Command line: [/mnt/NFS_UPF/soft/exonerate/exonerate-2.2.0-x86_64/bin/exonerate -m p2g --showtargetgff -q /home/u137237/Desktop/SelO.fa -t genomic_SJYR01002254.1]
Hostname: [am30755-101098u]

C4 Alignment:
------------
         Query: SPP00000019_1.0  Protein  Selenoprotein O (SelO)  Homo sapiens  Complete
        Target: SJYR01002254.1:subseq(244194,200000) Kobus ellipsiprymnus isolate DFW-375 scaffold2254_size856714, whole genome shotgun sequence
         Model: protein2genome:local
     Raw score: 2244
   Query range: 117 -> 645
  Target range: 81245 -> 100336

    118 : AlaGluAlaAlaLeuPhePheSerGlyAsnAlaLeuLeuProGlyAlaGluProAlaA :    137
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          AlaGluAlaAlaLeuPhePheSerGlyAsnAlaLeuLeuProGlyAlaGluProAlaA
  81246 : GCCGAGGCCGCGCTCTTCTTCAGCGGCAACGCGCTGCTGCCGGGCGCCGAGCCCGCCG :  81303

    138 : laHisCysTyrCysGlyHisGlnPheGlyGlnPheAlaGlyGlnLeuGlyAspGlyAl :    156
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          laHisCysTyrCysGlyHisGlnPheGlyGlnPheAlaGlyGlnLeuGlyAspGlyAl
  81304 : CGCACTGCTACTGCGGCCACCAGTTCGGCCAGTTCGCCGGGCAGCTGGGCGACGGCGC :  81360

    157 : aAlaMetTyrLeuGlyGluValCysThrAlaThrGlyGluArgTrpGluLeuGlnLeu :    175
          |||||||||||||||||||||| !!|||! !.!!||||||||||||||||||||||||
          aAlaMetTyrLeuGlyGluValArgThrGluAlaGlyGluArgTrpGluLeuGlnLeu
  81361 : CGCCATGTACCTGGGCGAGGTGCGCACCGAGGCCGGCGAGCGCTGGGAGCTGCAGCTC :  81417

    176 : LysGlyAlaGlyProThrProPheSer{Ar}  >>>> Target Intron 1 >>>> :    185
          |||||||||||||||||||||||||||{||}           10646 bp        
          LysGlyAlaGlyProThrProPheSer{Ar}++                         
  81418 : AAGGGCGCGGGgcccacgcccttctcc{ag}gt......................... :  81451

    186 :   {g}GlnAlaAspGlyArgLysValLeuArgSerSerIleArgGluPheLeuCysSe :    203
            {|}|||||||||||||||||||||||||||||||||||||||||||||||||||||
          ++{g}GlnAlaAspGlyArgLysValLeuArgSerSerIleArgGluPheLeuCysSe
  81452 : ag{A}CAGGCGGACGGCCGCAAGGTGCTGCGCTCCAGCATCCGCGAGTTCCTGTGCAG :  92147

    204 : rGluAlaMetPheHisLeuGlyValProThrThrArgAlaGlyAlaCysValThrSer :    222
          ||||||||||||||||||||||:!!||||||||||||||||||:!!||||||:!!|||
          rGluAlaMetPheHisLeuGlyIleProThrThrArgAlaGlySerCysValSerSer
  92148 : TGAGGCCATGTTCCACCTGGGCATCCCCACCACGCGGGCTGGCTCCTGCGTCTCATCC :  92204

    223 : GluSerThrValValArgAspValPheTyrAspGlyAsnProLysTyrGluGlnCysT :    242
          :!!||||||||||||||||||!.!||||||||||||||||||::!  !|||! !|||.
          GlnSerThrValValArgAspAlaPheTyrAspGlyAsnProArgProGluProCysA
  92205 : CAGTCCACCGTCGTGCGTGACGCCTTCTATGACGGGAACCCACGGCCCGAGCCGTGTG :  92264

