Command line: [exonerate -m p2g --showtargetgff -q seqaahsx/selW1.hs.fa -t w1.hs.subseq.fa]
Hostname: [luke]

C4 Alignment:
------------
         Query: SPP00000030_1.0 # Protein # Selenoprotein W1 (SelW1) # Homo sapiens # Complete
        Target: GL192567.1:subseq(1953481,20208) dna:scaffold scaffold:ailMel1:GL192567.1:1:2021534:1 REF:[revcomp]
         Model: protein2genome:local
     Raw score: 343
   Query range: 0 -> 87
  Target range: 11734 -> 9743

     1 : MetAlaLeuAlaValArgValValTyr{Cy}  >>>> Target Intron 1 >>>>   :    10
         ||||||||||||:!!||||||||||||{||}           1441 bp           
         MetAlaLeuAlaIleArgValValTyr{Cy}++                         --
 11734 : ATGGCCCTCGCCATCCGAGTCGTTTAT{TG}gt.........................gt : 10266

    11 : {s}GlyAlaUnkGlyTyrLysSerLysTyrLeuGlnLeuLysLysLysLeuGluAspGlu :    29
         {|}! !.!!     !  !   |||:!!|||||||||||||||||||||||||||||||||
         {s}ValThrProThrProProSerGlnTyrLeuGlnLeuLysLysLysLeuGluAspGlu
 10265 : {T}GTGACCCCCACACCTCCTTCCCAGTATCTTCAGCTCAAGAAGAAGTTAGAAGATGAG : 10209

    30 : PheProGlyArgLeuAspIle  >>>> Target Intron 2 >>>>  CysGlyGluG :    40
         ||||||||| !!|||||||||            185 bp           ||||||||||
         PheProGlyCysLeuAspIle++                         ++CysGlyGluG
 10208 : TTCCCCGGATGCCTGGACATCgt.........................agTGCGGCGAGG :  9991

    41 : lyThrProGlnAlaThrGlyPhePheGluValMetValAlaGlyLysLeuIleHisSerL :    60
         ||||||||||||||||||||||||||||||||||||||||||||||||||:!!|||||||
         lyThrProGlnAlaThrGlyPhePheGluValMetValAlaGlyLysLeuValHisSerL
  9990 : GGACTCCCCAGGCCACCGGCTTCTTTGAAGTGATGGTAGCCGGGAAGTTGGTTCACTCCA :  9931

    61 : ysLys  >>>> Target Intron 3 >>>>  LysGlyAspGlyTyrValAspThrGl :    70
         |||||            104 bp           !:!|||||||||||||||||||||||
         ysLys++                         ++ArgGlyAspGlyTyrValAspThrGl
  9930 : AGAAGgt.........................agAGAGGTGATGGCTACGTGGACACGGA :  9797

    71 : uSerLysPheLeuLysLeuValAlaAlaIleLysAlaAlaLeuAlaGlnGly :    87
         ||||||||||||||||||||||||||||||||||||||||||||||||||||
         uSerLysPheLeuLysLeuValAlaAlaIleLysAlaAlaLeuAlaGlnGly
  9796 : GAGCAAGTTTCTGAAGCTGGTGGCTGCCATCAAGGCCGCCTTGGCTCAGGGC :  9744

vulgar: SPP00000030_1.0 0 87 . GL192567.1:subseq(1953481,20208) 11734 9743 - 343 M 9 27 S 0 2 5 0 2 I 0 1437 3 0 2 S 1 1 M 26 78 5 0 2 I 0 181 3 0 2 M 25 75 5 0 2 I 0 100 3 0 2 M 26 78
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2012-12-03
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	gene	9744	11734	343	-	.	gene_id 1 ; sequence SPP00000030_1.0 ; gene_orientation +
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	cds	11706	11734	.	-	.	
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	exon	11706	11734	.	-	.	insertions 0 ; deletions 0
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	splice5	11704	11705	.	-	.	intron_id 1 ; splice_site "GT"
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	intron	10265	11705	.	-	.	intron_id 1
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	splice3	10265	10266	.	-	.	intron_id 0 ; splice_site "GT"
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	cds	10186	10264	.	-	.	
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	exon	10186	10264	.	-	.	insertions 0 ; deletions 0
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	splice5	10184	10185	.	-	.	intron_id 2 ; splice_site "GT"
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	intron	10001	10185	.	-	.	intron_id 2
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	splice3	10001	10002	.	-	.	intron_id 1 ; splice_site "AG"
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	cds	9926	10000	.	-	.	
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	exon	9926	10000	.	-	.	insertions 0 ; deletions 0
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	splice5	9924	9925	.	-	.	intron_id 3 ; splice_site "GT"
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	intron	9822	9925	.	-	.	intron_id 3
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	splice3	9822	9823	.	-	.	intron_id 2 ; splice_site "AG"
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	cds	9744	9821	.	-	.	
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	exon	9744	9821	.	-	.	insertions 0 ; deletions 0
GL192567.1:subseq(1953481,20208)	exonerate:protein2genome:local	similarity	9744	11734	343	-	.	alignment_id 1 ; Query SPP00000030_1.0 ; Align 11735 1 27 ; Align 10264 11 78 ; Align 10001 37 75 ; Align 9822 62 78
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis
