Command line: [exonerate -q dselM_U_prot.fasta -t A_gam_chr3R_9040000_20000.fa -m protein2genome -W 3 --showtargetgff yes]
C4 Alignment display:
  Model: protein2genome
  Raw score: 199
  Aligned positions 20->119 of query
  Aligned positions 13846->14140 of target

Query: dSelM
Target: gb|AAAB01008980 Anopheles gambiae fastachunk_chr3r_9040000_20000

    21 : GluLeuAspProAsnAlaProValLeuTyrValGluHisCysArgSerUnkArgValPhe :    39
         |||  !..!! !:!!!.! !!  !:!!!:!:!!|||||||||!:!|||     !||||||
         GluGluSerGlnAspGlyAlaTyrValPheIleGluHisCysLysSer***SerValPhe
 13847 : GAAGAGTCCCAGGACGGGGCTTACGTCTTCATCGAACACTGTAAATCATGATCCGTGTTC : 13903

    40 : ArgArgArgAlaGluGluLeuHisSerAlaLeuArgGluArgGlyLeuGln<->GlnLeu :    58
         !:!|||!:!|||!  |||:!!||||||!.!||| !!|||! !!.!! !:!!   :!!!!!
         LysArgLysAlaAlaGluValHisSerGlyLeuCysGluLeuAlaProGluHisLysPhe
 13904 : AAGCGCAAGGCCGCTGAGGTCCACTCGGGACTGTGCGAACTTGCGCCGGAACACAAGTTC : 13963

    59 : GlnLeuGlnLeuAsnAlaLeuGlyAlaProArgArgGlyAlaPheGluLeuSerLeuSer :    78
         ||||||  !||||||! !  !|||  !|||||||||||||||||||||:!!|||:!!:!!
         GlnLeuValLeuAsnGluAspGlyLysProArgArgGlyAlaPheGluValSerIleAla
 13964 : CAGCTTGTGTTGAACGAGGATGGTAAACCACGCCGCGGAGCATTCGAGGTTTCCATCGCC : 14023

    79 : AlaGlyGlyMetGlyLysGlnGluGlnValAlaLeuTrpSerGlyLeuLysArgGlyPro :    98
           !|||  !   |||      |||:!!|||  !:!!||||||||||||   !:!||||||
         LysGlyLysAspGly------GluLysValLeuValTrpSerGlyLeuProLysGlyPro
 14024 : AAGGGCAAGGACGGC------GAGAAGGTGCTGGTATGGTCCGGTTTACCCAAGGGACCG : 14077

    99 : ProArgAlaArgLysPheProThrValGluGluValTyrAspArgIleValGlyIleLeu :   118
         ||||||  !  !|||||||||  !  !:!!   :!!   |||  !:!::!!  !:!:|||
         ProArgLysAspLysPheProGluProLysThrIleLeuAspAspValLeuLysValLeu
 14078 : CCGAGGAAGGATAAGTTCCCGGAACCGAAGACCATCCTGGACGATGTGCTGAAGGTGCTG : 14137

vulgar: dSelM 20 119 . gb|AAAB01008980 13846 14140 - 199 M 37 111 G 0 3 M 27 81 G 2 0 M 33 99