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

 Blastx evalue: 1e-36
 Query name: gi|379317170|ref|NP_001243829.1| glutathione peroxidase 3 precursor [Oryctolagus cuniculus]
 Query range: 1-226  (total 226)

 Target: /data/www-rg/seblastian_results/507568270/tempfiles/temptarget.fasta
 Chromosome: gi|431918010|gb|KB030406.1|:subseq_2448469,110000_ Strand: +
 Positions:
 -Exon 1  5223         5306
 -Exon 2  10003        10156
 -Exon 3  11338        11455
 -Exon 4  11867        11966
 -Exon 5  12365        12583

 Redox box: no

Query   MARLLRASCLLSLLLAGFVPPGRGQEKSK <---Intron---> TDCHGGVSGTIYEYGALTIDGEEYIPFKQYAGKYVLFVNVATYUGLTGQYVE <-
        || |||||||||||||||||  ||| ||| <   4696bp   >  ||| |/|||||/|||||||||||||||||||||||||||||||||||||/| < 
Target  MAWLLRASCLLSLLLAGFVPLSRGQ-KSK                VDCHAGMSGTIYDYGALTIDGEEYIPFKQYAGKYVLFVNVATYUGLTGQYIE   
        agtcccgttcctcccggtgccacgc-ata                ggtcggaagaatgtggcaaggggtactactggatgctgaggattgcagctag   
        tcgttgccgttctttcgttctggga-aca                tagacgtggctaaagctctagaaatctaaacgaattttatccaggtcgaat    
        gcggcgacctctgcgccccgacggg-ggg                gccctcgtccccctacccccggaccccggttcaccctccgcccacgacgct    
                                                                                                *           

Query   --Intron---> LNALQEELAPFGLVILGFPCNQFGKQEPGENSEILPALK <---Intron---> YVRPGGGFVPNFQLFEKGDVNGDKEQKVYTFL
          1181bp   > ||||||||||||||/||||||||||||||/|||||| /| <   411bp    > ||||||||||||||||||||||/|||| ||||
Target               LNALQEELAPFGLVVLGFPCNQFGKQEPGDNSEILPGIK                YVRPGGGFVPNFQLFEKGDVNGEKEQKFYTFL
                     cagccggcgctgcggcgtctactgacgcggatgaccgaa                tgacgggtgcatcctgagggaggagcattatc
                    atactaaatcctgttttgtcgaatgaaacgaacattcgta                atgcgggttcatattaagatagaaaaatactt
                    agtaagagtaattgctgcccccacaaggaaccggcatcc                gcgagtgcccttcaccgaatgcggagggccgcg
                                                                                                            

Query   K <---Intron---> NSCPPTSELLGSPNRLFWEPMKMHDVRWNFEKFLVGPDGVPIMRWYHRATVSNVKMDILAYMRRQAAMGAKGK
        | <   398bp    > ||| |||/|||||| ||||||| ||/|||||||||||||/|||||/|| ||||||||||||||||||/| /||
Target  K                NSCLPTSDLLGSPNSLFWEPMKNHDIRWNFEKFLVGPDGIPIMRWHHRTTVSNVKMDILAYMRRQAALGVRGK
        a                attccatgccgtcaacttgcaaacgactatgatcggcggacaactcccaagaagaagacgtaaccggcggaga
        a                acgtcccattgccagttgactaaaatggataatttgcagtcttggaagcctgatatattcatggacctgtgga
        g                cctcccgtcgcatccccgacggcttccgctggcggaactaccgcgccgccccccggccgccggggacggcggg
                                                                                                  
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 647 ; UGA-SECIS: 1106

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = gi|431918010|gb|KB030406.1|:subseq_2448469,110000_ Strand = + Positions = 13231 - 13306
 Found by:  Infernal (score=21.27) Covels (score=29.38)
 Stem2 length = 9   Apical loop length = 13   Insertion in stem2 = 0, 0
 Free Energy = -17.78

         ..(((((((.......(((((((((((((((...............)))))))))))))))...........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu--u-uuucaugaccggc
         (({(((([(.--....([[((({(((({(((.....--........)))}))))})))]]).......-...)]))))}))
 target  GGGUGGCAUC--UCCAUGAGGGAGGGGCCCGAAGCC--CUUGUGGGCGGACCUCCCCUGAGACUGUCU-GAAGGGCCAGCC
                         ****           ^^                        ****