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

 Blastx evalue: 2e-36
 Query name: gi|908503296|ref|XP_013130818.1| PREDICTED: selenoprotein M-like [Oreochromis niloticus] >gi|908503300|ref|XP_013130819.1| PREDICTED: selenoprotein M-like [Oreochromis niloticus] >gi|908503304|ref|XP_013130820.1| PREDICTED: selenoprotein M-like [Oreochromis niloticus] >gi|908503308|ref|XP_013130821.1| PREDICTED: selenoprotein M-like [Oreochromis niloticus]
 Query range: 1-158  (total 158)

 Target: /data/www-rg/seblastian_results/898040188/tempfiles/temptarget.fasta
 Chromosome: OMLM01020340.1:subseq_21552,101485_ Strand: +
 Positions:
 -Exon 1  48979        49074
 -Exon 2  49801        49836
 -Exon 3  50003        50037
 -Exon 4  50138        50216
 -Exon 5  51348        51575

 Redox box: YES

Query   MWLIVLASLFHCASAYDVDLKKLEGLARARVE <---Intron---> TCGGUQLNRLRE <---Intron---> VKAFVVQDIPLY <---Intron-
        |||||||/ ||| ||||||||||/|||/|/|| <   726bp    > |||||||||||| <   166bp    > |||||||||||| <   100bp  
Target  MWLIVLATFFHCYSAYDVDLKKLDGLAKAKVE                TCGGUQLNRLRE                VKAFVVQDIPLY            
        atcagtgattctttgtgggcaacggcgagagg                atggtccaacag                gagtggcgacct            
        tgttttccttagaccaatataatagtcacata                cggggatagtga                tactttaatcta            
        gggcggctttcccgcctgtggagcggaagggg                gttaaggcgcag                cactgcgcttt             
                                                            *                                               

Query   --> HNLVMKHIPGADPELVLLNHYYEELD <---Intron---> RVALSDMTRSEINELLGKLGFYKKAQAEDEVPEEFRFSPAKDSPFKNEPAHQPS
          > |||||||||||||||||||||||||| <   1131bp   > |/|||||||||||||||||||||||| |||||||||||||||||||/|  |/||
Target      HNLVMKHIPGADPELVLLNHYYEELD                RIALSDMTRSEINELLGKLGFYKKAQPEDEVPEEFRFSPAKDSPFKDESTHKPS
            cacgaacacgggcgcgccacttggcg                cagctgaactgaagccgacgttaagccggggcggtcttcgagactaggtacact
            aatttaatcgcacattttaaaaaata                gtctcatcgcataattgatgtaaacacaaatcaatgtcccaagctaaaccaacc
           ctcgggacttgtctgtccgctctaatt                gtcgtcgcctgctggggagtccggtatgcgaaggtccttaaccgtatgaacatc
                                                                                                            

Query   SSSIATESASSEPSAEVKHTDL
        /||/|||/ | ||||||/||||
Target  ASSLATENTSPEPSAEVEHTDL
        gttcgagaatcgcaggggcagc
        ccctccaacccacgcataacat
        ttctcagtcctgctaaagctta
                              
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 331 ; UGA-SECIS: 694

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = OMLM01020340.1:subseq_21552,101485_ Strand = + Positions = 51907 - 51981
 Found by:  Infernal (score=25.92) Covels (score=23.91)
 Stem2 length = 9   Apical loop length = 15   Insertion in stem2 = 0, 0
 Free Energy = -17.9

         ..(((((((.......(((((((((((((((...............)))))))))))))))..........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc
         .(([((({(.--....{[[(((({((((((......--.........))))))}))))]]}......-...)})))])).
 target  ACUGUGAAAC--UGAAUGAAGCCCCAGGCUCAAAAU--CGUCUGACUGGCCUGAGGCUGAUGCAACA-UGUUCUCAAGGG
                         ****           ^^^                       ****