Command line: [exonerate -m p2g --showtargetgff -q ./Seq.aa.proteines/MsrA.fa -t ProtDNASeq/msra_scaffold4_seqDNA.fa]
Hostname: [localhost]

C4 Alignment:
------------
         Query: SPP00000050_1.0 # Protein # Methionine sulfoxide reductase A2 (MsrA2) # Anopheles gambiae # Complete
        Target: scaffold_4:subseq(1206077,6437)
         Model: protein2genome
     Raw score: 237
   Query range: 31 -> 165
  Target range: 3041 -> 3431

   32 : AlaThrPheGlyMetGlyCysPheTrpGlyCysAspSerLeuPheGlyAlaThrLysGlyVa :   52
        |||||||||!.!:!:|||!! ||||||  !   .!...!  !|||! !  !  ! ! |||||
        AlaThrPheAlaLeuGly***PheTrpThrProGlnGlnLysPheAspLeuArgAspGlyVa
 3042 : GCCACCTTCGCGCTCGGATGATTCTGGACGCCGCAGCAGAAGTTCGACCTGCGCGACGGCGT : 3102

   53 : lLeuArgThrArgValGlyTyrAlaGlyGlySerThrGluSerProAlaTyrLysLysMetG :   73
        |:!! !!!:!! !|||||||||.!!..!|||!!!|||   :!!|||  !||| !  ! :!:|
        lIleTrpSerThrValGlyTyrThrSerGlyThrThrProAlaProAsnTyrAspAspLeuG
 3103 : CATCTGGAGCACCGTGGGCTACACGTCGGGCACGACGCCCGCACCGAACTACGACGACCTCG : 3165

   74 : lyAspHisThrGluValIleGluIleAspTyrAspProGlnThrIleSerTyrIleAspLeu :   93
        ||||||||||||||!.!:!:..!:!!!!:!:!|||  !.!...!:!:||||||   !  |||
        lyAspHisThrGluAlaLeuArgLeuGluPheAspGluAspValValSerTyrGluAlaLeu
 3166 : GCGACCACACGGAGGCGCTGCGGCTCGAATTCGACGAGGACGTCGTGAGCTACGAGGCGCTC : 3225

   94 : LeuAspLeuPheTrpAsnAsnHisGluTyrGlyLeuThrThrArgMetLysArgGlnTyrMe :  114
        :!!!!:! !||||||:!!  !|||           ! !!!.!!:!  !!..|||||||||  
        ValGluGlnPheTrpAspLeuHis---------AlaProAsnLysGlySerArgGlnTyrAr
 3226 : GTAGAGCAGTTCTGGGACCTCCAC---------GCGCCGAACAAGGGGAGCCGCCAGTACCG : 3279

  115 : tSerLeuIleLeuTyrHisAsnGluGlnGlnArgGlnIleAlaGluAlaSerArgAlaGluG :  135
        !|||  !|||!!!||||||:!!|||  !||||||:!!  !||||||  !  !!:!|||:!! 
        gSerAlaIlePheTyrHisAspGluAlaGlnArgGluCysAlaGluArgValGlnAlaGlnL
 3280 : GAGCGCCATCTTCTATCACGACGAGGCGCAGCGCGAGTGCGCGGAGCGCGTGCAGGCGCAGC : 3342

  136 : luGlnValLysArgAlaProGluGlnIleIleThrGluIleAlaProAlaGlyProPheTyr :  155
               !..!!:!  !  !!  !::     !|||!  |||! !||||||!.!  !|||!:!
        euPheProSerLysArgTyrValArg---AspThrAlaIleGluProAlaAlaGluPhePhe
 3343 : TCTTCCCCTCGAAGCGTTACGTCCGC---GACACGGCCATCGAGCCGGCGGCCGAGTTCTTC : 3399

  156 : ProAlaGluAsnTyrHisGlnLysTyrArg :  165
        |||||||||   ||||||||||||||||||
        ProAlaGluAlaTyrHisGlnLysTyrArg
 3400 : CCGGCGGAGGCGTACCACCAGAAGTACCGC : 3431

vulgar: SPP00000050_1.0 31 165 . scaffold_4:subseq(1206077,6437) 3041 3431 + 237 M 70 210 G 3 0 M 39 117 G 1 0 M 21 63
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome 1.4.0
##date 2009-02-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	gene	3042	3431	237	+	.	gene_id 1 ; sequence SPP00000050_1.0 ; gene_orientation .
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	cds	3042	3431	.	+	.	
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	exon	3042	3431	.	+	.	insertions 0 ; deletions 4
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	similarity	3042	3431	237	+	.	alignment_id 1 ; Query SPP00000050_1.0 ; Align 3042 32 210 ; Align 3252 105 117 ; Align 3369 145 63
# --- END OF GFF DUMP ---
#

