTCAACAAGTTAATGGCT{AG}gt............. :  96207

     62 : ntron 4 >>>>  {p}AlaPheLeu{A}  >>>> Target Intron 5 >>>>   :     65
           bp           { }::!|||  !{|}           17837 bp          
                      ++{g}SerPheGlu{A}++                         ++
  96208 : ............ag{A}AGCTTCGAA{G}gt.........................ag : 120310

     66 : {la}GlyAlaArgAlaArgProAlaProSerGlnTrpLysLeuLeuArgGln{G}  > :     82
          {||}|||  !|||! !!:!|||!.!  !!!!:!! !!|||  !! !|||:!!{!}   
          {la}GlyArgArgGluGlnProValGlyThrGluGlyLysGluCysArgGlu{A}++ 
 120311 : {CG}GGGCGCAGGGAACAGCCTGTGGGAACAGAGGGGAAGGAGTGCAGGGAA{G}gt. : 120365

     83 : >>> Target Intron 6 >>>>  {lu}LeuLeuLysTyrLeuGluTyrPheLeuM :     92
                  5022 bp           {!:}:!!|||!!. !   !...:!!.!!:!!:
                                  +-{sp}IleLeuAsnLysAsnSerHisIleIleL
 120366 : ........................at{AC}ATTTTAAATAAGAACTCCCACATTATCT : 125414

     93 : etAlaValIleAsnGlyCysGlnMetSer  >>>> Target Intron 7 >>>>   :    102
          !!:!!:!!  !|||..!|||..!   !!!           1264 bp           
          euSerIle***AsnAsnCysMetGluThr+-                         ++
 125415 : TGTCCATTTAAAATAATTGTATGGAAACGgg.........................ag : 126706

    103 :   >>>> Target Intron 8 >>>>  ValProProAsnArgThrGluAlaMetTr :    111
                     17587 bp          !.!  !  !:!!! !|||.!.|||   ||
          ++                         -+AlaGlyGlyAspThrThrHisAlaCysTr
 126707 : gt.........................tgGCAGGTGGGGACACCACGCACGCTTGCTG : 144322

    112 : pGluAspPheIleThrCysLeuLysAspGlnAspLeuIlePheSer  >>>> Targe :    127
          |!  |||  !  !  !|||  !     !..!     !  !|||..!           2
          pGlyAspSerSerGluCysGlyPheArgSerArgThrSerPheGln++          
 144323 : GGGCGACAGCTCAGAATGTGGCTTCCGTTCAAGGACTTCCTTCCAGgt.......... : 144372

    128 : t Intron 9 >>>>  AlaAlaPheGluAlaGlnSerCysTyrLeuLeuThrLysTh :    140
          537 bp           ..! !!   !    !!!.  !!!    ! !|||.!!!:!.!
                         ++CysProThrAlaGlnHisHisTrpValProLeuAlaArgAl
 144373 : ...............agTGTCCTACAGCCCAGCACCACTGGGTGCCCTTGGCAAGGGC : 146946

    141 : rAlaValSerArgProLeuPheLeuValLeuAspAspAsn{P}  >>>> Target I :    154
          !  !  ! !!! !||||||!    !:!!! !.!.|||.!.{ }            712
          aGlnProProLeuProLeuSerGlyLeuCysGlnAspGln{A}++             
 146947 : CCAGCCCCCTCTGCCTCTCTCAGGGCTGTGCCAGGACCAG{G}gt............. : 146991

    155 : ntron 10 >>>>  {he}TyrTyrGlnSerMetArgTyrGluValTyrGlnLeuAla :    167
           bp            { !}!:!   :!!|||!!:!:!    !  !!!:!  !  !  !
                       -+{la}PheLeuLysSerIleLysMetTyrPhePheLeuAsnLeu
 146992 : .............tg{CC}TTTCTGAAATCAATAAAAATGTATTTTTTTTTAAATCTT : 147739

    168 : ArgLysTyrSerLeuGlyPheCysGlnLeuPheLeuAspCysProLeuGluThrCysL :    187
          ||||||   !!!! !!.!||||||!    !  !! !!!:   ||||||! !  ! !  
          ArgLysArgThrCysAlaPheCysProGlyAspProGluIleProLeuAlaHisGlyG
 147740 : AGAAAAAGAACGTGTGCCTTTTGTCCTGGGGACCCCGAGATACCCCTGGCGCACGGAG : 147799

    188 : euGlnArgAsnGlyGln{A}  >>>> Target Intron 11 >>>>  {rg}ProG :    195
           !! ! !!.!.|||!::{ }            9815 bp           {!!}|||:
          lyProGlyGlnGlyArg{G}++                          ++{ly}ProG
 147800 : GCCCAGGTCAGGGCCGT{G}gt..........................ag{GC}CCCG : 157638

    196 : lnAlaLeuPro  >>>> Target Intron 12 >>>>  ProGluThrIleHisLe :    204
          !!|||||||||           20095 bp           |||! !.!!:!!! !||
          luAlaLeuPro++                          ++ProGlyAlaValProLe
 157639 : AGGCGCTTCCCgt..........................agCCGGGAGCTGTCCCCCT : 177760

    205 : uMetGlyArgLysLeuGluLysProAsnProGluLysAsnAlaTrpGluHisAsnSer :    223
          |   ..!! !  !  !      |||::!|||!     ::!|||!::  !! !.!.|||
          uProSerProLeuAsnThrProProSerProGlyProSerAlaPheProProGluSer
 177761 : CCCCTCGCCCCTAAACACTCCCCCCTCCCCGGGCCCCTCCGCTTTCCCGCCTGAGTCA : 177817

    224 : LeuThrIleProSerProAlaCysAla{Se}  >>>> Target Intron 13 >>> :    233
          :!!  !:!! !! !!! !  !|||  !{||}           58169 bp        
          ValLeuLeuAlaArgLeuPheCysArg{Se}-+                         
 177818 : GTGCTTCTTGCACGGCTCTTCTGTCGC{AG}ct......................... : 177851

    234 : >  {r}GluAlaSerLeuGluValThrAspLeu  >>>> Target Intron 14 > :    243
             {|}!    !.!!:!!||||||!:!|||:!!            3809 bp      
           ++{r}GlyGlnGlyIleGluValSerAspVal++                       
 177852 : .ag{T}GGCCAAGGCATTGAAGTAAGTGACGTGgt....................... : 236048

    244 : >>>  LeuLeuThrAlaLeuGluAsnProValLysTyrAlaGluAspAsnMetGluGl :    260
               ||||||:!!  !:!!||||||  !!.!!..|||  !!     |||!  ! !.!
             ++LeuLeuSerArgMetGluAsnArgAlaSerTyrTrpValArgAsnThrAlaAs
 236049 : ...agTTACTGTCTAGAATGGAAAACAGAGCCAGCTACTGGGTTAGAAACACAGCAGA : 239906

