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

 Blastx evalue: e-161
 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/256962673/tempfiles/temptarget.fasta
 Chromosome: KV884701.1:subseq_3433220,100000_ Strand: +
 Positions:
 -Exon 1  49988        50770

 Redox box: no

Query   MNTIKAXKNAIVCLVLLPRFLVAAVMFWLLDFICIRKRVFFRMKEQEGDAIDPPVCISDSNRLFSLESLKAVWHGHKLDFLKAAHLGHGAPNTEVVQLQD
        |||||| |||/||||||||||| ||/ |||||/||||||| ||| |||||||| /||||||||||||||||||||||||||||||||| |||||||||/|
Target  MNTIKAIKNAVVCLVLLPRFLVVAVILWLLDFLCIRKRVFLRMKAQEGDAIDPSLCISDSNRLFSLESLKAVWHGHKLDFLKAAHLGHRAPNTEVVQLED
        aaaaagaaagggtcgcccctcggggattccgtttaaaagtcaaagcggggagctctatgtacctacgtcaggtcgcacgtcaggccgcagcaagggccgg
        tactactaacttgttttcgttttctttgttattgtgagtttgtacaagactacctgtcacagttgtactactgagaatattaccatgagccacattataa
        gtttattataaccgcggcttggaacaggatctacagagtcaggggggctccttcccagccttcccggccatggcctagcttaagtcacagcccattgggt
                                                                                                            

Query   QRRSRILDYVKDKRPLILNFGSCTUPPFMARLKAFQGVVQQNADIADSVVVYIEEAHPSDGWMSTDAPYQIPKHRCLEDRLNAAQLMRLEVPGCLLVVDS
        /|||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||/| ||
Target  KRRSRILDYAKDKRPLILNFGSCTUPPFMARLKAFQGVVQQNADIADSVVVYIEEAHPSDGWMSTDAPYQIPKHRCLEDRLNAAQLMHLEVPGCLVVADS
        aacacacgtgagaaccacatgatatcctagccagtcgggccaggaggtgggtagggcctggtaaaggctcacacctcggacaggccaccggcgtcgggga
        aggggttaacaaagctttatgggcgccttcgtactagttaaacatcactttataacaccaggtgcaccaatcaaggtaagtaccattatatcggtttcag
        agcctcttcagcgagtccctccccaagcgttcgtcgatgggtaccactaagccgagctcccggctcgataccacgtggcggctggggcggacccgcggcc
                                *                                                                           

Query   MENSSNAAYGAYFDRLYILQEGKIVYQGGRGPEGYRISELRDWLDQYRGRLEKSNNLVIHV
        ||||||||||||||||||||/||||||||||||||||||||||||||| |||/|/|||| |
Target  MENSSNAAYGAYFDRLYILQDGKIVYQGGRGPEGYRISELRDWLDQYRQRLEQSSNLVIKV
        agattaggtggttgactaccggaagtcggagcggtcatgcagtcgctacacgctaacgaag
        taaccaccagcatagtattaagattaaggggcagagtcatgagtaaagagtaacgatttat
        gacccctgcattccgttaggtagatcgtcaatggtgcagtacggtacaaggagcttgttgg
                                                                     
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 352 ; UGA-SECIS: 760

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = KV884701.1:subseq_3433220,100000_ Strand = + Positions = 51123 - 51199
 Found by:  Infernal (score=28.28) Covels (score=25.06)
 Stem2 length = 11   Apical loop length = 16   Insertion in stem2 = 0, 1
 Free Energy = -14.69

         ..(((((((.......(((((((((((((((................))))))))).)))))).........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccagg-cCuGAUGuuu-uuucaugaccggc
         ..(((((((.--....{[[((((((((((((................))))))))).)))]]}.....-.-.)))))))..
 target  CGUCAGUAUU--GUCGUGAAGUUCGGUUUUUAAACGGAAUGAAUCCAGAAAACCGACACUGAUGUUUU-U-CAUACUGGAG
                         ****           ^^^                         ****