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

 Blastx evalue: 7e-64
 Query name: gi|550822380|ref|NP_001272641.1| phospholipid hydroperoxide glutathione peroxidase, mitochondrial precursor [Capra hircus] >gi|262064802|gb|ACT53163.2| phospholipid hydroperoxide glutathione peroxidase 4 [Capra hircus] >gi|263043513|gb|ACY69862.1| phospholipid hydroperoxide glutathione peroxidase 4 [Capra hircus]
 Query range: 7-200  (total 200)

 Target: /data/www-rg/seblastian_results/941477367/tempfiles/temptarget.fasta
 Chromosome: your_sequence Strand: +
 Positions:
 -Exon 1  48955        49029
 -Exon 2  50000        50094
 -Exon 3  50172        50316
 -Exon 4  50455        50606
 -Exon 5  50718        50742
 -Exon 6  50883        50942
 -Exon 7  51015        51044

 Redox box: no

Query   SRLYRLLKPALLCGALAAPGLASTM <---Intron---> CASRDDWRCARSMHEFSAKDIDGRMVNLDKYR <---Intron---> GHVCIVTNVAS
        ||||||||||||||||||||||||| <   970bp    > |||||||||||||||||||||||||||||||| <    77bp    > |||||||||||
Target  SRLYRLLKPALLCGALAAPGLASTM                CASRDDWRCARSMHEFSAKDIDGRMVNLDKYR                GHVCIVTNVAS
        acctcccacgcctggcggcgcgaaa                tgtcggtctgctacgttgagaggcagacgatc                gcgtagaaggt
        ggtagttaccttggctcccgtcgct                gccgaagggcgctaatccaataggttataaag                gatgttcatcc
        ctgccgcgagaccgtgtgccgcccg                cgccccgcttccgcacacgcccgcgtcgcgc                gccgcccctgcg
                                                                                                            

Query   QUGKTDVNYTQLVDLHARYAECGLRILAFPCNQFGRQ <---Intron---> EPGSNAEIKEFAAGYNVKFDLFSKICVNGDDAHPLWKWMKVQPKGRG
        ||||||||||||||||||||||||||||||||||||| <   138bp    > |||||||||||||||||||||||||||||||||||||||||||||||
Target  QUGKTDVNYTQLVDLHARYAECGLRILAFPCNQFGRQ                EPGSNAEIKEFAAGYNVKFDLFSKICVNGDDAHPLWKWMKVQPKGRG
        ctgaaggataccggccgctggtgtcacgtctactgac                gcgaaggaagtgggtagatgttaaatgaggggccctataagccagag
        aggacataacattatacgacaggtgttctcgaatgga                acggacataatccgaatatattgatgtagaacactgagtatacaggg
        aacgtcacctggccgccaccgttagcgcctccgtggg                gagttggcagcttccccactgccgctatgcccctggaggacgcgggc
         *                                                                                                  

Query   MLGN <---Intron---> AIKWNFTK <---Intron---> FLIDKNGCVVKRYGPMEEPL <---Intron---> VIEKDLPCYL
        |||| <   111bp    > |||||||| <   140bp    > |||||||||||||||||||| <    72bp    > ||||||||||
Target  MLGN                AIKWNFTK                FLIDKNGCVVKRYGPMEEPL                VIEKDLPCYL
        acga                gaatataa                tcagaagtggactgcaggcc                gagagccttc
        ttga                ctagatca                tttaaaggttagagctaact                ttaaatcgat
        gga                cccagcccg                ccttgcctggggttcgagcg                gaggtgaccc
                                                                                                  
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 54 ; UGA-SECIS: 426

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = your_sequence Strand = + Positions = 51099 - 51171
 Found by:  Infernal (score=29.34) Covels (score=36.91)
 Stem2 length = 10   Apical loop length = 14   Insertion in stem2 = 0, 0
 Free Energy = -11.14
 Type = 1

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..({({((((......([[{((((((((({(.....-.........)})))))))))}]])----...))))})})..
 target  CUUCCCCUGGUGCCUAUGAUGGUCUGUCUGAAAACC-AGCCCCUGGUGGGGCAGACCUGAG----AACCUGGCGUGCA
                         ****           ^^^                       ****