    243 : hrValValLeuArgValAlaSerThrPheIle{Ar}  >>>> Target Intron 2 :    253
          !!||||||||||||:!!||| !!||||||:!!{||}            745 bp    
          laValValLeuArgLeuAlaProThrPheLeu{Ar}++                    
  92265 : CTGTGGTGCTGCGCCTGGCCCCCACGTTCCTC{AG}gt.................... :  92301

    254 :  >>>>  {g}PheGlySerPheGluIlePheLysSerAlaAspGluHisThrGlyArg :    269
                 {|}|||||||||||||||||||||||| !!  !||||||||||||||||||
               ++{g}PheGlySerPheGluIlePheLysProArgAspGluHisThrGlyArg
  92302 : .....ag{G}TTCGGATCCTTCGAGATCTTCAAGCCCAGAGACGAGCACACGGGCCGG :  93090

    270 : AlaGlyProSerValGlyArgAsnAspIleArgValGlnLeuLeuAspTyrValIleS :    289
          |||||||||||||||||||||:!!|||||||||:!!|||:!!||||||||||||||||
          AlaGlyProSerValGlyArgAspAspIleArgLeuGlnMetLeuAspTyrValIleS
  93091 : GCGGGCCCCAGCGTGGGGCGGGATGACATCCGCCTGCAAATGCTTGACTACGTCATCA :  93150

    290 : erSerPheTyrProGluIleGlnAlaAlaHisAlaSerAspSerValGlnArgAsnAl :    308
          ||!!!|||||||||||||||||||||:!!||| !!.!!|||  !|||||||||:!!||
          erThrPheTyrProGluIleGlnAlaSerHisProGlyAspHisValGlnArgHisAl
  93151 : GCACCTTCTACCCCGAGATCCAGGCCTCTCACCCCGGAGACCACGTGCAGAGACACGC :  93207

    309 : aAlaPhePheArgGlu  >>>> Target Intron 3 >>>>  ValThrArgArgT :    318
          ||||||||||||||||           1023 bp           |||||||||||||
          aAlaPhePheArgGlu++                         ++ValThrArgArgT
  93208 : CGCCTTCTTCCGCGAGgt.........................agGTGACGCGGCGCA :  94260

    319 : hrAlaArgMetValAlaGluTrpGlnCysValGlyPheCysHisGlyValLeuAsnTh :    337
          ||||||||:!!|||||||||||||||||||||||||||||||||||||||||||||||
          hrAlaArgLeuValAlaGluTrpGlnCysValGlyPheCysHisGlyValLeuAsnTh
  94261 : CGGCCCGGCTGGTGGCTGAGTGgcagtgtgtgggtttctgcCATGGCGTGCTCAACAC :  94317

    338 : rAspAsnMetSerIleLeuGlyLeuThrIleAspTyrGlyProPheGlyPheLeuAsp :    356
          ||||||||||||||||:!!|||||||||||||||||||||||||||||||||||||||
          rAspAsnMetSerIleValGlyLeuThrIleAspTyrGlyProPheGlyPheLeuAsp
  94318 : AGACAACATGAGCATCGTGGGGCTCACCATCGACTATGGGCCCTTCGGCTTCCTGGAC :  94374

    357 : {Ar}  >>>> Target Intron 4 >>>>  {g}TyrAspProAspHisValCysA :    365
          {||}            325 bp           {|}||||||||||||||||||||||
          {Ar}++                         ++{g}TyrAspProAspHisValCysA
  94375 : {AG}gt.........................ag{G}TACGACCCTGATCACGTGTGCA :  94726

    366 : snAlaSerAspAsnThrGlyArgTyrAlaTyrSerLysGlnProGluValCysArgTr :    384
          |||||||||||!.!.!!|||||||||:!!||||||||||||||||||||||||!:!||
          snAlaSerAspThrAlaGlyArgTyrSerTyrSerLysGlnProGluValCysLysTr
  94727 : ACGCCTCCGACACCGCCGGGCGCTACTCGTACAGCAAGCAGCCCGAGGTGTGCAAGTG :  94783

