Module: Blosum
- Defined in:
- lib/blosum.rb,
lib/blosum/version.rb,
lib/blosum/blosum45.rb,
lib/blosum/blosum50.rb,
lib/blosum/blosum62.rb,
lib/blosum/blosum80.rb,
lib/blosum/blosum90.rb
Defined Under Namespace
Classes: Error
Constant Summary collapse
- VERSION =
"0.1.0"- BLOSUM45 =
{ "A" => { "A" => 5, "R" => -2, "N" => -1, "D" => -2, "C" => -1, "Q" => -1, "E" => -1, "G" => 0, "H" => -2, "I" => -1, "L" => -1, "K" => -1, "M" => -1, "F" => -2, "P" => -1, "S" => 1, "T" => 0, "W" => -2, "Y" => -2, "V" => 0, "B" => -1, "J" => -1, "Z" => -1, "X" => -1, "*" => -5 }, "R" => { "A" => -2, "R" => 7, "N" => 0, "D" => -1, "C" => -3, "Q" => 1, "E" => 0, "G" => -2, "H" => 0, "I" => -3, "L" => -2, "K" => 3, "M" => -1, "F" => -2, "P" => -2, "S" => -1, "T" => -1, "W" => -2, "Y" => -1, "V" => -2, "B" => -1, "J" => -3, "Z" => 1, "X" => -1, "*" => -5 }, "N" => { "A" => -1, "R" => 0, "N" => 6, "D" => 2, "C" => -2, "Q" => 0, "E" => 0, "G" => 0, "H" => 1, "I" => -2, "L" => -3, "K" => 0, "M" => -2, "F" => -2, "P" => -2, "S" => 1, "T" => 0, "W" => -4, "Y" => -2, "V" => -3, "B" => 5, "J" => -3, "Z" => 0, "X" => -1, "*" => -5 }, "D" => { "A" => -2, "R" => -1, "N" => 2, "D" => 7, "C" => -3, "Q" => 0, "E" => 2, "G" => -1, "H" => 0, "I" => -4, "L" => -3, "K" => 0, "M" => -3, "F" => -4, "P" => -1, "S" => 0, "T" => -1, "W" => -4, "Y" => -2, "V" => -3, "B" => 6, "J" => -3, "Z" => 1, "X" => -1, "*" => -5 }, "C" => { "A" => -1, "R" => -3, "N" => -2, "D" => -3, "C" => 12, "Q" => -3, "E" => -3, "G" => -3, "H" => -3, "I" => -3, "L" => -2, "K" => -3, "M" => -2, "F" => -2, "P" => -4, "S" => -1, "T" => -1, "W" => -5, "Y" => -3, "V" => -1, "B" => -2, "J" => -2, "Z" => -3, "X" => -1, "*" => -5 }, "Q" => { "A" => -1, "R" => 1, "N" => 0, "D" => 0, "C" => -3, "Q" => 6, "E" => 2, "G" => -2, "H" => 1, "I" => -2, "L" => -2, "K" => 1, "M" => 0, "F" => -4, "P" => -1, "S" => 0, "T" => -1, "W" => -2, "Y" => -1, "V" => -3, "B" => 0, "J" => -2, "Z" => 4, "X" => -1, "*" => -5 }, "E" => { "A" => -1, "R" => 0, "N" => 0, "D" => 2, "C" => -3, "Q" => 2, "E" => 6, "G" => -2, "H" => 0, "I" => -3, "L" => -2, "K" => 1, "M" => -2, "F" => -3, "P" => 0, "S" => 0, "T" => -1, "W" => -3, "Y" => -2, "V" => -3, "B" => 1, "J" => -3, "Z" => 5, "X" => -1, "*" => -5 }, "G" => { "A" => 0, "R" => -2, "N" => 0, "D" => -1, "C" => -3, "Q" => -2, "E" => -2, "G" => 7, "H" => -2, "I" => -4, "L" => -3, "K" => -2, "M" => -2, "F" => -3, "P" => -2, "S" => 0, "T" => -2, "W" => -2, "Y" => -3, "V" => -3, "B" => -1, "J" => -4, "Z" => -2, "X" => -1, "*" => -5 }, "H" => { "A" => -2, "R" => 0, "N" => 1, "D" => 0, "C" => -3, "Q" => 1, "E" => 0, "G" => -2, "H" => 10, "I" => -3, "L" => -2, "K" => -1, "M" => 0, "F" => -2, "P" => -2, "S" => -1, "T" => -2, "W" => -3, "Y" => 