Command line: [exonerate -m p2g --showtargetgff -q 1B.query.dir/SP.GPx6.1.fa.x.fa -t 3B.fastasub.dir/7.SP.GPx6.1.fa.x.fa]
Hostname: [ws101153]

C4 Alignment:
------------
         Query: SPP00000038_2.0 # Protein # Glutathione peroxidase 6 (GPx6) # Human (Homo sapiens)
        Target: gi|398920810|gb|JH767833.1|:subseq(2505864,139500) Ceratotherium simum simum unplaced genomic scaffold scaffold00111, whole genome shotgun sequence
         Model: protein2genome:local
     Raw score: 966
   Query range: 0 -> 220
  Target range: 79007 -> 89500

     1 : MetPheGlnGlnPheGlnAlaSerCysLeuValLeuPhePheLeuValGlyPheAlaGln :    20
         |||.!!!:!!:!|||  !|||||||||||| !!! !.!.|||:!!|||||||||||||||
         MetIleArgArgPheLeuAlaSerCysLeuPheProLeuPheValValGlyPheAlaGln
 79008 : ATGATTCGGCGGTTCTTGGCCTCCTGTCTTTTCCCGCTGTTCGTGGTCGGCTTTGCTCAG : 79065

    21 : GlnThrLeuLysProGlnAsnArgLys  >>>> Target Intron 1 >>>>  ValA :    31
         ! !|||! !:!! !!|||!!.! !|||           3421 bp           :!!|
         LeuThrProGluSerGlnLysMetLys++                         ++MetA
 79066 : CTGACCCCAGAGTCACAAAAGATGAAGgt.........................agATGG : 82519

    32 : spCysAsnLysGlyValThrGlyThrIleTyrGluTyrGlyAlaLeuThrLeuAsnGlyG :    51
         ||||| !!||||||||||||||||||||||||||||||||||||||||||||||||||||
         spCysTyrLysGlyValThrGlyThrIleTyrGluTyrGlyAlaLeuThrLeuAsnGlyG
 82520 : ATTGCTATAAGGGGGTGACAGGCACCATCTATGAGTATGGAGCCCTCACCCTCAATGGCG : 82579

    52 : luGluTyrIleGlnPheLysGlnPheAlaGlyLysHisValLeuPheValAsnValAlaA :    71
         |||||||||||||||||||||||!:!|||||||||||||||||||||:!!|||||||||.
         luGluTyrIleGlnPheLysGlnTyrAlaGlyLysHisValLeuPheIleAsnValAlaT
 82580 : AGGAGTATATCCAGTTCAAGCAGTATGCGGGCAAGCACGTCCTCTTTATCAATGTGGCCA : 82639

    72 : laTyrUnkGlyLeuAlaAlaGlnTyrPro{G}  >>>> Target Intron 2 >>>>  :    81
         !!|||   ||||||.!!||||||||||||{|}           4440 bp          
         hrTyr***GlyLeuThrAlaGlnTyrPro{G}++                         +
 82640 : CCTATTGAGGCTTGACAGCTCAGTATCCT{G}gt.........................a : 87108

    82 :  {lu}LeuAsnAlaLeuGlnGluGluLeuLysAsnPheGlyValIleValLeuAlaPheP :   100
          {||}|||||||||||||||||||||||||||  !|||||||||:!!:!!|||!.!||||
         +{lu}LeuAsnAlaLeuGlnGluGluLeuLysProPheGlyValValLeuLeuGlyPheP
 87109 : g{AA}CTGAATGCACTACAGGAGGAGCTGAAGCCTTTTGGTGTAGTTTTGTTGGGCTTTC : 87166

   101 : roCysAsnGlnPheGlyLysGlnGluProGlyThrAsnSerGluIleLeuLeuGlyLeu{ :   120
         ||||||||||||||||||||||||||||||||! !|||||||||||||||!!!||||||{
         roCysAsnGlnPheGlyLysGlnGluProGlyLysAsnSerGluIleLeuPheGlyLeu{
 87167 : CCTGCAACCAGTTTGGAAAACAAGAACCAGGAAAAAACTCAGAGATCCTTTTTGGGCTC{ : 87226