    261 : nLysAspThrAspArg :    265
          .!:!.!.|||||||||
          pArgGlnThrAspArg
 239907 : CAGACAGACAGACAGA : 239923

vulgar: SPP00000052_2.0 0 265 . gi|411115821|gb|JH977742.1|:subseq(3219639,301365) 39020 239923 + 101 M 18 54 5 0 2 I 0 11675 3 0 2 M 11 33 S 0 2 5 0 2 I 0 16038 3 0 2 S 1 1 M 13 39 5 0 2 I 0 29277 3 0 2 M 17 51 S 0 2 5 0 2 I 0 6255 3 0 2 S 1 1 M 3 9 S 0 1 5 0 2 I 0 17833 3 0 2 S 1 2 M 16 48 S 0 1 5 0 2 I 0 5018 3 0 2 S 1 2 M 19 57 5 0 2 I 0 1260 3 0 2 5 0 2 I 0 17583 3 0 2 M 25 75 5 0 2 I 0 2533 3 0 2 M 27 81 S 0 1 5 0 2 I 0 708 3 0 2 S 1 2 M 38 114 S 0 1 5 0 2 I 0 9811 3 0 2 S 1 2 M 5 15 5 0 2 I 0 20091 3 0 2 M 34 102 S 0 2 5 0 2 I 0 58165 3 0 2 S 1 1 M 9 27 5 0 2 I 0 3805 3 0 2 M 23 69
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	gene	39021	239923	101	+	.	gene_id 1 ; sequence SPP00000052_2.0 ; gene_orientation +
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	39021	39074	.	+	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	39021	39074	.	+	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	39075	39076	.	+	.	intron_id 1 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	39075	50753	.	+	.	intron_id 1
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	50752	50753	.	+	.	intron_id 0 ; splice_site "CG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	50754	50788	.	+	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	50754	50788	.	+	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	50789	50790	.	+	.	intron_id 2 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	50789	66830	.	+	.	intron_id 2
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	66829	66830	.	+	.	intron_id 1 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	66831	66870	.	+	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	66831	66870	.	+	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	66871	66872	.	+	.	intron_id 3 ; splice_site "GC"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	66871	96151	.	+	.	intron_id 3
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	96150	96151	.	+	.	intron_id 2 ; splice_site "AC"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	96152	96204	.	+	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	96152	96204	.	+	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	96205	96206	.	+	.	intron_id 4 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	96205	102463	.	+	.	intron_id 4
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	102462	102463	.	+	.	intron_id 3 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	102464	102474	.	+	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	102464	102474	.	+	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	102475	102476	.	+	.	intron_id 5 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	102475	120311	.	+	.	intron_id 5
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	120310	120311	.	+	.	intron_id 4 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	120312	120362	.	+	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	120312	120362	.	+	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	120363	120364	.	+	.	intron_id 6 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	120363	125384	.	+	.	intron_id 6
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	125383	125384	.	+	.	intron_id 5 ; splice_site "AT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	125385	125443	.	+	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	125385	125443	.	+	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	125444	125445	.	+	.	intron_id 7 ; splice_site "GG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	125444	126707	.	+	.	intron_id 7
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	126706	126707	.	+	.	intron_id 6 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	126708	126709	.	+	.	intron_id 8 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	126708	144294	.	+	.	intron_id 8
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	144293	144294	.	+	.	intron_id 7 ; splice_site "TG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	144295	144369	.	+	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	144295	144369	.	+	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	144370	144371	.	+	.	intron_id 9 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	144370	146906	.	+	.	intron_id 9
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	146905	146906	.	+	.	intron_id 8 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	146907	146988	.	+	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	146907	146988	.	+	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	146989	146990	.	+	.	intron_id 10 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	146989	147700	.	+	.	intron_id 10
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	147699	147700	.	+	.	intron_id 9 ; splice_site "TG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	147701	147817	.	+	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	147701	147817	.	+	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	147818	147819	.	+	.	intron_id 11 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	147818	157632	.	+	.	intron_id 11
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	157631	157632	.	+	.	intron_id 10 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	157633	157649	.	+	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	157633	157649	.	+	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	157650	157651	.	+	.	intron_id 12 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	157650	177744	.	+	.	intron_id 12
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	177743	177744	.	+	.	intron_id 11 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	177745	177848	.	+	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	177745	177848	.	+	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	177849	177850	.	+	.	intron_id 13 ; splice_site "CT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	177849	236017	.	+	.	intron_id 13
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	236016	236017	.	+	.	intron_id 12 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	236018	236045	.	+	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	236018	236045	.	+	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	236046	236047	.	+	.	intron_id 14 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	236046	239854	.	+	.	intron_id 14
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	239853	239854	.	+	.	intron_id 13 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	239855	239923	.	+	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	239855	239923	.	+	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	similarity	39021	239923	101	+	.	alignment_id 1 ; Query SPP00000052_2.0 ; Align 39021 1 54 ; Align 50754 19 33 ; Align 66832 31 39 ; Align 96152 44 51 ; Align 102465 62 9 ; Align 120314 66 48 ; Align 125387 83 57 ; Align 144295 102 75 ; Align 146907 127 81 ; Align 147703 155 114 ; Align 157635 194 15 ; Align 177745 199 102 ; Align 236019 234 27 ; Align 239855 243 69
# --- END OF GFF DUMP ---
#

C4 Alignment:
------------
         Query: SPP00000052_2.0 # Protein # Phosphoseryl-tRNA kinase  (PSTK) # Human (Homo sapiens)
        Target: gi|411115821|gb|JH977742.1|:subseq(3219639,301365) Eptesicus fuscus unplaced genomic scaffold scaffold00132, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 737
   Query range: 9 -> 345
  Target range: 295464 -> 12558

     10 : ThrGlySerAspGlyProArgLysArgGlyLeuCysVal{Le}  >>>> Target I :     23
          :!!||||||  !..!|||! !!:!!:!..!!!!   |||{||}           1506
          SerGlySerProSerProLeuArgGlnSerPheProVal{Le}++             
 295464 : TCTGGTAGCCCCTCCCCTCTCAGACAATCCTTTCCAGTG{TT}gt............. : 295421

     24 : ntron 1 >>>>  {u}CysGlyLeuProAlaAlaGlyLysSerThr{Ph}  >>>>  :     34
           bp           {|}||| !!  !||||||:!!..! ! |||:!!{  }       
                      ++{u}CysArgArgProAlaSerSerHisSerSer{Se}++     
 295420 : ............ag{A}TGCAGAAGACCTGCCTCCTCCCACTCCTCC{AG}gt..... : 293882

     35 : Target Intron 2 >>>>  {e}AlaArgAlaLeuAlaHisArgLeuGlnGln{Gl :     45
              53600 bp          {!}.!!|||!.!! !!.!|||!:!!!!..!!!.{! 
                              ++{r}ThrArgGlyArgValHisLysPheMetHis{Gl
 293881 : ....................ag{T}ACTAGAGGCCGGGTGCACAAATTCATGCAC{GG : 240253

     46 : }  >>>> Target Intron 3 >>>>  {u}GlnGlyTrpAlaIleGlyValValA :     54
          }           4883 bp           {!}   !.! ! :!!  !|||:!!  !|
          }++                         ++{y}AlaAlaSerSerSerGlyMetSerA
 240252 : }gt.........................ag{G}GCCGCCAGCTCGTCCGGGATGAGCG : 235343

     55 : laTyrAspAspValMetProAspAlaPheLeuAla  >>>> Target Intron 4  :     66
          ||        !  !   |||   |||   :!!  !           3771 bp     
          laGlyLeuProArgAlaProArgAlaProValGln++                     
 235342 : CCGGGCTGCCTCGGGCTCCCCGAGCCCCGGTCCAGgt..................... : 235305

