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

 Blastx evalue: 3e-80
 Query name: gi|998709447|ref|XP_015492473.1| PREDICTED: selenoprotein Pb-like [Parus major] >gi|998709449|ref|XP_015492474.1| PREDICTED: selenoprotein Pb-like [Parus major]
 Query range: 1-265  (total 265)

 Target: /data/www-rg/seblastian_results/415122054/tempfiles/temptarget.fasta
 Chromosome: CM003718.2:subseq_21813963,100750_ Strand: -
 Positions:
 -Exon 1  50653        50855
 -Exon 2  50343        50555
 -Exon 3  50081        50216
 -Exon 4  49209        49451

 Redox box: YES

Query   MGLLVLALATWLGLASASEEAANSSRICQEAPAWTINGSSPMEGTAGQVTVVALLKASUQFCLRQAHS <---Intron---> LGGLRERLARQGMADV
        |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| <    97bp    > ||||||||||||||||
Target  MGLLVLALATWLGLASASEEAANSSRICQEAPAWTINGSSPMEGTAGQVTVVALLKASUQFCLRQAHS                LGGLRERLARQGMADV
        agccgcgcgatcgcgtgtggggaaacatcggcgtaaagtacaggaggcgagggccagatctttccgca                cggccgccgccgaggg
        tgttttctccgtgtccccaaccagggtgaacccgctagcgctagccgatcttcttacggatgtgacag                tggtgagtcgagtcat
        ggggggcgccggggcgctgggccccgccggagagcctcgccggggaggggggcgggccaaccgggcc                cggcgggggcggcgctc
                                                                  *                                         

Query   HYMIINEKAPLSRAMLPELERHAPPGVPVFQPEQEDPDVWQVLGGDKDDFLVYDR <---Intron---> CGRLAFHIQLPFSFLHFPYVEAAIRSSHI
        ||||||||||||||||||||||||||||||||||||||||||||||||||||||| <   126bp    > |||||||||||||||||||||||||||||
Target  HYMIINEKAPLSRAMLPELERHAPPGVPVFQPEQEDPDVWQVLGGDKDDFLVYDR                CGRLAFHIQLPFSFLHFPYVEAAIRSSHI
        ctaaaagagcctcgaccgcgccgccggcgtccgcggcggtcgcgggaggtcgtgc                tgccgtcactctatcctctggggactaca
        aatttaaacctcgcttcatagacccgtcttacaaaacatgattggaaaatttaag                gggtctatatctgttatcatacctgcgat
        ccgcccgggggcccggagggctcgctccccgagggctccggcggtcgccctttc                gtccgtcccggccctcccctggaccccccc
                                                                                                            

Query   KDFCGNCSLYPNTTQQ <---Intron---> ANSTMEGPATPSPLPEHEGMESETPMHQHKPLHPHHHHKVSSERDTNPSEDHKPATHAHHHHGDHGQL
        |||||||||||||||| <   629bp    > ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Target  KDFCGNCSLYPNTTQQ                ANSTMEGPATPSPLPEHEGMESETPMHQHKPLHPHHHHKVSSERDTNPSEDHKPATHAHHHHGDHGQL
        agttgattctcaaacc                gaaaaggcgacacccgcggagtgacacccaccccccccagaagagaacaggcacgacgccccggcgcc
        aatggagctacaccaa                cagctagccccgctcaaagtacacctaaaactacaaaaatggagacacgaaaacccacaaaagaagat
        gccttccccccctcgg                tctcggctacgcattacggggagccgcgcgccttcctcgcctgatacatgccactcttccctacccgc
                                                                                                            

Query   HHKGKKQKEGDEH
        |||||||||||||
Target  HHKGKKQKEGDEH
        ccagaacaggggc
        aaagaaaaagaaa
        tcggggggggtgt
                     
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 250 ; UGA-SECIS: 868

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = CM003718.2:subseq_21813963,100750_ Strand = - Positions = 48958 - 48884
 Found by:  Infernal (score=28.76) Covels (score=25.32)
 Stem2 length = 8   Apical loop length = 20   Insertion in stem2 = 0, 0
 Free Energy = -20.75

         ..(((((((.......(((((((((((((((..................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC---cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..((((((((--....{[[(((({(({(((....................)))}))}))))]]}----...))))))))..
 target  CUUUCUGUGC--UCAAUGAAGCCCGCUGUGCAAACCAGGAGUUCCCUGGUCAUUGCUGGCUGAC----ACUGCGCAGAGCA
                         ****           ^^^                          ****