   121 : Ly}  >>>> Target Intron 3 >>>>  {s}TyrValCysProGlySerGlyPheV :   129
         ||}            487 bp           {|}|||||| !!||||||.!!|||||||
         Ly}++                         ++{s}TyrValArgProGlyGlyGlyPheV
 87227 : AA}gt.........................ag{G}TATGTGCGTCCAGGTGGTGGCTTTG : 87740

   130 : alProSerPheGlnLeuPheGluLysGlyAspValAsnGlyGluLysGluGlnLysValP :   149
         |||||!:!||||||||||||||||||||||||||||||||||||||||||||||||||||
         alProAsnPheGlnLeuPheGluLysGlyAspValAsnGlyGluLysGluGlnLysValP
 87741 : TCCCCAACTTTCAGCTCTTTGAGAAAGGGGATGTGAATGGAGAAAAAGAACAGAAGGTCT : 87800

   150 : heThrPheLeuLys  >>>> Target Intron 4 >>>>  AsnSerCysProProTh :   159
         ||||||||||||||           1485 bp           |||||||||||||||||
         heThrPheLeuLys++                         ++AsnSerCysProProTh
 87801 : TTACCTTCCTGAAGgt.........................agAACTCCTGCCCTCCAAC : 89315

   160 : rSerAspLeuLeuGlySerSerSerGlnLeuPheTrpGluProMetLysValHisAspIl :   179
         ||||||||||||||||||||||!:!||||||||||||! !||||||||||||||||||||
         rSerAspLeuLeuGlySerSerAsnGlnLeuPheTrpAlaProMetLysValHisAspIl
 89316 : CTCTGATCTTTTGGGCTCATCAAACCAACTCTTCTGGGCGCCCATGAAGGTCCATGACAT : 89375

   180 : eArgTrpAsnPheGluLysPheLeuValGlyProAspGlyValProValMetHisTrpPh :   199
         ||||||||||||||||||||||||||||||||||||||||||||||||||||!.!|||||
         eArgTrpAsnPheGluLysPheLeuValGlyProAspGlyValProValMetArgTrpPh
 89376 : CCGCTGGAACTTTGAGAAGTTCCTGGTGGGACCTGATGGGGTCCCTGTCATGCGCTGGTT : 89435

   200 : eHisGlnAlaProValSerThrValLysSerAspIleLeuGluTyrLeuLysGlnPheAs :   219
         ||||!:!||| !!|||||||||||||||||||||||||||||||||||||||||||||!!
         eHisArgAlaSerValSerThrValLysSerAspIleLeuGluTyrLeuLysGlnPheLy
 89436 : CCACCGGGCTTCAGTTAGCACAGTCAAGTCAGACATCCTGGAGTACCTGAAGCAGTTCAA : 89495

   220 : nThr :   220
         .:!!
         sSer
 89496 : ATCC : 89500

vulgar: SPP00000038_2.0 0 220 . gi|398920810|gb|JH767833.1|:subseq(2505864,139500) 79007 89500 + 966 M 29 87 5 0 2 I 0 3417 3 0 2 M 51 153 S 0 1 5 0 2 I 0 4436 3 0 2 S 1 2 M 38 114 S 0 2 5 0 2 I 0 483 3 0 2 S 1 1 M 33 99 5 0 2 I 0 1481 3 0 2 M 67 201
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2014-11-28
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	gene	79008	89500	966	+	.	gene_id 1 ; sequence SPP00000038_2.0 ; gene_orientation +
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	cds	79008	79094	.	+	.	
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	exon	79008	79094	.	+	.	insertions 0 ; deletions 0
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	splice5	79095	79096	.	+	.	intron_id 1 ; splice_site "GT"
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	intron	79095	82515	.	+	.	intron_id 1
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	splice3	82514	82515	.	+	.	intron_id 0 ; splice_site "AG"
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	cds	82516	82669	.	+	.	
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	exon	82516	82669	.	+	.	insertions 0 ; deletions 0
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	splice5	82670	82671	.	+	.	intron_id 2 ; splice_site "GT"
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	intron	82670	87109	.	+	.	intron_id 2
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	splice3	87108	87109	.	+	.	intron_id 1 ; splice_site "AG"
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	cds	87110	87227	.	+	.	
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	exon	87110	87227	.	+	.	insertions 0 ; deletions 0
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	splice5	87228	87229	.	+	.	intron_id 3 ; splice_site "GT"
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	intron	87228	87714	.	+	.	intron_id 3
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	splice3	87713	87714	.	+	.	intron_id 2 ; splice_site "AG"
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	cds	87715	87814	.	+	.	
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	exon	87715	87814	.	+	.	insertions 0 ; deletions 0
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	splice5	87815	87816	.	+	.	intron_id 4 ; splice_site "GT"
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	intron	87815	89299	.	+	.	intron_id 4
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	splice3	89298	89299	.	+	.	intron_id 3 ; splice_site "AG"
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	cds	89300	89500	.	+	.	
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	exon	89300	89500	.	+	.	insertions 0 ; deletions 0
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	similarity	79008	89500	966	+	.	alignment_id 1 ; Query SPP00000038_2.0 ; Align 79008 1 87 ; Align 82516 30 153 ; Align 87112 82 114 ; Align 87716 121 99 ; Align 89300 154 201
# --- END OF GFF DUMP ---
#