    385 : pAsnLeuArgLysLeuAlaGluAlaLeuGlnProGluLeuProLeuGluLeuGlyGlu :    403
          |||||||!:!||||||||||||||||||.!.|||! !|||||||||||||||!.!|||
          pAsnLeuGlnLysLeuAlaGluAlaLeuAspProAlaLeuProLeuGluLeuAlaGlu
  94784 : GAACCTGCAGAAGCTGGCCGAGGCCCTGGACCCCGCGCTGCCCCTCGAGCTGGCCGAG :  94840

    404 : AlaIleLeuAlaGluGluPheAspAlaGluPheGlnArgHisTyrLeuGlnLysMetA :    423
          |||||||||||||||||||||||||||||||||   ||||||||||||||||||||||
          AlaIleLeuAlaGluGluPheAspAlaGluPheGlyArgHisTyrLeuGlnLysMetA
  94841 : GCCATCCTGGCAGAGGAGTTCGACGCCGAGTTCGGCCGGCACTACCTGCAGAAGATGC :  94900

    424 : rgArgLysLeuGlyLeuValGlnValGluLeuGluGluAspGlyAlaLeuValSerLy :    442
          |||||||||||||||||||||||:!!|||! !|||! !|||||||||||||||:!!::
          rgArgLysLeuGlyLeuValGlnMetGluGlnGluGlyAspGlyAlaLeuValAlaAr
  94901 : GCCGGAAGCTGGGCCTCGTGCAGATGGAGCAGGAGGGGGATGGCGCCCTGGTGGCCCG :  94957

    443 : sLeuLeuGluThrMetHisLeuThr{G}  >>>> Target Intron 5 >>>>  { :    451
          !||||||||||||||||||||||||{|}           3982 bp           {
          gLeuLeuGluThrMetHisLeuThr{G}++                         ++{
  94958 : GCTCCTGGAGACCATGCACCTGACC{G}gt.........................ag{ :  98967

    452 : ly}AlaAspPheThrAsnThrPheTyrLeuLeuSerSerPheProValGluLeuGluS :    470
          ||}|||||||||||||||:!!||||||||||||||||||||||||!.!! !! !||||
          ly}AlaAspPheThrAsnSerPheTyrLeuLeuSerSerPheProAlaValProGluS
  98968 : GG}GCTGACTTCACAAACTCCTTCTACCTGCTGAGCTCTTTCCCAGCTGTGCCGGAGT :  99023

    471 : erProGlyLeuAlaGluPheLeuAlaArgLeuMetGluGlnCysAlaSerLeuGluGl :    489
          |||||! !|||! !||||||||||||  !|||!  ! !||||||||||||||||||||
          erProAspLeuAspGluPheLeuAlaAlaLeuThrAlaGlnCysAlaSerLeuGluGl
  99024 : CCCCAGACCTGGATGAGTTCCTGGCCGCGCTGACTGCACAGTGCGCCTCCCTGGAAGA :  99080

    490 : uLeuArgLeuAlaPheArgProGlnMetAspPro{Ar}  >>>> Target Intron :    501
          ||||||||||||||||||||||||||||||||||{||}            609 bp  
          uLeuArgLeuAlaPheArgProGlnMetAspPro{Ar}++                  
  99081 : GCTGAGGCTCGCCTTCCGACCCCAGATGGATCCC{CG}gt.................. :  99120

    502 :  6 >>>>  {g}GlnLeuSerMetMetLeuMetLeuAlaGlnSerAsnProGlnLeuP :    517
                   {|}|||||||||||||||||||||||||||||||||||||||||||||.
                 ++{g}GlnLeuSerMetMetLeuMetLeuAlaGlnSerAsnProGlnLeuL
  99121 : .......ag{G}CAGCTGTCCATGATGCTCATGCTGGCGCAGTCCAACCCGCAGCTCC :  99773

