Command line: [exonerate -m p2g --showtargetgff -q EIF4A3n/EIF4A3n_U.fa -t EIF4A3n/SUBSEQ/KB228893.1_33_subseq.txt --exhaustive yes]
Hostname: [luke]

C4 Alignment:
------------
         Query: SPP00002927_2.0 # Protein # eukaryotic translation initiation factor 4A3 (EIF4A3) # Human (Homo sapiens)
        Target: KB228893.1:subseq(5299067,26166) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold16, whole genome shotgun sequence
         Model: protein2genome:local
     Raw score: 204
   Query range: 59 -> 372
  Target range: 25065 -> 26094

    60 : LysProSerAlaIleGlnGlnArgAlaIleLysGlnIleIleLysGlyArgAspValIle :    79
         ::!|||!!!.!!:!:|||..!!!!.!!|||   !  :!!:!!:::|||||| !!:!!:!!
         ArgProThrThrValGlnSerSerThrIleProProLeuLeuArgGlyArgHisIleLeu
 25066 : CGGCCTACAACCGTGCAGTCGAGCACCATCCCCCCCCTACTTCGCGGCCGCCACATCCTT : 25123

    80 : AlaGlnSerGlnSerGlyThrGlyLysThrAlaThrPheSerIleSerValLeuGlnCys :    99
         ..!  !:!!:!!!!!|||!:!|||||||||  !  !!:!  !:!! !!:!!|||||| ! 
         CysAlaAlaGluThrGlySerGlyLysThrLeuGlyTyrLeuLeuProLeuLeuGlnArg
 25124 : TGCGCGGCGGAAACCGGCAGTGGCAAGACTCTTGGATACCTGCTACCTCTGCTTCAACGG : 25183

   100 : Leu<-><-><-><-><-><-><->AspIleGlnValArgGluThrGlnAlaLeuIleLeu :   112
         |||                     ...  !...:!!! !!   !!!:!!.!|||:!!|||
         LeuLeuGlyArgProSerLeuAspSerHisSerIleProAlaProArgGlyLeuValLeu
 25184 : CTCTTGGGCCGGCCAAGCCTGGACTCGCACAGTATACCTGCCCCTCGAGGCCTGGTCCTT : 25243

   113 : AlaProThrArgGluLeuAlaValGlnIleGlnLysGlyLeuLeuAlaLeuGlyAspTyr :   132
         !.!|||:!!||||||||||||! !|||:!:!:!   ! !  !! ! !!||||||  !! !
         ValProSerArgGluLeuAlaGluGlnValArgAlaValAlaGlnProLeuGlyIleSer
 25244 : GTGCCTTCGCGAGAATTAGCCGAACAGGTGCGGGCCGTGGCCCAGCCCTTGGGCATCTCC : 25303

   133 : MetAsnValGlnCysHisAlaCysIleGlyGlyThrAsnValGlyGluAspIleArgLys :   152
         :!!..!:!!|||   !..! !      ||||||  !..!:!!.!!..!  !   ! !:!!
         LeuGlyLeuGlnValArgGluLeuGlyGlyGlyHisGlyMetSerArgIleArgLeuGln
 25304 : TTGGGCCTCCAGGTGCGGGAGCTAGGGGGAGGCCATGGCATGAGTAGGATTCGGCTGCAA : 25363

   153 : LeuAspTyrGlyGln<-><->HisValValAlaGlyThrProGlyArgValPheAspMet :   170
         |||..! !   !!         !!|||:!!!.!!.!|||||||||  !:!!!:: !    
         LeuSerLysGlnProProValAspValLeuValAlaThrProGlyAlaLeuTrpLysAla
 25364 : CTGTCCAAACAACCTCCAGTAGATGTACTAGTGGCCACTCCAGGAGCTCTGTGGAAGGCC : 25423