     67 : >>>>  GlyAlaArgAlaArgProAla  >>>> Target Intron 5 >>>>  Pr :     73
                  !::!|||  !! !|||  !           30171 bp          ||
              ++GlnSerArgGlnThrProMet++                         ++Pr
 235304 : ....agCAAAGCAGACAGACACCAATGgt.........................agCC : 201344

     74 : oSerGlnTrpLysLeuLeuArgGlnGluLeuLeuLysTyrLeuGluTyrPheLeuMet :     92
          | !!!::||||||  !||||||!:!|||||||||! !! !||||||  !||||||  !
          oProArgTrpLysAlaLeuArgArgGluLeuLeuThrCysLeuGluGlyPheLeuArg
 201343 : GCCCCGCTGGAAGGCGCTCCGCCGGGAGCTGCTCACGTGCCTGGAAGGCTTCCTGCGG : 201287

     93 : AlaValIleAsnGlyCysGlnMetSerValProProAsnArgThrGluAlaMetTrpG :    112
          |||:!!:!:  ! !! !!! !:!!:!!!.!||||||... !!|||||||||:!!|||!
          AlaLeuLeuLeuArgGlyProLeuAlaAlaProProGlyGlyThrGluAlaLeuTrpV
 201286 : GCGCTGCTGCTCCGGGGCCCGCTGGCGGCGCCGCCCGGGGGCACGGAGGCCCTGTGGG : 201227

    113 : luAspPheIleThrCysLeuLysAspGlnAspLeuIlePheSerAlaAlaPheGluAl :    131
           !! !|||! !.!!||||||::!! !|||! !|||:!:  ! !!||| !!  !!  ! 
          alAlaPheThrAlaCysLeuArgAlaGlnGlyLeuLeuArgProAlaProAlaAlaGl
 201226 : TGGCCTTCACCGCCTGCCTGCGGGCTCAGGGCCTGCTGCGTCCCGCTCCCGCCGCCGA : 201170

    132 : aGlnSerCysTyrLeuLeuThrLysThrAlaValSerArgProLeuPheLeuValLeu :    150
          !    !!..!  !! !||| !!!   !! !!!.!..! !!||||||.!.|||||||||
          uGlyProAlaArgHisLeuProThrProProAlaGluGlyProLeuLeuLeuValLeu
 201169 : GGGCCCGGCCCGCCACCTGCCCACCCCGCCCGCGGAGGGCCCTCTGCTGCTGGTCCTG : 201113

    151 : AspAspAsnPheTyrTyrGlnSerMetArgTyrGluValTyrGlnLeuAlaArgLys{ :    170
          ||||||||||||||||||!:!|||||||||:!!|||||||||||||||||||||!:!{
          AspAspAsnPheTyrTyrArgSerMetArgHisGluValTyrGlnLeuAlaArgArg{
 201112 : GACGACAACTTCTATTACCGGAGCATGAGGCACGAGGTCTACCAGCTGGCGCGCAGG{ : 201053

    171 : T}  >>>> Target Intron 6 >>>>  {yr}SerLeuGlyPheCysGlnLeuPh :    178
          |}            176 bp           {||}|||||||||||||||||||||||
          T}++                         ++{yr}SerLeuGlyPheCysGlnLeuPh
 201052 : T}gt.........................ag{AC}TCGCTGGGGTTCTGCCAGCTCTT : 200853

    179 : eLeuAspCysProLeuGluThrCysLeuGlnArgAsnGlyGlnArgProGlnAlaLeu :    197
          ||||||||||||||||||||||||||||||||||||||||!:!||||||  !||||||
          eLeuAspCysProLeuGluThrCysLeuGlnArgAsnGlyArgArgProGlyAlaLeu
 200852 : CCTGGATTGCCCCCTGGAGACCTGCTTACAGAGGAATGGCCGGCGGCCCGGGGCGCTG : 200796

    198 : ProProGluThrIleHisLeuMetGlyArgLysLeuGluLysProAsnProGluLysA :    217
          ||| !!|||||||||!.!|||||| !!|||!:!:!!|||:!!|||||||||:!!||||
          ProAlaGluThrIleArgLeuMetArgArgArgMetGluGluProAsnProGlnLysA
 200795 : CCCGCCGAGACCATCCGCTTGATGCGGAGGAGGATGGAGGAGCCCAACCCCCAGAAAA : 200736

    218 : snAlaTrpGluHisAsnSerLeuThrIleProSerProAlaCysAlaSerGluAla{S :    236
          ||||||||||||||||||||||||||:!:! !||| !!||| !!:!!:!!||||||{|
          snAlaTrpGluHisAsnSerLeuThrValArgSerSerAlaGlySerAlaGluAla{S
 200735 : ACGCCTGGGAGCACAACAGCCTCACGGTGCGCAGCTCCGCGGGCTCGGCCGAGGCC{A : 200679

    237 : e}  >>>> Target Intron 7 >>>>  {r}LeuGluValThrAspLeuLeuLeu :    244
          |}            145 bp           {|}! !|||:!!|||! !|||||||||
          e}++                         ++{r}ProGluLeuThrGlyLeuLeuLeu
 200678 : G}gt.........................ag{C}CCCGAGCTGACCGGCCTGCTGCTT : 200510

    245 : ThrAlaLeuGluAsnProValLysTyrAlaGluAspAsnMetGluGlnLys  >>>>  :    262
          .!!||||||||||||||||||!  ! !!.!||||||!:!  !|||||||||       
          AlaAlaLeuGluAsnProValThrCysValGluAspSerAlaGluGlnLys++     
 200509 : GCTGCCCTGGAAAACCCGGTGACCTGCGTGGAGGACAGTGCGGAACAGAAGgt..... : 200454

    263 : Target Intron 8 >>>>  AspThrAspArgIleIleCysSerThrAsnIleLeu :    273
               355 bp           !!:.!!||||||  !:!:||||||.!!!:!!  |||
                              ++GluAlaAspArgAlaValCysSerAlaSerThrLeu
 200453 : ....................agGAAGCAGACAGAGCTGTGTGCTCCGCCAGCACGCTG : 200068

    274 : HisLysThrAspGlnThrLeuArgArgIleValSerGlnThrMetLysGluAlaLys{ :    293
          |||::!.!!||||||.!!|||||||||||||||||||||||||||||||||||||||{
          HisArgAlaAspGlnAlaLeuArgArgIleValSerGlnThrMetLysGluAlaLys{
 200067 : CACCGGGCTGACCAGGCGCTGCGAAGGATCGTCTCCCAGACCATGAAGGAAGCCAAA{ : 200008

    294 : G}  >>>> Target Intron 9 >>>>  {ly}AsnGlnGluAla{P}  >>>> T :    298
          |}          107885 bp          {||}|||! !|||:!!{ }        
          G}++                         +-{ly}AsnProGluSer{V}++      
 200007 : G}gt.........................aa{GG}AATCCAGAATCA{G}gt...... :  92105

    299 : arget Intron 10 >>>>  {he}SerGluMetThrPheLysGlnArgTrpValAr :    309
              3955 bp           {! }! !     !  !|||   ::!  !|||  !||
                              ++{al}***ProGluArgPheValArgAlaTrpProAr
  92104 : ....................ag{TG}TAGCCCGAGCGCTTTGTCAGGGCCTGGCCACG :  88120

    310 : gAlaAsnHisAlaAlaIle{Tr}  >>>> Target Intron 11 >>>>  {p}Ar :    317
          |  !   !!.|||:!!:!!{||}           10506 bp           {|}!:
          gPheLeuGlnAlaSerLeu{Tr}++                          ++{p}Ly
  88119 : CTTTCTGCAAGCCTCGCTC{TG}gt..........................ag{G}AA :  77590

