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

 Blastx evalue: 5e-37
 Query name: gi|914908770|ref|XP_013214376.1| PREDICTED: type I iodothyronine deiodinase [Ictidomys tridecemlineatus] >gi|914908772|ref|XP_013214377.1| PREDICTED: type I iodothyronine deiodinase [Ictidomys tridecemlineatus]
 Query range: 1-249  (total 249)

 Target: /data/www-rg/seblastian_results/858069817/tempfiles/temptarget.fasta
 Chromosome: KZ294227.1:subseq_1826665,66303_ Strand: -
 Positions:
 -Exon 1  40967        41303
 -Exon 2  33115        33258
 -Exon 3  27879        28078
 -Exon 4  25000        25065

 Redox box: no

Query   MGLLRPGLWLKKLWILLLVIVEVAMGKVLMTLFPERATQNILAMGQKTGMTRNPQFSPDNWVPTFFSIQYFWFVLKVRWQRLEDKAELGGLAPNCPVIRL
        ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Target  MGLLRPGLWLKKLWILLLVIVEVAMGKVLMTLFPERATQNILAMGQKTGMTRNPQFSPDNWVPTFFSIQYFWFVLKVRWQRLEDKAELGGLAPNCPVIRL
        agccccgctcaattacttgaggggagagtaactcgagacaatgagcaagaaaaccttcgatgcattaacttttgtagctcccggaggcggcgcatcgacc
        tgttgcgtgtaatgtttttttatctgatttcttcagccaattctgaacgtcgacatccaagtccttgtaatgtttatggagtaaacatggtccagcttgt
        gggcgacagagaagacaggtaggcgcagagagcaaacggtcgcgcggttgcaccacctccgcgcccccgtcgccggctggaggcgtgggtacacctgccc
                                                                                                            

Query   SGEKCNIWDFIQG <---Intron---> NRPLVLNFGSCTUPSFLFKFDQFKRLIEDFSPIADFLIIYIEEAHASD <---Intron---> GWAFKNN
        ||||||||||||| <   7708bp   > |||||||||||||||||||||||||||||||||||||||||||||||| <   5036bp   > |||||||
Target  SGEKCNIWDFIQG                NRPLVLNFGSCTUPSFLFKFDQFKRLIEDFSPIADFLIIYIEEAHASD                GWAFKNN
        tggataatgtacg                aaccgcatgatatcttctatgctaacaggtacaggtcaatagggcgtg                gtgtaaa
        cgaagatgatta                gagctttatgggcgcctttataatagttaatgctcattttataacacc                aggctaaa
        gaggcttgccaa                ccaagggttatccatattcatcacgattacttcaattcccctaaataa                tcgttgtt
                                                 *                                                          

Query   VDIKIHQNLQDRLWAAHMLLAKSPQCPVVVDTMQNQSSQLYAALPERLYVLQEGRILYK <---Intron---> GKPGPWNYHPEEVRAVLEKLLS
        |||||||||/||||||||||||||/|||||||||||||||||||||||||||||||||| <   2813bp   > |||||||||||||||||||| |
Target  VDIKIHQNLEDRLWAAHMLLAKSPKCPVVVDTMQNQSSQLYAALPERLYVLQEGRILYK                GKPGPWNYHPEEVRAVLEKLRS
        ggaaaccacggcctggcaccgaacatcggggaacacaacctggccgactgccggaacta                gacgctatccgggcggcgacca
        tatataaataagtgccatttcagcagctttactaaaggatacctcagtattaaggttaa                gacgcgaaacaatgcttaatgg
        gccgttgccgccggaccgggcgtcgctgggccggcgccgccacgcggctacggcgcccg                tatctgcctagattttgagcct
                                                                                                         
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 1298 ; UGA-SECIS: 1667

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = KZ294227.1:subseq_1826665,66303_ Strand = - Positions = 23701 - 23632
 Found by:  Infernal (score=28.69) Covels (score=22.45)
 Stem2 length = 8   Apical loop length = 14   Insertion in stem2 = 0, 0
 Free Energy = -9.14

         ..(((((((.......(((((((((((((((...............))))))))))))))).........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc
         ...((((((.--....{[[{(({((((((..........-----....))))))}))}]]}.....-.-.))))))...
 target  UUCAUAUUUG--UUUAUGAUGGCCACAGCCUAAAGUACC-----CACAGCUGUGACUUGAUUUUUA-A-AAAAUGUUCU
                         ****           ^^^                       ****