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

 Blastx evalue: 1e-17
 Query name: gi|406829589|gb|AFS63887.1| GPX1 [Thamnophis elegans]
 Query range: 1-191  (total 193)

 Target: /data/www-rg/seblastian_results/164637657/tempfiles/temptarget.fasta
 Chromosome: SJPD01000007.1:subseq_914969,102714_ Strand: -
 Positions:
 -Exon 1  52475        52705
 -Exon 2  49997        50338

 Redox box: no

Query   MAGVSRYTLAGMKALQLGTSEPIDLGSLQGKVLLVANVASLUGTTTRDFTQFRELQERFGSKGLTVLAFPSNQFGHQ <---Intron---> ENATNEE
        ||| |   |||     || /||/||||| |/||||/||||||||||||/||| ||| ||| /|  ||||| |||||| <   2136bp   > || ||||
Target  MAGKSLAGLAGQMVRPLGAAEPVDLGSLVGRVLLVSNVASLUGTTTRDYTQFHELQRRFGPEGFAVLAFPCNQFGHQ                ENTTNEE
        aggattggcggcagcccggggcggcgttggcgccgtaggtctgaaacgtactcgcccctgcggtggcgtctactgcc                gaaaagg
        tcgactcgtcgattgctgccactatgcttggttttcatcctggcccgaacataataggtgcagtcttctcgaatgaa                aaccaaa
        ggggggcggggaggggtggggtatgcgggaggggttcgtgcacgtggccggccggggccgtggccgctcgccgcccg                atcctgg
                                                 *                                                          

Query   ILNSLKYVRPGNGYEPNFPVFEKCEVNGEKAHPLFKFLKESLPVPHDDPVSLMTDPKFIIWSPVCRSDIAWNFEKFLIGRDGVPFKRYSRKFETIKMKDD
        ||||||||||| |||||| |||||||||  ||||||||||/|| ||||||||||/|/|||||||||||||||||||||||||||||||||/||||||/||
Target  ILNSLKYVRPGKGYEPNFSVFEKCEVNGANAHPLFKFLKEALPYPHDDPVSLMTNPQFIIWSPVCRSDIAWNFEKFLIGRDGVPFKRYSRRFETIKMQDD
        acatcatgccgagtgcatagtgatggaggagccctatcaggtctccggcgtcaaacctaattcgtctgagtatgatcagcgggctactaactgaaaacgg
        ttactaatgcgagaacatgttaagatagcacacttattaactcacaaactcttcacatttgcctggcatcgataatttggagtctagagggtactataaa
        tgtacgtccacggtgccctgtagtgctaatactccgcgaaagtcactctacggctggcccgttgttttcagctagccttttagtcgtccggtaccgggtt
                                                                                                            

Query   IEKLLQQ
        || ||/|
Target  IEMLLKQ
        agaccac
        tatttaa
        tgggtgg
               
 Sequence until next stop: 
GCCCCCTAG
 A  P  * 


 Distance CDS-SECIS: 517 ; UGA-SECIS: 964

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = SJPD01000007.1:subseq_914969,102714_ Strand = - Positions = 49479 - 49411
 Found by:  Infernal (score=25.93) Covels (score=18.03)
 Stem2 length = 10   Apical loop length = 9   Insertion in stem2 = 1, 0
 Free Energy = -18.2

         ..(((((((.......((((((((((.(((((...............))))))))))))))).........)))))))..
 model   uucggucaugcgUuaAUGAcGgccug-gcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc
         ((((((((((--(...{[[{((((((.((((........--------.))))))))))}]]}.....-.)))))))))))
 target  CAAAAUUUUA--UUAAUGAUGGUGCUUCUUCUAAACAUU--------UGAAGGGCACUUGAUGUACU-UGUAAAAUUUUG
                         ****            ^^^                       ****