    318 : gIleIleLeuGlyAsnGluHisIleLysCysArgSerAla{Ly}  >>>> Target  :    331
          !:!:! !||| !!...     !:!! ! ||||||.!!  !{!:}           470
          sValThrLeuArgArgProSerLeuHisCysArgGlyTrp{Ar}++            
  77589 : GGTGACCCTCCGACGACCCTCCCTCCACTGCCGTGGGTGG{AG}gt............ :  77544

    332 : Intron 12 >>>>  {s}ValGlyTrpLeuGlnCysCysArgIle{G}  >>>> Ta :    341
          41 bp           {!}!.!  !||||||!:!|||   !:!   {!}         
                        ++{g}AlaProTrpLeuArgCysProGlnGly{V}++       
  77543 : ..............ag{G}GCCCCGTGGCTCCGGTGCCCGCAGGGG{G}gt....... :  30474

    342 : rget Intron 13 >>>>  {lu}LysArgProLeu :    345
            17904 bp           {  }:!!|||||||||
                             ++{al}GluArgProLeu
  30473 : ...................ag{TC}GAACGGCCTCTT :  12559

vulgar: SPP00000052_2.0 9 345 . gi|411115821|gb|JH977742.1|:subseq(3219639,301365) 295464 12558 - 737 M 13 39 S 0 2 5 0 2 I 0 1502 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 53596 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 4879 3 0 2 S 1 1 M 20 60 5 0 2 I 0 3767 3 0 2 M 7 21 5 0 2 I 0 30167 3 0 2 M 97 291 S 0 1 5 0 2 I 0 172 3 0 2 S 1 2 M 65 195 S 0 2 5 0 2 I 0 141 3 0 2 S 1 1 M 25 75 5 0 2 I 0 351 3 0 2 M 31 93 S 0 1 5 0 2 I 0 107881 3 0 2 S 1 2 M 4 12 S 0 1 5 0 2 I 0 3951 3 0 2 S 1 2 M 17 51 S 0 2 5 0 2 I 0 10502 3 0 2 S 1 1 M 14 42 S 0 2 5 0 2 I 0 47037 3 0 2 S 1 1 M 9 27 S 0 1 5 0 2 I 0 17900 3 0 2 S 1 2 M 4 12
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	gene	12559	295464	737	-	.	gene_id 1 ; sequence SPP00000052_2.0 ; gene_orientation +
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	295424	295464	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	295424	295464	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	295422	295423	.	-	.	intron_id 1 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	293918	295423	.	-	.	intron_id 1
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	293918	293919	.	-	.	intron_id 0 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	293885	293917	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	293885	293917	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	293883	293884	.	-	.	intron_id 2 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	240285	293884	.	-	.	intron_id 2
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	240285	240286	.	-	.	intron_id 1 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	240252	240284	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	240252	240284	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	240250	240251	.	-	.	intron_id 3 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	235369	240251	.	-	.	intron_id 3
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	235369	235370	.	-	.	intron_id 2 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	235308	235368	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	235308	235368	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	235306	235307	.	-	.	intron_id 4 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	231537	235307	.	-	.	intron_id 4
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	231537	231538	.	-	.	intron_id 3 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	231516	231536	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	231516	231536	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	231514	231515	.	-	.	intron_id 5 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	201345	231515	.	-	.	intron_id 5
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	201345	201346	.	-	.	intron_id 4 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	201053	201344	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	201053	201344	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	201051	201052	.	-	.	intron_id 6 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	200877	201052	.	-	.	intron_id 6
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	200877	200878	.	-	.	intron_id 5 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	200678	200876	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	200678	200876	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	200676	200677	.	-	.	intron_id 7 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	200533	200677	.	-	.	intron_id 7
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	200533	200534	.	-	.	intron_id 6 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	200457	200532	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	200457	200532	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	200455	200456	.	-	.	intron_id 8 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	200102	200456	.	-	.	intron_id 8
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	200102	200103	.	-	.	intron_id 7 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	200008	200101	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	200008	200101	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	200006	200007	.	-	.	intron_id 9 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	92123	200007	.	-	.	intron_id 9
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	92123	92124	.	-	.	intron_id 8 ; splice_site "AA"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	92108	92122	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	92108	92122	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	92106	92107	.	-	.	intron_id 10 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	88153	92107	.	-	.	intron_id 10
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	88153	88154	.	-	.	intron_id 9 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	88098	88152	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	88098	88152	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	88096	88097	.	-	.	intron_id 11 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	77592	88097	.	-	.	intron_id 11
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	77592	77593	.	-	.	intron_id 10 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	77547	77591	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	77547	77591	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	77545	77546	.	-	.	intron_id 12 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	30506	77546	.	-	.	intron_id 12
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	30506	30507	.	-	.	intron_id 11 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	30477	30505	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	30477	30505	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	30475	30476	.	-	.	intron_id 13 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	12573	30476	.	-	.	intron_id 13
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	12573	12574	.	-	.	intron_id 12 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	12559	12572	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	12559	12572	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	similarity	12559	295464	737	-	.	alignment_id 1 ; Query SPP00000052_2.0 ; Align 295465 10 39 ; Align 293917 24 30 ; Align 240284 35 30 ; Align 235368 46 60 ; Align 231537 66 21 ; Align 201345 73 291 ; Align 200875 171 195 ; Align 200532 237 75 ; Align 200102 262 93 ; Align 92121 294 12 ; Align 88151 299 51 ; Align 77591 317 42 ; Align 30505 332 27 ; Align 12571 342 12
# --- END OF GFF DUMP ---
#

C4 Alignment:
------------
         Query: SPP00000052_2.0 # Protein # Phosphoseryl-tRNA kinase  (PSTK) # Human (Homo sapiens)
        Target: gi|411115821|gb|JH977742.1|:subseq(3219639,301365) Eptesicus fuscus unplaced genomic scaffold scaffold00132, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 104
   Query range: 173 -> 346
  Target range: 284747 -> 21778

    174 : PheCysGlnLeuPheLeuAspCysProLeuGluThrCysLeuGlnArgAsnGlyGlnA :    193
          |||  !...|||! !|||..!    !!|||  !  !||||||:!!! !||||||:!!!
          PheLeuSerLeuCysLeuSerLeuSerLeuProLeuCysLeuGluMetAsnGlyGluA
 284747 : TTTCTCTCTCTGTGTCTCTCCCTGTCGCTTCCACTCTGTCTAGAAATGAATGGGGAAA : 284690

    194 : rgProGln{Al}  >>>> Target Intron 1 >>>>  {a}LeuProProGluTh :    201
          .!  !!  {  }           9380 bp           {!}  !||||||!  ||
          snIleLeu{Ar}++                         -+{g}ThrProProAlaTh
 284689 : ATATCCTC{AG}gt.........................gg{G}ACCCCGCCAGCTAC : 275286

    202 : rIleHisLeuMet{G}  >>>> Target Intron 2 >>>>  {ly}ArgLysLeu :    209
          |:!:!..  !   {|}           9792 bp           {||}||| ! :!!
          rLeuArgThrCys{G}++                         ++{ly}ArgTyrIle
 275285 : CCTGCGGACATGC{G}gt.........................ag{GT}AGGTACATT : 265470

