Command line: [exonerate -m p2g --showtargetgff -q Gpx6.fa.U_to_X -t gi|511782576|gb|CM001958.1|.fastasubseq]
Hostname: [luke]

C4 Alignment:
------------
         Query: SPP00001323_2.0 # Protein # Glutathione peroxidase 6 (GPx6) # Macaque (Macaca mulatta) 
        Target: gi|511782576|gb|CM001958.1|:subseq(43951595,210044) Chlorocebus sabaeus isolate 1994-021 chromosome 17, whole genome shotgun sequence
         Model: protein2genome:local
     Raw score: 770
   Query range: 28 -> 218
  Target range: 123989 -> 128784

     29 : LysValAspCysAsnLysArgValThrGlyThrIleTyrGluTyrGlyAlaLeuThrL :     48
          :!!:!!||||||:!!|||  !! !! !||||||||||||!!:|||! !|||:!!.!!|
          GlnMetAspCysHisLysAspGluLysGlyThrIleTyrAspTyrGluAlaIleAlaL
 123990 : CAGATGGATTGTCACAAAGATGAGAAAGGCACCATCTATGACTATGAGGCCATCGCAC : 124047

     49 : euAsnSerGluGluTyrIleGlnPheLysGlnPheAlaGlyLysHisValLeuPheVa :     67
          |||||!.!.!.||||||:!!!  |||||||||!:!!.!|||||||||:!!||||||||
          euAsnLysAsnGluTyrValProPheLysGlnTyrValGlyLysHisIleLeuPheVa
 124048 : TTAATAAGAACGAATATGTTCCCTTCAAGCAGTATGTGGGCAAGCACATCCTCTTCGT : 124104

     68 : lAsnValAlaThrTyrUnkGlyLeuAlaAlaGlnTyrPro{G}  >>>> Target I :     81
          ||||||||||||||||   ||||||.!!||||||||||||{|}           2258
          lAsnValAlaThrTyrCysGlyLeuThrAlaGlnTyrPro{G}++             
 124105 : CAACGTGGCCACCTACTGTGGTCTGACAGCGCAATATCCT{G}gt............. : 124149

     82 : ntron 1 >>>>  {lu}LeuAsnAlaLeuGlnGluGluLeuLysAsnPheGlyValV :     95
           bp           {||}|||||||||||||||||||||||||||  !!:!|||:!!|
                      ++{lu}LeuAsnAlaLeuGlnGluGluLeuLysProTyrGlyLeuV
 124150 : ............ag{AA}CTAAATGCACTCCAGGAGGAGCTGAAGCCCTATGGTCTAG : 126446

     96 : alValLeuAlaPheProCysAsnGlnPheGlyLysGlnGluProGlyThrAsnSerGl :    114
          ||||||||!.!||||||||||||||||||||||||||||||||||||  !|||!.!||
          alValLeuGlyPheProCysAsnGlnPheGlyLysGlnGluProGlyAspAsnLysGl
 126447 : TCGTGCTGGGCTTTCCCTGCAACCAATTTGGAAAGCAAGAACCAGGAGATAACAAAGA : 126503

    115 : uIleLeuLeuGlyLeu{Ly}  >>>> Target Intron 2 >>>>  {s}TyrVal :    122
          |||||||! !||||||{||}            422 bp           {|}||||||
          uIleLeuProGlyLeu{Ly}++                         ++{s}TyrVal
 126504 : GATTCTTCCTGGGCTC{AA}gt.........................ag{G}TATGTC : 126949

    123 : ArgProGlySerGlyPheValProAsnPheGlnLeuPheGluLysGlyAspValAsnG :    142
          |||||||||.!!||||||||||||||||||||||||||||||||||||||||||||||
          ArgProGlyGlyGlyPheValProAsnPheGlnLeuPheGluLysGlyAspValAsnG
 126950 : CGTCCAGGGGGAGGATTTGTACCTAATTTCCAGCTTTTTGAGAAAGGGGATGTGAATG : 127009

    143 : lyGluLysGluGlnLysValPheThrPheLeuLys  >>>> Target Intron 3  :    154
          |||||||||||||||||||||||!:!|||||||||           1545 bp     
          lyGluLysGluGlnLysValPheSerPheLeuLys++                     
 127010 : GTGAAAAAGAACAGAAAGTCTTCAGCTTCTTGAAGgt..................... : 127047

