Given a list of hairpin structures (in FASTA format) and a list of miRNA reads (in FASTA format), it returns, 
for each structure, the reads that are included at 75% or more in it, in a tabular file.

Three arguments have to be given, in that order : the name of the text file containing the list of miRNA reads, the name of the text file containing the hairpin structures, and the name of the output text file.

Be careful : the "fuzzywuzzy" python package has to be installed in order to have a functional program.

Example :

input_miRNA_read ::

>ath-miR173-5p MIMAT0000206
UUCGCUUGCAGAGAGAAAUCAC

input_hairpin_structure ::

>MIR780 MI0005110
CAAGAUAUCAGAUAUUUCACGAAGAUAUCUGCAUAACAGCUACGAGGAAAUUGUGAUUUUAUCGUUUCACAAACAUCAACAGCUCCAUGGAUCGUUAUGGACGGAUAAAUCACAAUCACUAUCCUUUUUCUAGCAGCUGUUGAGCAGGUUUCUUCGUGAAUAUCUGGCAUUUUG
((((((.(((((((((.((((((((.((((((.((((((((.(.(((((((((((((((.(((..((((..((((((..((......))))).))).))))..)))))))))))))..........))))).).)))))))).)))))).))))))))))))))))).)))))) (-65.00)

output :: 

MIR780 MI0005110	miR173-5p MIMAT0000206	77	UUCGCUUGCAGAGAGAAAUCAC



Each line of the output is composed by :
- an hairpin structure ID
- a miRNA read ID
- the measured similarity score
- the miRNA read sequence