    210 : GluLysPro{As}  >>>> Target Intron 3 >>>>  {n}ProGluLys  >> :    217
          |||! !  !{||}           34001 bp          {|}! !:!!:!!    
          GluThrArg{As}++                         ++{n}GlnGlnGln++  
 265469 : GAGACAAGA{AA}gt.........................ag{C}CAGCAGCAGgt.. : 231443

    218 : >> Target Intron 4 >>>>  AsnAlaTrpGluHisAsnSerLeuThrIlePro :    227
                  507 bp           .!.||||||!!:  !!.!.!!  !! !:!! !!
                                 ++GluAlaTrpAspSerThrGlySerArgValSer
 231442 : .......................agGAAGCCTGGGATTCCACCGGAAGCAGGGTCTCC : 230908

    228 : SerProAlaCysAlaSerGlu{A}  >>>> Target Intron 5 >>>>  {la}S :    236
          :!!|||:!!||||||:!!|||{|}           28220 bp          {||}|
          AlaProSerCysAlaAlaGlu{A}++                         ++{la}S
 230907 : GCGCCATCCTGTGCTGCTGAG{G}gt.........................ag{CG}A : 202661

    237 : erLeuGluVal{Th}  >>>> Target Intron 6 >>>>  {r}AspLeuLeuLe :    244
          |||||! !! !{  }           9507 bp           {!}|||:!!|||:!
          erLeuAlaAsp{Gl}++                         ++{y}AspMetLeuIl
 202660 : GTTTAGCGGAT{GG}gt.........................ag{G}GACATGCTTAT : 193130

    245 : uThrAlaLeuGlu{A}  >>>> Target Intron 7 >>>>  {sn}ProValLys :    252
          ! !!::!!!!:!!{:}           21779 bp          {!!} !!:!!::!
          eProSerPheGln{A}+-                         ++{sp}AlaLeuArg
 193129 : TCCTAGCTTCCAG{G}gg.........................ag{AC}GCTCTCCGA : 171327

    253 : TyrAlaGluAspAsnMetGluGln{Ly}  >>>> Target Intron 8 >>>>  { :    261
             !.!!  |||:!!   |||!::{!:}           11165 bp          {
          GlyGlyAlaAspAspProGluArg{Ar}++                         +-{
 171326 : GGAGGAGCTGATGATCCAGAGCGC{AG}gt.........................ac{ : 160133

    262 : s}AspThrAspArgIleIleCysSerThrAsnIleLeuHisLysThrAspGlnThrLe :    280
          !}|||  !  !|||:!!:!!   !!!  !!.!:!:||||||!:!...      ...  
          g}AspLeuPheArgValValGlnThrTyrThrValLeuHisArgUnkUnkUnkUnkUn
 160132 : A}GACCTGTTCCGTGTTGTACAGACGTATACCGTGTTACACAGANNNNNNNNNNNNNN : 160078

    281 : u{A}  >>>> Target Intron 9 >>>>  {rg}ArgIleValSerGlnThrMet :    288
           { }           46278 bp          {!!}  !  !  ! !!!  |||   
          k{U}--                         ++{nk}AlaProArgArgProThrAla
 160077 : N{N}nn.........................ag{GT}GCCCCCCGGCGCCCCACCGCC : 113776

    289 : LysGlu{A}  >>>> Target Intron 10 >>>>  {la}LysGlyAsnGlnGlu :    296
          :!!|||{|}           32311 bp           {||} ! |||...! !...
          GlnGlu{A}++                          ++{la}HisGlyGlyProArg
 113775 : CAGGAA{G}gt..........................ag{CA}CACGGCGGGCCACGC :  81441

    297 : AlaPheSerGluMetThrPheLysGlnArgTrpValArg{A}  >>>> Target In :    310
            !.!.! !   ...|||   !:!!::|||||||||! !{|}            3238
          GlnLeuPhePheGlnThrArgArgArgArgTrpValThr{A}++              
  81440 : CAGCTGTTCTTTCAAACCAGGAGGCGCAGGTGGGTTACA{G}gt.............. :  81396

    311 : tron 11 >>>>  {la}AsnHisAlaAlaIleTrpArgIle  >>>> Target In :    319
           bp           {||}::!!    !:!!:!:|||! !               443 
                      ++{la}SerProLeuSerValTrpProArg++              
  81395 : ............ag{CA}TCCCCGCTGTCTGTGTGGCCCCGGgt.............. :  78132

    320 : tron 12 >>>>  IleLeu{G}  >>>> Target Intron 13 >>>>  {ly}{ :    322
          bp            :!:|||{|}             93 bp            {||}{
                      ++ValLeu{G}-+                          ++{ly}{
  78131 : ............agGTGCTT{G}tt..........................ag{GA}{ :  77589

    323 : As}  >>>> Target Intron 14 >>>>  {n}GluHisIleLysCysArgSerA :    330
          !.}           10330 bp           {.}  !|||! !:::||| !!! !:
          Ar}++                          +-{g}ProHisSerArgCys***PheS
  77588 : AG}gt..........................ac{G}CCACACAGTCGCTGTTGATTCT :  67235

    331 : laLysValGlyTrpLeuGln{Cy}  >>>> Target Intron 15 >>>>  {s}C :    338
          !!:!!:!!|||||||||  !{||}           45406 bp           {|}|
          erGluMetGlyTrpLeuLeu{Cy}++                          ++{s}C
  67234 : CAGAAATGGGGTGGCTTTTA{TG}gt..........................ag{T}T :  21805

    339 : ysArgIleGluLysArgProLeuSer :    346
          |||||:!!.!.   ||||||! !|||
          ysArgLeuHisProArgProTrpSer
  21804 : GCAGGCTCCATCCCCGGCCCTGGTCG :  21779

