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

 Blastx evalue: 9e-23
 Query name: gi|315630398|ref|NP_001186855.1| selenoprotein S [Callithrix jacchus]
 Query range: 1-190  (total 190)

 Target: /data/www-rg/seblastian_results/670911921/tempfiles/temptarget.fasta
 Chromosome: JSZB01022157.1:subseq_280000,77852_ Strand: -
 Positions:
 -Exon 1  55528        55603
 -Exon 2  54714        54848
 -Exon 3  52631        52737
 -Exon 4  50045        50134
 -Exon 5  49865        49943
 -Exon 6  48024        48106

 Redox box: no

Query   MEREEEPLSARPALETEGLRFLHVTV <---Intron---> GSLLATYGWHIVFSCILLYVVFQKLSTRLRALRQRQLDRAAAAVE <---Intron--
        |||/ | |||||||||||| |||/|| <   679bp    > |||||||||/||||||||||||||||||||||||||||||||||| <   1976bp  
Target  MERDGEQLSARPALETEGLHFLHITV                GSLLATYGWYIVFSCILLYVVFQKLSTRLRALRQRQLDRAAAAVE             
        agcgggcctgccgcgaggtctccaag                gtccgatgttagtatacctggtcactaccagtccaccgcgggggg             
        tagagaatccgcctacagtattatc                tgcttccaggatttggtttatttaatccgtgctgagatagcccct              
        gggcggggcgggcggagggttgttc                gctggccccgctccccctccgccggcccgggcggggggcatgatg              
                                                                                                            

Query   -> PDVVVKRQEALAAARLKMQEELNAQVEKHKEKLKQ <---Intron---> LEEEKRRQKIEMWDSMQEGKSYKGNAKKPQ <---Intron---> 
         > ||||||||||||||||||||||| |||||||||// <   2496bp   > ||||||||||||||||||||||||||//|| <   101bp    > 
Target     PDVVVKRQEALAAARLKMQEELNTQVEKHKEKLRK                LEEEKRRQKIEMWDSMQEGKSYKGNARRPQ                
           cggggaccggtgggccaacggtaacggacagacaa                cgggaaacaagatgaacggaatagagaacc                
          acatttagaactcccgtataaatacataaaaaatga                taaaaggaatatgagtaagagaagacggca                
          atttttgaggtaattagagaaaataatagtgaaaag                taagagaggtaggccgaaaatcaataagtg                
                                                                                                            

Query   EEDSPGPSTSSVIPKRKSDRKPLRGGG <---Intron---> YNPLSGEGGGTCSWRPGRRGPSSGGUG
        ||/|||||||| ||||||||||||||| <   1758bp   > |||||||||| ||||||||||/|||||
Target  EEESPGPSTSSAIPKRKSDRKPLRGGG                YNPLSGEGGGACSWRPGRRGPTSGGUG
        gggacgctattgacacatgaactcggg                tacctggggggtttacgcagcatggtg
        aaagcgcccccctcagacagactggg                gaactcgagggcgcggcggggcccgggg
        aagttgtttaaccgaaatcagtggat                tcctctgaatacccgatgcacgattaac
                                                                            * 
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 343 ; UGA-SECIS: 346

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = JSZB01022157.1:subseq_280000,77852_ Strand = - Positions = 47680 - 47601
 Found by:  Infernal (score=25.76) Covels (score=42.41)
 Stem2 length = 9   Apical loop length = 17   Insertion in stem2 = 0, 0
 Free Energy = -6.89

         ..(((((((.........(((((((((((((((.................)))))))))))))))........)))))))..
 model   uucggucaugcg--UuaAUGAcGgccuggcccuAAAcC--cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         .(({((({(.........{[[{(({{(((((((.................)))))))}}))}]]}..--....)})))})).
 target  GUGACAGGUUGUGUUGAAUGAUGUCUUCCUUGUAAAUGGUGAACCCACCAGCAAGGAUUACUGAUGC--AGGCAGUUGAUGG
                           ****           ^^^                         ****