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

 Blastx evalue: 1e-66
 Query name: gi|172045827|sp|Q91XR9.3|GPX42_MOUSE RecName: Full=Phospholipid hydroperoxide glutathione peroxidase, nuclear; AltName: Full=Glutathione peroxidase 4; Short=GPx-4; Short=GSHPx-4 >gi|14971095|gb|AAK74112.1|AF274027_1 phospholipid hydroperoxide glutathione peroxidase [Mus musculus]
 Query range: 1-253  (total 253)

 Target: /data/www-rg/seblastian_results/122351786/tempfiles/temptarget.fasta
 Chromosome: CM004103.1:subseq_78795754,200381_ Strand: +
 Positions:
 -Exon 1  99351        99602
 -Exon 2  99816        99910
 -Exon 3  100002       100146
 -Exon 4  100262       100413
 -Exon 5  102701       102725
 -Exon 6  102816       102875
 -Exon 7  102962       102991

 Redox box: no

Query   MGRAAARKRGRCRQRGGSPRGRRRRGPGRQSPRKRPGPRRRKARARRRRRARPRRMEPIPEPFNPGPLLQEPPQYCNSSEFLGL <---Intron---> 
        |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| <   213bp    > 
Target  MGRAAARKRGRCRQRGGSPRGRRRRGPGRQSPRKRPGPRRRKARARRRRRARPRRMEPIPEPFNPGPLLQEPPQYCNSSEFLGL                
        agcgggcacgctaccggtcagccccgcgccacaaccgcccaagcgcccaagccccagcacgctacgccccgcccttaatgtcgt                
        tggcccgagggggagggccgggggggcggagcgagcgcgggacgcgggggcgcggtactcactacgcttaaccaagagcattgt                
        gccgcccggaccagccacgacgactatacattgacgctgagagcgcctgggctcgggctcatccggtggagtcgcccccgcgcg                
                                                                                                            

Query   CASRDDWRCARSMHEFSAKDIDGHMVCLDKYR <---Intron---> GFVCIVTNVASQUGKTDVNYTQLVDLHARYAECGLRILAFPCNQFGRQ <--
        |||||||||||||||||||||||||||||||| <    91bp    > |||||||||||||||||||||||||||||||||||||||||||||||| <  
Target  CASRDDWRCARSMHEFSAKDIDGHMVCLDKYR                GFVCIVTNVASQUGKTDVNYTQLVDLHARYAECGLRILAFPCNQFGRQ    
        tgtcggtctgctacgttgagaggcagtcgata                gtgtagaaggtctgaaggataccggccgctggtgtcacgtctactgac    
        gccgaagggcgctaatccaatagattgtaaag                gttgttcatccaggacataacattatacgacaggtgttctcgaatgga    
        taccttgctgccgcacacgcccgcgccgtgc                gtcgcccccgcgaacatcacctgactgtcattgttaacgcccccgtggg    
                                                                    *                                       

Query   -Intron---> EPGSNQEIKEFAAGYNVKFDMYSKICVNGDDAHPLWKWMKVQPKGRGMLGN <---Intron---> AIKWNFTK <---Intron--
         115bp    > ||||||||||||||||||||||||||||||||||||||||||||||||||| <   2287bp   > |||||||| <    90bp   
Target              EPGSNQEIKEFAAGYNVKFDMYSKICVNGDDAHPLWKWMKVQPKGRGMLGN                AIKWNFTK             
                    gcgaacgaagtgggtagatgataaatgaggggccctataagccagagacga                gaatataa             
                    acggaaataatccgaatatatagatgtagaacactgagtatacagggttga                ctagatca             
                    gaattaacggtacccccgtcgccgctatgctccaggaggacgcgcgcgga                tccagctcg             
                                                                                                            

Query   -> FLIDKNGCEVKRYGPMEEPQ <---Intron---> VIERDLPCYL
         > |||||||| ||||||||||| <    86bp    > |||/||||||
Target     FLIDKNGCVVKRYGPMEEPQ                VIEKDLPCYL
           tcagaagtggactgcaggcc                gagagccttc
           tttaaaggttagagctaaca                ttaaatcgat
           tcttgcccgggcttcgggcg                gaggcggctc
                                                         
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 63 ; UGA-SECIS: 435

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = CM004103.1:subseq_78795754,200381_ Strand = + Positions = 103055 - 103128
 Found by:  Infernal (score=31.51) Covels (score=35.62)
 Stem2 length = 9   Apical loop length = 15   Insertion in stem2 = 0, 0
 Free Energy = -17.16

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..((({((((......([[((({(((((({(...............)}))))))})))]])..--.--))))})))..
 target  UCCACCCUGGCACUCAUGAAGGUCUGCCUGAAAACCAGCCUGCUGGUGGGGCAGUCCUGAGGA--C--CUGGCGUGCA
                         ****           ^^^                       ****                 