vulgar: SPP00000052_2.0 173 346 . gi|411115821|gb|JH977742.1|:subseq(3219639,301365) 284747 21778 - 104 M 22 66 S 0 2 5 0 2 I 0 9376 3 0 2 S 1 1 M 9 27 S 0 1 5 0 2 I 0 9788 3 0 2 S 1 2 M 6 18 S 0 2 5 0 2 I 0 33997 3 0 2 S 1 1 M 3 9 5 0 2 I 0 503 3 0 2 M 18 54 S 0 1 5 0 2 I 0 28216 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 9503 3 0 2 S 1 1 M 8 24 S 0 1 5 0 2 I 0 21775 3 0 2 S 1 2 M 11 33 S 0 2 5 0 2 I 0 11161 3 0 2 S 1 1 M 19 57 S 0 1 5 0 2 I 0 46274 3 0 2 S 1 2 M 9 27 S 0 1 5 0 2 I 0 32307 3 0 2 S 1 2 M 18 54 S 0 1 5 0 2 I 0 3234 3 0 2 S 1 2 M 8 24 5 0 2 I 0 439 3 0 2 M 2 6 S 0 1 5 0 2 I 0 89 3 0 2 S 1 4 5 0 2 I 0 10326 3 0 2 S 1 1 M 14 42 S 0 2 5 0 2 I 0 45402 3 0 2 S 1 1 M 9 27
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	gene	21779	284747	104	-	.	gene_id 2 ; sequence SPP00000052_2.0 ; gene_orientation +
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	284680	284747	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	284680	284747	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	284678	284679	.	-	.	intron_id 1 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	275300	284679	.	-	.	intron_id 1
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	275300	275301	.	-	.	intron_id 0 ; splice_site "GG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	275271	275299	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	275271	275299	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	275269	275270	.	-	.	intron_id 2 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	265479	275270	.	-	.	intron_id 2
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	265479	265480	.	-	.	intron_id 1 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	265457	265478	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	265457	265478	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	265455	265456	.	-	.	intron_id 3 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	231456	265456	.	-	.	intron_id 3
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	231456	231457	.	-	.	intron_id 2 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	231446	231455	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	231446	231455	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	231444	231445	.	-	.	intron_id 4 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	230939	231445	.	-	.	intron_id 4
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	230939	230940	.	-	.	intron_id 3 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	230884	230938	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	230884	230938	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	230882	230883	.	-	.	intron_id 5 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	202664	230883	.	-	.	intron_id 5
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	202664	202665	.	-	.	intron_id 4 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	202648	202663	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	202648	202663	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	202646	202647	.	-	.	intron_id 6 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	193141	202647	.	-	.	intron_id 6
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	193141	193142	.	-	.	intron_id 5 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	193115	193140	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	193115	193140	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	193113	193114	.	-	.	intron_id 7 ; splice_site "GG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	171336	193114	.	-	.	intron_id 7
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	171336	171337	.	-	.	intron_id 6 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	171299	171335	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	171299	171335	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	171297	171298	.	-	.	intron_id 8 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	160134	171298	.	-	.	intron_id 8
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	160134	160135	.	-	.	intron_id 7 ; splice_site "AC"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	160075	160133	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	160075	160133	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	160073	160074	.	-	.	intron_id 9 ; splice_site "NN"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	113797	160074	.	-	.	intron_id 9
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	113797	113798	.	-	.	intron_id 8 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	113767	113796	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	113767	113796	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	113765	113766	.	-	.	intron_id 10 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	81456	113766	.	-	.	intron_id 10
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	81456	81457	.	-	.	intron_id 9 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	81399	81455	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	81399	81455	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	81397	81398	.	-	.	intron_id 11 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	78161	81398	.	-	.	intron_id 11
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	78161	78162	.	-	.	intron_id 10 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	78135	78160	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	78135	78160	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	78133	78134	.	-	.	intron_id 12 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	77692	78134	.	-	.	intron_id 12
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	77692	77693	.	-	.	intron_id 11 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	77685	77691	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	77685	77691	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	77683	77684	.	-	.	intron_id 13 ; splice_site "TT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	77592	77684	.	-	.	intron_id 13
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	77592	77593	.	-	.	intron_id 12 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	77588	77591	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	77588	77591	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	77586	77587	.	-	.	intron_id 14 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	67258	77587	.	-	.	intron_id 14
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	67258	67259	.	-	.	intron_id 13 ; splice_site "AC"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	67213	67257	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	67213	67257	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	67211	67212	.	-	.	intron_id 15 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	21807	67212	.	-	.	intron_id 15
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	21807	21808	.	-	.	intron_id 14 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	21779	21806	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	21779	21806	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	similarity	21779	284747	104	-	.	alignment_id 2 ; Query SPP00000052_2.0 ; Align 284748 174 66 ; Align 275299 197 27 ; Align 265477 207 18 ; Align 231455 214 9 ; Align 230939 217 54 ; Align 202662 236 12 ; Align 193140 241 24 ; Align 171334 250 33 ; Align 160133 262 57 ; Align 113795 282 27 ; Align 81454 292 54 ; Align 78159 311 24 ; Align 77692 319 6 ; Align 67257 323 42 ; Align 21806 338 27
# --- END OF GFF DUMP ---
#

C4 Alignment:
------------
         Query: SPP00000052_2.0 # Protein # Phosphoseryl-tRNA kinase  (PSTK) # Human (Homo sapiens)
        Target: gi|411115821|gb|JH977742.1|:subseq(3219639,301365) Eptesicus fuscus unplaced genomic scaffold scaffold00132, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 102
   Query range: 14 -> 317
  Target range: 251147 -> 449

     15 : ProArgLysArgGlyLeuCysValLeu{C}  >>>> Target Intron 1 >>>>  :     24
          ||||||::!|||||||||! !:!!|||{|}           9457 bp          
          ProArgArgArgGlyLeuSerLeuLeu{C}++                         +
 251147 : CCACGTCGGCGGGGTCTTTCCCTGCTG{T}gt.........................a : 241664

     25 :  {ys}GlyLeuProAlaAlaGlyLysSerThrPhe{A}  >>>> Target Intron :     35
           {||}|||:!!|||||||||!.!   !!!  !  !{|}           60617 bp 
          +{ys}GlyValProAlaAlaAlaProArgAspHis{A}++                  
 241663 : g{GT}GGAGTCCCTGCTGCTGCGCCCAGGGACCAC{G}gt.................. : 241627

     36 :  2 >>>>  {la}ArgAlaLeuAlaHisArgLeuGlnGlnGluGlnGlyTrpAla  > :     50
                   {||}  !!.!||| !!!.!!.!  !  !  !   !:!||||||  !   
                 -+{la}AlaValLeuProArgAsnGluThrGlyProArgGlyTrpArg++ 
 241626 : .......gg{CC}GCGGTCCTGCCCCGCAATGAGACGGGGCCTCGGGGCTGGAGGgt. : 180966

     51 : >>> Target Intron 3 >>>>  IleGlyValValAlaTyr{As}  >>>> Tar :     56
                  10738 bp          !!: !!||||||! !!:!{  }          
                                  ++MetArgValValAspPhe{Th}++        
 180965 : ........................agATGCGTGTGGTCGATTTC{AC}gt........ : 170208

     57 : get Intron 4 >>>>  {p}AspValMetProAspAlaPheLeuAlaGlyAlaArg :     68
           1237 bp           { }  !|||:!! !!..!|||! !! !|||  !||| !!
                           ++{r}ProValLeuAlaSerAlaSerSerAlaLeuAlaGly
 170207 : .................ag{G}CCTGTCCTGGCGTCTGCCTCCTCGGCACTGGCAGGT : 168939

     69 : AlaArgProAlaProSerGlnTrpLysLeuLeuArgGlnGluLeu  >>>> Target :     84
          ||| !!||| !!||||||||| ! :::||||||  !! !  !! !           98
          AlaCysProProProSerGlnArgArgLeuLeuValProThrGln++           
 168938 : GCGTGCCCGCCTCCCTCGCAGCGCCGCCTCCTGGTGCCGACGCAGgt........... : 168889

     85 :  Intron 5 >>>>  LeuLysTyrLeuGluTyrPheLeu  >>>> Target Intr :     92
          56 bp           :!!||| !   !  !|||  !! !           40042 b
                        ++ValLysGluLysThrTyrProArg++                
 168888 : ..............agGTCAAGGAGAAAACATACCCTCGGgt................ : 159009

     93 : on 6 >>>>  MetAlaValIleAsnGlyCysGlnMetSer  >>>> Target Int :    102
          p          ! !! !:!!:!::!!||| ! !:::!!..!           15845 
                   ++LysAspLeuLeuAspGlyGlyArgLeuGlu++               
 159008 : .........agAAGGATCTCCTGGATGGTGGGCGCCTGGAGgt............... : 118937