    155 : >>>>  AsnSerCysProProThrSerAspLeuLeuGlySerSerSerGlnLeuPheT :    171
                :!!|||||||||! ! !!|||!!::!!||||||!!!! !!.!...:!!! !|
              ++HisSerCysProHisProSerGluIleLeuGlyThrPheLysSerIleSerT
 127048 : ....agCACTCCTGTCCTCATCCCTCTGAGATTTTGGGCACATTCAAATCTATATCCT : 128641

    172 : rpGluProMetLysValHisAspIleArgTrpAsnPheGluLysPheLeuValGlyPr :    190
          ||.!.|||:!:|||||||||||||||||||||||||||||||||||||||||||||||
          rpAsnProValLysValHisAspIleArgTrpAsnPheGluLysPheLeuValGlyPr
 128642 : GGAACCCTGTAAAGGTCCATGACATCCGCTGGAACTTTGAAAAGTTCCTGGTGGGGCC : 128698

    191 : oAspGlyValProValMetArgTrpPheHisArgAlaProValSerThrValLysSer :    209
          |||||||:!!|||||||||||||||! !|||!:!||| !!||||||:!!||||||!!!
          oAspGlyIleProValMetArgTrpSerHisGlnAlaThrValSerSerValLysThr
 128699 : TGATGGAATCCCTGTCATGCGCTGGTCCCACCAGGCTACCGTCAGCTCAGTAAAGACA : 128755

    210 : AspIleLeuGluTyrLeuLysGlnPhe :    218
          |||||||||! !|||||||||||||||
          AspIleLeuAlaTyrLeuLysGlnPhe
 128756 : GACATCCTGGCGTACTTGAAGCAATTC : 128784

vulgar: SPP00001323_2.0 28 218 . gi|511782576|gb|CM001958.1|:subseq(43951595,210044) 123989 128784 + 770 M 52 156 S 0 1 5 0 2 I 0 2254 3 0 2 S 1 2 M 38 114 S 0 2 5 0 2 I 0 418 3 0 2 S 1 1 M 33 99 5 0 2 I 0 1541 3 0 2 M 65 195
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-05
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	gene	123990	128784	770	+	.	gene_id 1 ; sequence SPP00001323_2.0 ; gene_orientation +
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	cds	123990	124146	.	+	.	
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	exon	123990	124146	.	+	.	insertions 0 ; deletions 0
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	splice5	124147	124148	.	+	.	intron_id 1 ; splice_site "GT"
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	intron	124147	126404	.	+	.	intron_id 1
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	splice3	126403	126404	.	+	.	intron_id 0 ; splice_site "AG"
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	cds	126405	126522	.	+	.	
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	exon	126405	126522	.	+	.	insertions 0 ; deletions 0
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	splice5	126523	126524	.	+	.	intron_id 2 ; splice_site "GT"
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	intron	126523	126944	.	+	.	intron_id 2
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	splice3	126943	126944	.	+	.	intron_id 1 ; splice_site "AG"
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	cds	126945	127044	.	+	.	
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	exon	126945	127044	.	+	.	insertions 0 ; deletions 0
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	splice5	127045	127046	.	+	.	intron_id 3 ; splice_site "GT"
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	intron	127045	128589	.	+	.	intron_id 3
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	splice3	128588	128589	.	+	.	intron_id 2 ; splice_site "AG"
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	cds	128590	128784	.	+	.	
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	exon	128590	128784	.	+	.	insertions 0 ; deletions 0
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	similarity	123990	128784	770	+	.	alignment_id 1 ; Query SPP00001323_2.0 ; Align 123990 29 156 ; Align 126407 82 114 ; Align 126946 121 99 ; Align 128590 154 195
# --- END OF GFF DUMP ---
#

C4 Alignment:
------------
         Query: SPP00001323_2.0 # Protein # Glutathione peroxidase 6 (GPx6) # Macaque (Macaca mulatta) 
        Target: gi|511782576|gb|CM001958.1|:subseq(43951595,210044) Chlorocebus sabaeus isolate 1994-021 chromosome 17, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 1134
   Query range: 0 -> 221
  Target range: 110044 -> 99999