    518 : heAlaLeuMetGlyThrArgAlaGlyIleAlaArgGluLeuGluArgValGluGlnGl :    536
          !.||||||!!:||||||||||||.!!:!:|||||||||||||||||||||||||||||
          euAlaLeuIleGlyThrArgAlaSerLeuAlaArgGluLeuGluArgValGluGlnGl
  99774 : TGGCGCTCATCGGCACGCGGGCGAGCCTGGCTCGGGAGCTGGAGCGCGTGGAGCAGCA :  99830

    537 : nSerArgLeuGluGlnLeuSerAlaAlaGluLeuGlnSerArgAsnGlnGlyHisTrp :    555
          ||||||||||||||||||||||! !|||||||||!!.|||! !|||::!.!!!.!|||
          nSerArgLeuGluGlnLeuSerGluAlaGluLeuHisSerThrAsnArgSerArgTrp
  99831 : GTCGCGGCTGGAGCAGCTGAGCGAGGCCGAGCTGCACAGCACGAACAGGAGCCGCTGG :  99887

    556 : AlaAspTrpLeuGlnAlaTyr{Ar}  >>>> Target Intron 7 >>>>  {g}A :    564
          |||   ||||||!!.! !|||{||}            89 bp            {|}|
          AlaThrTrpLeuHisAspTyr{Ar}++                         ++{g}A
  99888 : GCCACGTGGCTCCACGACTAC{AG}gt.........................ag{A}G : 100003

    565 : laArgLeuAspLysAspLeuGluGlyAlaGlyAspAlaAlaAlaTrpGlnAlaGluHi :    583
          ||||||||!!:||||||! !|||!.!::!|||||||||||||||||||||||||||!.
          laArgLeuGluLysAspArgGluAlaSerGlyAspAlaAlaAlaTrpGlnAlaGluAr
 100004 : CCCGGCTGGAGAAGGACCGGGAGGCCAGCGGCGACGCGGCTGCCTGGCAGGCTGAGCG : 100060

    584 : sValArgValMetHisAlaAsnAsnProLysTyrValLeuArgAsnTyrIleAlaGln :    602
          !..!|||||||||!.!||||||||||||||||||||||||||||||||||||||||||
          gThrArgValMetArgAlaAsnAsnProLysTyrValLeuArgAsnTyrIleAlaGln
 100061 : CACACGTGTCATGCGCGCCAACAACCCCAAGTACGTGCTGAGGAACTACATTGCACAG : 100117

    603 : AsnAlaIleGluAlaAlaGluArgGlyAspPheSerGlu  >>>> Target Intro :    616
          ..!||||||||||||||||||!!!|||||||||||||||            88 bp  
          GlyAlaIleGluAlaAlaGluSerGlyAspPheSerGlu+-                 
 100118 : GGCGCCATTGAAGCTGCGGAGAGCGGCGACTTCTCGGAGgc................. : 100161

    617 : n 8 >>>>  ValArgArgValLeuLysLeuLeuGluThrProTyrHisCysGluAla :    631
                    ||||||||||||||||||||||||||||||||||||  ! ! ||||||
                  ++ValArgArgValLeuLysLeuLeuGluThrProTyrGlyGlyGluAla
 100162 : ........agGTGCGGCGGGTGCTGAAGCTGCTGGAGACCCCTTACGGTGGGGAGGCG : 100292

    632 : GlyAlaAlaThrAspAlaGluAlaThrGluAlaAspGlyAla :    645
          ! !||||||  !  !! !! !|||.!!||||||..!||||||
          GluAlaAlaGluProGluValAlaAlaGluAlaSerGlyAla
 100293 : GAGGCTGCCGAGCCCGAGGTGGCCGCGGAGGCCAGCGGGGCG : 100336