    103 : ron 7 >>>>  ValProProAsnArgThrGluAlaMetTrpGluAsp  >>>> Tar :    114
          bp          ! !||||||  !!.! !!  !::!! !||||||             
                    ++AspProProLeuHisProProSerArgTrpGluArg++        
 118936 : ..........agGACCCTCCCCTCCACCCCCCAAGCAGGTGGGAGCGGgt........ : 103056

    115 : get Intron 8 >>>>  PheIleThr{Cy}  >>>> Target Intron 9 >>> :    117
           6346 bp           |||:!!  !{||}           3679 bp        
                           ++PheValLeu{Cy}++                        
 103055 : .................agTTTGTCCTG{TG}gt........................ :  96699

    118 : >  {s}LeuLysAspGlnAspLeuIlePheSerAlaAlaPheGluAla  >>>> Tar :    132
             {|}  !!:!!  !::||||||:!! !!|||  !  !   !    !          
           ++{s}ArgArgAlaArgAspLeuValValSerLeuLeuArgGlyGln++        
  96698 : .ag{C}AGGAGGGCACGTGATCTCGTCGTTAGCCTGCTCAGGGGCCAGgt........ :  92977

    133 : get Intron 10 >>>>  GlnSerCysTyrLeuLeuThrLysThrAlaValSerAr :    144
            7450 bp           !  |||   :!!! !:!!.!!     !!.!!.!|||||
                            ++ProSerThrHisSerValAlaValLeuGlyAlaSerAr
  92976 : ..................agCCCAGCACGCACTCGGTGGCTGTTCTCGGTGCTTCCCG :  85493

    145 : gProLeuPheLeuValLeuAspAspAsnPhe{Ty}  >>>> Target Intron 11 :    155
          |||||||!::|||:!!! !...! !!..! !{  }            1716 bp    
          gProLeuTrpLeuLeuTrpSerAlaThrCys{Ar}++                     
  85492 : GCCCTTGTGGCTGCTCTGGTCGGCCACATGC{AG}gt..................... :  85456

    156 :  >>>>  {r}TyrGlnSerMet  >>>> Target Intron 12 >>>>  ArgTyr :    161
                 { } ! :!! !!:!!            1519 bp           ||| ! 
               ++{g}GluGluProLeu++                          ++ArgLys
  85455 : .....ag{G}GAAGAGCCTCTGgt..........................agAGGAAG :  82207

    162 : GluValTyrGlnLeuAlaArgLysTyrSerLeuGlyPheCysGlnLeuPheLeuAspC :    181
          ..!  !  !:!!  !|||!.!     !|||! !|||!::      ! !  !|||!!: 
          ArgSerGlyGluThrAlaHisValProSerProGlyTrpProValProAlaLeuGluL
  82206 : AGGTCTGGCGAGACGGCCCATGTCCCCTCGCCCGGGTGGCCGGTCCCTGCCCTGGAGC :  82147

    182 : ysProLeuGluThrCysLeu  >>>> Target Intron 13 >>>>  GlnArg   :    190
            |||:!!..!..!|||! !            1502 bp           !::|||  
          euProValArgValCysGln++                          ++ArgArg++
  82146 : TGCCCGTGCGAGTGTGTCAGgt..........................agCGTAGGgt :  80618

    191 : >>>> Target Intron 14 >>>>  AsnGlyGlnArgProGlnAlaLeuProPro :    199
                    3027 bp           .!.|||.!.! !|||  !.!!|||||||||
                                    ++GluGlyAspProProThrThrLeuProPro
  80617 : ..........................agGAAGGTGACCCTCCGACGACCCTCCCTCCA :  77564

    200 : Glu{Th}  >>>> Target Intron 15 >>>>  {r}IleHisLeuMetGlyArg :    207
            !{ !}            8215 bp           {!}   !!.  !   |||  !
          Leu{Pr}++                          ++{o}ProGlnAlaProGlyAla
  77563 : CTG{CC}gt..........................ag{G}CCGCAGGCACCTGGGGCG :  69325

    208 : LysLeuGluLysProAsnProGluLysAsnAlaTrpGluHisAsnSerLeuThrIleP :    227
               !|||!:!! !!..  !..!:!!!..!.!|||   !  !..||||||  !:!:|
          GlyGlyGluArgLeuArgSerArgGlnArgValTrpPheProArgSerLeuPheLeuP
  69324 : GGTGGGGAGAGGCTGAGGAGCCGGCAGAGGGTTTGGTTTCCGAGGTCCCTGTTCCTGC :  69265

    228 : roSerProAla{C}  >>>> Target Intron 16 >>>>  {ys}AlaSerGlu  :    235
          ||.!!|||  !{|}            1076 bp           {||}!.!..!||| 
          roGlyProGln{C}+-                          ++{ys}GlyGlnGlu+
  69264 : CTGGGCCCCAA{T}gg..........................ag{GC}GGCCAGGAGg :  68165

    236 :  >>>> Target Intron 17 >>>>  AlaSerLeuGluValThrAspLeuLeuLe :    244
                     8989 bp             !||||||:!!..!:!!|||  !|||||
          -                          ++PheSerLeuGlnThrSerAspAspLeuLe
  68164 : g..........................agTTTAGCCTGCAAACTTCCGACGATTTACT :  59149

    245 : uThrAlaLeu  >>>> Target Intron 18 >>>>  GluAsnProValLysTyr :    253
          ||||||||||           32916 bp           .!.!..||||||!!.   
          uThrAlaLeu++                          ++HisArgProValAsnThr
  59148 : CACAGCTCTTgt..........................agCACAGGCCCGTGAACACG :  26206

    254 : AlaGluAspAsnMetGluGlnLysAspThrAspArgIleIleCysSerThr{A}  >> :    271
          |||  !! !.!.      ||||||!!:.!!  !!:!! !:!:  !! ! !!{.}    
          AlaMetAlaGlnCysProGlnLysGluAlaProLysThrLeuLeuPhePro{A}++  
  26205 : GCCATGGCCCAGTGTCCTCAAAAGGAGGCCCCCAAAACATTGCTCTTCCCA{C}gt.. :  26149

    272 : >> Target Intron 19 >>>>  {sn}IleLeuHisLysThrAspGlnThrLeuA :    281
                  1866 bp           {..}! !! !      .!!|||...  !! !|
                                  ++{rg}SerPro***ProAlaAspSerArgSerA
  26148 : ........................ag{GA}AGCCCCTGACCCGCAGACTCTCGCTCCC :  24256

    282 : rgArgIleValSerGlnThrMetLysGluAlaLysGlyAsnGln{G}  >>>> Targ :    296
          || !!:!:..!..!|||! !     !||||||  !|||  !! !{.}           
          rgGlyValThrGluGlnLysAlaGlyGluAlaProGlyAlaLeu{S}++         
  24255 : GGGGTGTGACAGAGCAGAAGGCTGGAGAGGCCCCGGGGGCCCTG{T}gt......... :  24208

    297 : et Intron 20 >>>>  {lu}AlaPheSerGluMetThrPheLys{Gl}  >>>>  :    305
           5050 bp           {.!}|||.!!||||||     !   !:!{  }       
                           ++{er}AlaIleSerGluArgGlyProArg{Cy}-+     
  24207 : .................ag{CG}GCCATTTCTGAACGAGGCCCGAGG{TG}ct..... :  19130

    306 : Target Intron 21 >>>>  {n}ArgTrpValArgAlaAsnHisAlaAlaIleTr :    316
              18646 bp           { }  !|||:!!|||  !...  !  !|||!  ||
                               ++{s}SerTrpLeuArgHisArgPheLeuAlaArgTr
  19129 : .....................ag{C}TCCTGGCTCAGACACCGGTTCCTCGCCAGGTG :    455

