Command line: [/mnt/NFS_UPF/soft/exonerate/exonerate-2.2.0-x86_64/bin/exonerate -m p2g --showtargetgff -q /home/u137251/Desktop/SelM.fa -t genomic_SJYR01000283.1]
Hostname: [am30923-101066u]

C4 Alignment:
------------
         Query: SPP00000017_1.0  Protein  Selenoprotein M (SelM)  Homo sapiens  Complete
        Target: SJYR01000283.1:subseq(647033,200000) Kobus ellipsiprymnus isolate DFW-375 scaffold292_size1023160, whole genome shotgun sequence:[revcomp]
         Model: protein2genome:local
     Raw score: 520
   Query range: 0 -> 145
  Target range: 102468 -> 99999

      1 : MetSerLeuLeuLeuProProLeuAlaLeuLeuLeuLeuLeuAlaAlaLeuValAlaP :     20
          |||  !|||! !|||||||||! ! !!|||||||||||||||||||||:!!       
          MetHisLeuProLeuProProProProLeuLeuLeuLeuLeuAlaAlaVal-------
 102468 : ATGCACCTCCCGCTGCCTCCGCCGCCCTTGCTGCTCCTCCTCGCGGCAGTC------- : 102417

     21 : roAlaThrAlaAlaThrAlaTyrArgProAspTrpAsnArgLeuSerGlyLeuThrAr :     39
            |||.!!|||.!!|||.!!!:!|||||||||||||||||||||..!||||||.!!||
          --AlaAlaAlaThrThrThrPheArgProAspTrpAsnArgLeuGlnGlyLeuAlaAr
 102416 : --GCGGCCGCCACCACCACCTTCCGGCCCGACTGGAACCGTCTACAAGGCCTGGCCCG : 102363

     40 : gAlaArgValGlu  >>>> Target Intron 1 >>>>  ThrCysGlyGlyUnkG :     49
          |||||||||||||           1414 bp           ||||||||||||   |
          gAlaArgValGlu++                         ++ThrCysGlyGly***G
 102362 : AGCCCGGGTAGAGgt.........................agACATGTGGAGGATGAC : 100919

     50 : lnLeuAsnArgLeuLysGlu  >>>> Target Intron 2 >>>>  ValLysAla :     58
          ||||||||||||||||||||            197 bp           |||||||||
          lnLeuAsnArgLeuLysGlu++                         ++ValLysAla
 100918 : AGCTTAATCGCCTGAAGGAGgt.........................agGTGAAGGCC : 100695

     59 : PheValThrGlnAspIleProPhe{Ty}  >>>> Target Intron 3 >>>>  { :     67
          |||||||||||||||||||||.!!{||}            355 bp           {
          PheValThrGlnAspIleProLeu{Ty}++                         ++{
 100694 : TTCGTCACCCAGGACATTCCACTC{TA}gt.........................ag{ : 100311

     68 : r}HisAsnLeuValMetLysHisLeuProGlyAlaAspProGluLeuValLeuLeuGl :     86
          |}||||||||||||||||||||||||||||||||||||||||||||||||||||||||
          r}HisAsnLeuValMetLysHisLeuProGlyAlaAspProGluLeuValLeuLeuGl
 100310 : C}CACAACCTGGTGATGAAACACCTGCCGGGGGCCGACCCAGAGCTCGTGTTGCTGGG : 100256

     87 : yArgArgTyrGluGluLeuGlu  >>>> Target Intron 4 >>>>  ArgIleP :     96
          |!.!|||!:!||||||||||||            77 bp            |||||||
          yHisArgPheGluGluLeuGlu++                         ++ArgIleP
 100255 : CCACCGCTTTGAGGAACTGGAGgt.........................agCGAATTC : 100149

     97 : roLeuSerGluMetThrArgGluGluIleAsnAlaLeuValGlnGluLeuGlyPheTy :    115
          ||||||||!!:|||||||||||||||||||||||||||||||||||||||||||||||
          roLeuSerAspMetThrArgGluGluIleAsnAlaLeuValGlnGluLeuGlyPheTy
 100148 : CACTCAGCGACATGACCCGCGAGGAGATCAACGCGCTGGTGCAGGAGCTCGGCTTCTA : 100092

    116 : rArgLysAlaAlaProAspAlaGlnValProProGluTyrValTrpAlaProAlaLys :    134
          ||||||||||:!!||||||! !!  |||||||||||||||:!! !!|||||||||!:!
          rArgLysAlaSerProAspGluProValProProGluTyrLeuArgAlaProAlaArg
 100091 : CCGCAAGGCGTCGCCCGACGAGCCTGTGCCCCCGGAGTACCTTCGGGCGCCCGCTAGG : 100035

    135 : ProProGluGluThrSerAspHisAlaAspLeu :    145
          ||| !!! !!  .!! !!|||||||||||||||
          ProAlaGlyGlyAlaProAspHisAlaAspLeu
 100034 : CCCGCCGGAGGCGCTCCTGACCACGCAGACCTG : 100000

vulgar: SPP00000017_1.0 0 145 . SJYR01000283.1:subseq(647033,200000) 102468 99999 - 520 M 17 51 G 3 0 M 23 69 5 0 2 I 0 1410 3 0 2 M 12 36 5 0 2 I 0 193 3 0 2 M 11 33 S 0 2 5 0 2 I 0 351 3 0 2 S 1 1 M 26 78 5 0 2 I 0 73 3 0 2 M 52 156
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2019-11-18
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	gene	100000	102468	520	-	.	gene_id 1 ; sequence SPP00000017_1.0 ; gene_orientation +
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	cds	102349	102468	.	-	.	
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	exon	102349	102468	.	-	.	insertions 0 ; deletions 3
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	splice5	102347	102348	.	-	.	intron_id 1 ; splice_site "GT"
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	intron	100935	102348	.	-	.	intron_id 1
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	splice3	100935	100936	.	-	.	intron_id 0 ; splice_site "AG"
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	cds	100899	100934	.	-	.	
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	exon	100899	100934	.	-	.	insertions 0 ; deletions 0
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	splice5	100897	100898	.	-	.	intron_id 2 ; splice_site "GT"
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	intron	100702	100898	.	-	.	intron_id 2
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	splice3	100702	100703	.	-	.	intron_id 1 ; splice_site "AG"
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	cds	100667	100701	.	-	.	
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	exon	100667	100701	.	-	.	insertions 0 ; deletions 0
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	splice5	100665	100666	.	-	.	intron_id 3 ; splice_site "GT"
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	intron	100312	100666	.	-	.	intron_id 3
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	splice3	100312	100313	.	-	.	intron_id 2 ; splice_site "AG"
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	cds	100233	100311	.	-	.	
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	exon	100233	100311	.	-	.	insertions 0 ; deletions 0
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	splice5	100231	100232	.	-	.	intron_id 4 ; splice_site "GT"
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	intron	100156	100232	.	-	.	intron_id 4
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	splice3	100156	100157	.	-	.	intron_id 3 ; splice_site "AG"
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	cds	100000	100155	.	-	.	
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	exon	100000	100155	.	-	.	insertions 0 ; deletions 0
SJYR01000283.1:subseq(647033,200000)	exonerate:protein2genome:local	similarity	100000	102468	520	-	.	alignment_id 1 ; Query SPP00000017_1.0 ; Align 102469 1 51 ; Align 102418 21 69 ; Align 100935 44 36 ; Align 100702 56 33 ; Align 100311 68 78 ; Align 100156 94 156
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
