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

 Blastx evalue: 4e-66
 Query name: gi|1020985039|ref|XP_005050180.2| PREDICTED: selenoprotein Pb-like [Ficedula albicollis] >gi|1020985041|ref|XP_016155546.1| PREDICTED: selenoprotein Pb-like [Ficedula albicollis]
 Query range: 1-267  (total 267)

 Target: /data/www-rg/seblastian_results/875976461/tempfiles/temptarget.fasta
 Chromosome: your_sequence Strand: +
 Positions:
 -Exon 1  49895        50097
 -Exon 2  50194        50406
 -Exon 3  50544        50679
 -Exon 4  51296        51538

 Redox box: YES

Query   MGLLVLALATWLGLGLASASEEAANSSRICHEAPAWTINGSSPMEGAAGQVTVVALLKASUQFCLRQAHS <---Intron---> LGGLRERLARQGTA
        | |||||||||  ||||||||| ||||||| ||||||||||||||||||||||||||||||||||||||| <    96bp    > ||||||||||||||
Target  MVLLVLALATW--LGLASASEETANSSRICQEAPAWTINGSSPMEGAAGQVTVVALLKASUQFCLRQAHS                LGGLRERLARQGTA
        agccgcgcgat--cgcgtgtggagaaacatcggcgtaaagtacagggggcgagggccagatcttcacgca                cggccgccgccgag
        ttttttctccg--tgtccccaaccagggtgaacccgctagcgctagccgatcttcttacggatgtgacag                tggtgagtcgagcc
        ggggggcgccg--gggggccgggccccgccggagagcctcgccggggaggggggcgggccagccgggcc                ccgcgggggcggcgc
                                                                    *                                       

Query   RVRYMIVNEKAPLSRAMLPELQRHAPPGVPVLQPEQGDPDVWQVLGGDKDDFLVYDR <---Intron---> CGRLAFHIQLPFSFLHFPYVEAAIRYS
         ||||||||||||||||||||||||||||||||||| |||||||||||||||||||| <   137bp    > ||||||||||||||||||||||||| |
Target  EVRYMIVNEKAPLSRAMLPELQRHAPPGVPVLQPEQEDPDVWQVLGGDKDDFLVYDR                CGRLAFHIQLPFSFLHFPYVEAAIRSS
        ggctaagagagcctcgaccgccccgccggcgcccgcggcggtcgcgggaggtcgtgc                tgccgtcactctatcctctggggacta
        atgatttaaacctcgcttcatagacccgtcttacaaaacatgattggaaaatttaag                gggtctatatctgttatcatacctgcg
        gtccgcccgggggcccggcgggctcgccccgcgcgggccccggcggtcgccctctc                gtccgtcccggcccccccctgaaccccc
                                                                                                            

Query   HIKDFCGNCSFYPITTQE <---Intron---> SNSTVEVPATPSSFPEHEGMESETPIHQHKPLHPHHHHEVSSERNTNPSENHKPATHAHHHHGDHG
        | |||||||| || |||| <   616bp    > /|||/| |||||| ||/|||||||||||||||||||||||/|||/|||||/|||||||||||||||
Target  HXKDFCGNCSLYPNTTQE                ANSTMEGPATPSSLPENEGMESETPIHQHKPLHPHHHHEVNSERDTNPSEDHKPATHAHHHHGDHG
        cnagttgattctcaaacg                gaaaaggcgacatccgaggagtgacacccaccccccccggaagagaacaggcacgacgccccggcg
        ataatggagctacaccaa                cagctagccccgctcaaagtacacctaaaactacaaaaatagagacacgaaaacccacaaaagaag
        ccgcctccccccccccgg                tcccggctccaccttatggggagtcccgcgccttcctcgcccgacacatgccattcttccccactc
                                                                                                            

Query   QLHHKGKKQKEGDVH
        |||||||||| || |
Target  QLHHKGKKQKXGDEH
        ccccagaacaggggc
        ataaagaaaaagaaa
        gctcggggggngtgt
                       
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 251 ; UGA-SECIS: 869

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = your_sequence Strand = + Positions = 51790 - 51864
 Found by:  Infernal (score=32.58) Covels (score=26.27)
 Stem2 length = 8   Apical loop length = 20   Insertion in stem2 = 0, 0
 Free Energy = -21.95

         ..(((((((.......(((((((((((((((..................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC---cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..((((((((--....{[[(((({(({(((....................)))}))}))))]]}----...))))))))..
 target  CUUUCUGUGC--UCAAUGAAGCCCGCUGUGCAAACCAGGAGGUCCCUGGUCACUGCUGGCUGAC----ACUGCACAGAGCA
                         ****           ^^^                          ****                 
_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       knownSP        |  secis_index:2     SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
_________________________________|______________________|_________________________________________________________________________________