    317 : pArg :    317
          ||||
          pArg
    454 : GCGT :    450

vulgar: SPP00000052_2.0 14 317 . gi|411115821|gb|JH977742.1|:subseq(3219639,301365) 251147 449 - 102 M 9 27 S 0 1 5 0 2 I 0 9453 3 0 2 S 1 2 M 10 30 S 0 1 5 0 2 I 0 60613 3 0 2 S 1 2 M 14 42 5 0 2 I 0 10734 3 0 2 M 6 18 S 0 2 5 0 2 I 0 1233 3 0 2 S 1 1 M 27 81 5 0 2 I 0 9852 3 0 2 M 8 24 5 0 2 I 0 40038 3 0 2 M 10 30 5 0 2 I 0 15841 3 0 2 M 12 36 5 0 2 I 0 6342 3 0 2 M 3 9 S 0 2 5 0 2 I 0 3675 3 0 2 S 1 1 M 14 42 5 0 2 I 0 7446 3 0 2 M 23 69 S 0 2 5 0 2 I 0 1712 3 0 2 S 1 1 M 4 12 5 0 2 I 0 1515 3 0 2 M 28 84 5 0 2 I 0 1498 3 0 2 M 2 6 5 0 2 I 0 3023 3 0 2 M 11 33 S 0 2 5 0 2 I 0 8211 3 0 2 S 1 1 M 29 87 S 0 1 5 0 2 I 0 1072 3 0 2 S 1 2 M 3 9 5 0 2 I 0 8985 3 0 2 M 13 39 5 0 2 I 0 32912 3 0 2 M 23 69 S 0 1 5 0 2 I 0 1862 3 0 2 S 1 2 M 24 72 S 0 1 5 0 2 I 0 5046 3 0 2 S 1 2 M 8 24 S 0 2 5 0 2 I 0 18642 3 0 2 S 1 1 M 12 36
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	gene	450	251147	102	-	.	gene_id 3 ; sequence SPP00000052_2.0 ; gene_orientation +
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	251120	251147	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	251120	251147	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	251118	251119	.	-	.	intron_id 1 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	241663	251119	.	-	.	intron_id 1
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	241663	241664	.	-	.	intron_id 0 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	241630	241662	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	241630	241662	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	241628	241629	.	-	.	intron_id 2 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	181013	241629	.	-	.	intron_id 2
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	181013	181014	.	-	.	intron_id 1 ; splice_site "GG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	180969	181012	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	180969	181012	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	180967	180968	.	-	.	intron_id 3 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	170231	180968	.	-	.	intron_id 3
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	170231	170232	.	-	.	intron_id 2 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	170211	170230	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	170211	170230	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	170209	170210	.	-	.	intron_id 4 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	168974	170210	.	-	.	intron_id 4
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	168974	168975	.	-	.	intron_id 3 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	168892	168973	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	168892	168973	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	168890	168891	.	-	.	intron_id 5 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	159036	168891	.	-	.	intron_id 5
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	159036	159037	.	-	.	intron_id 4 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	159012	159035	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	159012	159035	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	159010	159011	.	-	.	intron_id 6 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	118970	159011	.	-	.	intron_id 6
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	118970	118971	.	-	.	intron_id 5 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	118940	118969	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	118940	118969	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	118938	118939	.	-	.	intron_id 7 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	103095	118939	.	-	.	intron_id 7
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	103095	103096	.	-	.	intron_id 6 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	103059	103094	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	103059	103094	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	103057	103058	.	-	.	intron_id 8 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	96713	103058	.	-	.	intron_id 8
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	96713	96714	.	-	.	intron_id 7 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	96702	96712	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	96702	96712	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	96700	96701	.	-	.	intron_id 9 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	93023	96701	.	-	.	intron_id 9
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	93023	93024	.	-	.	intron_id 8 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	92980	93022	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	92980	93022	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	92978	92979	.	-	.	intron_id 10 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	85530	92979	.	-	.	intron_id 10
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	85530	85531	.	-	.	intron_id 9 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	85459	85529	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	85459	85529	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	85457	85458	.	-	.	intron_id 11 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	83743	85458	.	-	.	intron_id 11
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	83743	83744	.	-	.	intron_id 10 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	83730	83742	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	83730	83742	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	83728	83729	.	-	.	intron_id 12 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	82211	83729	.	-	.	intron_id 12
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	82211	82212	.	-	.	intron_id 11 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	82127	82210	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	82127	82210	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	82125	82126	.	-	.	intron_id 13 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	80625	82126	.	-	.	intron_id 13
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	80625	80626	.	-	.	intron_id 12 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	80619	80624	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	80619	80624	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	80617	80618	.	-	.	intron_id 14 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	77592	80618	.	-	.	intron_id 14
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	77592	77593	.	-	.	intron_id 13 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	77557	77591	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	77557	77591	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	77555	77556	.	-	.	intron_id 15 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	69342	77556	.	-	.	intron_id 15
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	69342	69343	.	-	.	intron_id 14 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	69253	69341	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	69253	69341	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	69251	69252	.	-	.	intron_id 16 ; splice_site "GG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	68177	69252	.	-	.	intron_id 16
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	68177	68178	.	-	.	intron_id 15 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	68166	68176	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	68166	68176	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	68164	68165	.	-	.	intron_id 17 ; splice_site "GG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	59177	68165	.	-	.	intron_id 17
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	59177	59178	.	-	.	intron_id 16 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	59138	59176	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	59138	59176	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	59136	59137	.	-	.	intron_id 18 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	26222	59137	.	-	.	intron_id 18
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	26222	26223	.	-	.	intron_id 17 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	26152	26221	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	26152	26221	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	26150	26151	.	-	.	intron_id 19 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	24286	26151	.	-	.	intron_id 19
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	24286	24287	.	-	.	intron_id 18 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	24211	24285	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	24211	24285	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	24209	24210	.	-	.	intron_id 20 ; splice_site "GT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	19161	24210	.	-	.	intron_id 20
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	19161	19162	.	-	.	intron_id 19 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	19133	19160	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	19133	19160	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice5	19131	19132	.	-	.	intron_id 21 ; splice_site "CT"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	intron	487	19132	.	-	.	intron_id 21
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	splice3	487	488	.	-	.	intron_id 20 ; splice_site "AG"
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	cds	450	486	.	-	.	
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	exon	450	486	.	-	.	insertions 0 ; deletions 0
gi|411115821|gb|JH977742.1|:subseq(3219639,301365)	exonerate:protein2genome:local	similarity	450	251147	102	-	.	alignment_id 3 ; Query SPP00000052_2.0 ; Align 251148 15 27 ; Align 241661 25 30 ; Align 181011 36 42 ; Align 170231 50 18 ; Align 168973 57 81 ; Align 159036 84 24 ; Align 118970 92 30 ; Align 103095 102 36 ; Align 96713 114 9 ; Align 93022 118 42 ; Align 85530 132 69 ; Align 83742 156 12 ; Align 82211 160 84 ; Align 80625 188 6 ; Align 77592 190 33 ; Align 69341 202 87 ; Align 68175 232 9 ; Align 59177 235 39 ; Align 26222 248 69 ; Align 24284 272 72 ; Align 19159 297 24 ; Align 486 306 36
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