C4 Alignment:
------------
         Query: SPP00000038_2.0 # Protein # Glutathione peroxidase 6 (GPx6) # Human (Homo sapiens)
        Target: gi|398920810|gb|JH767833.1|:subseq(2505864,139500) Ceratotherium simum simum unplaced genomic scaffold scaffold00111, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 795
   Query range: 28 -> 220
  Target range: 54968 -> 49999

    29 : LysValAspCysAsnLysGlyValThrGlyThrIleTyrGluTyrGlyAlaLeuThrLeu :    48
         :!!..!|||||| !!|||! !|||! !||||||||||||||||||! !|||:!!||||||
         GlnThrAspCysTyrLysAspValLysGlyThrIleTyrGluTyrAspAlaIleThrLeu
 54968 : CAGACGGATTGCTACAAAGATGTGAAAGGCACCATCTATGAATATGACGCCATCACTCTT : 54911

    49 : AsnGlyGluGluTyrIleGlnPheLysGlnPheAlaGlyLysHisValLeuPheValAsn :    68
         !!.|||..!|||:!!||||||||||||!:!!:!|||||||||||||||||||||||||||
         LysGlyArgGluHisIleGlnPheLysArgTyrAlaGlyLysHisValLeuPheValAsn
 54910 : AAAGGAAGGGAACACATTCAGTTCAAGCGGTATGCGGGCAAGCATGTCCTTTTTGTCAAT : 54851

    69 : ValAlaAlaTyrUnkGlyLeuAlaAlaGlnTyrPro{G}  >>>> Target Intron  :    81
         ||||||.!!|||   ||||||.!!||||||||||||{|}           2832 bp   
         ValAlaThrTyrCysGlyLeuThrAlaGlnTyrPro{G}++                   
 54850 : GTGGCCACCTATTGTGGTCTGACGGCTCAATATCCT{G}gt................... : 54809

    82 : 1 >>>>  {lu}LeuAsnAlaLeuGlnGluGluLeuLysAsnPheGlyValIleValLeu :    97
                 {||}||||||.!!||||||||||||||||||::!||||||:!!:!!||||||
               ++{lu}LeuAsnThrLeuGlnGluGluLeuLysSerPheGlyLeuValValLeu
 54808 : ......ag{AA}CTGAATACACTTCAGGAGGAGCTGAAGTCCTTTGGCTTAGTTGTGTTG : 51932

    98 : AlaPheProCysAsnGlnPheGlyLysGlnGluProGlyThrAsnSerGluIleLeuLeu :   117
         !.!||||||||||||||||||||||||||||||||||||  !|||||||||||||||! !
         GlyPheProCysAsnGlnPheGlyLysGlnGluProGlyGluAsnSerGluIleLeuPro
 51931 : GGTTTCCCCTGTAACCAATTTGGAAAGCAAGAACCAGGAGAGAACTCGGAGATCCTTCCA : 51872

   118 : GlyLeu{Ly}  >>>> Target Intron 2 >>>>  {s}TyrValCysProGlySer :   126
         ||||||{||}            460 bp           {|}|||||| !!||||||.!!
         GlyLeu{Ly}++                         ++{s}TyrValArgProGlyGly
 51871 : GGGCTG{AA}gt.........................ag{G}TATGTCCGTCCAGGGGGA : 51385

   127 : GlyPheValProSerPheGlnLeuPheGluLysGlyAspValAsnGlyGluLysGluGln :   146
         |||!:!||||||!:!|||||||||||||||||||||||||||||||||||||||||||||
         GlyTyrValProAsnPheGlnLeuPheGluLysGlyAspValAsnGlyGluLysGluGln
 51384 : GGATATGTACCTAATTTCCAGCTTTTTGAGAAAGGAGATGTGAATGGGGAAAAAGAACAG : 51325

