------- SECIS element -- id:1 -- grade:C ----
 Chromosome = your_sequence Strand = - Positions = 46394 - 46315
 Found by:  Covels (score=9.24)
 Stem2 length = 7   Apical loop length = 16   Insertion in stem2 = 0, 0
 Free Energy = -6.3
 Type = 1

         ..(((((((........((((((((((.(((((....................))))).))))))))))........)))))))....
 model   uucggucaugcg-UuaAUGAcGgccug-gcccuAAAcC-----cuuuuuggggcgggc-caggcCuGAUGuuuuuucaugaccg--gc
         .....({(((.......{[[{{({({({((((------(..............)))))})})})}}]]}..--...)))}).......
 target  AACAAAUAAGGGaUAAAUGAAAACCAAgCCUC------cccccUCCCCACAAAGGAGGgUAGUUCAGACUA--GUGUUUUUCAAccAU
                          ****                 ^^                         ****                   

------- SECIS element -- id:2 -- grade:B ----
 Chromosome = your_sequence Strand = + Positions = 11155 - 11239
 Found by:  Covels (score=5.31)
 Stem2 length = 11   Apical loop length = 16   Insertion in stem2 = 1, 0
 Free Energy = -6.7   Free energy of apical portion = -1.0
 Type = 2

         ..(((((((........((((((((((((..(((..................))).)))))))))))).........)))))))...
 model   uucggucaugcg-UuaAUGAcGgccuggc--ccuAAAcC---cuuuuuggggcgg-gccaggcCuGAUGuuu-uuucaugaccg-gc
         ...(([(((........([[{(({((({(.[((((...(((((...)))))))))])})))}))}]]).....-.-.)))]))....
 target  GAGUUGGAUAAAgAGAAUGAAAUUAUACAagGAAAAAACuguAAUUUAUAGUUUCaUAUGUUAUAGAAAUGUa-A-AAUCAAAAgGC
                          ****              ^^^                          ****                   

------- SECIS element -- id:3 -- grade:B ----
 Chromosome = your_sequence Strand = + Positions = 10542 - 10619
 Found by:  Covels (score=8.45)
 Stem2 length = 7   Apical loop length = 15   Insertion in stem2 = 0, 0
 Free Energy = -8.3   Free energy of apical portion = -0.6
 Type = 2

         ..(((((((........(((((((((((((((...............))))))))))))))).........)))))))..
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu-uuuucaugaccggc
         ....((({(........-[[(({({({({(((...((((....)))))))})})})}))]]......-...)})))....
 target  GUUGGUUACCAGgACCA-GAGGUGUAGUCUUUCAAUCAUUCUGGUGAGAGAAGUUCCCUGAGGAUgG-GCUGCAGCACAA
                           ***            ^^                       ***                   

------- SECIS element -- id:4 -- grade:A ----
 Chromosome = your_sequence Strand = + Positions = 42181 - 42256
 Found by:  Infernal (score=28.4) Covels (score=30.99)
 Stem2 length = 10   Apical loop length = 18   Insertion in stem2 = 0, 0
 Free Energy = -19.4   Free energy of apical portion = -4.6
 Type = 2

         ..(((((((.......(((((((((((((((................))))))))))))))).........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc
         .(({{(({((--....{[[(((((((((((....((((.....)))).)))))))))))]]}.....-.-))}))}})).
 target  CGCAAGUGUA--UUUUUGAAGUUAUGGCUCUGAACCUCAUCUGGAGGCGAGUCAUGACUGAUGCUUU-C-UAGGCAAGUU
                         ****            ^^                        ****