      1 : MetIleArgGlnPheGlnAlaCysCysLeuValLeuLeuPheLeuValGlyPheAlaG :     20
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          MetIleArgGlnPheGlnAlaCysCysLeuValLeuLeuPheLeuValGlyPheAlaG
 110044 : ATGATCCGGCAGTTTCAGGCCTGCTGTCTTGTCCTGCTGTTCCTGGTTGGCTTTGCTC : 109987

     21 : lnGlnThrLeuLysProGlnAsnArgLys  >>>> Target Intron 1 >>>>   :     30
          |||||||||||||||||||||||||||||           3402 bp           
          lnGlnThrLeuLysProGlnAsnArgLys++                         ++
 109986 : AGCAGACCCTAAAGCCTCAAAATAGGAAGgt.........................ag : 106557

     31 : ValAspCysAsnLysArgValThrGlyThrIleTyrGluTyrGlyAlaLeuThrLeuA :     49
          ||||||||||||||| !!|||||||||||||||||||||||||||||||||||||||!
          ValAspCysAsnLysGlyValThrGlyThrIleTyrGluTyrGlyAlaLeuThrLeuL
 106556 : GTGGATTGCAACAAAGGAGTGACAGGCACCATCTATGAGTATGGAGCCCTTACCCTCA : 106498

     50 : snSerGluGluTyrIleGlnPheLysGlnPheAlaGlyLysHisValLeuPheValAs :     68
          !..!!|||||||||||||||||||||||||||||||||||||||||||||||||||||
          ysGlyGluGluTyrIleGlnPheLysGlnPheAlaGlyLysHisValLeuPheValAs
 106497 : AGGGTGAGGAGTACATCCAGTTCAAGCAGTTTGCAGGCAAGCACGTCCTGTTTGTCAA : 106441

     69 : nValAlaThrTyrUnkGlyLeuAlaAlaGlnTyrPro{G}  >>>> Target Intr :     81
          |||||||||||||   |||||||||||||||||||||{|}           4278 bp
          nValAlaThrTyr***GlyLeuAlaAlaGlnTyrPro{G}++                
 106440 : CGTAGCCACCTATTGAGGCTTGGCAGCTCAGTATCCT{G}gt................ : 106399

     82 : on 2 >>>>  {lu}LeuAsnAlaLeuGlnGluGluLeuLysAsnPheGlyValValV :     96
                     {||}|||||||||||||||||||||||||||||||||||||||||||
                   ++{lu}LeuAsnAlaLeuGlnGluGluLeuLysAsnPheGlyValValV
 106398 : .........ag{AA}CTGAATGCACTACAGGAGGAGCTGAAGAATTTTGGTGTCGTTG : 102079

     97 : alLeuAlaPheProCysAsnGlnPheGlyLysGlnGluProGlyThrAsnSerGluIl :    115
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          alLeuAlaPheProCysAsnGlnPheGlyLysGlnGluProGlyThrAsnSerGluIl
 102078 : TGTTGGCCTTTCCCTGCAACCAGTTTGGAAAACAAGAACCAGGAACAAACTCAGAAAT : 102022

    116 : eLeuLeuGlyLeu{Ly}  >>>> Target Intron 3 >>>>  {s}TyrValArg :    123
          |||||||||||||{||}            495 bp           {|}|||||||||
          eLeuLeuGlyLeu{Ly}++                         ++{s}TyrValArg
 102021 : ACTTCTTGGACTC{AA}gt.........................ag{G}TATGTGCGT : 101503

    124 : ProGlySerGlyPheValProAsnPheGlnLeuPheGluLysGlyAspValAsnGlyG :    143
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          ProGlySerGlyPheValProAsnPheGlnLeuPheGluLysGlyAspValAsnGlyG
 101502 : CCAGGTAGTGGCTTTGTCCCTAATTTCCAGCTCTTTGAGAAAGGGGATGTGAATGGAG : 101443

    144 : luLysGluGlnLysValPheThrPheLeuLys  >>>> Target Intron 4 >>> :    154
          ||||||||||||||||||||||||||||||||           1207 bp        
          luLysGluGlnLysValPheThrPheLeuLys++                        
 101442 : AAAAAGAACAGAAGGTCTTTACTTTCCTGAAGgt........................ : 101408