2, "V" => -3, "B" => 0, "J" => -2, "Z" => 0, "X" => -1, "*" => -5 }, "I" => { "A" => -1, "R" => -3, "N" => -2, "D" => -4, "C" => -3, "Q" => -2, "E" => -3, "G" => -4, "H" => -3, "I" => 5, "L" => 2, "K" => -3, "M" => 2, "F" => 0, "P" => -2, "S" => -2, "T" => -1, "W" => -2, "Y" => 0, "V" => 3, "B" => -3, "J" => 4, "Z" => -3, "X" => -1, "*" => -5 }, "L" => { "A" => -1, "R" => -2, "N" => -3, "D" => -3, "C" => -2, "Q" => -2, "E" => -2, "G" => -3, "H" => -2, "I" => 2, "L" => 5, "K" => -3, "M" => 2, "F" => 1, "P" => -3, "S" => -3, "T" => -1, "W" => -2, "Y" => 0, "V" => 1, "B" => -3, "J" => 4, "Z" => -2, "X" => -1, "*" => -5 }, "K" => { "A" => -1, "R" => 3, "N" => 0, "D" => 0, "C" => -3, "Q" => 1, "E" => 1, "G" => -2, "H" => -1, "I" => -3, "L" => -3, "K" => 5, "M" => -1, "F" => -3, "P" => -1, "S" => -1, "T" => -1, "W" => -2, "Y" => -1, "V" => -2, "B" => 0, "J" => -3, "Z" => 1, "X" => -1, "*" => -5 }, "M" => { "A" => -1, "R" => -1, "N" => -2, "D" => -3, "C" => -2, "Q" => 0, "E" => -2, "G" => -2, "H" => 0, "I" => 2, "L" => 2, "K" => -1, "M" => 6, "F" => 0, "P" => -2, "S" => -2, "T" => -1, "W" => -2, "Y" => 0, "V" => 1, "B" => -2, "J" => 2, "Z" => -1, "X" => -1, "*" => -5 }, "F" => { "A" => -2, "R" => -2, "N" => -2, "D" => -4, "C" => -2, "Q" => -4, "E" => -3, "G" => -3, "H" => -2, "I" => 0, "L" => 1, "K" => -3, "M" => 0, "F" => 8, "P" => -3, "S" => -2, "T" => -1, "W" => 1, "Y" => 3, "V" => 0, "B" => -3, "J" => 1, "Z" => -3, "X" => -1, "*" => -5 }, "P" => { "A" => -1, "R" => -2, "N" => -2, "D" => -1, "C" => -4, "Q" => -1, "E" => 0, "G" => -2, "H" => -2, "I" => -2, "L" => -3, "K" => -1, "M" => -2, "F" => -3, "P" => 9, "S" => -1, "T" => -1, "W" => -3, "Y" => -3, "V" => -3, "B" => -2, "J" => -3, "Z" => -1, "X" => -1, "*" => -5 }, "S" => { "A" => 1, "R" => -1, "N" => 1, "D" => 0, "C" => -1, "Q" => 0, "E" => 0, "G" => 0, "H" => -1, "I" => -2, "L" => -3, "K" => -1, "M" => -2, "F" => -2, "P" => -1, "S" => 4, "T" => 2, "W" => -4, "Y" => -2, "V" => -1, "B" => 0, "J" => -2, "Z" => 0, "X" => -1, "*" => -5 }, "T" => { "A" => 0, "R" => -1, "N" => 0, "D" => -1, "C" => -1, "Q" => -1, "E" => -1, "G" => -2, "H" => -2, "I" => -1, "L" => -1, "K" => -1, "M" => -1, "F" => -1, "P" => -1, "S" => 2, "T" => 5, "W" => -3, "Y" => -1, "V" => 0, "B" => 0, "J" => -1, "Z" => -1, "X" => -1, "*" => -5 }, "W" => { "A" => -2, "R" => -2, "N" => -4, "D" => -4, "C" => -5, "Q" => -2, "E" => -3, "G" => -2, "H" => -3, "I" => -2, "L" => -2, "K" => -2, "M" => -2, "F" => 1, "P" => -3, "S" => -4, "T" => -3, "W" => 15, "Y" => 3, "V" => -3, "B" => -4, "J" => -2, "Z" => -2, "X" => -1, "*" => -5 }, "Y" => { "A" => -2, "R" => -1, "N" => -2, "D" => -2, "C" => -3, "Q" => -1, "E" => -2, "G" => -3, "H" => 