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

 Blastx evalue: 3e-07
 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/277373197/tempfiles/temptarget.fasta
 Chromosome: JACSYO010002146.1:subseq_1073108,100000_ Strand: -
 Positions:
 -Exon 1  51848        51955
 -Exon 2  51537        51613
 -Exon 3  51186        51264
 -Exon 4  50000        50140

 Redox box: no

Query   MWRLLVLTFTLTVGALEPANNTSAVEEISVIARGKLL <---Intron---> APSVVGUGIKKLPELYHFLMEKWALY <---Intron---> HNLEY
        ||  ||||| | | | /  || /||||   ||||||| <   234bp    > |||||||||||/|||/|||/|/|||| <   272bp    > |||||
Target  MWAFLVLTFALAVSASD-TNNDTAVEEKLDIARGKLL                APSVVGUGIKKMPELHHFLLERWALY                HNLEY
        atgttgcatgcggagtg-aaagaggggacgagagacc                gcagggtgaaaacgccctccgctgtt                cacgt
        tgcttttctctctgcca-caaacctaaatatcggatt                ccgttgggtaatcataatttaggcta                aataa
        ggccggcttcctccaac-ccccagcaggctccatagg                tctgcaacagagcgcttcaggcgta                cccgac
                                                                   *                                        

Query   DSSEEKNPRLIFYNDKDEVVK <---Intron---> TVPVKKMKADEISSLLDSLGFYKRSQKGEEVPEEFQHFPLRAPRDEL
        ||||||/|||||||/|||||| <   1045bp   > |||||||||/||||||||||||||||||||||||||||||| |||||
Target  DSSEEKDPRLIFYNEKDEVVK                TVPVKKMKAEEISSLLDSLGFYKRSQKGEEVPEEFQHFPLRPPRDEL
        gttggagcccattagagggga                agcgaaaagggaaattgtcgttaatcaggggcggtcctcccccaggc
        accaaaacgtttaaaaaatta                ctctaatacaatggttactgtaagcaagaatcaataatctgccgaat
        cgggggtctgactcagcgtag                ttcggaggaggcccggcagtccggcgagaggaggcgtccgcccgcgg
                                                                                            
 Sequence until next stop: 
TGA
 * 

 Distance CDS-SECIS: 28 ; UGA-SECIS: 304

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = JACSYO010002146.1:subseq_1073108,100000_ Strand = - Positions = 49971 - 49879
 Found by:  Infernal (score=22.66) Covels (score=20.9)
 Stem2 length = 10   Apical loop length = 22   Insertion in stem2 = 0, 0
 Free Energy = -26.75

         ..(((((((.............((((((((((.(((((..................))))).)))))))))).............)))))))..
 model   uucggucaugcg------UuaAUGAcGgccug-gcccuAAAcC---cuuuuuggggcgggc-caggcCuGAUGuu----u-uuucaugaccggc
         .(((((((((............([[{(((((([(((......................)))]))))))}]]).........-..))))))))).
 target  ACUGCACCCGCGGUCACAUUAAUGACGAGUGGGGCCCCAAGGCCAAAACGAUAGGCCAGGCACCAUUCCGAGGACUCGCUG-GCUGGGUGCAGC
                               ****            ^^                            ****