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

 Blastx evalue: 3e-22
 Query name: gi|315630398|ref|NP_001186855.1| selenoprotein S [Callithrix jacchus]
 Query range: 25-190  (total 190)

 Target: /data/www-rg/seblastian_results/162401899/tempfiles/temptarget.fasta
 Chromosome: gi|431891658|gb|KB031138.1|:subseq_5021374,66000_ Strand: -
 Positions:
 -Exon 1  17167        17305
 -Exon 2  15030        15136
 -Exon 3  6084         6173
 -Exon 4  5919         5997
 -Exon 5  4261         4343

 Redox box: no

Query   TVGSLLATYGWHIVFSCILLYVVFQKLSTRLRALRQRQLDRAAAAVE <---Intron---> PDVVVKRQEALAAARLKMQEELNAQVEKHKEKLKQ <
        /||||||||||/|||||||||| |||||||||||||||||||||||| <   2030bp   > |||||||||||||||||||||||||||||||||/| <
Target  SVGSLLATYGWYIVFSCILLYVGFQKLSTRLRALRQRQLDRAAAAVE                PDVVVKRQEALAAARLKMQEELNAQVEKHKEKLRQ  
        tggtccgatgttagtatacctggtcactaccagtacaccgcgggggg                cggggaccggtgggccaacggtagcggacagacac  
        ctgcttccaggatttggtttatgtaatccgtgctgagatagcccct                acatttagaactcccgtataaatacataaaaaatga  
        agccggcctcgctccccctccgctggtccgggcggggggcatgctg                atctcaaaagtaattcgagaaaaccatagtggaaag  
                                                                                                            

Query   ---Intron---> LEEEKRRQKIEMWDSMQEGKSYKGNAKKPQ <---Intron---> EEDSPGPSTSSVIPKRKSDRKPLRGGG <---Intron--
           8856bp   > ||||||||||||||||||||||||/|//|| <    86bp    > //||||||||||/|||||||||||||| <   1575bp  
Target                LEEEKRRQKIEMWDSMQEGKSYKGSARRPQ                DDDSPGPSTSSVLPKRKSDRKPLRGGG             
                      cgggaaacaagatgaacggaatagagaacc                gggacgctattgccacatgaacccggg             
                      taaaaggaatatgagtaagagaaggcggca                aaagcgcccccttcagacagactggg              
                      caggagaggtaggccgagaatcaaccagtg                ccccggtgcaatcggggtcagtggaa              
                                                                                                            

Query   -> YNPLSGEGGGTCSWRPGRRGPSSGGUG
         > |||||||||| ||||||||| ||||||
Target     YNPLSGEGGGACSWRPGRRGQSSGGUG
           tacttggggggtttacgcagcttggtg
          gaactcgagggcgcggcggggaccgggg
          tcctgtcaccacccgatacacgcctaac
                                    * 
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 347 ; UGA-SECIS: 350

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = gi|431891658|gb|KB031138.1|:subseq_5021374,66000_ Strand = - Positions = 3913 - 3834
 Found by:  Infernal (score=24.31) Covels (score=34.86)
 Stem2 length = 9   Apical loop length = 17   Insertion in stem2 = 0, 0
 Free Energy = -8.89

         ..(((((((.........(((((((((((((((.................)))))))))))))))........)))))))..
 model   uucggucaugcg--UuaAUGAcGgccuggcccuAAAcC--cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         .(({((({(.........([[((({{(((((((.................)))))))}})))]])..--....)})))})).
 target  GUGACAGGUUGCGUUGAAUGAAGUCUUCCUUGUAAACGGUGAGCCCGCCAGCGAGGAUUACUGAAGC--ACACAGUUGAUGG
                           ****           ^^^                         ****