String Replacing for a DNA sequence

I want to extract the row from a table whose count is greater than 1, where the first column consists of strings and second column its count. For eg, Table A = AAGC 1 GCCU 2 AGCU 2 CCGU 1 The desired output is : GCCU 2 AGCU 2

[Andrei Bobrov]

Please example with beginning sequence and with finished result.

[Jan]

What are "repeated substring" exactly?

Answer 1

[Andrei Bobrov]

A = {'AAGC', 1 ;'GCCU', 2 ;'AGCU', 2; 'CCGU' 1};
T = cell2table(A,'var',{'DNA','count'});

Tout = T(T.count > 1,:);

[Reshma Ravi]

Thanks Sir.

Answer 2

[Jan]

Imagine that you worked out how to get a cell string containing the sub-strings:

C = {'GTTA', 'TTAG', 'TAGC', 'GTTA', 'GTTA', 'GTTA', 'TTAG'};

Now find the repeated strings:

repeated = strcmp(C(1:end-1), C(2:end));

Unfortuinately the description is not clear:

 if GTTA is repeated 4 times then replace it with another non terminal for example,
 A or something like that.

Do you want to replace each repeated string by the character 'A', or all 4 repetitions by one 'A'? This might be:

C(repeated) = {'A'};

Or the function https://www.mathworks.com/matlabcentral/fileexchange/41813-runlength might be useful:

[B, N, Index] = RunLength(repeated);

As long as I'm not sure, what you are asking for, I will not spend more time in creating an explicite answer. But you can try it by your own.

[Reshma Ravi]

Thanks Sir.