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_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       knownSP        |  secis_index:1     SeB_exonerate category:QUE_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
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 Blastx evalue: 4e-34
 Query name: gi|926529578|ref|XP_013814066.1| PREDICTED: type I iodothyronine deiodinase isoform X1 [Apteryx australis mantelli]
 Query range: 1-181  (total 182)

 Target: /data/www-rg/seblastian_results/364087833/tempfiles/temptarget.fasta
 Chromosome: your_sequence Strand: -
 Positions:
 -Exon 1  57364        57502
 -Exon 2  55296        55439
 -Exon 3  49800        49999
 -Exon 4  48777        48836

 Redox box: no

Query   MLSIRVFLQKILILLHVTMCVAVGKTLLILFPKAMKRYILKQGEKTE <---Intron---> NRPLILNFGSCTUPSFMLKFDEFNKLIKDFSSIADFL
        |  ||| /|| ||||/|// ||||| |/||||/ |||||||||/|/  <   1924bp   > ||||/|||||||||||/ || |||/|//||/||||||
Target  MFKIRVIIQKTLILLYVSLHVAVGKILMILFPEMMKRYILKQGQKSN                NRPLVLNFGSCTUPSFLFKFSEFNRLVEDFNSIADFL
        ataaagaacaatacttgtccggggaacaattcgaaaatacacgcaaa                aactgcatgatatcttctatagtaacgggtataggtc
        ttatgtttaacttttatctatctgattttttcattagattaagaag                aagctttatgggcgcctttatgatagttaatactcatt
        gcacgataagcgttgtatgtttttatggagcaaggaattaaggagc                ccgtacgttacccatattcactgccgttatttcaatct
                                                                                   *                        

Query   IIYIEEAHAVD <---Intron---> GWAFRNNVVIKNHRSLEDRRTAAQFLQKKNPLCPVVLDTMENLSSSKYAALPERLYLLQGGKVIYK <---In
        ||||||||| | <   5296bp   > ||||/||//|||||/|/||/|||||| |/||||||||||||||||||||||||||||/|||||/|| <   96
Target  IIYIEEAHATD                GWAFKNNIIIKNHRNLQDRKTAAQFLLKENPLCPVVLDTMENLSSSKYAALPERLYLVQGGKVVYK       
        aatagggcgag                gtgtaaaaaaaaccaccgcaaggctctagacttcggtgaagacaatatggccgactcgcggaggta       
        ttataacacc                aggctaaatttaaagataagacccatttaaactgctttactaatggcaacctcagtattaggattaa       
        actcaattaa                tagttacctttatcactataagtaattgggttacagtattgacgctaacatgaaattggaaaatttg       
                                                                                                            

Query   tron---> GGVGPWNYHPQEIRAILEKM
        3bp    > ||||||||||//|||||/|/
Target           GGVGPWNYHPEDIRAILKKL
                 ggggctatccggacgataac
                 ggtgcgaaacaatgcttaat
                 tagatgtttagcatacgaaa
                                     
 Sequence until next stop: 
AAATAG
 K  * 

 Distance CDS-SECIS: 1148 ; UGA-SECIS: 1511

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = your_sequence Strand = - Positions = 47628 - 47560
 Found by:  Infernal (score=30.55) Covels (score=16.07)
 Stem2 length = 8   Apical loop length = 14   Insertion in stem2 = 0, 0
 Free Energy = -11.64

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..(((((((.--....{[[{{((((((((..........-----....))))))))}}]]}..--....)))))))..
 target  UUAAUAUUUG--UUUAUGACAGUCAUAGCAUAAAGCACA-----GGCAGCUGUGACCUGAUUU--GUGAAAAUAUUUA
                         ****           ^^^                       ****