C4 Alignment:
------------
         Query: SPP00000049_1.0 # Protein # Methionine sulfoxide reductase A1 (MsrA1) # Anopheles gambiae # Complete
        Target: scaffold_4:subseq(1206077,6437)
         Model: protein2genome
     Raw score: 240
   Query range: 31 -> 165
  Target range: 3041 -> 3431

   32 : AlaThrPheGlyMetGlyCysPheTrpGlyCysAspSerLeuPheGlyAlaThrLysGlyVa :   52
        |||||||||!.!:!:|||!! ||||||  !   .!...!  !|||! !  !  ! ! |||||
        AlaThrPheAlaLeuGly***PheTrpThrProGlnGlnLysPheAspLeuArgAspGlyVa
 3042 : GCCACCTTCGCGCTCGGATGATTCTGGACGCCGCAGCAGAAGTTCGACCTGCGCGACGGCGT : 3102

   53 : lLeuArgThrArgValGlyTyrAlaGlyGlySerThrGluSerProAlaTyrLysLysMetG :   73
        |:!! !!!:!! !|||||||||.!!..!|||!!!|||   :!!|||  !||| !  ! :!:|
        lIleTrpSerThrValGlyTyrThrSerGlyThrThrProAlaProAsnTyrAspAspLeuG
 3103 : CATCTGGAGCACCGTGGGCTACACGTCGGGCACGACGCCCGCACCGAACTACGACGACCTCG : 3165

   74 : lyAspHisThrGluValIleGluIleAspTyrAspProGlnThrIleSerTyrAsnAspLeu :   93
        ||||||||||||||!.!:!:..!:!!!!:!:!|||  !.!...!:!:||||||.!.!  |||
        lyAspHisThrGluAlaLeuArgLeuGluPheAspGluAspValValSerTyrGluAlaLeu
 3166 : GCGACCACACGGAGGCGCTGCGGCTCGAATTCGACGAGGACGTCGTGAGCTACGAGGCGCTC : 3225

   94 : LeuAspLeuPheTrpAsnAsnHisGluTyrGlyLeuThrThrArgMetLysArgGlnTyrMe :  114
        :!!!!:! !||||||:!!  !|||           ! !!!.!!:!  !!..|||||||||  
        ValGluGlnPheTrpAspLeuHis---------AlaProAsnLysGlySerArgGlnTyrAr
 3226 : GTAGAGCAGTTCTGGGACCTCCAC---------GCGCCGAACAAGGGGAGCCGCCAGTACCG : 3279

  115 : tSerLeuIleLeuTyrHisAsnGluGlnGlnArgGlnIleAlaGluAlaSerArgAlaGluG :  135
        !|||  !|||!!!||||||:!!|||  !||||||:!!  !||||||  !  !!:!|||:!! 
        gSerAlaIlePheTyrHisAspGluAlaGlnArgGluCysAlaGluArgValGlnAlaGlnL
 3280 : GAGCGCCATCTTCTATCACGACGAGGCGCAGCGCGAGTGCGCGGAGCGCGTGCAGGCGCAGC : 3342

  136 : luGlnValLysArgAlaProGluGlnIleIleThrGluIleAlaProAlaGlyProPheTyr :  155
               !..!!:!  !  !!  !::     !|||!  |||! !||||||!.!  !|||!:!
        euPheProSerLysArgTyrValArg---AspThrAlaIleGluProAlaAlaGluPhePhe
 3343 : TCTTCCCCTCGAAGCGTTACGTCCGC---GACACGGCCATCGAGCCGGCGGCCGAGTTCTTC : 3399

  156 : ProAlaGluAsnTyrHisGlnLysTyrArg :  165
        |||||||||   ||||||||||||||||||
        ProAlaGluAlaTyrHisGlnLysTyrArg
 3400 : CCGGCGGAGGCGTACCACCAGAAGTACCGC : 3431

vulgar: SPP00000049_1.0 31 165 . scaffold_4:subseq(1206077,6437) 3041 3431 + 240 M 70 210 G 3 0 M 39 117 G 1 0 M 21 63
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome 1.4.0
##date 2009-02-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	gene	3042	3431	240	+	.	gene_id 1 ; sequence SPP00000049_1.0 ; gene_orientation .
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	cds	3042	3431	.	+	.	
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	exon	3042	3431	.	+	.	insertions 0 ; deletions 4
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	similarity	3042	3431	240	+	.	alignment_id 1 ; Query SPP00000049_1.0 ; Align 3042 32 210 ; Align 3252 105 117 ; Align 3369 145 63
# --- END OF GFF DUMP ---
#

C4 Alignment:
------------
         Query: SPP00000039_1.0 # Protein # Methionine sulfoxide reductase A (MsrA) # Drosophila melanogaster # Complete
        Target: scaffold_4:subseq(1206077,6437)
         Model: protein2genome
     Raw score: 171
   Query range: 37 -> 111
  Target range: 3029 -> 3251

