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

 Blastx evalue: e-173
 Query name: gi|942053820|ref|XP_014333626.1| PREDICTED: thyroxine 5-deiodinase [Bos mutus]
 Query range: 1-301  (total 301)

 Target: /data/www-rg/seblastian_results/424928438/tempfiles/temptarget.fasta
 Chromosome: NW_018336842.1:subseq_1682456,60797_ Strand: -
 Positions:
 -Exon 1  30000        30911

 Redox box: no

Query   MSRQAAPRWVVGEGRGA---LGGAATMLRSLLLHSLRLCSQTASCLVLFPRFLGTAFMLWLLDFLCIRKHLLGRRRRGQPEIEVELNSDGEEVPPDDPPV
        | ||||||||||| ||/   |||||||||||||||||||/||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Target  MPRQAAPRWVVGESRGSQGGLGGAATMLRSLLLHSLRLCAQTASCLVLFPRFLGTAFMLWLLDFLCIRKHLLGRRRRGQPETEVELNSDGEEVPPDDPPV
        acccggcctggggaagtcggcggggaacctcccctcactgcagttcgctcctcgagtactccgtctacactcgccccgccgagggcaagggggccggccg
        tcgacccggttgagggcaggtggcccttgctttactgtgcacccgttttcgttgcctttgttattgtgaattggggggacacatatagagaatccaacct
        gtcgccggggggatggcgttggccccggccggtccggcccggcgccgccgccgcgccgcggaccgtccgtagctgcgtggacaggaccccgggccccgtc
                                                                                                            

Query   CVSDDNRLCTLASLRAVWHGQKLDFFKQAHEGGPAPNSEVVLPDGFQNQHILDYARGNRPLVLNFGSCTUPPFMARMSAFQRLVTKYQRDVDFLIIYIEE
        ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Target  CVSDDNRLCTLASLRAVWHGQKLDFFKQAHEGGPAPNSEVVLPDGFQNQHILDYARGNRPLVLNFGSCTUPPFMARMSAFQRLVTKYQRDVDFLIIYIEE
        tgtggacctatgtcaggtcgcatgttacgcgggcgcatgggccggtcaccacgtgcgacccgcatgatatcctagcaagtcccgaatccgggtcaatagg
        gtcaaagtgctcctgctgagaatattaacaaggcccacatttcagtaaaattaacggagctttatgggcgccttcgtgctagttcaaagatattttataa
        cgcccccaccgggggccgccgggtccgggtacgggcctggcgccccgcgccccccaaccgggcccccccaagcggtgcccgcgccgtgctccccccccga
                                                                             *                              

Query   AHPSDGWVTTDSPYSIPQHRSLEDRVSAARVLQQGAPECALVLDTMTNSSSSAYGAYFERLYIIQSGTIMYQGGRGPDGYQVSEVRTWLERYDEQLHGPQ
        ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||/|||||||||||||||/|/||||||||||||/
Target  AHPSDGWVTTDSPYSIPQHRSLEDRVSAARVLQQGAPECALVLDTMTNSSSSAYGAYFERLYIIQSGTVMYQGGRGPDGYQVSELRSWLERYDEQLHGPR
        gcctggtgaagtctaaccccacggcgaggcgcccggcgtgcgcgaaaataatgtggttgcctaacagagatcggcgcggtcgtgccttcgctggcccgcc
        caccaggtccaccagtcaaggtaagtgccgttaagccagctttactcacggccagcatagtattaggcttaaggggcagaatcatgcgtagaaaatagcg
        gctcccgccactctccgacacggcgcccgcaggagtaacccgccggcccccgccccccgcccccgtcctgcgccccctccgccggccgggcttgggccta
                                                                                                            

Query   PRRV
        ||||
Target  PRRV
        cccg
        cggt
        ctag
            
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 619 ; UGA-SECIS: 1021

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = NW_018336842.1:subseq_1682456,60797_ Strand = - Positions = 29380 - 29311
 Found by:  Infernal (score=19.69) Covels (score=23.4)
 Stem2 length = 9   Apical loop length = 17   Insertion in stem2 = 0, 0
 Free Energy = -15.23

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..(({[(((---(...{[[{(((((({(((.................)))}))))))}]]}----..-))))]}))..
 target  GCCCCACUG---CUGAUGACGAGCUGUCUCUAACUGGCCUCGACCACGAGCUGGUUCUGAU----UU-GCAGGAGGCA
                         ****           ^^                        ****