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

 Blastx evalue: e-159
 Query name: gi|596823321|gb|ABI93489.2| iodothyronine deiodinase type III [Hippoglossus hippoglossus]
 Query range: 1-261  (total 261)

 Target: /data/www-rg/seblastian_results/130278640/tempfiles/temptarget.fasta
 Chromosome: OMLM01012438.1:subseq_27918,100740_ Strand: +
 Positions:
 -Exon 1  49988        50767

 Redox box: no

Query   MNTIKAXKNAIVCLVLLPRFLVAAVMFWLLDFICIRKRVFFRMKEQEGDAIDPPVCISDSNRLFSLESLKAVWHGHKLDFLKAAHLGHGAPNTEVVQLQD
        |||||| ||||||||||||||/||||||||||/|||||||||| ||||||||||/||||||||||||||||||||||||||||||/|||||||||/|| |
Target  MNTIKAIKNAIVCLVLLPRFLMAAVMFWLLDFLCIRKRVFFRM-EQEGDAIDPPLCISDSNRLFSLESLKAVWHGHKLDFLKAAHVGHGAPNTEVIQLGD
        aaaaagaaagagtcgcccctcagggattccgtttaaaagttaa-gcggggagccctatgtacctacgtcaggtcgcacgtcaggcggcggcaaggaccgg
        tactactaacttgttttcgtttcctttgttattgtgagtttgt-aaagactacctgtcacagttgtactactgagaatattaccatgagccacattatga
        gtaaattataactccggtttggattgtgggctacagagtccgg-gagctcctcctcagctttcccggccaaggcctatctgaagttacagattattggat
                                                                                                            

Query   QRRSRILDYVKDKRPLILNFGSCTUPPFMARLKAFQGVVQQNADIADSVVVYIEEAHPSDGWMSTDAPYQIPKHRCLEDRLNAAQLMRLEVPGCLLVVDS
        ||||||||| |/||||||||||||||||||||||||||||/||||||||||||/||||||||/|||||||||||/|||||||||||| |||||||/||||
Target  QRRSRILDYAKEKRPLILNFGSCTUPPFMARLKAFQGVVQENADIADSVVVYIDEAHPSDGWISTDAPYQIPKHQCLEDRLNAAQLMHLEVPGCLVVVDS
        cccacacgtgagaaccacatgatatcctagccagtcgggcgaggaggtgggtagggcctggtaaaggctcacacctcggataggccaccggcgtcgggga
        aggggttaacaaagctttatgggcgccttcgtactagttaaacatcactttataacaccaggtgcaccaatcaaagtaagtaccattatatcggttttag
        ggccaactcagggagtccctccccaagcggttgtcgatgggcacaaccaggcctagcctccgactcgctgccacgtggcggcaggggcgggcccgtggcc
                                *                                                                           

Query   MENSSNAAYGAYFDRLYILQEGKIVYQGGRGPEGYRISELRDWLDQYRGRLEKSNNLVIHV
        |||||//||||/|||||||||||||||| |||||||||||||||| ||  ||||/ |||||
Target  MENSSSSAYGAFFDRLYILQEGKIVYQGDRGPEGYRISELRDWLDHYRQTLEKSSYLVIHV
        agattatgtggttgactaccggaagtcggagcggtcatgcagtcgctacacgatatcgacg
        taaccgccagcttagtattaagattaagaggcagagtcatgagtaaagactaacgatttat
        ggcccctgcattccattagggagatcgtcaatgttccagcacggcccaaggaacttatttg
                                                                     
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 337 ; UGA-SECIS: 745

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = OMLM01012438.1:subseq_27918,100740_ Strand = + Positions = 51105 - 51179
 Found by:  Infernal (score=23.83) Covels (score=19.11)
 Stem2 length = 11   Apical loop length = 16   Insertion in stem2 = 0, 1
 Free Energy = -15.39

         ..(((((((.......(((((((((((((((................))))))))).))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccagg-cCuGAUGuuuuuucaugaccggc
         ((((([(((---(...{[[((((((((((((................))))))))).)))]]}..--...))))])))))
 target  GUCAGGAUU---GUUGUGAAGUUCGGUUUUUAAAUGGGGUGAAUCCAGGGAACCGAUACUGACGU--UUUUAAUACUGGC
                         ****           ^^^                         ****