------- SECIS element -- id:1 -- grade:A ----
 Chromosome = gi|408541735|gb|JH947197.1|:subseq_15091748,228247_ Strand = + Positions = 145111 - 145184
 Found by:  Infernal (score=21.28) Covels (score=21.09)
 Stem2 length = 8   Apical loop length = 16   Insertion in stem2 = 1, 0
 Free Energy = -6.41

         ..(((((((.......((((((((((.(((((...............)))))))))))))))..........)))))))..
 model   uucggucaugcgUuaAUGAcGgccug-gcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc
         ....((({(.--....([[[((((({.(((.......---.........)))})))))]]])......-.-.)})))....
 target  GAGGGAUGCA--UCCAUGAAGUCACCAGCCGCAAGCC---CACGGGGCAGGCAGUGAUGGAACAACUG-U-CGGAUCAGCU
                         ****            ^^                        ****                   

SEQUENCIA FASTA
>SECIS.1 chromosome:gi|408541735|gb|JH947197.1|:subseq_15091748,228247_ strand:+ positions:145111-145184
GAGGGAUGCAUCCAUGAAGUCACCAGCCGCAAGCCCACGGGGCAGGCAGUGAUGGAACAACUGUCGGAUCAGCU


Selenoprotein id: 1         Category: known selenoprotein 
Protein prediction
Predicted by: exonerate Blastx evalue: 5e-05
Query protein: gi|373432689|ref|NP_001243286.1| thioredoxin reductase 1 [Monodelphis domestica]
Positions on query: 312-499 Query length: 499

Target name: gi|408541735|gb|JH947197.1|:subseq_15091748,228247_
Positions on target: 116200-116358,124505-124612,127043-127138,128110-128244,144839-144904 Strand: +


  Query   KTGKIPVNDEEQTNVPYIYAIGDVLEDKLELTPVAIQAGRLLARRLYAGSTIK <---Intron---> C
          /|||||| |||||||||||||||/|| ||||||||||||||||/|||||| /| <   8146bp   > |
  Target  RTGKIPVTDEEQTNVPYIYAIGDILEGKLELTPVAIQAGRLLAQRLYAGSKVK                C
          aagaacgagggcaagctatgaggacggacgcacggacggcccgcactggtaga                t
          gcgatctcaaaacatcatactgattagatatcctctacggttcagtacgcata                g
          aggaatctcgggccgttccctcccgaggggccagccgggaggtggtctccacg                t
                                                                                
  
  Query   DYDNVPTTVFTPLEYGACGLSEERAVEKFGEENIE <---Intron---> VYHSYFWPLEWTIPSRDNN
          ||/||||||||||||||||||||/||||||||||| <   2430bp   > |||||||||||||||||||
  Target  DYENVPTTVFTPLEYGACGLSEEKAVEKFGEENIE                VYHSYFWPLEWTIPSRDNN
          gtgagcaagtactgtggtgctggagggatgggaag                gtcatttctgtaactagaa
          aaaatcccttcctaagcggtcaaactaatgaaata                taagatgctagctccgaaa
          ctattaatgtatggtactcttagatgaatgaattg                tcttccgagggctacatcc
                                                                                
  
  Query   KCYAKVICHVRDN <---Intron---> ERVVGFHVLGPNAGEVTQGFAAALKCGLTKNQLDSTIGIHP
          |||||/||///|| <   971bp    > |||||||/|||||||||||||||||||||| ||||||||||
  Target  KCYAKIICNIKDN                ERVVGFHILGPNAGEVTQGFAAALKCGLTKTQLDSTIGIHP
          attgaaataaaga                gcgggtcacgcaggggacgtgggcatgcaaaccgaaagacc
          agacattgataaa                agttgtattgcacgatcagtccctaggtcacatagctgtac
          attaaaccccact                atcgccccgtattaagagctaggggccgcagggccgcaccc
                                                                                
  
  Query   VCAE <---Intron---> VFTTLSVTKRSGGSILQAGCUG
          |||| <  16594bp   > ||||||||||||||||||||||
  Target  VCAE                VFTTLSVTKRSGGSILQAGCUG
          gtgg                gtaactgaactggaaccggttg
          tgca                ttcctctcagcgggttacgggg
          ccag                gcgggggcgccgacccgtccat
                                                  * 