Command line: [exonerate -q dselG_U_prot.fasta -t D_ana_G.fasta -m protein2genome -W 3 --showtargetgff yes]
C4 Alignment display:
  Model: protein2genome
  Raw score: 410
  Aligned positions 0->110 of query
  Aligned positions 39922->40380 of target

Query: dSelG
Target: gnl|Dana-agencourt-040714-asm|contig_3828

     1 : MetValTyrIleAspHis{A}  >>>> Target Intron 1 >>>>  {sn}GlyArg :     8
         ||||||||||||||||||{|}            69 bp            {||}||||||
         MetValTyrIleAspHis{A}                             {sn}GlyArg
 39923 : ATGGTGTACATCGACCAT{A}gt.........................ag{AT}GGCCGC : 40015

     9 : ValTrpGluLysArgProTrpAspTrpArgArgIleValGluLeuPheValGlyIleTrp :    28
         |||||||||||||||||||||||||||||||||:!!|||||||||||| !!|||||||||
         ValTrpGluLysArgProTrpAspTrpArgArgValValGluLeuPhePheGlyIleTrp
 40016 : GTGTGGGAGAAACGACCCTGGGATTGGAGACGAGTAGTTGAATTGTTTTTTGGGATATGG : 40075

    29 : PheAlaIleLysGln{Le}  >>>> Target Intron 2 >>>>  {u}PheLeuThr :    37
         |||||||||||||||{||}            65 bp            {|}|||  !!:!
         PheAlaIleLysGln{Le}                             {u}PheAlaSer
 40076 : TTCGCTATCAAGCAA{TT}gt.........................ag{G}TTTGCAAGC : 40167

    38 : PheLeuAlaProPheThrGlyAsnAsnAsnGlnAlaAsnProArgArgGlyAsnGlyTrp :    57
         |||||||||||||||!.!.!!|||:!!|||   :!!||| !!!:!||| !!|||..!|||
         PheLeuAlaProPheAsnSerAsnAspAsn---SerAsnSerGlnArgArgAsnAsnTrp
 40168 : TTCCTTGCCCCTTTCAATAGCAACGACAAC---TCCAATTCTCAACGCAGAAATAATTGG : 40224

    58 : GlyGlyGlyGlyGlyTrpGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyArg :    77
         ! ! !! !!|||||| ! ||||||||||||||||||||||||||||||||||||||| !!
         AspArgTrpGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGly
 40225 : GACAGGTGGGGTGGTGGTGGAGGCGGAGGCGGAGGTGGAGGTGGAGGTGGCGGAGGTGGA : 40284

    78 : ProGlySerGlySerGlyGlyLeuArgProAsnArgArgIleGlyArgIleGlnProThr :    97
           !!.!.!!|||!:!|||||||||||||||||||||||||||||||||||||||   |||
         TyrAlaGlyGlyAsnGlyGlyLeuArgProAsnArgArgIleGlyArgIleGln---Thr
 40285 : TACGCCGGAGGCAACGGAGGACTAAGACCAAACCGGCGAATAGGACGAATTCAG---ACA : 40341

    98 : MetSerCysAsnMetProAlaGlyGlyGly***Gly :   110
         |||!!!||||||   ||||||!.!||||||||||||
         MetThrCysAsnAlaProAlaAlaGlyGly***Gly
 40342 : ATGACCTGCAATGCACCTGCTGCGGGCGGGTGAGGA : 40380

vulgar: dSelG 0 110 . gnl|Dana-agencourt-040714-asm|contig_3828 39922 40380 + 410 M 6 18 S 0 1 5 0 2 I 0 65 3 0 2 S 1 2 M 27 81 S 0 2 5 0 2 I 0 61 3 0 2 S 1 1 M 13 39 G 1 0 M 47 141 G 1 0 M 13 39


_____________________________________________________________________________________________________________________

C4 Alignment display:
  Model: protein2genome
  Raw score: 344
  Aligned positions 0->102 of query
  Aligned positions 41248->41687 of target

Query: dSelG
Target: gnl|Dana-agencourt-040714-asm|contig_3828

     1 : MetValTyrIleAspHis{A}  >>>> Target Intron 1 >>>>  {sn}GlyArg :     8
         ||||||||||||||||||{|}            68 bp            {||}||||||
         MetValTyrIleAspHis{A}                             {sn}GlyArg
 41249 : ATGGTGTACATCGATCAC{A}gt.........................ag{AT}GGTCGT : 41340

