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

 Blastx evalue: 3e-20
 Query name: gi|1035282574|ref|XP_008334463.2| PREDICTED: selenoprotein M [Cynoglossus semilaevis]
 Query range: 1-136  (total 136)

 Target: /data/www-rg/seblastian_results/251786168/tempfiles/temptarget.fasta
 Chromosome: OMLM01000156.1:subseq_38630,101420_ Strand: +
 Positions:
 -Exon 1  49570        49677
 -Exon 2  50006        50082
 -Exon 3  50363        50441
 -Exon 4  51280        51420

 Redox box: no

Query   MWRLLVLTFTLTVGALEPANNTSAVEEISVIARGKLL <---Intron---> APSVVGUGIKKLPELYHFLMEKWALY <---Intron---> HNLEY
        ||  ||||  ||| | |  |||   ||/ |||||||/ <   328bp    > ||||||| |||/||||/||||/|||| <   280bp    > |||||
Target  MWAFLVLTLALTVWASESKNNTGVDEEL-VIARGKLM                APSVVGUSIKKMPELYNFLMERWALY                HNLEY
        atgttgcacgcagtgtgtaaaagggggc-gagagaca                gcagggttaaaacgctatcagctgtt                catgt
        tgcttttctctctgccacaaacgtaaat-ttcggatt                ccgttggctaatcataatttaggcta                aataa
        ggctagcatccttgaaacaccgattagt-tacatagg                cctgtaacagagtgctttcggagtg                cccggt
                                                                   *                                        

Query   DSSEEKNPRLIFYNDKDEVVK <---Intron---> TVPVKKMKADEISSLLDSLGFYKRSQKGEEVPEEFQHFPLRAPRDEL
        |||||| |||||||/|||||| <   838bp    > ||||||||||||||||||||||||||||||||||||||||| |||||
Target  DSSEEKKPRLIFYNEKDEVVK                TVPVKKMKADEISSLLDSLGFYKRSQKGEEVPEEFQHFPLRTPRDEL
        gttggaacccattagagggga                agcgaaaagggaaactgtcgttaatcaggggcggtcctcccacaggc
        accaaaacgtttaaaaaatta                ctctaatacaatggttactgtaagcaagaatcaataatctgccgaat
        taagggacgcccttagtgtag                tttggagaacacccggtattctggcgagaggaggtgtccgcccgcgg
                                                                                            
 Sequence until next stop: 
TGA
 * 

 Distance CDS-SECIS: 35 ; UGA-SECIS: 311

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = OMLM01000156.1:subseq_38630,101420_ Strand = + Positions = 51456 - 51534
 Found by:  Infernal (score=29.15) Covels (score=21.92)
 Stem2 length = 10   Apical loop length = 22   Insertion in stem2 = 0, 0
 Free Energy = -20.67

         ..(((((((.......(((((((((((((((....................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-----cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         (({(((((..--....([[{((((((((((......................))))))))))}]])..--.....)))))}))
 target  CUCGGUCACA--UUAAUGAUGAGUGGUGCCCCAAGGCCAAAAAUAUAAGCCAGGCACUAUUCUGAGGA--CUCGCUGACCUGG
                         ****            ^^                            ****