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

 Blastx evalue: e-133
 Query name: gi|530891440|gb|AGT55555.1| deiodinase III [Sciaenops ocellatus]
 Query range: 1-261  (total 268)

 Target: /data/www-rg/seblastian_results/652241313/tempfiles/temptarget.fasta
 Chromosome: KV884750.1:subseq_768675,100000_ Strand: +
 Positions:
 -Exon 1  50009        50791

 Redox box: no

Query   MTHDSGGVQMARALKHAALCLMLLPRFLLAAVMLWLLDFLCIRKKVLLKMGERQDSPDDPPVCVSDSNKMFTLESLRAVWYGQKLDFLKSAHLGRAAPNT
        | ||||||||||||||||||||||||||||||||| |||||||||/||||||/ ||||||||||||||||||||||||||||||||||||||||  ||||
Target  MMHDSGGVQMARALKHAALCLMLLPRFLLAAVMLWFLDFLCIRKKMLLKMGEKLDSPDDPPVCVSDSNKMFTLESLRAVWYGQKLDFLKSAHLGHTAPNT
        aacgtgggcagagcacggctcacccctctgggactttgtttaaaaaccaaggacgacggccgtgtgtaaatatgtcaggttgcatgtcatgccgcagcaa
        ttaacggtatcgctaacctgttttcgtttcctttgttattgtgaatttatgaatagcaacctgtcacaattctactgctgagaatattaccatgacccac
        ggcctctcaggggtatacgcgggggcccgtacgagcgtcgccgaagggagagggccgccgggtcccttggccggccgcggccgaactcatgccgctgccc
                                                                                                            

Query   EVMLVQGRRQVRILDCMKGKRPLILNFGSCSUPPFMTRLAAFQRVVSQYADIADFLVVYIEEAHPSDGWVSSDAPYQIPKHRCLEDRLRAAQLMLTEVPG
        ||/||| ||||||||||| |||||||||||||||||||||||||/||||||||||||||||||||||||||||||||| ||||||||||||||||/||||
Target  EVVLVQERRQVRILDCMKEKRPLILNFGSCSUPPFMTRLAAFQRLVSQYADIADFLVVYIEEAHPSDGWVSSDAPYQIRKHRCLEDRLRAAQLMLSEVPG
        gggcgcgcacgcacgtaagaaccacatgatttcctaaccggtcccgactggaggttggtagggcctggtgatggctcacaccttggacaggccactggcg
        attttaaggatgttagtaaagctttatgggcgccttcgtcctagttgaacatcattttataacaccaggtgcaccaatgaaggtaagtgccatttcatcg
        ggggcgggggcgcgctgaggagcttctccccagacggcgggtgccacgcattgctaaatcgggtggccggcgcagtgccgcccggcagactgggccgggg
                                       *                                                                    

Query   SNVVVDNMDNSSNAAYGAYFERLYIVRDERVVYQGGRGPEGYRISELRNWLEQYRNDLVNS
        ||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||
Target  SNVVVDNMDNSSNAAYGAYFERLYIVRDERVVYQGGRGPEGYRISELRNWLEQYRKDLVNS
        aaggggaagattaggtggttgactagaggaggtcggagcggtcatgcaatcgctaagtgat
        gatttaataaccaccagcatagtattgaagttaaggggcagagtcatgagtaaagaattac
        ccaggttgccgcccgcacctgatccggtaaggtgacatagacgtcgcacgggacggtggtc
                                                                     
 Sequence until next stop: 
CATGTGTAG
 H  V  * 

 Distance CDS-SECIS: 359 ; UGA-SECIS: 746

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = KV884750.1:subseq_768675,100000_ Strand = + Positions = 51151 - 51225
 Found by:  Infernal (score=28.49) Covels (score=26.74)
 Stem2 length = 11   Apical loop length = 14   Insertion in stem2 = 0, 1
 Free Energy = -17.94

         ..(((((((.......(((((((((((((((...............))))))))).)))))).........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccagg-cCuGAUGuuu-uuucaugaccggc
         .(([((((((--....{[[((((((((((((.....-.........))))))))).)))]]}.....-.-))))))])).
 target  CUCAGGUGUU--UCUGUGAAGUUCGGUUUUUAAAAG-GCGCAGCCAGAAAACCGACACUGAUGUUUC-U-GACACCGGGA
                         ****           ^^^                        ****