INPUT SEQUENCE (A) : ../../data/seq_a.code
INPUT SEQUENCE (B) : ../../data/seq_b.code
SUBSEQUENCE OPTION : Subsequence comparison  (|compare window|/|the shorter seq.| = 1.10)
SORT POLICY : Domain search of the key protein
EXEC OPTION : [Length only] Hirschberg's algorithm



<Frequency table of lcs/trimmed_seq_a  (global)>
RATIO TABLE :          range     |   frequency
RATIO TABLE :      --------------|--------------
RATIO RABLE :       [0.9,  1.0]  |          0
RATIO TABLE :       [0.8,  0.9)  |          0
RATIO TABLE :       [0.7,  0.8)  |          0
RATIO TABLE :       [0.6,  0.7)  |          0
RATIO TABLE :       [0.5,  0.6)  |          0
RATIO TABLE :       [0.4,  0.5)  |          0
RATIO TABLE :       [0.3,  0.4)  |         13
RATIO TABLE :       [0.2,  0.3)  |         40
RATIO TABLE :       [0.1,  0.2)  |          0
RATIO TABLE :       [0.0,  0.1)  |          0
</Frequency table of lcs/trimmed_seq_a  (global)>

 <Best1 result (1-th target  14-th window  window_width = 52)>
RATIO :  lcs/trimmed_seq_a = 0.712 (=   37/   52), lcs/trimmed_seq_b = 0.771 (=   37/   48)
SEQ A : name    = ./PDBdata/2HG6.pdb c1
SEQ A : residue = MSITSTDICQAADALKGFVGFNRKTGRYIVRFSEDSFGMDVADDSITPTSEFVWSSVRDDVMRLGREQLQILLEQNINERLNIGEPLLVYLRRQDLPEITAQRQLR
SEQ A : code    = ----------------------------------------------------BG00R0RRG0000QAAAAAAAABR0QAABR00QAAAAAB000QGR0000000--
SEQ A : lcs     = ------------------------------------------------------00-0R--0000QAAAAAAAAB-0QAA-----AAAAA-00--G-0000000--
SEQ B : name    = ./CATH/alpha_beta/2Layer_Sandwich/Defensin/3.30.30.50/1k8bA00/1k8bA00.pdb c1
SEQ B : residue = EILIEGNRTIIRNFRELAKAVNRDEEFFAKYLLKETGSAGNLEGGRLILQRR
SEQ B : code    = --000R0G000RRQAAAAAAAAB0QAAAAAAAAAA00G00000R000000--
SEQ B : lcs     = --000R0-000--QAAAAAAAAB0QAAAAAAA---00G00000-00------
 </Best1 result (1-th target  14-th window  window_width = 52)>

 <Best2 result (1-th target  13-th window  window_width = 52)>
RATIO :  lcs/trimmed_seq_a = 0.692 (=   36/   52), lcs/trimmed_seq_b = 0.750 (=   36/   48)
SEQ A : name    = ./PDBdata/2HG6.pdb c1
SEQ A : residue = MSITSTDICQAADALKGFVGFNRKTGRYIVRFSEDSFGMDVADDSITPTSEFVWSSVRDDVMRLGREQLQILLEQNINERLNIGEPLLVYLRRQDLPEITAQRQLR
SEQ A : code    = --------------------------------------------------AABG00R0RRG0000QAAAAAAAABR0QAABR00QAAAAAB000QGR00000----
SEQ A : lcs     = ------------------------------------------------------00-0R--0000QAAAAAAAAB-0QAA-----AAAAA-00--GR00000----
SEQ B : name    = ./CATH/alpha_beta/2Layer_Sandwich/Defensin/3.30.30.50/1k8bA00/1k8bA00.pdb c1
SEQ B : residue = EILIEGNRTIIRNFRELAKAVNRDEEFFAKYLLKETGSAGNLEGGRLILQRR
SEQ B : code    = --000R0G000RRQAAAAAAAAB0QAAAAAAAAAA00G00000R000000--
SEQ B : lcs     = --000R0-000--QAAAAAAAAB0QAAAAAAA---00G-----R00000---
 </Best2 result (1-th target  13-th window  window_width = 52)>

