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

 Blastx evalue: 7e-28
 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: 1-139  (total 158)

 Target: /data/www-rg/seblastian_results/860988145/tempfiles/temptarget.fasta
 Chromosome: SSNR01000071.1:subseq_953845,101050_ Strand: +
 Positions:
 -Exon 1  49025        49120
 -Exon 2  49684        49719
 -Exon 3  49885        49919
 -Exon 4  49999        50077
 -Exon 5  50913        51083

 Redox box: YES

Query   MWLIVLASLFHCASAYDVDLKKLEGLARARVE <---Intron---> TCGGUQLNRLRE <---Intron---> VKAFVVQDIPLY <---Intron-
        |||||| |||   ||||||||||||/|||||| <   563bp    > |||||||||||| <   165bp    > ||||||/||||| <    79bp  
Target  MWLIVLVSLFQLGSAYDVDLKKLEGMARARVE                TCGGUQLNRLRE                VKAFVVEDIPLY            
        atcagtgattccgtgtgggcaacggagagagg                atggtccaacag                gagtggggacct            
        tgtttttgttatgccaatataatagtcgcgta                cggggatagtga                tactttaatcta            
        gggcggccgtgctatttgtgggggggaggggg                attaaggcacag                cattgcgcttg             
                                                            *                                               

Query   --> HNLVMKHIPGADPELVLLNHYYEELD <---Intron---> RVALSDMTRSEINELLGKLGFYKKAQAEDEVPEEFRFSPAKDSPFKNEPAHQPS
          > |||||||||||||||||||||||||| <   835bp    > |/|||||||||||||||||||||||/| /|||||/|||||||||||/|| |/||
Target      HNLVMKHIPGADPELVLLNHYYEELD                RIALSDMTRSEINELLGKLGFYKKAEAGEEVPEEYRFSPAKDSPFKDEPTHKPS
            cacgaacacgggcgcgccacttggcg                cagctgaactgaagccgacgttaagggggggcggtcttcgagactaggcacact
            aatttaatcgcacattttaaaaaata                gtctcatcgcataattgatgtaaacacgaatcaaagtcccaagctaaaccaacc
           ctcggggcttgtttgcccgccttaaat                gctgttgcctattggggagtccgataagggcaggccctacactatacgctcacc
                                                                                                            

Query   SSS
        | /
Target  SEA
        tgg
        cac
        aga
           
 Sequence until next stop: 
GAGGTCAAACACACTGACCTTTAA
 E  V  K  H  T  D  L  * 

 Distance CDS-SECIS: 311 ; UGA-SECIS: 617

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = SSNR01000071.1:subseq_953845,101050_ Strand = + Positions = 51395 - 51478
 Found by:  Infernal (score=24.42) Covels (score=20.23)
 Stem2 length = 9   Apical loop length = 15   Insertion in stem2 = 0, 0
 Free Energy = -20.36

         ..(((((((.............(((((((((((((((...............)))))))))))))))...........)))))))..
 model   uucggucaugcg------UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu--u-uuucaugaccggc
         .({((((((.............{[[(((({((((((......--.........))))))}))))]]}.......-...))))))}).
 target  UCGUACCUGCUGUGAAACUAAAUGAAGCUCCAGGCUCAAAAU--CGCCCGACUGGCCUGAAGCUGACGCCGCUU-GUUCAGGUGGGU
                               ****           ^^^                       ****