Command line: [exonerate -m p2g --showtargetgff -q ELAVL1.fa.txt -t ELAVL1.subseq.txt]
Hostname: [ws116044u]

C4 Alignment:
------------
         Query: SPP00002928_2.0 # Protein # ELAV like RNA binding protein 1 (ELAVL1) # Human 
        Target: JSZB01004296.1:subseq(126807,120000) Manis javanica isolate MP_PG03-UM SCAFFOLD4871, whole genome shotgun sequence
         Model: protein2genome:local
     Raw score: 1100
   Query range: 57 -> 326
  Target range: 24413 -> 67348

    58 : GlyHisSerLeuGlyTyrGlyPheValAsnTyrValThrAlaLysAspAlaGluArgAla :    77
         |||!!.|||||||||||||||||||||||||||:!!  !   ||||||||||||:::|||
         GlyGlnSerLeuGlyTyrGlyPheValAsnTyrIleAspProLysAspAlaGluLysAla
 24414 : GGGCAGAGCTTGGGATATGGCTTTGTGAACTACATTGATcccaaggatgcagagaaagct : 24471

    78 : IleAsnThrLeuAsnGlyLeuArgLeuGlnSerLysThrIleLys  >>>> Target I :    93
         ||||||||||||||||||||||||||||||:::||||||||||||           2548
         IleAsnThrLeuAsnGlyLeuArgLeuGlnThrLysThrIleLys++             
 24472 : aTCAACACCCTGAATGGATTGAGACTtcaaaccaaaacaataaaagt............. : 24521

    94 : ntron 1 >>>>  ValSerTyrAlaArgProSerSerGluValIleLysAspAlaAsnL :   108
         7 bp          ||||||||||||||||||||||||!    !|||!:!||||||||||
                     ++ValSerTyrAlaArgProSerSerAlaSerIleArgAspAlaAsnL
 24522 : ............aggTTTCCTATGCTCGCCCAAGTTCAGCTTCTATCAGAGATGCAAATT : 50051

   109 : euTyrIleSerGlyLeuProArgThrMetThrGlnLysAspValGluAspMetPheSerA :   128
         |||||:!!||||||||||||!:!|||||||||||||||!!::!!|||.!.:!:||||||!
         euTyrValSerGlyLeuProLysThrMetThrGlnLysGluLeuGluGlnLeuPheSerG
 50052 : TATACGTCAGTGGACTTCCAAAAACAATGACCCAGAAGGAGCTGGAACAGCTTTTTTCAC : 50111

   129 : rgPheGlyArgIleIleAsnSerArgValLeuValAspGlnThrThr{G}  >>>> Tar :   144
         :!!:!||||||||||||!.!||||||:!!||||||||||||..!|||{|}          
         lnTyrGlyArgIleIleThrSerArgIleLeuValAspGlnValThr{G}++        
 50112 : AATATGGACGCATTATTACTTCTCGTATTCTTGTCGACCAGGTCACT{G}gt........ : 50162

   145 : get Intron 2 >>>>  {ly}LeuSerArgGlyValAlaPheIleArgPheAspLysA :   157
          3215 bp           {||}:!!||||||||||||!.!|||||||||||||||||||
                          ++{ly}IleSerArgGlyValGlyPheIleArgPheAspLysA
 50163 : .................ag{GC}ATATCAAGGGGTGTAGGGTTTATTCGATTTGACAAGC : 53413

   158 : rgSerGluAlaGluGluAlaIleThrSerPheAsnGlyHisLysProProGlySerSerG :   177
         ||! !||||||||||||||||||! !.!!.!.||||||!!.||||||||||||:!!!!!|
         rgIleGluAlaGluGluAlaIleLysGlyLeuAsnGlyGlnLysProProGlyAlaThrG
 53414 : GGATTGAGGCAGAAGAAGCTATCAAAGGCCTAAATGGCCAGAAACCACCTGGTGCCACAG : 53473

   178 : luProIleThrValLysPheAlaAlaAsnProAsnGlnAsnLysAsnValAlaLeuLeuS :   197
         |||||||||||||||||||||||  !||||||!:!|||!!.!  |||  !|||:!!||||
         luProIleThrValLysPheAlaAsnAsnProSerGlnLysThrAsnGlnAlaIleLeuS
 53474 : AGCCAATCACTGTAAAGTTTGCTAATAATCCAAGCCAAAAAACCAATCAGGCCATCCTTT : 53533

   198 : erGlnLeuTyrHisSerProAlaArgArgPheGlyGlyProValHisHisGlnAlaGlnA :   217
         |||||||||||!!.||||||  !||||||!:!  !||||||:!!  !!!.||||||||||
         erGlnLeuTyrGlnSerProAsnArgArgTyrProGlyProLeuAlaGlnGlnAlaGlnA
 53534 : CGCAGCTGTACCAGTCTCCAAACAGAAGGTATCCAGGACCATTAGCTCAGCAGGCACAGC : 53593

