_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       knownSP        |  secis_index:2     SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
_________________________________|______________________|_________________________________________________________________________________

 Blastx evalue: e-171
 Query name: gi|379317163|ref|NP_001116121.2| type III iodothyronine deiodinase [Macaca mulatta]
 Query range: 1-304  (total 304)

 Target: /var/www/seblastian_output/700815893/tempfiles/temptarget.fasta
 Chromosome: gi|511782569|gb|CM001965.1|subseq(79438464,200797) Strand: +
 Positions:
 -Exon 1  99886        100797

 Redox box: no

Query   MPSQAASRLVVGEGEGSQGASGPAATMLRSLLLHSLRLCAQTASCLVLFPRFLGTAFMLWLLDFLCIRKHFLGRRRRGQPEPEVELNSEGEEVPPDDPPI
        ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Target  MPSQAASRLVVGEGEGSQGASGPAATMLRSLLLHSLRLCAQTASCLVLFPRFLGTAFMLWLLDFLCIRKHFLGRRRRGQPEPEVELNSEGEEVPPDDPPI
        acacggtctgggggggtcggtgcggaacctccccttactgcagttcgctcctcgagtactccgtttacactcgccccgccgcgggcaagggggccggcca
        tcgacccgtttgagagcagccgccccttgctttactgtgcacccgttttcgttgcctttgttattgtgaattggggggacacatatagagaatccaacct
        gtcgcgggggcagcggcggtggtaccgcccggtccggcccgccgccgccgccccgccgcgcctcgtccgtcgccccgggcgcaggcctacgggcctcgcc
                                                                                                            

Query   CVSDDNRLCTLASLKAVWHGQKLDFFKQAHEGGPAPNSEVVLPDGFQSQRILDYAQGNRPLVLNFGSCTUPPFMARMSAFQRLVTKYQRDVDFLIIYIEE
        ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Target  CVSDDNRLCTLASLKAVWHGQKLDFFKQAHEGGPAPNSEVVLPDGFQSQRILDYAQGNRPLVLNFGSCTUPPFMARMSAFQRLVTKYQRDVDFLIIYIEE
        tgtggacctacgtcaggtcgcatgttacgcgggcgcatgggccggtcaccacgtgcgacccgcatgatatcctagcaagtcccgaatccgggtcaatagg
        gtcaaagtgctcctactgagaatattaacaaggcccacatttcagtagagttaacagagctttatgggcgccttcgtgctagttcaaagatattttataa
        cgcccccgccgggcggggtcgggtccggtcgctggccgggtgccccgcgcccccgagccggtctcccccaagcggcgcccgcgccgcgccccccccccga
                                                                             *                              

Query   AHPSDGWVTTDSPYIIPQHRSLEDRVSAARVLQQGAPGCALVLDTMANSSSSAYGAYFERLYVIQSGTIMYQGGRGPDGYQVSELRTWLERYDEQLHGAR
        ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Target  AHPSDGWVTTDSPYIIPQHRSLEDRVSAARVLQQGAPGCALVLDTMANSSSSAYGAYFERLYVIQSGTIMYQGGRGPDGYQVSELRTWLERYDEQLHGAR
        gcctggtgaagtctaaccccacggcgaggagcccggcgtgcgcgaagataatgtggttgcctgacagaaatcggcgcggtcgtgccattgctggcccggc
        caccaggtccaccattcaaggtaagtgccgttaagccggctttactcacggccagcatagtattaggcttaaggggcagaatcatgcgtagaaaatagcg
        gcccccgcctccccccgacgcgacgccatgaggacgccctgccccgcccccgctccccgtctccgtcttgcatctcccccgctggctggacttgagtctg
                                                                                                            

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

 Distance CDS-SECIS: 583 ; UGA-SECIS: 985

------- SECIS element -- id:2 -- grade:A ----
 Chromosome = gi|511782569|gb|CM001965.1|subseq(79438464,200797) Strand = + Positions = 101381 - 101454
 Found by:  Infernal (score=24.42) Covels (score=30.3)
 Stem2 length = 9   Apical loop length = 17   Insertion in stem2 = 0, 0
 Free Energy = -17.25

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