2, "I" => 0, "L" => 0, "K" => -1, "M" => 0, "F" => 3, "P" => -3, "S" => -2, "T" => -1, "W" => 3, "Y" => 8, "V" => -1, "B" => -2, "J" => 0, "Z" => -2, "X" => -1, "*" => -5 }, "V" => { "A" => 0, "R" => -2, "N" => -3, "D" => -3, "C" => -1, "Q" => -3, "E" => -3, "G" => -3, "H" => -3, "I" => 3, "L" => 1, "K" => -2, "M" => 1, "F" => 0, "P" => -3, "S" => -1, "T" => 0, "W" => -3, "Y" => -1, "V" => 5, "B" => -3, "J" => 2, "Z" => -3, "X" => -1, "*" => -5 }, "B" => { "A" => -1, "R" => -1, "N" => 5, "D" => 6, "C" => -2, "Q" => 0, "E" => 1, "G" => -1, "H" => 0, "I" => -3, "L" => -3, "K" => 0, "M" => -2, "F" => -3, "P" => -2, "S" => 0, "T" => 0, "W" => -4, "Y" => -2, "V" => -3, "B" => 5, "J" => -3, "Z" => 1, "X" => -1, "*" => -5 }, "J" => { "A" => -1, "R" => -3, "N" => -3, "D" => -3, "C" => -2, "Q" => -2, "E" => -3, "G" => -4, "H" => -2, "I" => 4, "L" => 4, "K" => -3, "M" => 2, "F" => 1, "P" => -3, "S" => -2, "T" => -1, "W" => -2, "Y" => 0, "V" => 2, "B" => -3, "J" => 4, "Z" => -2, "X" => -1, "*" => -5 }, "Z" => { "A" => -1, "R" => 1, "N" => 0, "D" => 1, "C" => -3, "Q" => 4, "E" => 5, "G" => -2, "H" => 0, "I" => -3, "L" => -2, "K" => 1, "M" => -1, "F" => -3, "P" => -1, "S" => 0, "T" => -1, "W" => -2, "Y" => -2, "V" => -3, "B" => 1, "J" => -2, "Z" => 5, "X" => -1, "*" => -5 }, "X" => { "A" => -1, "R" => -1, "N" => -1, "D" => -1, "C" => -1, "Q" => -1, "E" => -1, "G" => -1, "H" => -1, "I" => -1, "L" => -1, "K" => -1, "M" => -1, "F" => -1, "P" => -1, "S" => -1, "T" => -1, "W" => -1, "Y" => -1, "V" => -1, "B" => -1, "J" => -1, "Z" => -1, "X" => -1, "*" => -5 }, "*" => { "A" => -5, "R" => -5, "N" => -5, "D" => -5, "C" => -5, "Q" => -5, "E" => -5, "G" => -5, "H" => -5, "I" => -5, "L" => -5, "K" => -5, "M" => -5, "F" => -5, "P" => -5, "S" => -5, "T" => -5, "W" => -5, "Y" => -5, "V" => -5, "B" => -5, "J" => -5, "Z" => -5, "X" => -5, "*" => 1 } }
- BLOSUM50 =
{ "A" => { "A" => 5, "R" => -2, "N" => -1, "D" => -2, "C" => -1, "Q" => -1, "E" => -1, "G" => 0, "H" => -2, "I" => -1, "L" => -2, "K" => -1, "M" => -1, "F" => -3, "P" => -1, "S" => 1, "T" => 0, "W" => -3, "Y" => -2, "V" => 0, "B" => -2, "J" => -2, "Z" => -1, "X" => -1, "*" => -5 }, "R" => { "A" => -2, "R" => 7, "N" => -1, "D" => -2, "C" => -4, "Q" => 1, "E" => 0, "G" => -3, "H" => 0, "I" => -4, "L" => -3, "K" => 3, "M" => -2, "F" => -3, "P" => -3, "S" => -1, "T" => -1, "W" => -3, "Y" => -1, "V" => -3, "B" => -1, "J" => -3, "Z" => 0, "X" => -1, "*" => -5 }, "N" => { "A" => -1, "R" => -1, "N" => 7, "D" => 2, "C" => -2, "Q" => 0, "E" => 0, "G" => 0, "H" => 1, "I" => -3, "L" => -4, "K" => 0, "M" => -2, "F" => -4, "P" => -2, "S" => 1, "T" => 0, "W" => -4, "Y" => -2, "V" => -3, "B" => 