Command line: [exonerate -m p2g --showtargetgff -q ../Sel.human/GPX2.fa -t gi|397459705|gb|JH735796.1|subseq.fa -E]
Hostname: [ws101062]

** (process:3225): WARNING **: Exhaustively generating suboptimal alignments will be VERY SLOW

C4 Alignment:
------------
         Query: SPP00000019_2.0 # Protein # Glutathione peroxidase 2 (GPx2) # Human (Homo sapiens)
        Target: gi|397459705|gb|JH735796.1|:subseq(850000,100000) Alligator mississippiensis unplaced genomic scaffold scaffold-7762, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 789
   Query range: 0 -> 189
  Target range: 42067 -> 40078

     1 : MetAlaPheIleAlaLysSerPheTyrAspLeuSerAlaIleSerLeuAspGlyGluLys :    20
         |||.!!  !|||||||||||||||||||||||||||||||||!!!|||.!.|||||||||
         MetThrProIleAlaLysSerPheTyrAspLeuSerAlaIleThrLeuGlnGlyGluLys
 42067 : ATGACGCCCATAGCCAAGTCCTTTTACGACCTCAGCGCTATCACCCTGCAAGGGGAGAAA : 42010

    21 : ValAspPheAsnThrPheArgGlyArgAlaValLeuIleGluAsnValAlaSerLeuUnk :    40
         ||||||||||||!.!||||||||||||!.!|||||||||||||||||||||||||||   
         ValAspPheAsnAsnPheArgGlyArgValValLeuIleGluAsnValAlaSerLeu***
 42009 : GTGGATTTCAACAACTTCCGCGGCCGGGTGGTCCTGATCGAGAATGTGGCTTCACTCTGA : 41950

    41 : GlyThrThrThrArgAspPheThrGlnLeuAsnGluLeuGlnCysArgPheProArgArg :    60
         |||||||||..!||||||!:!||||||||||||:!!||||||..!|||!:!|||||||||
         GlyThrThrValArgAspTyrThrGlnLeuAsnGlnLeuGlnAlaArgTyrProArgArg
 41949 : GGCACGACGGTGCGGGATTACACCCAGCTCAACCAGCTGCAGGCCAGGTACCCCCGGCGG : 41890

    61 : LeuValValLeuGlyPheProCysAsnGlnPheGlyHisGln  >>>> Target Intr :    75
         ||||||||||||||||||||||||||||||||||||:!!|||           1422 bp
         LeuValValLeuGlyPheProCysAsnGlnPheGlyTyrGln++                
 41889 : CTGGTTGTGCTGGGCTTTCCTTGCAACCAGTTTGGCTACCAGgt................ : 41843

    76 : on 1 >>>>  GluAsnCysGlnAsnGluGluIleLeuAsnSerLeuLysTyrValArgP :    91
                    |||||||||   |||||||||||||||||||||||||||||||||||||
                  ++GluAsnCysThrAsnGluGluIleLeuAsnSerLeuLysTyrValArgP
 41842 : .........agGAGAACTGCACCAACGAGGAGATCCTGAACAGCCTGAAGTATGTGCGCC : 40375

    92 : roGlyGlyGlyTyrGlnProThrPheThrLeuValGlnLysCysGluValAsnGlyGlnA :   111
         |||||||||||!:!:!!|||!.!||||||||| !!|||||||||:!!||||||||||||:
         roGlyGlyGlyPheGluProAsnPheThrLeuPheGlnLysCysGlnValAsnGlyGlnA
 40374 : CAGGTGGAGGCTTCGAGCCCAACTTCACCCTCTTTCAGAAATGCCAGGTGAATGGGCAGG : 40315

   112 : snGluHisProValPheAlaTyrLeuLysAspLysLeuProTyrProTyrAspAspProP :   131
         !!   ||||||||||||||||||||||||! ! ! ||||||  !|||   |||:!!||| 
         spThrHisProValPheAlaTyrLeuLysAlaHisLeuProAlaProValAspAsnProA
 40314 : ACACCCACCCAGTCTTCGCCTACCTGAAGGCCCACCTACCTGCCCCCGTGGATAACCCCG : 40255

   132 : heSerLeuMetThrAspProLysLeuIleIleTrpSerProValArgArgSerAspValA :   151
          !:!!|||:!!|||||||||::!!!!:!::!:||||||||||||!:!|||:!!|||:!!.
         laAlaLeuLeuThrAspProArgPheLeuValTrpSerProValGlnArgAlaAspLeuT
 40254 : CCGCCCTTCTGACAGACCCGCGGTTCCTGGTGTGGAGCCCCGTGCAACGCGCAGACCTGA : 40195

   152 : laTrpAsnPheGluLysPheLeuIleGlyProGluGlyGluProPheArgArgTyrSerA :   171
         !!|||||||||||||||||||||:!:|||||||||||||||||||||!:!|||||||||!
         hrTrpAsnPheGluLysPheLeuValGlyProGluGlyGluProPheLysArgTyrSerP
 40194 : CCTGGAACTTTGAGAAGTTCCTGGTGGGGCCCGAGGGCGAGCCATTCAAGCGCTACAGCC : 40135

   172 : rgThrPheProThrIleAsnIleGluProAspIleLysArgLeuLeuLysValAla :   189
          !! !|||! !|||! !:!!:!:||||||||||||:!!||||||||||||:!!|||
         roLysPheGlnThrSerHisValGluProAspIleGlnArgLeuLeuLysLeuAla
 40134 : CCAAGTTCCAGACCAGCCACGTGGAGCCTGACATCCAGCGCCTCCTCAAGCTTGCG : 40079

vulgar: SPP00000019_2.0 0 189 . gi|397459705|gb|JH735796.1|:subseq(850000,100000) 42067 40078 - 789 M 74 222 5 0 2 I 0 1418 3 0 2 M 115 345
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-15
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|397459705|gb|JH735796.1|:subseq(850000,100000)	exonerate:protein2genome:local	gene	40079	42067	789	-	.	gene_id 1 ; sequence SPP00000019_2.0 ; gene_orientation +
gi|397459705|gb|JH735796.1|:subseq(850000,100000)	exonerate:protein2genome:local	cds	41846	42067	.	-	.	
gi|397459705|gb|JH735796.1|:subseq(850000,100000)	exonerate:protein2genome:local	exon	41846	42067	.	-	.	insertions 0 ; deletions 0
gi|397459705|gb|JH735796.1|:subseq(850000,100000)	exonerate:protein2genome:local	splice5	41844	41845	.	-	.	intron_id 1 ; splice_site "GT"
gi|397459705|gb|JH735796.1|:subseq(850000,100000)	exonerate:protein2genome:local	intron	40424	41845	.	-	.	intron_id 1
gi|397459705|gb|JH735796.1|:subseq(850000,100000)	exonerate:protein2genome:local	splice3	40424	40425	.	-	.	intron_id 0 ; splice_site "AG"
gi|397459705|gb|JH735796.1|:subseq(850000,100000)	exonerate:protein2genome:local	cds	40079	40423	.	-	.	
gi|397459705|gb|JH735796.1|:subseq(850000,100000)	exonerate:protein2genome:local	exon	40079	40423	.	-	.	insertions 0 ; deletions 0
gi|397459705|gb|JH735796.1|:subseq(850000,100000)	exonerate:protein2genome:local	similarity	40079	42067	789	-	.	alignment_id 1 ; Query SPP00000019_2.0 ; Align 42068 1 222 ; Align 40424 75 345
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis