_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       knownSP        |  secis_index:1     SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
_________________________________|______________________|_________________________________________________________________________________

 Blastx evalue: 3e-38
 Query name: gi|224922814|ref|NP_001139295.1| phospholipid hydroperoxide glutathione peroxidase, mitochondrial [Pan troglodytes]
 Query range: 18-234  (total 234)

 Target: /data/www-rg/seblastian_results/468737687/tempfiles/temptarget.fasta
 Chromosome: KN985201.1:subseq_893875,102434_ Strand: +
 Positions:
 -Exon 1  28204        28265
 -Exon 2  49665        49746
 -Exon 3  50003        50097
 -Exon 4  50183        50327
 -Exon 5  50515        50666
 -Exon 6  52097        52121
 -Exon 7  52267        52326
 -Exon 8  52405        52434

 Redox box: no

Query   SRGRRRPRAPRRRKAPACRRR <---Intron---> RARRRRKKPCPRSLRPEIHECPESQDP <---Intron---> CASRDDWRCARSMHEFSAKD
        / |   ||||||  /|   || <  21399bp   > |||||||/|| ||| |||||||||||| <   256bp    > ||||||||||||||||||||
Target  TEGWPDPRAPRRHHSPCASRR                RARRRRKEPCSRSLGPEIHECPESQDP                CASRDDWRCARSMHEFSAKD
        aggtcgccgcacccactgtac                agccccagcttcatgcgacgtcgtcgc                tgtcggtctgctacgttgag
        caggcacgccggaagcgccgg                gcggggaacgcggtgcataagcacaac                gccgaagggcgctaatccaa
        cgcggcagtcgccccctcca                ggggcggggctcccgaggccatcgcgcg                cgcgccgctgccgcgtctgc
                                                                                                            

Query   IDGHMVNLDKYR <---Intron---> GFVCIVTNVASQUGKTEVNYTQLVDLHARYAECGLRILAFPCNQFGKQ <---Intron---> EPGSNEEI
        ||||/||||||| <    85bp    > |||||||||||||||||||||||||||||||||||||||||||||||| <   187bp    > ||||||||
Target  IDGHIVNLDKYR                GFVCIVTNVASQUGKTEVNYTQLVDLHARYAECGLRILAFPCNQFGKQ                EPGSNEEI
        aggcagacgatc                gtgtagaaggtctgaaggataccggtcgctggtgtcacgtctactgac                gcgaagga
        tagattataaag                gttgttcatccaggacataacattatacgacaggtgttctcgaatgaa                acggaaat
        ccgcatcgcgc                ggcgcccccgccgacgcagcctgcccgccaccgttggcgccatcgcggg                gagtcagc
                                                *                                                           

Query   KEFAAGYNVKFDMFSKICVNGDDAHPLWKWMKIQPKGKGILGN <---Intron---> AIKWNFTK <---Intron---> FLIDKNGCVVKRYGPME
        ||||||||||||||||||||||||||||||||||||||| ||| <   1430bp   > |||||||| <   145bp    > |||||||||||||||||
Target  KEFAAGYNVKFDMFSKICVNGDDAHPLWKWMKIQPKGKGTLGN                AIKWNFTK                FLIDKNGCVVKRYGPME
        agtgggtagatgataaatgaggggccctataaaccagagacga                gaatataa                tcagaagtggactgcag
        aatccgaatatattgatgtagaacactgagtatacagagctga                ctagatca                tttaaaggttagagcta
        agccgccccaccgccgccgcgccccgggggggcgcgcgccga                tccggcccg                cctcgcccggggcacgg
                                                                                                            

Query   EPL <---Intron---> VIEKDLPHYF
        ||| <    78bp    > ||||||| ||
Target  EPL                VIEKDLPQYF
        gcc                gagagccctt
        act                ttaaatcaat
        acg                gaggcgcgtc
                                     
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 47 ; UGA-SECIS: 419

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = KN985201.1:subseq_893875,102434_ Strand = + Positions = 52482 - 52561
 Found by:  Infernal (score=27.27) Covels (score=34.62)
 Stem2 length = 8   Apical loop length = 18   Insertion in stem2 = 0, 0
 Free Energy = -7.34

         ..(((((((.............(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcg------UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..([(({((.............([[{(({((((((.......-...........))))))}))}]])..--..-.))}))])..
 target  CAGAGCCUUCCACCGGCACCCAUGACGGCCUGCCUGCAAACC-AGCUCCUGGUGAGGCAGACCCGAAAA--UC-CAGCGUGCAC
                               ****           ^^^                       ****