 Blastx evalue: 4e-66
 Query name: gi|1020985039|ref|XP_005050180.2| PREDICTED: selenoprotein Pb-like [Ficedula albicollis] >gi|1020985041|ref|XP_016155546.1| PREDICTED: selenoprotein Pb-like [Ficedula albicollis]
 Query range: 1-267  (total 267)

 Target: /data/www-rg/seblastian_results/875976461/tempfiles/temptarget.fasta
 Chromosome: your_sequence Strand: +
 Positions:
 -Exon 1  49895        50097
 -Exon 2  50194        50406
 -Exon 3  50544        50679
 -Exon 4  51296        51538

 Redox box: YES

Query   MGLLVLALATWLGLGLASASEEAANSSRICHEAPAWTINGSSPMEGAAGQVTVVALLKASUQFCLRQAHS <---Intron---> LGGLRERLARQGTA
        | |||||||||  ||||||||| ||||||| ||||||||||||||||||||||||||||||||||||||| <    96bp    > ||||||||||||||
Target  MVLLVLALATW--LGLASASEETANSSRICQEAPAWTINGSSPMEGAAGQVTVVALLKASUQFCLRQAHS                LGGLRERLARQGTA
        agccgcgcgat--cgcgtgtggagaaacatcggcgtaaagtacagggggcgagggccagatcttcacgca                cggccgccgccgag
        ttttttctccg--tgtccccaaccagggtgaacccgctagcgctagccgatcttcttacggatgtgacag                tggtgagtcgagcc
        ggggggcgccg--gggggccgggccccgccggagagcctcgccggggaggggggcgggccagccgggcc                ccgcgggggcggcgc
                                                                    *                                       

Query   RVRYMIVNEKAPLSRAMLPELQRHAPPGVPVLQPEQGDPDVWQVLGGDKDDFLVYDR <---Intron---> CGRLAFHIQLPFSFLHFPYVEAAIRYS
         ||||||||||||||||||||||||||||||||||| |||||||||||||||||||| <   137bp    > ||||||||||||||||||||||||| |
Target  EVRYMIVNEKAPLSRAMLPELQRHAPPGVPVLQPEQEDPDVWQVLGGDKDDFLVYDR                CGRLAFHIQLPFSFLHFPYVEAAIRSS
        ggctaagagagcctcgaccgccccgccggcgcccgcggcggtcgcgggaggtcgtgc                tgccgtcactctatcctctggggacta
        atgatttaaacctcgcttcatagacccgtcttacaaaacatgattggaaaatttaag                gggtctatatctgttatcatacctgcg
        gtccgcccgggggcccggcgggctcgccccgcgcgggccccggcggtcgccctctc                gtccgtcccggcccccccctgaaccccc
                                                                                                            

Query   HIKDFCGNCSFYPITTQE <---Intron---> SNSTVEVPATPSSFPEHEGMESETPIHQHKPLHPHHHHEVSSERNTNPSENHKPATHAHHHHGDHG
        | |||||||| || |||| <   616bp    > /|||/| |||||| ||/|||||||||||||||||||||||/|||/|||||/|||||||||||||||
Target  HXKDFCGNCSLYPNTTQE                ANSTMEGPATPSSLPENEGMESETPIHQHKPLHPHHHHEVNSERDTNPSEDHKPATHAHHHHGDHG
        cnagttgattctcaaacg                gaaaaggcgacatccgaggagtgacacccaccccccccggaagagaacaggcacgacgccccggcg
        ataatggagctacaccaa                cagctagccccgctcaaagtacacctaaaactacaaaaatagagacacgaaaacccacaaaagaag
        ccgcctccccccccccgg                tcccggctccaccttatggggagtcccgcgccttcctcgcccgacacatgccattcttccccactc
                                                                                                            

Query   QLHHKGKKQKEGDVH
        |||||||||| || |
Target  QLHHKGKKQKXGDEH
        ccccagaacaggggc
        ataaagaaaaagaaa
        gctcggggggngtgt
                       
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 2812 ; UGA-SECIS: 3430

------- SECIS element -- id:2 -- grade:B ----
 Chromosome = your_sequence Strand = + Positions = 54351 - 54428
 Found by:  Infernal (score=10.8) Covels (score=10.3)
 Stem2 length = 9   Apical loop length = 17   Insertion in stem2 = 1, 0
 Free Energy = -13.97

         ..(((((((........((((((((((.(((((.....................)))))))))))))))........)))))))..
 model   uucggucaugcg-UuaAUGAcGgccug-gcccuAAAcC------cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         .(({[((((........{[[{(((({(.((((------.................)))))}))))}]]}..--....))))]})).
 target  GUCAGUCUCAUGUCACAUGAAGCCUUGGCCCU------GUGUGCUGCUCCUGCCGAGGGCCGGGCAGAUCC--UCUCGGGAAAGGA
                          ****                                            ****