   171 : IleArgArgArgSerLeuArgThrArgAlaIleLysMetLeuValLeuAspGluAlaAsp :   190
         :!:!:! !!!:!  !:!!!!!  !!:!  !:!!...   |||||||||||||||||||||
         LeuLysGlyGlnLeuIleSerLeuLysGlnLeuSerTyrLeuValLeuAspGluAlaAsp
 25424 : CTGAAAGGTCAACTAATCAGCCTGAAGCAGCTCTCCTACTTGGTGTTGGATGAAGCAGAC : 25483

   191 : GluMetLeuAsnLysGlyPheLysGluGlnIleTyrAspValTyr{A}  >>>> Targe :   206
           !:!:|||:!!:!!.!!|||  !|||! !:!: !! !!:!!!  { }            
         ThrLeuLeuAspGluSerPheLeuGluLeuValAspTyrIleLeu{A}--          
 25484 : ACACTATTGGATGAAAGCTTCCTAGAACTAGTGGACTACATCTTG{G}ag.......... : 25534

   207 : t Intron 1 >>>>  {rg}TyrLeuProProAlaThrGlnValValLeuIleSerAla :   219
         39 bp            { !}  !!!!  !|||  !||||||:!!||||||:!:.!!|||
                        ++{sp}ProPheAsnProLysThrGlnLeuValLeuValGlyAla
 25535 : ...............ag{AC}CCCTTCAATCCCAAAACTCAGTTAGTGTTGGTGGGGGCC : 25609

   220 : ThrLeuProHis{G}  >>>> Target Intron 2 >>>>  {lu}IleLeuGluMet :   228
         |||!!!|||.!.{!}            36 bp            {!:}  !|||   !  
         ThrPheProGlu{A}++                         ++{sp}SerLeuThrThr
 25610 : ACATTTCCTGAA{G}gt.........................ag{AC}TCTCTGACCACC : 25672

   229 : ThrAsnLysPheMetThrAspProIleArgIleLeuValLysArgAspGluLeuThrLeu :   248
         ! !!.!!..! !!    ! !!  !|||! !  !! !|||!:!!:!      :!!! !|||
         IleThrSerSerLysLeuHisCysIleMetProHisValArgGlnThrPheMetArgLeu
 25673 : ATCACCAGCTCCAAACTCCACTGCATCATGCCTCATGTTAGACAGACATTTATGAGGCTG : 25732

   249 : GluGlyIleLysGlnPhePheValAlaValGluArgGluGluTrpLysPheAspThrLeu :   268
         :!!|||  !:!!:!! !   !! !  !|||:!!! !   :!!   :!!  !|||! !! !
         LysGlyAlaGluLysValThrGluLeuValGlnIleLeuLys---GlnHisAspArgSer
 25733 : AAGGGAGCAGAGAAGGTGACTGAGTTGGTGCAGATCCTCAAG---CAGCATGACAGATCA : 25789

   269 : CysAspLeuTyrAspThrLeuThrIleThrGlnAlaValIlePheCysAsnThrLysArg :   288
                 !  !  !:!!  !|||:!!         :!!:!:|||||||||!:!...!!!
         GlnArgThrGlyProSerGlyThrVal---------LeuValPheCysAsnSerSerSer
 25790 : CAAAGGACTGGCCCCTCGGGAACTGTT---------CTGGTGTTCTGTAATAGCTCCAGC : 25840

   289 : LysValAspTrpLeuThrGluLysMetArgGluAlaAsnPheThrValSerSerMetHis :   308
         !  |||:!!||||||  ! ! !  :!!  !!!:   ......         !!!:!!!!.
         ThrValAsnTrpLeuGlyTyrIleLeuAspAspHisLysIleGlnHisLeuArgLeuGln
 25841 : ACTGTGAACTGGCTGGGATATATTCTGGATGAccacaaaatccaacacctaAGGCTGCAG : 25900

   309 : GlyAspMetProGlnLysGluArgGluSerIleMetLysGluPheArgSerGlyAlaSer :   328
         |||.!.||||||   ..!  !|||! !.!!|||.!.:!!   |||!:!..!|||:!! !!
         GlyGlnMetProAlaSerMetArgAlaGlyIlePheGlnCysPheGlnGluGlySerArg
 25901 : GGACAAATGCCAGCCTCAATGAGGGCAGGCATCTTCCAGTGCTTCCAGGAGGGCTCCCGA : 25960

