Command line: [exonerate -m p2g --showtargetgff -q queryANOPHA.fa -t fastasubseqanophaVSeimeria.fa]
Hostname: [ws101143.aulescm.upf.edu]

C4 Alignment:
------------
         Query: TR1 #anophagefferens # scaffold_11:subseq(783554,7436).pep  
        Target: pathogen_EIMER_contig_00030728:subseq(14822,10173) - eimer-2042a11.q1ka low_quality_removed:[revcomp]
         Model: protein2genome:local
     Raw score: 468
   Query range: 6 -> 263
  Target range: 5176 -> 1642

    7 : ValValValGlyGlyGlySerGlyGlyLeuAlaCysSerLysGluCysAlaLysLeuGlyAl :   27
        !.!|||:!!|||||||||||||||||||||||| !!.!!|||:!!...|||  !||||||||
        AlaValIleGlyGlyGlySerGlyGlyLeuAlaSerGlyLysGlnAlaAlaGlyLeuGlyAl
 5176 : GCAGTGATTGGGGGCGGTTCTGGGGGTTTGGCGAGCGGGAAGCAAGCAGCAGGGCTAGGGGC : 5116

   28 : aLysValAlaValLeuAspPheValLysProSerProAlaGlySerThrTrpGlyLeuGlyG :   48
        |!:!|||  !||||||||||||||||||||||||  !  !|||! !!:!|||||||||||||
        aArgValLeuValLeuAspPheValLysProSerIleArgGlyLeuSerTrpGlyLeuGlyG
 5115 : TAGGGTTTTGGTGTTGGACTTTGTAAAACCCTCAATTAGAGGTTTGAGTTGGGGTTTAGGAG : 5053

   49 : lyThrCysValAsnValGlyCysIleProLysLysLeuMetHisThrAlaSerIleIleGly :   68
        ||||||||||||||||||||||||||||||||||||||:!!|||  !|||:!!  !! ! !!
        lyThrCysValAsnValGlyCysIleProLysLysLeuLeuHisPheAlaAlaGlnThrArg
 5052 : GGACTTGTGTTAATGTTGGATGCATTCCAAAAAAGCTGCTGCACTTTGCTGCTCAAACTCGC : 4993

   69 : {Gl}  >>>> Target Intron 1 >>>>  {u}ThrLeuLysAspAspAlaAlaAlaPh :   78
        {.!}            518 bp           {.}  !!!!  !     !|||:!!|||  
        {Hi}-+                         -+{s}LeuPheLeuProProAlaSerAlaAl
 4992 : {CA}at.........................tg{C}TTGTTTCTGCCGCCTGCTTCTGCTGC : 4445

   79 : eGlyTrpLysAspAlaAlaAlaGlyAlaHisAspTrpGluSerMetLysSerThrValGlnA :   99
        !!.!!     ! !|||:!!|||!.!|||  !! !   !  :!!      ..!! !||||||.
        aAlaSerAlaAlaAlaSerAlaAlaAlaThrAlaAlaAlaAlaAlaAlaGlnArgValGlnS
 4444 : TGCTTCTGCTGCTGCTTCTGCTGCTGCTACTGCTGCTGCTGCTGCTGCTCAGAGAGTGCAGT : 4382

  100 : spHisIleLysSerLeuAsnPheLysTyrArgValAlaLeuArgGluAlaGlyIleThrTyr :  119
        .!:!!||||||..!|||||||||!..|||||||||!.!|||!:!.!.||||||  !||||||
        erTyrIleLysGlnLeuAsnPheSerTyrArgValGlyLeuGlnAsnAlaGlyCysThrTyr
 4381 : CTTACATAAAGCAGCTGAACTTCAGCTACCGCGTGGGCCTGCAGAATGCGGGGTGTACGTAC : 4322

  120 : LeuAsnArgLeuGlyGluPheGluAspLysAsnThrIleSerLeuThrAspLysLysGlyAs :  140
          !...  !|||!.!..!.!!! !!     :!!|||:!:..!! !   !!::!!||||||  
        ThrArgAlaLeuAlaArgLeuValGlyProHisThrValGluTyr---GluGluLysGlyVa
 4321 : ACCCGAGCCTTGGCCCGGCTTGTGGGGCCCCACACGGTGGAGTAT---GAAGAAAAGGGAGT : 4262

  141 : n  >>>> Target Intron 2 >>>>  LysThrSerValThrAlaAlaArgPheIleVa :  151
        !            347 bp           |||! !..!|||:!!|||  !!.!.!.:!::!
        l++                         ++LysLysGluValSerAlaLysHisLeuLeuLe
 4261 : Tgt.........................agAAAAAAGAAGTTTCCGCGAAGCACCTGCTGCT : 3882

  152 : lAlaValGlyGlyArgProAsn<->LysLeuGlyCysProGlyGly<->GluHisAlaIleA :  170
        !||||||||||||||||||:!!      ! !! !  !||||||!.!   |||  !..!:!! 
        uAlaValGlyGlyArgProHisValProProGluValProGlyAlaArgGluPheCysValT
 3881 : CGCCGTCGGCGGGCGCCCCCACGTGCCCCCGGAGGTCCCCGGGGCCCGCGAGTTCTGCGTCA : 3819