    155 : >  AsnSerCysProProThrSerAspLeuLeuGlySerSerSerGlnLeuPheTrpG :    172
             |||||||||||||||||||||||||||||||||||||||||||||||||||||||
           ++AsnSerCysProProThrSerAspLeuLeuGlySerSerSerGlnLeuPheTrpG
 101407 : .agAACTCCTGCCCTCCAACCTCTGATCTTTTGGGCTCATCAAGCCAACTCTTCTGGG : 100149

    173 : luProMetLysValHisAspIleArgTrpAsnPheGluLysPheLeuValGlyProAs :    191
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          luProMetLysValHisAspIleArgTrpAsnPheGluLysPheLeuValGlyProAs
 100148 : AGCCCATGAAGGTCCATGACATCCGCTGGAACTTTGAGAAATTTCTGGTGGGGCCCGA : 100092

    192 : pGlyValProValMetArgTrpPheHisArgAlaProValSerThrValLysSerAsp :    210
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          pGlyValProValMetArgTrpPheHisArgAlaProValSerThrValLysSerAsp
 100091 : TGGAGTCCCTGTCATGCGCTGGTTCCACCGGGCTCCAGTCAGCACAGTCAAGTCAGAC : 100035

    211 : IleLeuGluTyrLeuLysGlnPheAsnAlaHis :    221
          |||||||||||||||||||||||||||||||||
          IleLeuGluTyrLeuLysGlnPheAsnAlaHis
 100034 : ATCCTGGAGTACCTAAAGCAGTTCAATGCCCAC : 100000

vulgar: SPP00001323_2.0 0 221 . gi|511782576|gb|CM001958.1|:subseq(43951595,210044) 110044 99999 - 1134 M 29 87 5 0 2 I 0 3398 3 0 2 M 51 153 S 0 1 5 0 2 I 0 4274 3 0 2 S 1 2 M 38 114 S 0 2 5 0 2 I 0 491 3 0 2 S 1 1 M 33 99 5 0 2 I 0 1203 3 0 2 M 68 204
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-05
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	gene	100000	110044	1134	-	.	gene_id 1 ; sequence SPP00001323_2.0 ; gene_orientation +
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	cds	109958	110044	.	-	.	
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	exon	109958	110044	.	-	.	insertions 0 ; deletions 0
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	splice5	109956	109957	.	-	.	intron_id 1 ; splice_site "GT"
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	intron	106556	109957	.	-	.	intron_id 1
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	splice3	106556	106557	.	-	.	intron_id 0 ; splice_site "AG"
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	cds	106402	106555	.	-	.	
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	exon	106402	106555	.	-	.	insertions 0 ; deletions 0
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	splice5	106400	106401	.	-	.	intron_id 2 ; splice_site "GT"
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	intron	102124	106401	.	-	.	intron_id 2
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	splice3	102124	102125	.	-	.	intron_id 1 ; splice_site "AG"
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	cds	102006	102123	.	-	.	
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	exon	102006	102123	.	-	.	insertions 0 ; deletions 0
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	splice5	102004	102005	.	-	.	intron_id 3 ; splice_site "GT"
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	intron	101511	102005	.	-	.	intron_id 3
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	splice3	101511	101512	.	-	.	intron_id 2 ; splice_site "AG"
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	cds	101411	101510	.	-	.	
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	exon	101411	101510	.	-	.	insertions 0 ; deletions 0
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	splice5	101409	101410	.	-	.	intron_id 4 ; splice_site "GT"
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	intron	100204	101410	.	-	.	intron_id 4
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	splice3	100204	100205	.	-	.	intron_id 3 ; splice_site "AG"
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	cds	100000	100203	.	-	.	
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	exon	100000	100203	.	-	.	insertions 0 ; deletions 0
gi|511782576|gb|CM001958.1|:subseq(43951595,210044)	exonerate:protein2genome:local	similarity	100000	110044	1134	-	.	alignment_id 1 ; Query SPP00001323_2.0 ; Align 110045 1 87 ; Align 106556 30 153 ; Align 102122 82 114 ; Align 101510 121 99 ; Align 100204 154 204
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis