command of alignment for general sequences

hi, is there a command of sequence alignment for any sequence generally ? I did not mean swalign or nwalign, these just for biological sequences. if not are there anyone wrote a code of sequence alignment for non biological sequences in matlab?

thanks

[Sven]

You'll need to provide an example of what you mean by sequence.

[Walter Roberson]

Lucio would seem to have given you the answer in http://www.mathworks.com/matlabcentral/answers/21217-fasta-and-blast

[huda nawaf]

thanks walter, i will see the link

sven , I mean any sequence of integers or characters.

There is algorithms of seq. alignment but designed for DNA or protein sequences.

I hope to find for general seq.

thanks

[huda nawaf]

thanks walter,

i did not see the last comment by Lucio.

really thanks

Answer 1

[Hin Kwan Wong]

What sequence? If you mean any two numerical sequences which are correlated. Their alignment can be done by using cross correlation and finding where the peak is in terms of the delay, then shifting one of the sequence by the delay.

xcorr = ifft(fft(signalA).*conj(fft(signalB));
delay = find((xcorr==max(xcorr))==1);
AlignedA = circshift(signalA,1-delay);