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

 Blastx evalue: 4e-30
 Query name: gi|169234774|ref|NP_001108486.1| selenoprotein M precursor [Canis lupus familiaris]
 Query range: 1-142  (total 142)

 Target: /data/www-rg/seblastian_results/664153202/tempfiles/temptarget.fasta
 Chromosome: JAEUCK010003309.1:subseq_1,93924_ Strand: +
 Positions:
 -Exon 1  41530        41649
 -Exon 2  42835        42870
 -Exon 3  43242        43276
 -Exon 4  43606        43684
 -Exon 5  43769        43924

 Redox box: YES

Query   MRLPLPPPPLLLLLAALAAAVTTFRPDWNRLHGLARARVE <---Intron---> TCGGUQLNRLKE <---Intron---> VKAFVTQDIPLY <--
        |||||||||||||||||||||||||||||||||||||||| <   1185bp   > |||||||||||| <   371bp    > |||||||||||| <  
Target  MRLPLPPPPLLLLLAALAAAVTTFRPDWNRLHGLARARVE                TCGGUQLNRLKE                VKAFVTQDIPLY    
        acccccccccccccggcggggaatccgtacccgcgcgcgg                atggtccaccag                gagtgacgactt    
        tgtctcccctttttcctccctcctgcagagtagtcgcgta                cggggatagtaa                tacttcaatcta    
        gccggtggcgggccgacgccccctgccgctgccgcctgag                ctgaaggtcagg                ggctccgcata     
                                                                    *                                       

Query   -Intron---> HNLVMKHLPGADPELVLLGHHYEELE <---Intron---> RIPLSEMTREEINELVQELGFYRKAAPDEAVPPEYLRAPARPAEGA
         329bp    > |||||||||||||||||||||||||| <    84bp    > |||||||||||||||||||||||||||||/|||||||||||||| |
Target              HNLVMKHLPGADPELVLLGHHYEELE                RIPLSEMTREEINELVQELGFYRKAAPDESVPPEYLRAPARPAEDA
                    cacgaacccgggcgcgccgcctggcg                caccagaacggaagcgcgcgttcaggcggtgccgtccgcgacgggg
                    aatttaatcgcacattttgaaaaata                gtctgatcgaataattaatgtagacccaactccaatgcccgccaac
                   tccgagaccagtcaggccgccccaagg                acaccagcgggctgggggcccccgggccattccgcgggccgcaact
                                                                                                            

Query   PDRADL
        ||||||
Target  PDRADL
        cgcggc
        cagcat
        gccttt
              
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 41 ; UGA-SECIS: 332

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = JAEUCK010003309.1:subseq_1,93924_ Strand = + Positions = 43966 - 44039
 Found by:  Infernal (score=14.8) Covels (score=24.34)
 Stem2 length = 9   Apical loop length = 18   Insertion in stem2 = 0, 1
 Free Energy = -17.37

         ..(((((((.......(((((((((((((((................))))))))).))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuugggg-cgggccagg-cCuGAUGuuuuuucaugaccggc
         ..([(((((---....{[[{(({(((((((..................)))))))}.))}]]}..--..-.)))))])..
 target  CCUGGGGAC---AGAAUGAAGCGCUCAGCGUCCCGGGAGCGUCUCCCUCGCUGAGGGGCCGAUGC--CU-CGUCCCAGAG
                         ****           ^^                          ****