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

 Blastx evalue: 2e-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/734503853/tempfiles/temptarget.fasta
 Chromosome: JXSJ01000024.1:subseq_1365230,101519_ Strand: +
 Positions:
 -Exon 1  49581        49688
 -Exon 2  50006        50082
 -Exon 3  50361        50439
 -Exon 4  51379        51519

 Redox box: no

Query   MWRLLVLTFTLTVGALEPANNTSAVEEISVIARGKLL <---Intron---> APSVVGUGIKKLPELYHFLMEKWALY <---Intron---> HNLEY
        ||  ||||  ||| | /  || //|||  |||||||| <   317bp    > |||||||||||/|||/|||||/|||| <   278bp    > |||||
Target  MWPFLVLTLALTVAASD-TNNDTSVEEKLVIARGKLL                APSVVGUGIKKMPELHHFLMERWALY                HNLEY
        atcttgcacgcagggtg-aaagatgggacgagagacc                gcagggtgaaaacgccctcagctgtt                catgt
        tgcttttctctctccca-caaacctaaatttcggatt                ccgttgggtaatcataatttaggcta                aataa
        ggccggcttccttgaac-tcccagtaagttacaaagg                tttgcaacagagtgctttcggcgtg                cccggt
                                                                   *                                        

Query   DSSEEKNPRLIFYNDKDEVVK <---Intron---> TVPVKKMKADEISSLLDSLGFYKRSQKGEEVPEEFQHFPLRAPRDEL
        ||||||||||||||/|||||| <   939bp    > ||||||||||||||||||||||||||||||||||||||||| |||||
Target  DSSEEKNPRLIFYNEKDEVVK                TVPVKKMKADEISSLLDSLGFYKRSQKGEEVPEEFQHFPLRTPRDEL
        gttggaacccattagagggga                agcgaaaagggaaactgtcgttaatcaggggcggtcctcccacaggc
        accaaaacgtttaaaaaatta                ctctaatacaatggttactgtaagcaagaatcaataatctgccgaat
        taggggtctgactcagcgtag                tcaggaggacgcccgacattccggcgagaggaggtgtccgccggcgg
                                                                                            
 Sequence until next stop: 
TGA
 * 

 Distance CDS-SECIS: 30 ; UGA-SECIS: 306

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = JXSJ01000024.1:subseq_1365230,101519_ Strand = + Positions = 51550 - 51633
 Found by:  Infernal (score=24.46) Covels (score=18.13)
 Stem2 length = 10   Apical loop length = 22   Insertion in stem2 = 0, 0
 Free Energy = -16.64

         ..(((((((..........((((((((((.(((((..................))))).))))))))))........)))))))..
 model   uucggucaugcg---UuaAUGAcGgccug-gcccuAAAcC---cuuuuuggggcgggc-caggcCuGAUGuuuuuucaugaccggc
         ..(({((((..........([[{(((((([(((......................)))]))))))}]])..--....))))}))..
 target  UGCACCCAGGCUACAUAAAUGACGAGUGGGGCCCCAAGGCCAAAACGAUAAGCCAGGCACCAUUCUGAGGA--CUCGCUGGCUGGG
                            ****            ^^                            ****