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

 Blastx evalue: 1e-28
 Query name: gi|260081569|gb|ACX31205.1| deiodinase 1, partial [Ovis aries]
 Query range: 1-146  (total 146)

 Target: /data/www-rg/seblastian_results/65001366/tempfiles/temptarget.fasta
 Chromosome: NW_018338175.1:subseq_1549921,74414_ Strand: +
 Positions:
 -Exon 1  30300        30336
 -Exon 2  37687        37830
 -Exon 3  41904        42103
 -Exon 4  44349        44405

 Redox box: no

Query   SGERCSIWDFMQG <---Intron---> NRPLVLNFGSCTUPSFIFKFDQFKRLIEEFGSVADFLIIYIEEAHASD <---Intron---> GWAFKNN
        ||||||||||||| <   7350bp   > ||||||||||||||||||||||||||||/|||/||||||||||||||| <   4073bp   > |||||||
Target  SGERCSIWDFMQG                NRPLVLNFGSCTUPSFIFKFDQFKRLIEDFGSIADFLIIYIEEAHASD                GWAFKNN
        tggataatgtacg                aactgcatgatatcttatatgctaacaggtgtaggtcaatagggcgtg                gtgtaaa
        cgagggtgatta                gagctttatgggcgcctttataatagttaatgctcattttataacacc                aggctaaa
        aaggcccgccga                acaggggttatccatattcatcacgattatttcaactcctccaaataa                tcgttgcc
                                                 *                                                          

Query   VDIKNHRNLQDRLRAAHLLLDRSPQCPVVVDTMKNQSSSCYAALPERLYVLQEGRILYK <---Intron---> GKPGPWNYHPEEVRAVLEK
        ||||/||||||||||| |||||||||||||||||/|||||||||||||||||||||||| <   2245bp   > ||||||||/||||||||||
Target  VDIKSHRNLQDRLRAARLLLDRSPQCPVVVDTMKDQSSSCYAALPERLYVLQEGRILYK                GKPGPWNYNPEEVRAVLEK
        ggaaaccaccgcccggccccgaacctcggggaaagcaatttggccgcctgccggaacta                gacgctatacgggcggcga
        tatagagataagtgccgtttaggcagctttactaaaggcgacctcagtattaaggttaa                gacgcgaaacaatgcttaa
        gccgtcgtcgccggaccgggcgccgccgggcaggcgccgccgtgaggctgcggcgcgcg                tacttgcctagattttgag
                                                                                                      
 Sequence until next stop: 
CTCCACAGTTAA
 L  H  S  * 

 Distance CDS-SECIS: 869 ; UGA-SECIS: 1229

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = NW_018338175.1:subseq_1549921,74414_ Strand = + Positions = 45275 - 45345
 Found by:  Infernal (score=33.23) Covels (score=27.83)
 Stem2 length = 9   Apical loop length = 12   Insertion in stem2 = 0, 0
 Free Energy = -12.42

         ..(((((((.......(((((((((((((((...............))))))))))))))).........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc
         ...((((((.--....{[[{(({(((((((.........-----...)))))))}))}]]}.....-...))))))...
 target  UUCAUAUUUG--UUUAUGACGGCCACAGCCUAAAGUACA-----CACGGCUGUGACUUGAUUCGAA-AGAAAAUGUUUU
                         ****           ^^^                       ****