  171 : spSerAspAspLeuPheSerLeuProLysAlaProGlyArg{Va}  >>>> Target Int :  184
         !||||||!!::!!|||||||||  !:!!::!||||||!:!{..}           1577 b
        hrSerAspGluIlePheSerLeuLysGlnSerProGlyLys{Th}++               
 3818 : CTTCCGACGAGATCTTCAGTTTGAAACAAAGTCCCGGAAAG{AC}gt............... : 3773

  185 : ron 3 >>>>  {l}LeuCysValGlyGlyGlyTyrIleAlaLeuGluCysGlyGlyPheTh :  200
        p           {!}|||  !|||||||||.!!||||||||||||||||||!.!||||||  
                  ++{r}LeuValValGlyGlySerTyrIleAlaLeuGluCysAlaGlyPheLe
 3772 : ..........ag{A}CTTGTTGTTGGGGGCAGTTACATAGCGCTGGAGTGTGCGGGTTTTCT : 2152

  201 : rAlaGlyMetGlyTyrPro  >>>> Target Intron 4 >>>>  ThrThrCysMetVa :  211
        !  !  !:!!||||||  !            318 bp           .!!|||     !||
        uGlnGlnLeuGlyTyrGlu++                         ++AlaThrValAlaVa
 2151 : GCAGCAGTTGGGGTACGAGgt.........................agGCGACGGTGGCGGT : 1801

  212 : lArgSerIleLeuLeuArgGlyPheAspArgGluCysValGlyLysIleGluAlaHisIleL :  232
        |||||||:!::!!||||||||||||||||||:!!|||!.!!.!|||:!::!!  !:!!:!::
        lArgSerValValLeuArgGlyPheAspArgGlnCysAlaAlaLysValGlnGlnAsnLeuG
 1800 : GCGGTCGGTGGTGCTGCGGGGCTTCGACCGGCAGTGCGCGGCGAAGGTGCAGCAGAACCTGG : 1738

  233 : ysHisHisGlyValGlnLeuGlnValGlyValThrProAlaLysIleGluLysAspAlaAla :  252
        !!.!.  !||||||:!!!!!! !! !||| !!..!  !! !||||||:!!|||!!:! !:!!
        luGluIleGlyValGluPheLeuGluGlyPheValValGluLysIleGlnLysGluGluSer
 1737 : AGGAGATCGGCGTCGAGTTTCTGGAAGGTTTCGTCGTGGAAAAGATCCAAAAAGAGGAATCT : 1678

  253 : ThrGlyValLeuThrValThrAspSerGlyGly :  263
          !!.!:!!! !  !!.!  !!!::!!!.!|||
        GlyAlaLeuTrpGluAlaArgGluAlaAlaGly
 1677 : GGAGCTCTTTGGGAGGCGCGGGAGGCCGCGGGG : 1643

vulgar: TR1 6 263 . pathogen_EIMER_contig_00030728:subseq(14822,10173) 5176 1642 - 468 M 62 186 S 0 2 5 0 2 I 0 514 3 0 2 S 1 1 M 65 195 G 1 0 M 5 15 5 0 2 I 0 343 3 0 2 M 18 54 G 0 3 M 7 21 G 0 3 M 18 54 S 0 2 5 0 2 I 0 1573 3 0 2 S 1 1 M 22 66 5 0 2 I 0 314 3 0 2 M 57 171
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2010-03-10
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	gene	1643	5176	468	-	.	gene_id 1 ; sequence TR1 ; gene_orientation +
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	cds	4989	5176	.	-	.	
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	exon	4989	5176	.	-	.	insertions 0 ; deletions 0
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	splice5	4987	4988	.	-	.	intron_id 1 ; splice_site "AT"
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	intron	4471	4988	.	-	.	intron_id 1
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	splice3	4471	4472	.	-	.	intron_id 0 ; splice_site "TG"
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	cds	4260	4470	.	-	.	
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	exon	4260	4470	.	-	.	insertions 0 ; deletions 1
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	splice5	4258	4259	.	-	.	intron_id 2 ; splice_site "GT"
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	intron	3913	4259	.	-	.	intron_id 2
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	splice3	3913	3914	.	-	.	intron_id 1 ; splice_site "AG"
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	cds	3776	3912	.	-	.	
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	exon	3776	3912	.	-	.	insertions 6 ; deletions 0
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	splice5	3774	3775	.	-	.	intron_id 3 ; splice_site "GT"
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	intron	2199	3775	.	-	.	intron_id 3
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	splice3	2199	2200	.	-	.	intron_id 2 ; splice_site "AG"
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	cds	2132	2198	.	-	.	
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	exon	2132	2198	.	-	.	insertions 0 ; deletions 0
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	splice5	2130	2131	.	-	.	intron_id 4 ; splice_site "GT"
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	intron	1814	2131	.	-	.	intron_id 4
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	splice3	1814	1815	.	-	.	intron_id 3 ; splice_site "AG"
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	cds	1643	1813	.	-	.	
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	exon	1643	1813	.	-	.	insertions 0 ; deletions 0
pathogen_EIMER_contig_00030728:subseq(14822,10173)	exonerate:protein2genome:local	similarity	1643	5176	468	-	.	alignment_id 1 ; Query TR1 ; Align 5177 7 186 ; Align 4470 70 195 ; Align 4275 136 15 ; Align 3913 141 54 ; Align 3856 159 21 ; Align 3832 166 54 ; Align 2198 185 66 ; Align 1814 207 171
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
