Add Letters in a sequence

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A C
A C on 15 Nov 2022
Commented: David Hill on 15 Nov 2022
I want to add Letters in a sequence
a b c d e f g h i j k l m n o p q r s t u v w x y z
a b c - - - ghi - - - - n o p q - - - - - - x y -
I got it to work with one gap but the sequence can have more than one gap.
I know the location n = [4 5 6 10 11 12 13 18 19 20 21 22 23 26] and the letters gap = [d e f j k l m r s t u v w z]
I do not know how to make it run for more in gap.
clc;clear;
% sequence we want to add because the sequence have gaps
% We have the amino acids however the position is unknow
% So the Letters are not include
% This a problem when there is over 300 amino acids
sequence = 'ABCGHIJ';
n = [4,5,6];
gap = 'DEF';
% loop
store = [];
% We want the gaps to be filled
for K = 1
% removing the letters where the gap needs
% to go
store = [sequence(n(K)):sequence(end)]
num = [n(end)+1:n(end)+1+numel(gap)]
for L = 1:numel(n)
% filling the gap
sequence(n(L)) = gap(L)
end
for M = 1:numel(num)
% Replacing the reoved letters
sequence(num(M)) = store(M)
end
end
sequence

Accepted Answer

David Hill
David Hill on 15 Nov 2022
Edited: David Hill on 15 Nov 2022
l='abcdefghijklmnopqrstuvwxyz';
gap='defjklmrstuvwz'-96;
l(gap)='-'
l = 'abc---ghi----nopq------xy-'
  2 Comments
David Hill
David Hill on 15 Nov 2022
l = 'abcghinopqxy';
gap = 'defjklmrstuvwz';
n = [4 5 6 10 11 12 13 18 19 20 21 22 23 26];
L=length(l)+length(gap);
r=zeros(1,L);
r(n)=gap;
r(~ismember(1:L,n))=l;
r=char(r)
r = 'abcdefghijklmnopqrstuvwxyz'

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