_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       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/36017528/tempfiles/temptarget.fasta
 Chromosome: JAHTZZ010000016.1:subseq_64077433,100341_ Strand: -
 Positions:
 -Exon 1  50005        50041
 -Exon 2  38079        38222
 -Exon 3  34375        34574
 -Exon 4  31661        31717

 Redox box: no

Query   SGERCSIWDFMQG <---Intron---> NRPLVLNFGSCTUPSFIFKFDQFKRLIEEFGSVADFLIIYIEEAHASD <---Intron---> GWAFKNN
        ||||||||||||| <  11782bp   > ||||||||||||||||||||||||||||/||||||||||||||||||| <   3504bp   > |||||||
Target  SGERCSIWDFMQG                NRPLVLNFGSCTUPSFIFKFDQFKRLIEDFGSVADFLIIYIEEAHASD                GWAFKNN
        tggataatgtacg                aactgcatgatatcttatatgctaacaggtgtgggtcaatagggcgtg                gtgtaaa
        cgagggtgatta                gagctttatgggcgcctttataatagttaatgctcattttataacacc                aggctaaa
        aaagcccgccga                ccacgggttatccatattcatcacgattatttcaattcctccaaataa                tcgttgcc
                                                 *                                                          

Query   VDIKNHRNLQDRLRAAHLLLDRSPQCPVVVDTMKNQSSSCYAALPERLYVLQEGRILYK <---Intron---> GKPGPWNYHPEEVRAVLEK
        ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| <   2657bp   > |||||||||||||||||||
Target  VDIKNHRNLQDRLRAAHLLLDRSPQCPVVVDTMKNQSSSCYAALPERLYVLQEGRILYK                GKPGPWNYHPEEVRAVLEK
        ggaaaccaccgcccggccccgaacctcggggaaaacaatttggccgcctgccggaacta                gacgctatccgggcggcga
        tataaagataagtgccatttaggcagctttactaaaggcgacctcagtattaaggttaa                gacgcgaaacaatgcttaa
        gccgtcgtcgccggaccgggcgccgccggacgggcgccgccaagaggccgcggcgcgcg                tatttgcctagattttgag
                                                                                                      
 Sequence until next stop: 
CTCCACAGTTAA
 L  H  S  * 

 Distance CDS-SECIS: 870 ; UGA-SECIS: 1230

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = JAHTZZ010000016.1:subseq_64077433,100341_ Strand = - Positions = 30790 - 30720
 Found by:  Infernal (score=33.75) 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--UUCAUGACGGCCACAGCCUAAAGUACA-----CACGGCUGUGACUUGAUUUGAA-AGAAAAUGUUUU
                         ****           ^^^                       ****