   147 : LysValPheThrPheLeuLys  >>>> Target Intron 3 >>>>  AsnSerCysP :   157
         |||||||||||||||||||||           1101 bp           :!!|||||||
         LysValPheThrPheLeuLys++                         ++HisSerCysP
 51324 : AAAGTCTTCACCTTCTTGAAGgt.........................agCACTCCTGTC : 50191

   158 : roProThrSerAspLeuLeuGlySerSerSerGlnLeuPheTrpGluProMetLysValH :   177
         ||! ! !!|||!!::!!|||||||||! !!.!!!.:!!! !|||||||||!!:|||||||
         roHisProSerGluIleLeuGlySerLeuLysHisIleSerTrpGluProIleLysValH
 50190 : CTCACCCCTCTGAGATTTTAGGCTCATTAAAACATATATCCTGGGAACCTATAAAGGTCC : 50131

   178 : isAspIleArgTrpAsnPheGluLysPheLeuValGlyProAspGlyValProValMetH :   197
         |||||||||||||||||||||||||||||||||||||||||:!!|||||||||||||||!
         isAspIleArgTrpAsnPheGluLysPheLeuValGlyProAsnGlyValProValMetA
 50130 : ATGACATCCGCTGGAATTTTGAAAAGTTCCTGGTGGGGCCTAATGGAGTCCCCGTCATGC : 50071

   198 : isTrpPheHisGlnAlaProValSerThrValLysSerAspIleLeuGluTyrLeuLysG :   217
         .!|||||||||!:!||||||||||||.!!||||||||||||||||||! !||||||:!!|
         rgTrpPheHisArgAlaProValSerAlaValLysSerAspIleLeuAlaTyrLeuGlnG
 50070 : GCTGGTTCCATCGGGCCCCAGTCAGTGCGGTCAAGTCGGATATCCTGGCATACCTGCAGC : 50011

   218 : lnPheAsnThr :   220
         |||||!!.|||
         lnPheLysThr
 50010 : AGTTCAAAACT : 50000

vulgar: SPP00000038_2.0 28 220 . gi|398920810|gb|JH767833.1|:subseq(2505864,139500) 54968 49999 - 795 M 52 156 S 0 1 5 0 2 I 0 2828 3 0 2 S 1 2 M 38 114 S 0 2 5 0 2 I 0 456 3 0 2 S 1 1 M 33 99 5 0 2 I 0 1097 3 0 2 M 67 201
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2014-11-28
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	gene	50000	54968	795	-	.	gene_id 1 ; sequence SPP00000038_2.0 ; gene_orientation +
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	cds	54812	54968	.	-	.	
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	exon	54812	54968	.	-	.	insertions 0 ; deletions 0
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	splice5	54810	54811	.	-	.	intron_id 1 ; splice_site "GT"
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	intron	51980	54811	.	-	.	intron_id 1
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	splice3	51980	51981	.	-	.	intron_id 0 ; splice_site "AG"
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	cds	51862	51979	.	-	.	
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	exon	51862	51979	.	-	.	insertions 0 ; deletions 0
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	splice5	51860	51861	.	-	.	intron_id 2 ; splice_site "GT"
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	intron	51402	51861	.	-	.	intron_id 2
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	splice3	51402	51403	.	-	.	intron_id 1 ; splice_site "AG"
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	cds	51302	51401	.	-	.	
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	exon	51302	51401	.	-	.	insertions 0 ; deletions 0
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	splice5	51300	51301	.	-	.	intron_id 3 ; splice_site "GT"
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	intron	50201	51301	.	-	.	intron_id 3
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	splice3	50201	50202	.	-	.	intron_id 2 ; splice_site "AG"
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	cds	50000	50200	.	-	.	
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	exon	50000	50200	.	-	.	insertions 0 ; deletions 0
gi|398920810|gb|JH767833.1|:subseq(2505864,139500)	exonerate:protein2genome:local	similarity	50000	54968	795	-	.	alignment_id 1 ; Query SPP00000038_2.0 ; Align 54969 29 156 ; Align 51978 82 114 ; Align 51401 121 99 ; Align 50201 154 201
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
