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

 Blastx evalue: e-146
 Query name: gi|171855140|sp|A7YD35.2|IOD3_SPAAU RecName: Full=Thyroxine 5-deiodinase; AltName: Full=5DIII; AltName: Full=DIOIII; AltName: Full=Type 3 DI; AltName: Full=Type III iodothyronine deiodinase >gi|116734194|gb|ABK20156.1| iodothyronine deiodinase 3 [Sparus aurata]
 Query range: 1-267  (total 267)

 Target: /data/www-rg/seblastian_results/335219215/tempfiles/temptarget.fasta
 Chromosome: OMLM01009181.1:subseq_0,69299_ Strand: -
 Positions:
 -Exon 1  18487        19287

 Redox box: no

Query   MHDSGGVQMARALKHAALCLMLLPRFLLAAVMLWLLDFLCIRKKVLLKMGERQDGPDDPPVCVSDSNKMFTLESLRAVWYGQKLDFLKSAHLGRTAPNTE
        |||| ||||||||||||||||||||||||||||||||||||||||||||||/ || ||||||||||||||||||||||||||||||||||||||||||||
Target  MHDSCGVQMARALKHAALCLMLLPRFLLAAVMLWLLDFLCIRKKVLLKMGEKLDGTDDPPVCVSDSNKMFTLESLRAVWYGQKLDFLKSAHLGRTAPNTE
        acgttggcagagcacggctcactcctctgggactccgtttaaaagccaaggacggaggccgtgtgtaaatatgtcaggttgcatgtcatgccgcagcaag
        taacggtatcgctaacctgttttcgtttcctttgttattgtgaatttatgaatagcaacctgtcacaattctactgctgagaatattaccatggcccaca
        gcctttcaggggtatacgtggggcgctgccggagcgttgctgaagggagagggccgtcgggccttttggccggccgcggccgagctcatgccgctgtccg
                                                                                                            

Query   VMLVQERRQVRILDCMKGKRPLILNFGSCSUPPFMTRLAAFQRVVSQYADIADFLVVYIEEAHPSDGWVSSDAPYQIPKHRCLEDRLRAAQLMLAEVPGS
        |/||||||||||||||| |||||||||||||||||||||||||||//||||||||||||||||||||||||||||||||||||||||||||||| |||| 
Target  VVLVQERRQVRILDCMKAKRPLILNFGSCSUPPFMTRLAAFQRVVTKYADIADFLVVYIEEAHPSDGWVSSDAPYQIPKHRCLEDRLRAAQLMLTEVPGG
        ggcgcgcacgcacgtaagaaccacatgatttcctaaccggtccggaatggaggttggtagggcctggtgatggctcacaccttggacaggccacaggcgg
        ttttaaggatgttagtacagctttatgggcgccttcgtcctagttcaacatcattttataacaccaggtgcaccaatcaaggtaagtgccatttcatcgg
        gggcgggggagcgctgaggaacttctccccagacggcgagtgccacgcactgctatatcgggtgtccggcgcggtgccgcccggcagactaggccagctc
                                      *                                                                     

Query   NVVVDNMDNSSNAAYGAYFERLYIVRDERVVYQGGRGPEGYRISELRNWLEQYRNGLVNSQTAVLHV
        ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||| |
Target  NVVVDNMDNSSNAAYGAYFERLYIVRDERVVYQGGRGPEGYRISELRNWLEQYRNDLVNSQTAVLDV
        aggggaagattaggtggttgactagaggcggtcggagcggtcatgcaatcgctaagtgatcaggcgg
        atttaataaccaccagcatagtattgaagttaaggggcagagtcatgagtaaagaattacaccttat
        cgggttgccacccgtacctgatccggtgggttgacatagacgtcgcacgggacgctggtaaagactg
                                                                           
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 394 ; UGA-SECIS: 802

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = OMLM01009181.1:subseq_0,69299_ Strand = - Positions = 18092 - 18020
 Found by:  Infernal (score=29.45) Covels (score=26.74)
 Stem2 length = 11   Apical loop length = 14   Insertion in stem2 = 0, 1
 Free Energy = -17.04

         ..(((((((.......(((((((((((((((...............))))))))).))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccagg-cCuGAUGuuuuuucaugaccggc
         (([((((((---....{[[((((((((((((.....-.........))))))))).)))]]}..--....))))))]))
 target  UCGGGUGUU---UCUGUGAAGUUCGGUUUUUAAAAG-GCGCAGCCAGAAAACCGACACUGAUGU--UUCUGACACCAGG
                         ****           ^^^                        ****