   218 : rgPhe{Ar}  >>>> Target Intron 3 >>>>  {g}PheSerProMetGlyValA :   226
         |||||{||}           13426 bp          {|}||||||||||||  !:!!|
         rgPhe{Ar}++                         ++{g}PheSerProMetThrIleA
 53594 : GTTTT{AG}gt.........................ag{G}TTTTCTCCAATGACCATTG : 67046

   227 : spHisMetSerGlyLeuSerGlyValAsnValProGlyAsnAlaSerSerGlyTrpCysI :   246
         ||   |||!!!.!!|||:!!|||:!!|||:!!||||||:!! !!.!!!!!||||||||||
         spGlyMetThrSerLeuAlaGlyIleAsnIleProGlyHisProGlyThrGlyTrpCysI
 67047 : ATGGAATGACCAGTTTGGCTGGAATTAATATCCCTGGGCACCCAGGAACAGGGTGGTGTA : 67106

   247 : lePheIleTyrAsnLeuGlyGlnAspAlaAspGluGlyIleLeuTrpGlnMetPheGlyP :   266
         |||||:!:|||||||||!.!!  ||||||||||||.!!||||||||||||||||||||||
         lePheValTyrAsnLeuAlaProAspAlaAspGluSerIleLeuTrpGlnMetPheGlyP
 67107 : TTTTTGTGTACAACCTGGCTCCTGACGCAGATGAGAGTATCCTGTGGCAAATGTTTGGGC : 67166

   267 : roPheGlyAlaValThrAsnValLysValIleArgAspPheAsnThrAsnLysCysLysG :   286
         ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
         roPheGlyAlaValThrAsnValLysValIleArgAspPheAsnThrAsnLysCysLysG
 67167 : CTTTTGGAGCTGTCACCAACGTGAAGGTCATCCGTGACTTTAACACCAATAAATGCAAAG : 67226

   287 : lyPheGlyPheValThrMetThrAsnTyrGluGluAlaAlaMetAlaIleAlaSerLeuA :   306
         |||||||||||||||||||||||||||||!!:||||||||||||||||||||||||||||
         lyPheGlyPheValThrMetThrAsnTyrAspGluAlaAlaMetAlaIleAlaSerLeuA
 67227 : GTTTTGGATTTGTGACTATGACAAACTATGATGAGGCTGCCATGGCGATAGCTAGCCTCA : 67286

   307 : snGlyTyrArgLeuGlyAspLysIleLeuGlnValSerPheLysThrAsnLysSerHisL :   326
         ||||||||||||||||||||!:!:!!|||||||||||||||||||||||||||!!!||||
         snGlyTyrArgLeuGlyAspArgValLeuGlnValSerPheLysThrAsnLysThrHisL
 67287 : ATGGATACCGTCTGGGAGACAGAGTCCTGCAGGTCTCCTTTAAGACAAACAAAACGCACA : 67346

   327 : ys :   326
         ||
         ys
 67347 : AA : 67348

vulgar: SPP00002928_2.0 57 326 . JSZB01004296.1:subseq(126807,120000) 24413 67348 + 1100 M 35 105 5 0 2 I 0 25483 3 0 2 M 51 153 S 0 1 5 0 2 I 0 3211 3 0 2 S 1 2 M 74 222 S 0 2 5 0 2 I 0 13422 3 0 2 S 1 1 M 107 321
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2016-11-22
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	gene	24414	67348	1100	+	.	gene_id 1 ; sequence SPP00002928_2.0 ; gene_orientation +
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	cds	24414	24518	.	+	.	
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	exon	24414	24518	.	+	.	insertions 0 ; deletions 0
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	splice5	24519	24520	.	+	.	intron_id 1 ; splice_site "gT"
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	intron	24519	50005	.	+	.	intron_id 1
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	splice3	50004	50005	.	+	.	intron_id 0 ; splice_site "ag"
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	cds	50006	50159	.	+	.	
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	exon	50006	50159	.	+	.	insertions 0 ; deletions 0
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	splice5	50160	50161	.	+	.	intron_id 2 ; splice_site "GT"
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	intron	50160	53374	.	+	.	intron_id 2
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	splice3	53373	53374	.	+	.	intron_id 1 ; splice_site "AG"
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	cds	53375	53600	.	+	.	
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	exon	53375	53600	.	+	.	insertions 0 ; deletions 0
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	splice5	53601	53602	.	+	.	intron_id 3 ; splice_site "GT"
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	intron	53601	67026	.	+	.	intron_id 3
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	splice3	67025	67026	.	+	.	intron_id 2 ; splice_site "AG"
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	cds	67027	67348	.	+	.	
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	exon	67027	67348	.	+	.	insertions 0 ; deletions 0
JSZB01004296.1:subseq(126807,120000)	exonerate:protein2genome:local	similarity	24414	67348	1100	+	.	alignment_id 1 ; Query SPP00002928_2.0 ; Align 24414 58 105 ; Align 50006 93 153 ; Align 53377 145 222 ; Align 67028 220 321
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis