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

 Blastx evalue: 0.0
 Query name: gi|379317163|ref|NP_001116121.2| thyroxine 5-deiodinase [Macaca mulatta]
 Query range: 1-304  (total 304)

 Target: /data/www-rg/seblastian_results/407991686/tempfiles/temptarget.fasta
 Chromosome: KN981824.1:subseq_4292146,100797_ Strand: -
 Positions:
 -Exon 1  50000        50911

 Redox box: no

Query   MPSQAASRLVVGEGEGSQGASGPAATMLRSLLLHSLRLCAQTASCLVLFPRFLGTAFMLWLLDFLCIRKHFLGRRRRGQPEPEVELNSEGEEVPPDDPPI
        |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Target  MPSQAASRLVVGEGEGSQGASGPATTMLRSLLLHSLRLCAQTASCLVLFPRFLGTAFMLWLLDFLCIRKHFLGRRRRGQPEPEVELNSEGEEVPPDDPPI
        acacggtctgggggggtcggtgcgaaacctccccttactgcagttcgctcctcgagtactccgtttacactcgccccgccgcgggcaagggggccggcca
        tcgacccgtttgagagcagccgccccttgctttactgtgcacccgttttcgttgcctttgttattgtgaattggggggacacatatagagaatccaacct
        gtcgcgggggcagcggcggtggtaccgcccggtccggcccgccgccgccgccccgccgcgcctcgtccgtcgccccgggcgcaggcctacgggcctcgcc
                                                                                                            

Query   CVSDDNRLCTLASLKAVWHGQKLDFFKQAHEGGPAPNSEVVLPDGFQSQRILDYAQGNRPLVLNFGSCTUPPFMARMSAFQRLVTKYQRDVDFLIIYIEE
        ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Target  CVSDDNRLCTLASLKAVWHGQKLDFFKQAHEGGPAPNSEVVLPDGFQSQRILDYAQGNRPLVLNFGSCTUPPFMARMSAFQRLVTKYQRDVDFLIIYIEE
        tgtggacctacgtcaggtcgcatgttacgcgggcgcatgggccggtcaccacgtgcgacccgcatgatatcctagcaagtcccgaatccgggtcaatagg
        gtcaaagtgctcctactgagaatattaacaaggcccacatttcagtagagttaacagagctttatgggcgccttcgtgctagttcaaagatattttataa
        cgcccccgccgggcggggtcgggtccgggtgctagcccggtgccccgcgcccccgagccggtctcccccaagcggcgcccgcgccgcgccacccccccga
                                                                             *                              

Query   AHPSDGWVTTDSPYIIPQHRSLEDRVSAARVLQQGAPGCALVLDTMANSSSSAYGAYFERLYVIQSGTIMYQGGRGPDGYQVSELRTWLERYDEQLHGAR
        ||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Target  AHPSDGWVTTDSPYIIPQHRSLEDRVSAARVLQQGAPDCALVLDTMANSSSSAYGAYFERLYVIQSGTIMYQGGRGPDGYQVSELRTWLERYDEQLHGAR
        gcctggtgaagtctaaccccacggcgaggagcccggcgtgcgcgaagataatgtggttgcctgacagaaatcggcgcggtcgtgccattgctggcccggc
        caccaggtccaccattcaaggtaagtgccgttaagccagctttactcacggccagcatagtattaggcttaaggggcagaatcatgcgtagaaaatagcg
        gcccccgcctccccccggcgcgacgccatgaggatatcctgccccgcccccgctccccgtctccgtcttgcatctcccccgctggctggacttgagtctg
                                                                                                            

Query   PRRV
        ||||
Target  PRRV
        ccag
        cggt
        cggg
            
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 582 ; UGA-SECIS: 984

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = KN981824.1:subseq_4292146,100797_ Strand = - Positions = 49417 - 49344
 Found by:  Infernal (score=22.74) Covels (score=30.3)
 Stem2 length = 9   Apical loop length = 17   Insertion in stem2 = 0, 0
 Free Energy = -15.35

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         (({(((((........([[{(((((({(((.................)))}))))))}]])----.....)))))}))
 target  GGAGCCCUACUGCUGAUGACGAACUGUCUCUAACUGGUCUUGACCACGAGCUAGUUCUGAA----UUGCAGGGGCCUC
                         ****           ^^                        ****