5, "J" => -4, "Z" => 0, "X" => -1, "*" => -5 }, "D" => { "A" => -2, "R" => -2, "N" => 2, "D" => 8, "C" => -4, "Q" => 0, "E" => 2, "G" => -1, "H" => -1, "I" => -4, "L" => -4, "K" => -1, "M" => -4, "F" => -5, "P" => -1, "S" => 0, "T" => -1, "W" => -5, "Y" => -3, "V" => -4, "B" => 6, "J" => -4, "Z" => 1, "X" => -1, "*" => -5 }, "C" => { "A" => -1, "R" => -4, "N" => -2, "D" => -4, "C" => 13, "Q" => -3, "E" => -3, "G" => -3, "H" => -3, "I" => -2, "L" => -2, "K" => -3, "M" => -2, "F" => -2, "P" => -4, "S" => -1, "T" => -1, "W" => -5, "Y" => -3, "V" => -1, "B" => -3, "J" => -2, "Z" => -3, "X" => -1, "*" => -5 }, "Q" => { "A" => -1, "R" => 1, "N" => 0, "D" => 0, "C" => -3, "Q" => 7, "E" => 2, "G" => -2, "H" => 1, "I" => -3, "L" => -2, "K" => 2, "M" => 0, "F" => -4, "P" => -1, "S" => 0, "T" => -1, "W" => -1, "Y" => -1, "V" => -3, "B" => 0, "J" => -3, "Z" => 4, "X" => -1, "*" => -5 }, "E" => { "A" => -1, "R" => 0, "N" => 0, "D" => 2, "C" => -3, "Q" => 2, "E" => 6, "G" => -3, "H" => 0, "I" => -4, "L" => -3, "K" => 1, "M" => -2, "F" => -3, "P" => -1, "S" => -1, "T" => -1, "W" => -3, "Y" => -2, "V" => -3, "B" => 1, "J" => -3, "Z" => 5, "X" => -1, "*" => -5 }, "G" => { "A" => 0, "R" => -3, "N" => 0, "D" => -1, "C" => -3, "Q" => -2, "E" => -3, "G" => 8, "H" => -2, "I" => -4, "L" => -4, "K" => -2, "M" => -3, "F" => -4, "P" => -2, "S" => 0, "T" => -2, "W" => -3, "Y" => -3, "V" => -4, "B" => -1, "J" => -4, "Z" => -2, "X" => -1, "*" => -5 }, "H" => { "A" => -2, "R" => 0, "N" => 1, "D" => -1, "C" => -3, "Q" => 1, "E" => 0, "G" => -2, "H" => 10, "I" => -4, "L" => -3, "K" => 0, "M" => -1, "F" => -1, "P" => -2, "S" => -1, "T" => -2, "W" => -3, "Y" => 2, "V" => -4, "B" => 0, "J" => -3, "Z" => 0, "X" => -1, "*" => -5 }, "I" => { "A" => -1, "R" => -4, "N" => -3, "D" => -4, "C" => -2, "Q" => -3, "E" => -4, "G" => -4, "H" => -4, "I" => 5, "L" => 2, "K" => -3, "M" => 2, "F" => 0, "P" => -3, "S" => -3, "T" => -1, "W" => -3, "Y" => -1, "V" => 4, "B" => -4, "J" => 4, "Z" => -3, "X" => -1, "*" => -5 }, "L" => { "A" => -2, "R" => -3, "N" => -4, "D" => -4, "C" => -2, "Q" => -2, "E" => -3, "G" => -4, "H" => -3, "I" => 2, "L" => 5, "K" => -3, "M" => 3, "F" => 1, "P" => -4, "S" => -3, "T" => -1, "W" => -2, "Y" => -1, "V" => 1, "B" => -4, "J" => 4, "Z" => -3, "X" => -1, "*" => -5 }, "K" => { "A" => -1, "R" => 3, "N" => 0, "D" => -1, "C" => -3, "Q" => 2, "E" => 1, "G" => -2, "H" => 0, "I" => -3, "L" => -3, "K" => 6, "M" => -2, "F" => -4, "P" => -1, "S" => 0, "T" => -1, "W" => -3, "Y" => -2, "V" => -3, "B" => 0, "J" => -3, "Z" => 1, "X" => -1, "*" => -5 }, "M" => { "A" => -1, "R" => -2, "N" => -2, "D" => -4, "C" => -2, "Q" => 0, "E" => -2, "G" => -3, "H" => -1, "I" => 2, "L" => 3, "K" => -2, "M" => 