[Bioperl-l] (RNAfold)Convert bracktes structure to aligned like
tructure
Yousef Malik
yousef at cs.haifa.ac.il
Sat Aug 21 19:22:10 EDT 2004
Hi
I would like to get your help on the following problem:
How could one convert the output of RNAfold within the brackets structure
GGCCAGUGUUGAGAGGCGGAGACUUGGGCAAUUGCUGGACGCUGCCCUGGGCAUUGCACUUGUCUCGGUCUGACAGUGCCGGCC
((((.((..((..((((.(((((..(((((((.(((((.......))..)))))))).)).))))).))))..))..)).))))
(-36.00)
To aligned like structure:
A UG AG G UU G U -- AC
GGCC G UUG AGGC GAGAC G GCAAU GCU GG G
|||| | ||| |||| ||||| | ||||| ||| || C
CCGG C GAC UCUG CUCUG C CGUUA CGG CC U
C GU AG G UU A - GU CG
Please reply to yousef at cs.haifa.ac.il
Reagrds
Malik
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