[Brian Bushnell]

Hello,
I am just beginner in Perl,
I have Two fasta file of different length.
I would like to align them to find difference in nucleotide postion.

Output should be like this
Total length of fasta files
First reference file: 1253630 bp
Seconf file: 4523366 bp
If match 2nd file is same as 1st reference file.
if not match out put should like this
Mismatch position of basepair
A-C 100025
C-T 600045

Your question seems to be mostly unrelated to this thread. I suggest you create a new post for it. Also, please spend the time to use correct spelling; at least in my browser, misspelled words are helpfully underlined, so it's not difficult.