INPUT SEQUENCE (A) : data/seq_a.code INPUT SEQUENCE (B) : data/seq_b.code SUBSEQUENCE OPTION : Whole sequence comparison EXEC OPTION : Naive Dynamic Programing RATIO : lcs/trimmed_seq_a = 0.633 (= 31/ 49), lcs/trimmed_seq_b = 0.646 (= 31/ 48) SEQ A : name = ./CATH/alpha_beta/2Layer_Sandwich/Defensin/3.30.30.40/1poiA02/1poiA02.pdb c1 SEQ A : residue = LPFLPVTLMQGSGLTDEWGISKEVRKTLDKVPDDKFKYIDNPFKPGEKVVAVP SEQ A : code = --0000RGR0RGQAABG0R00QAAAABG0RG0RGR00000OQ0G0RG0000-- SEQ A : lcs = ---000RG-0R-QAAB----0QAAAA--0--0-G-00000--0-0--0000-- 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 = --000R-G0--R-Q------AAB0Q------AAAA00G00000-000000-- RATIO : lcs/trimmed_seq_a = 0.673 (= 33/ 49), lcs/trimmed_seq_b = 0.717 (= 33/ 46) SEQ A : name = ./CATH/alpha_beta/2Layer_Sandwich/Defensin/3.30.30.40/1poiA02/1poiA02.pdb c1 SEQ A : residue = LPFLPVTLMQGSGLTDEWGISKEVRKTLDKVPDDKFKYIDNPFKPGEKVVAVP SEQ A : code = --0000RGR0RGQAABG0R00QAAAABG0RG0RGR00000OQ0G0RG0000-- SEQ A : lcs = --0000R-R0-------0-00QAAAAB-0R-0-G-00000--0G-RG0000-- 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 = ---0000RR0000----QAAAA----B0R0--G000000GRG0000---- RATIO : lcs/trimmed_seq_a = 0.673 (= 33/ 49), lcs/trimmed_seq_b = 0.688 (= 33/ 48) SEQ A : name = ./CATH/alpha_beta/2Layer_Sandwich/Defensin/3.30.30.40/1poiA02/1poiA02.pdb c1 SEQ A : residue = LPFLPVTLMQGSGLTDEWGISKEVRKTLDKVPDDKFKYIDNPFKPGEKVVAVP SEQ A : code = --0000RGR0RGQAABG0R00QAAAABG0RG0RGR00000OQ0G0RG0000-- SEQ A : lcs = --0000---0R-----G0R0-QAAAA-G0R-0R-R00000-Q-G0--0000-- SEQ B : name = ./CATH/alpha_beta/2Layer_Sandwich/Defensin/3.30.30.60/1xrsB01/1xrsB01.pdb c1 SEQ B : residue = KVQLSFTLPLKNNERSAEAAKQIALKMGLEEPSVVMQQSLDEEFTFFVVYGN SEQ B : code = --000000RG0R0QAAAAAAAAAHAAG000R00RR0000R0QBG000000-- SEQ B : lcs = ---00000RG0R0QAAAA--------G0--R0-RR0000-0Q-G00000--- RATIO : lcs/trimmed_seq_a = 0.633 (= 31/ 49), lcs/trimmed_seq_b = 0.608 (= 31/ 51) SEQ A : name = ./CATH/alpha_beta/2Layer_Sandwich/Defensin/3.30.30.40/1poiA02/1poiA02.pdb c1 SEQ A : residue = LPFLPVTLMQGSGLTDEWGISKEVRKTLDKVPDDKFKYIDNPFKPGEKVVAVP SEQ A : code = --0000RGR0RGQAABG0R00QAAAABG0RG0RGR00000OQ0G0RG0000-- SEQ A : lcs = ------------QAA--0R00QAAAA-G-RG0R-R00000--0-0RG0000-- SEQ B : name = ./CATH/alpha_beta/2Layer_Sandwich/Defensin/3.30.30.30/1ba1002/1ba1002.pdb c1 SEQ B : residue = FDAKRLIGRRFDDAVVQSDMKHWPFMVVNDAGRPKVQVEYKGETKSFYPEEVSSM SEQ B : code = --QAAJ0RG0QB0QAAAAAAAGGRG00000RRG0000000RRG00000QAAAA-- SEQ B : lcs = --QAA-0R-0--0QAAAA---G-RG----0RR-0000000R-G0000-------- 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) | 4 RATIO TABLE : [0.5, 0.6) | 0 RATIO TABLE : [0.4, 0.5) | 0 RATIO TABLE : [0.3, 0.4) | 0 RATIO TABLE : [0.2, 0.3) | 0 RATIO TABLE : [0.1, 0.2) | 0 RATIO TABLE : [0.0, 0.1) | 0 RATIO : lcs/trimmed_seq_a = 0.673 (= 33/ 49), lcs/trimmed_seq_b = 0.717 (= 33/ 46) SEQ A : name = ./CATH/alpha_beta/2Layer_Sandwich/Defensin/3.30.30.40/1poiA02/1poiA02.pdb c1 SEQ A : residue = LPFLPVTLMQGSGLTDEWGISKEVRKTLDKVPDDKFKYIDNPFKPGEKVVAVP SEQ A : code = --0000RGR0RGQAABG0R00QAAAABG0RG0RGR00000OQ0G0RG0000-- SEQ A : lcs = --0000R-R0-------0-00QAAAAB-0R-0-G-00000--0G-RG0000-- 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 = ---0000RR0000----QAAAA----B0R0--G000000GRG0000---- // [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.