     9 : ValTrpGluLysArgProTrpAspTrpArgArgIleValGluLeuPheValGlyIleTrp :    28
         :!!|||!!:|||||||||||||||  !|||||||||:!!!  :!!|||||||||||||||
         LeuTrpAspLysArgProTrpAspMetArgArgIleLeuAlaIlePheValGlyIleTrp
 41341 : CTCTGGGACAAGCGCCCTTGGGATATGAGGCGGATTTTAGCCATATTTGTGGGCATCTGG : 41400

    29 : PheAlaIleLysGln{Le}  >>>> Target Intron 2 >>>>  {u}PheLeuThr :    37
         |||||||||||||||{||}            62 bp            {|}|||! !:!!
         PheAlaIleLysGln{Le}                             {u}PheGlnSer
 41401 : TTCGCCATTAAGCAG{TT}gt.........................ag{G}TTCCAATCG : 41489

    38 : PheLeuAlaProPheThrGlyAsnAsnAsnGlnAlaAsnProArgArgGlyAsnGlyTrp :    57
         |||||||||||||||!.!.!!:!!:!!|||...!.!:!! !!||| !! !!!:!||||||
         PheLeuAlaProPheAsnSerAspAspAsnSerGlyAspSerArgGlyArgSerGlyTrp
 41490 : TTCCTGGCTCCTTTCAATAGCGACGACAATAGCGGCGATTCTCGTGGAAGAAGCGGCTGG : 41549

    58 : GlyGlyGlyGlyGlyTrpGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGly<->Gly :    76
         .!!.!!.!!.!! !! ! ||||||||||||||||||||||||||||||||||||   |||
         SerSerSerSerTrpGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyAsnGly
 41550 : AGTAGTAGCAGTTGGGGTGGAGGCGGCGGCGGCGGTGGTGGTGGCGGAGGCGGTAATGGT : 41609

    77 : ArgProGlySerGlySerGlyGlyLeuArgProAsnArgArgIleGlyArgIleGlnPro :    96
          !!  !|||.!!|||! !||||||||||||||||||||||||||||||||||||||||||
         GlyGlyGlyGlyGlyTyrGlyGlyLeuArgProAsnArgArgIleGlyArgIleGlnPro
 41610 : GGAGGCGGCGGTGGTTATGGAGGATTAAGACCAAACCGGAGAATCGGACGAATTCAACCA : 41669

    97 : ThrMetSerCysAsn :   102
         |||..!!!!|||!:!
         ThrGlnThrCysSer
 41670 : ACTCAGACTTGCAGT : 41687

vulgar: dSelG 0 102 . gnl|Dana-agencourt-040714-asm|contig_3828 41248 41687 + 344 M 6 18 S 0 1 5 0 2 I 0 64 3 0 2 S 1 2 M 27 81 S 0 2 5 0 2 I 0 58 3 0 2 S 1 1 M 41 123 G 0 3 M 26 78


______________________________________________________________________________________________________________


C4 Alignment display:
  Model: protein2genome
  Raw score: 114
  Aligned positions 43->80 of query
  Aligned positions 41522->41633 of target

Query: dSelG
Target: gnl|Dana-agencourt-040714-asm|contig_3828

    44 : ThrGlyAsnAsnAsnGlnAlaAsnProArgArgGlyAsnGlyTrpGlyGlyGlyGlyGly :    62
         !:!|||:!!::!..!  !  !!:!  ! !!!!!.!!!:!.!!||||||||||||||||||
         SerGlyAspSerArgGlyArgSerGlyTrpSerSerSerSerTrpGlyGlyGlyGlyGly
 41523 : AGCGGCGATTCTCGTGGAAGAAGCGGCTGGAGTAGTAGCAGTTGGGGTGGAGGCGGCGGC : 41579

    63 : TrpGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyGlyArgProGly :    80
          ! |||||||||||||||||||||..!||||||||||||||| !!  !|||
         GlyGlyGlyGlyGlyGlyGlyGlyAsnGlyGlyGlyGlyGlyGlyTyrGly
 41580 : GGCGGTGGTGGTGGCGGAGGCGGTAATGGTGGAGGCGGCGGTGGTTATGGA : 41633

vulgar: dSelG 43 80 . gnl|Dana-agencourt-040714-asm|contig_3828 41522 41633 + 114 M 37 111