SeqMan v.2  Manipulations with sequences
BestPal_empirical  Calculates best palindrome for given rna sequence, and also a set suboptimal palindromes (sorted by energy)
BestPal_helix  Calculates best palindrome for given rna sequence with restrictions
BestPal_window  Calculates best palindrome for given rna sequence scanning the sequence with a window (for long sequences)
SMAP  mapping oligonucleotides to genome
OLIGS  Compute statistics of oligonucleotide occurrences in a set of sequences
OLIGSR  Compute statistics of oligonucleotide redundant occurrences in a set of sequences
OLIGS2  Compute more frequently oligonucleotides in 1 set and less frequently oligonucleotides in 2 set