   329 : ArgValLeuIleSerThrAspValTrpAlaArgGlyLeuAspValProGlnValSerLeu :   348
           !:!!|||:!!!!!||||||:!!   :!!||||||||||||  ! !!!!.|||..!|||
         AspIleLeuLeuCysThrAspIleAlaSerArgGlyLeuAspSerThrHisValGluLeu
 25961 : GACATACTCCTCTGCACAGACATAGCCTCTCGGGGCCTGGACAGCACCCATGTAGAGCTA : 26020

   349 : IleIleAsnTyrAspLeuProAsnAsnArgGluLeuTyrIleHisArgIleGlyArgSer :   368
         :!!:!!|||||||||!!!|||  !!.!! !:!!  !||||||||||||  !||||||  !
         ValValAsnTyrAspPheProLeuThrLeuGlnAspTyrIleHisArgAlaGlyArgVal
 26021 : GTTGTCAATTATGATTTTCCCCTCACCCTGCAAGACTACATCCACAGAGCAGGTAGGGTG : 26080

   369 : GlyArgTyrGly :   372
         ||||||   |||
         GlyArgValGly
 26081 : GGCCGTGTAGGG : 26094

vulgar: SPP00002927_2.0 59 372 . KB228893.1:subseq(5299067,26166) 25065 26094 + 204 M 41 123 G 0 21 M 57 171 G 0 6 M 48 144 S 0 1 5 0 2 I 0 35 3 0 2 S 1 2 M 17 51 S 0 1 5 0 2 I 0 32 3 0 2 S 1 2 M 38 114 G 1 0 M 14 42 G 3 0 M 92 276
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2015-11-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
KB228893.1:subseq(5299067,26166)	exonerate:protein2genome:local	gene	25066	26094	204	+	.	gene_id 1 ; sequence SPP00002927_2.0 ; gene_orientation +
KB228893.1:subseq(5299067,26166)	exonerate:protein2genome:local	cds	25066	25531	.	+	.	
KB228893.1:subseq(5299067,26166)	exonerate:protein2genome:local	exon	25066	25531	.	+	.	insertions 27 ; deletions 0
KB228893.1:subseq(5299067,26166)	exonerate:protein2genome:local	splice5	25532	25533	.	+	.	intron_id 1 ; splice_site "AG"
KB228893.1:subseq(5299067,26166)	exonerate:protein2genome:local	intron	25532	25570	.	+	.	intron_id 1
KB228893.1:subseq(5299067,26166)	exonerate:protein2genome:local	splice3	25569	25570	.	+	.	intron_id 0 ; splice_site "AG"
KB228893.1:subseq(5299067,26166)	exonerate:protein2genome:local	cds	25571	25624	.	+	.	
KB228893.1:subseq(5299067,26166)	exonerate:protein2genome:local	exon	25571	25624	.	+	.	insertions 0 ; deletions 0
KB228893.1:subseq(5299067,26166)	exonerate:protein2genome:local	splice5	25625	25626	.	+	.	intron_id 2 ; splice_site "GT"
KB228893.1:subseq(5299067,26166)	exonerate:protein2genome:local	intron	25625	25660	.	+	.	intron_id 2
KB228893.1:subseq(5299067,26166)	exonerate:protein2genome:local	splice3	25659	25660	.	+	.	intron_id 1 ; splice_site "AG"
KB228893.1:subseq(5299067,26166)	exonerate:protein2genome:local	cds	25661	26094	.	+	.	
KB228893.1:subseq(5299067,26166)	exonerate:protein2genome:local	exon	25661	26094	.	+	.	insertions 0 ; deletions 4
KB228893.1:subseq(5299067,26166)	exonerate:protein2genome:local	similarity	25066	26094	204	+	.	alignment_id 1 ; Query SPP00002927_2.0 ; Align 25066 60 123 ; Align 25210 101 171 ; Align 25387 158 144 ; Align 25573 207 51 ; Align 25663 225 114 ; Align 25777 264 42 ; Align 25819 281 276
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis