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

 Blastx evalue: 2e-75
 Query name: gi|955540076|ref|XP_014651414.1| PREDICTED: phospholipid hydroperoxide glutathione peroxidase, mitochondrial [Ceratotherium simum simum]
 Query range: 52-225  (total 226)

 Target: /data/www-rg/seblastian_results/595054161/tempfiles/temptarget.fasta
 Chromosome: JSZB01061009.1:subseq_4000,100000_ Strand: +
 Positions:
 -Exon 1  51677        51789
 -Exon 2  51870        52014
 -Exon 3  52137        52288
 -Exon 4  52392        52416
 -Exon 5  52541        52600
 -Exon 6  52679        52705

 Redox box: no

Query   RALDLQCAARDDWRCARSMHEFSAKDIDGHMVNLDKYR <---Intron---> GFVCIVTNVASQUGKTAVNYTQLVDLHARYAECGLRILAFPCNQFG
        | | |||||||||| | ||||||||||||||||||||| <    80bp    > |||||||||||||||| |||||||||||||||||||||||||||||
Target  RTLALQCAARDDWRSAHSMHEFSAKDIDGHMVNLDKYR                GFVCIVTNVASQUGKTDVNYTQLVDLHARYAECGLRILAFPCNQFG
        cacgtctggcggtctgctacgttgagaggcagacgatc                gtgtagaaggtctgaaggataccggccgctggtgtcacgtctactg
        gctctagccgaaggccactaatccaatagattataaag                gttgttcatccaggacataacattatacgacaggtgttctcgaatg
        tatcggcgccccgcttccgcgcacgcctgcgtcgcgc                gccgcccccgcgaacaacacctgtccgccactgctggcgcccccgtg
                                                                          *                                 

Query   RQ <---Intron---> EPGSNAEIKEFAAGYNVKFDMFSKICVNGDDAHPLWKWMKAQPKGRGMLGN <---Intron---> AIKWNFTK <---In
        /| <   122bp    > |||||||||||||||||||||/||||||||||||||||||||||||| ||| <   103bp    > |||||||| <   12
Target  KQ                EPGSNAEIKEFAAGYNVKFDMYSKICVNGDDAHPLWKWMKAQPKGRGTLGN                AIKWNFTK       
        ac                gcgaaggaagtgggtagatgataaatgaggggccctataagccagagacga                gaatataa       
        aa                acggacataatccgaatatatagatgtagaacactgagtacacagggctga                ctagatca       
        ag                gagccggcagtctctccgttgccgctgcattccggggggacgcgggccgg                tccagcccg       
                                                                                                            

Query   tron---> FLIDKNGCVVKRYGPMEEPL <---Intron---> VIEKDLPCY
        4bp    > |||||||||||||||||||| <    78bp    > ||||||||/
Target           FLIDKNGCVVKRYGPMEEPL                VIEKDLPCH
                 tcagaagtggactgcaggcc                gagagcctc
                 tttaaaggttagagctaact                ttaaatcga
                 ccccgcctggggtgcgagtg                gaggcgccc
                                                              
 Sequence until next stop: 
TTCTAG
 F  * 

 Distance CDS-SECIS: 66 ; UGA-SECIS: 435

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = JSZB01061009.1:subseq_4000,100000_ Strand = + Positions = 52772 - 52845
 Found by:  Infernal (score=29.37) Covels (score=37.11)
 Stem2 length = 9   Apical loop length = 15   Insertion in stem2 = 0, 0
 Free Energy = -12.66

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..({({((((......([[{(((((({(({(...............)}))}))))))}]])----...))))})})..
 target  UCCCCUCCGGCACCCAUGACGGUCUGCCUGGAAACCAGCCUGCUGGUGGGACAGACCCGAG----AACCCGGCGUGCA
                         ****           ^^^                       ****