 <Best3 result (2-th target  14-th window  window_width = 50)>
RATIO :  lcs/trimmed_seq_a = 0.680 (=   34/   50), lcs/trimmed_seq_b = 0.739 (=   34/   46)
SEQ A : name    = ./PDBdata/2HG6.pdb c1
SEQ A : residue = MSITSTDICQAADALKGFVGFNRKTGRYIVRFSEDSFGMDVADDSITPTSEFVWSSVRDDVMRLGREQLQILLEQNINERLNIGEPLLVYLRRQDLPEITAQRQLR
SEQ A : code    = ------------------------------------------------------00R0RRG0000QAAAAAAAABR0QAABR00QAAAAAB000QGR0000000--
SEQ A : lcs     = ------------------------------------------------------00-0RR-0000QAAAAAAA-BR0Q--B-00-------000-GR00000----
SEQ B : name    = ./CATH/alpha_beta/2Layer_Sandwich/Defensin/3.30.30.70/1uglA00/1uglA00.pdb c1
SEQ B : residue = NLMKRCTRGFRKLGKCTTLEEEKCKTLYPRGQCTCSDSKMNTHSCDCKSC
SEQ B : code    = --00000RR00000RR0QAAAAAAHAB0R0QBG000000GRG0000R0--
SEQ B : lcs     = ----000RR0000----QAAAAAA-AB-R0QB-00000-GR-0000-0--
 </Best3 result (2-th target  14-th window  window_width = 50)>

 <Best4 result (2-th target  13-th window  window_width = 50)>
RATIO :  lcs/trimmed_seq_a = 0.640 (=   32/   50), lcs/trimmed_seq_b = 0.696 (=   32/   46)
SEQ A : name    = ./PDBdata/2HG6.pdb c1
SEQ A : residue = MSITSTDICQAADALKGFVGFNRKTGRYIVRFSEDSFGMDVADDSITPTSEFVWSSVRDDVMRLGREQLQILLEQNINERLNIGEPLLVYLRRQDLPEITAQRQLR
SEQ A : code    = --------------------------------------------------AABG00R0RRG0000QAAAAAAAABR0QAABR00QAAAAAB000QGR000------
SEQ A : lcs     = ------------------------------------------------------00-0RR-0000QAAAAAAA-BR0Q--B-00-------000-GR000------
SEQ B : name    = ./CATH/alpha_beta/2Layer_Sandwich/Defensin/3.30.30.70/1uglA00/1uglA00.pdb c1
SEQ B : residue = NLMKRCTRGFRKLGKCTTLEEEKCKTLYPRGQCTCSDSKMNTHSCDCKSC
SEQ B : code    = --00000RR00000RR0QAAAAAAHAB0R0QBG000000GRG0000R0--
SEQ B : lcs     = ----000RR0000----QAAAAAA-AB-R0QB-00000-GR-000-----
 </Best4 result (2-th target  13-th window  window_width = 50)>

 <Best5 result (1-th target  12-th window  window_width = 52)>
RATIO :  lcs/trimmed_seq_a = 0.635 (=   33/   52), lcs/trimmed_seq_b = 0.688 (=   33/   48)
SEQ A : name    = ./PDBdata/2HG6.pdb c1
SEQ A : residue = MSITSTDICQAADALKGFVGFNRKTGRYIVRFSEDSFGMDVADDSITPTSEFVWSSVRDDVMRLGREQLQILLEQNINERLNIGEPLLVYLRRQDLPEITAQRQLR
SEQ A : code    = ----------------------------------------------00QAAABG00R0RRG0000QAAAAAAAABR0QAABR00QAAAAAB000QGR0--------
SEQ A : lcs     = ----------------------------------------------0-------00R0--G000-QAAAAAAAAB-0QAA-----AAAAA-00--GR0--------
SEQ B : name    = ./CATH/alpha_beta/2Layer_Sandwich/Defensin/3.30.30.50/1k8bA00/1k8bA00.pdb c1
SEQ B : residue = EILIEGNRTIIRNFRELAKAVNRDEEFFAKYLLKETGSAGNLEGGRLILQRR
SEQ B : code    = --000R0G000RRQAAAAAAAAB0QAAAAAAAAAA00G00000R000000--
SEQ B : lcs     = --000R0G000--QAAAAAAAAB0QAAAAAAA---00G-----R0-------
 </Best5 result (1-th target  12-th window  window_width = 52)>


// [NOTE]: A trimmed sequence is the sequence obtained by removing residues of
//         irregular 5-tile codes, such as '-', where regular 5-tile codes are
//         {0, A, R, Q, B, G, 1, O, H, 3, J, 8, P, 9, 2, I}. Irregular 5-tile
//         codes are ommited during the LCS computation and LCSs consist of
//         regular 5-tile codes only.