------- SECIS element -- id:2 -- grade:B ----
 Chromosome = gi|385726847|gb|JH655881.1|:subseq_58414495,152313_ Strand = - Positions = 69251 - 69182
 Found by:  Infernal (score=13.21) Covels (score=1.69)
 Stem2 length = 8   Apical loop length = 11   Insertion in stem2 = 0, 1
 Free Energy = -8.54

         ..(((((((.......(((((((((((.......................)))).)))))))............)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccgAAAcCcuuuuuggggugggccag-gcCuGAUGuu---u-uuucaugaccggc
         ...(((((((--....{[[{((((((((...........)----------)))).)))}]]}........-..)))))))...
 target  CAAUUACAUG--CUCAUGAUGGCCAGUGGUGGCAUGAGAU----------ACUGUGCUUGAUACUAUCAC-CCUAUGUGAAGU
                         ****                                      ****                     

------- SECIS element -- id:3 -- grade:B ----
 Chromosome = gi|385726847|gb|JH655881.1|:subseq_58414495,152313_ Strand = - Positions = 73722 - 73688
 Found by:  Infernal (score=11.23)
 Stem2 length = 9   Apical loop length = 9   Insertion in stem2 = 0, 0
 Free Energy = -8.4

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uccgggcaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugcccggc
         -----------------[[{(((({(((((......--------...)))))}))))}]]------------------
 target  -----------------GAUGUUGUUCUGAGAAACU--------UCAUCAGACCAACUGA------------------
                          ***           ^^^                       ***                  

------- SECIS element -- id:4 -- grade:B ----
 Chromosome = gi|385726847|gb|JH655881.1|:subseq_58414495,152313_ Strand = - Positions = 130947 - 130865
 Found by:  Infernal (score=11.11) Covels (score=5.3)
 Stem2 length = 10   Apical loop length = 19   Insertion in stem2 = 0, 1
 Free Energy = -16.84

         ..(((((((.........(((((((((((((.....................))))))).)))))).........)))))))..
 model   uucggucaugcg--UuaAUGAcGgccuggcccgAAAcCcuuuuuggggug--ggccagg-cCuGAUGuuu-uuucaugaccggc
         ((([{((((.........([[(((((((((((...................)))))))).)))]]).....-...))))}])))
 target  GCUACUUUCCCCAAAGAGUGAGGCCAGGACUGAGGGCCAGGACUGUUAUAAUAGUCCUGGGCUGAGGAGUG-UUAGAAAAGGGU
                           ****                                        ****