vulgar: SPP00000019_1.0 117 645 . SJYR01002254.1:subseq(244194,200000) 81245 100336 + 2244 M 67 201 S 0 2 5 0 2 I 0 10642 3 0 2 S 1 1 M 67 201 S 0 2 5 0 2 I 0 741 3 0 2 S 1 1 M 60 180 5 0 2 I 0 1019 3 0 2 M 43 129 S 0 2 5 0 2 I 0 321 3 0 2 S 1 1 M 93 279 S 0 1 5 0 2 I 0 3978 3 0 2 S 1 2 M 49 147 S 0 2 5 0 2 I 0 605 3 0 2 S 1 1 M 61 183 S 0 2 5 0 2 I 0 85 3 0 2 S 1 1 M 52 156 5 0 2 I 0 84 3 0 2 M 30 90
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2019-11-21
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	gene	81246	100336	2244	+	.	gene_id 1 ; sequence SPP00000019_1.0 ; gene_orientation +
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	cds	81246	81448	.	+	.	
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	exon	81246	81448	.	+	.	insertions 0 ; deletions 0
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice5	81449	81450	.	+	.	intron_id 1 ; splice_site "gt"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	intron	81449	92094	.	+	.	intron_id 1
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice3	92093	92094	.	+	.	intron_id 0 ; splice_site "AG"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	cds	92095	92298	.	+	.	
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	exon	92095	92298	.	+	.	insertions 0 ; deletions 0
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice5	92299	92300	.	+	.	intron_id 2 ; splice_site "GT"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	intron	92299	93043	.	+	.	intron_id 2
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice3	93042	93043	.	+	.	intron_id 1 ; splice_site "AG"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	cds	93044	93224	.	+	.	
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	exon	93044	93224	.	+	.	insertions 0 ; deletions 0
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice5	93225	93226	.	+	.	intron_id 3 ; splice_site "GT"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	intron	93225	94247	.	+	.	intron_id 3
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice3	94246	94247	.	+	.	intron_id 2 ; splice_site "AG"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	cds	94248	94378	.	+	.	
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	exon	94248	94378	.	+	.	insertions 0 ; deletions 0
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice5	94379	94380	.	+	.	intron_id 4 ; splice_site "GT"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	intron	94379	94703	.	+	.	intron_id 4
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice3	94702	94703	.	+	.	intron_id 3 ; splice_site "AG"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	cds	94704	94984	.	+	.	
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	exon	94704	94984	.	+	.	insertions 0 ; deletions 0
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice5	94985	94986	.	+	.	intron_id 5 ; splice_site "GT"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	intron	94985	98966	.	+	.	intron_id 5
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice3	98965	98966	.	+	.	intron_id 4 ; splice_site "AG"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	cds	98967	99117	.	+	.	
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	exon	98967	99117	.	+	.	insertions 0 ; deletions 0
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice5	99118	99119	.	+	.	intron_id 6 ; splice_site "GT"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	intron	99118	99726	.	+	.	intron_id 6
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice3	99725	99726	.	+	.	intron_id 5 ; splice_site "AG"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	cds	99727	99912	.	+	.	
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	exon	99727	99912	.	+	.	insertions 0 ; deletions 0
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice5	99913	99914	.	+	.	intron_id 7 ; splice_site "gt"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	intron	99913	100001	.	+	.	intron_id 7
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice3	100000	100001	.	+	.	intron_id 6 ; splice_site "AG"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	cds	100002	100158	.	+	.	
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	exon	100002	100158	.	+	.	insertions 0 ; deletions 0
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice5	100159	100160	.	+	.	intron_id 8 ; splice_site "GC"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	intron	100159	100246	.	+	.	intron_id 8
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	splice3	100245	100246	.	+	.	intron_id 7 ; splice_site "AG"
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	cds	100247	100336	.	+	.	
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	exon	100247	100336	.	+	.	insertions 0 ; deletions 0
SJYR01002254.1:subseq(244194,200000)	exonerate:protein2genome:local	similarity	81246	100336	2244	+	.	alignment_id 1 ; Query SPP00000019_1.0 ; Align 81246 118 201 ; Align 92096 186 201 ; Align 93045 254 180 ; Align 94248 314 129 ; Align 94705 358 279 ; Align 98969 452 147 ; Align 99728 502 183 ; Align 100003 564 156 ; Align 100247 616 90
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