7, "F" => 0, "P" => -3, "S" => -2, "T" => -1, "W" => -1, "Y" => 0, "V" => 1, "B" => -3, "J" => 2, "Z" => -1, "X" => -1, "*" => -5 }, "F" => { "A" => -3, "R" => -3, "N" => -4, "D" => -5, "C" => -2, "Q" => -4, "E" => -3, "G" => -4, "H" => -1, "I" => 0, "L" => 1, "K" => -4, "M" => 0, "F" => 8, "P" => -4, "S" => -3, "T" => -2, "W" => 1, "Y" => 4, "V" => -1, "B" => -4, "J" => 1, "Z" => -4, "X" => -1, "*" => -5 }, "P" => { "A" => -1, "R" => -3, "N" => -2, "D" => -1, "C" => -4, "Q" => -1, "E" => -1, "G" => -2, "H" => -2, "I" => -3, "L" => -4, "K" => -1, "M" => -3, "F" => -4, "P" => 10, "S" => -1, "T" => -1, "W" => -4, "Y" => -3, "V" => -3, "B" => -2, "J" => -3, "Z" => -1, "X" => -1, "*" => -5 }, "S" => { "A" => 1, "R" => -1, "N" => 1, "D" => 0, "C" => -1, "Q" => 0, "E" => -1, "G" => 0, "H" => -1, "I" => -3, "L" => -3, "K" => 0, "M" => -2, "F" => -3, "P" => -1, "S" => 5, "T" => 2, "W" => -4, "Y" => -2, "V" => -2, "B" => 0, "J" => -3, "Z" => 0, "X" => -1, "*" => -5 }, "T" => { "A" => 0, "R" => -1, "N" => 0, "D" => -1, "C" => -1, "Q" => -1, "E" => -1, "G" => -2, "H" => -2, "I" => -1, "L" => -1, "K" => -1, "M" => -1, "F" => -2, "P" => -1, "S" => 2, "T" => 5, "W" => -3, "Y" => -2, "V" => 0, "B" => 0, "J" => -1, "Z" => -1, "X" => -1, "*" => -5 }, "W" => { "A" => -3, "R" => -3, "N" => -4, "D" => -5, "C" => -5, "Q" => -1, "E" => -3, "G" => -3, "H" => -3, "I" => -3, "L" => -2, "K" => -3, "M" => -1, "F" => 1, "P" => -4, "S" => -4, "T" => -3, "W" => 15, "Y" => 2, "V" => -3, "B" => -5, "J" => -2, "Z" => -2, "X" => -1, "*" => -5 }, "Y" => { "A" => -2, "R" => -1, "N" => -2, "D" => -3, "C" => -3, "Q" => -1, "E" => -2, "G" => -3, "H" => 2, "I" => -1, "L" => -1, "K" => -2, "M" => 0, "F" => 4, "P" => -3, "S" => -2, "T" => -2, "W" => 2, "Y" => 8, "V" => -1, "B" => -3, "J" => -1, "Z" => -2, "X" => -1, "*" => -5 }, "V" => { "A" => 0, "R" => -3, "N" => -3, "D" => -4, "C" => -1, "Q" => -3, "E" => -3, "G" => -4, "H" => -4, "I" => 4, "L" => 1, "K" => -3, "M" => 1, "F" => -1, "P" => -3, "S" => -2, "T" => 0, "W" => -3, "Y" => -1, "V" => 5, "B" => -3, "J" => 2, "Z" => -3, "X" => -1, "*" => -5 }, "B" => { "A" => -2, "R" => -1, "N" => 5, "D" => 6, "C" => -3, "Q" => 0, "E" => 1, "G" => -1, "H" => 0, "I" => -4, "L" => -4, "K" => 0, "M" => -3, "F" => -4, "P" => -2, "S" => 0, "T" => 0, "W" => -5, "Y" => -3, "V" => -3, "B" => 6, "J" => -4, "Z" => 1, "X" => -1, "*" => -5 }, "J" => { "A" => -2, "R" => -3, "N" => -4, "D" => -4, "C" => -2, "Q" => -3, "E" => -3, "G" => -4, "H" => -3, "I" => 4, "L" => 4, 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- BLOSUM80 =
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- BLOSUM90 =
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