_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       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/177472404/tempfiles/temptarget.fasta
 Chromosome: SJYR01000065.1:subseq_1995803,100000_ Strand: +
 Positions:
 -Exon 1  300          336
 -Exon 2  11073        11216
 -Exon 3  15285        15484
 -Exon 4  17692        17748

 Redox box: no

Query   SGERCSIWDFMQG <---Intron---> NRPLVLNFGSCTUPSFIFKFDQFKRLIEEFGSVADFLIIYIEEAHASD <---Intron---> GWAFKNN
        ||||||||||||| <  10736bp   > |||||||||||||||||||||||/||||/||||||||||||||||||| <   4068bp   > |||||||
Target  SGERCSIWDFMQG                NRPLVLNFGSCTUPSFIFKFDQFRRLIEDFGSVADFLIIYIEEAHASD                GWAFKNN
        tggataatgtacg                aactgcatgatatcttatatgctaacaggtgtgggtcaatagggcgtg                gtgtaaa
        cgagggtgatta                gagctttatgggcgcctttataatggttaatgctcattttataacacc                aggctaaa
        aaggcctgccga                ccacgggttatccatattcatcacgattatttcaattcctccaaataa                ccgttgcc
                                                 *                                                          

Query   VDIKNHRNLQDRLRAAHLLLDRSPQCPVVVDTMKNQSSSCYAALPERLYVLQEGRILYK <---Intron---> GKPGPWNYHPEEVRAVLEK
        ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| <   2207bp   > |||||||||||||||||||
Target  VDIKNHRNLQDRLRAAHLLLDRSPQCPVVVDTMKNQSSSCYAALPERLYVLQEGRILYK                GKPGPWNYHPEEVRAVLEK
        ggaaaccaccgcccggccccgaacctcggggaaaacaatttggccgcctgccggaacta                gacgctatccgggcggcga
        tataaagataagtgccatttaggcagctttactaaaggcgacctcagtattaaggttaa                gacgcgaaacaatgcttaa
        gccgtcgtcgcctgaccgggcgccgctggacaggcgctgccaggaggctgcggcgcgcg                tatttgcctagattttgag
                                                                                                      
 Sequence until next stop: 
CTCCACAGTTAA
 L  H  S  * 

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

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = SJYR01000065.1:subseq_1995803,100000_ Strand = + Positions = 18618 - 18688
 Found by:  Infernal (score=33.69) Covels (score=24.58)
 Stem2 length = 9   Apical loop length = 12   Insertion in stem2 = 0, 0
 Free Energy = -12.42

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