   38 : ThrLysAlaThrAlaThrPheGlyMetGlyCysPheTrpGlyAlaGluSerLeuTyrGlyAl :   58
        !:!::!  !..!|||||||||!.!:!:|||!! ||||||  ! !!:!!..!  !!:!! !  
        SerArgArgValAlaThrPheAlaLeuGly***PheTrpThrProGlnGlnLysPheAspLe
 3030 : AGCCGACGCGTCGCCACCTTCGCGCTCGGATGATTCTGGACGCCGCAGCAGAAGTTCGACCT : 3090

   59 : aThrArgGlyValLeuArgThrThrValGlyTyrAlaGlyGlySerSerAspLeuProThrT :   79
        !  !  !||||||:!! !!!:!||||||||||||.!!..!|||!!!!!!  !  !|||!.!|
        uArgAspGlyValIleTrpSerThrValGlyTyrThrSerGlyThrThrProAlaProAsnT
 3091 : GCGCGACGGCGTCATCTGGAGCACCGTGGGCTACACGTCGGGCACGACGCCCGCACCGAACT : 3153

   80 : yrArgLysMetGlyAspHisThrGluValLeuGluIleAspTyrAspProThrValIleSer :   99
        ||  ! ! :!:|||||||||||||||!.!|||..!:!!!!:!:!|||  !  !|||:!:|||
        yrAspAspLeuGlyAspHisThrGluAlaLeuArgLeuGluPheAspGluAspValValSer
 3154 : ACGACGACCTCGGCGACCACACGGAGGCGCTGCGGCTCGAATTCGACGAGGACGTCGTGAGC : 3213

  100 : PheLysGluLeuLeuAspLeuPheTrpAsnAsnHis :  111
        !:!:!!! !|||:!!!!:! !||||||:!!  !|||
        TyrGluAlaLeuValGluGlnPheTrpAspLeuHis
 3214 : TACGAGGCGCTCGTAGAGCAGTTCTGGGACCTCCAC : 3251

vulgar: SPP00000039_1.0 37 111 . scaffold_4:subseq(1206077,6437) 3029 3251 + 171 M 74 222
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome 1.4.0
##date 2009-02-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	gene	3030	3251	171	+	.	gene_id 1 ; sequence SPP00000039_1.0 ; gene_orientation .
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	cds	3030	3251	.	+	.	
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	exon	3030	3251	.	+	.	insertions 0 ; deletions 0
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	similarity	3030	3251	171	+	.	alignment_id 1 ; Query SPP00000039_1.0 ; Align 3030 38 222
# --- END OF GFF DUMP ---
#

C4 Alignment:
------------
         Query: SPP00000039_1.0 # Protein # Methionine sulfoxide reductase A (MsrA) # Drosophila melanogaster # Complete
        Target: scaffold_4:subseq(1206077,6437)
         Model: protein2genome
     Raw score: 101
   Query range: 119 -> 175
  Target range: 3266 -> 3431

  120 : LysArgGlnTyrAlaSerLeuIleLeuTyrHisAspGluGluGlnLysGlnValAlaHisAl :  140
        !..|||||||||  !|||  !|||!!!||||||||||||! !|||::::!!  !|||.!.  
        SerArgGlnTyrArgSerAlaIlePheTyrHisAspGluAlaGlnArgGluCysAlaGluAr
 3267 : AGCCGCCAGTACCGGAGCGCCATCTTCTATCACGACGAGGCGCAGCGCGAGTGCGCGGAGCG : 3327

  141 : aSerLysLeuGluGluGlnGluArgArgAlaProGluIleIleThrThrGluIleAlaSerL :  161
        !  !:!!  !:!!           !!:!  !    ! :!!  !  !|||!  |||! ! !! 
        gValGlnAlaGlnLeuPheProSerLysArg---TyrValArgAspThrAlaIleGluProA
 3328 : CGTGCAGGCGCAGCTCTTCCCCTCGAAGCGT---TACGTCCGCGACACGGCCATCGAGCCGG : 3387

  162 : ysGluAsnPheTyrProAlaGluAlaTyrHisGlnLysTyrArg :  175
         !!  .!.|||!:!||||||||||||||||||||||||||||||
        laAlaGluPhePheProAlaGluAlaTyrHisGlnLysTyrArg
 3388 : CGGCCGAGTTCTTCCCGGCGGAGGCGTACCACCAGAAGTACCGC : 3431

vulgar: SPP00000039_1.0 119 175 . scaffold_4:subseq(1206077,6437) 3266 3431 + 101 M 31 93 G 1 0 M 24 72
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome 1.4.0
##date 2009-02-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	gene	3267	3431	101	+	.	gene_id 2 ; sequence SPP00000039_1.0 ; gene_orientation .
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	cds	3267	3431	.	+	.	
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	exon	3267	3431	.	+	.	insertions 0 ; deletions 1
scaffold_4:subseq(1206077,6437)	exonerate:protein2genome	similarity	3267	3431	101	+	.	alignment_id 2 ; Query SPP00000039_1.0 ; Align 3267 120 93 ; Align 3360 152 72
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
