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

 Blastx evalue: 7e-12
 Query name: gi|315113844|ref|NP_001186679.1| selenoprotein S [Taeniopygia guttata]
 Query range: 26-189  (total 189)

 Target: /data/www-rg/seblastian_results/823841344/tempfiles/temptarget.fasta
 Chromosome: SJPD01000057.1:subseq_5530804,101735_ Strand: -
 Positions:
 -Exon 1  51740        51869
 -Exon 2  49893        50005
 -Exon 3  49205        49318
 -Exon 4  46329        46463

 Redox box: no

Query   VGSVLSGYGWYVLLAAVAVYLLVQKVSRSLAARPGGRPGAAEAA <---Intron---> EEPDVVVRRQEALAAARLRMQEELNAQAEKYKEKQRQ <-
        |||  | ||||/|   /|//||||////|                <   1734bp   >  ||| |||||||| |||/||||||||||||//||||/ < 
Target  VGSFFSEYGWYILFGLIAIFLLVQRLAKSFRGTSRSHLDTTAVG                LEPDAVVRRQEALLAARMRMQEELNAQAEKFREKQRK   
        ggttttgtgttactgcagatccgcacgaatcgaaatctgaaggg                tgcggggaccggccggcaaacggtagcggatagacaa   
        tgcttcaaggatttgttctttttagtcagtggcggcataccct                gtacacttggaacttccgtgtaaatacacaatgaaaga   
        gcaccaacagcctcccttttgtgagtcgctacccgctgcgatt                aaagttgtaaaatgttctgaggaagtaataacagaggg   
                                                                                                            

Query   --Intron---> LEEERRRQKIVMWESMQEGKSYKGNLKLNQEVESAASS <---Intron---> ASAVPKSKPNKKPLRGGGYNPLSGEGGGTCSWR
          574bp    > ||||/|/||| ||||||||||||   / ||   |     <   2741bp   >  /| | /   |      ||||||||||||||||
Target               LEEEKRKQKIAMWESMQEGKSYKETFQQNQVSLSGQGM                LTAPPSNHVMKFFSFVSGYNPLSGEGGGTCSWR
                     cgggaaacaagatgaacggaatagatccacgactgcga                cagccaacgaattttgtgtacctgggggatttc
                     taaaagaaatctgagtaagagaaactaaaatgtcgagt                tccccgaattattcttcgaactcgagggcgcgg
                     taaagaaaaatggacgaataccggtcagcggccaggag                cttcgctccggcctccattctgtaactgttaga
                                                                                                            

Query   PGRRGPSAGGUG
        |||||||/||||
Target  PGRRGPSSGGUG
        cgccgcttggtg
        cggggcccgggg
        aacacccctaac
                  * 
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 1140 ; UGA-SECIS: 1143

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = SJPD01000057.1:subseq_5530804,101735_ Strand = - Positions = 45188 - 45113
 Found by:  Infernal (score=13.0) Covels (score=27.12)
 Stem2 length = 8   Apical loop length = 21   Insertion in stem2 = 0, 0
 Free Energy = -13.1

         ..(((((((.......(((((((((((((((.................))))))))))))))).........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC--cuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc
         ..({{({[(---((..([[({((((((((.....................))))))))})]]).....-)-))]})}})..
 target  AAGCAGCAU---GGAAUGAAAUGGUCCUUCUAAAUGGCGAACUUGUCACUGAGGACCACUGAAGCUAG-C-CAGCCACUGG
                         ****           ^^^                         ****