Hi all,
Sorry for the misunderstanding.I am elaborating the question below.
I have 454 sequences and illumina sequences for same animal samples. Using illumina sequence processing I have found some interesting patterns relevant to our problem. I would like to search the presence of those interesting illumina sequences in 454 animal sample sequences so that I can find which are the 454 animals having a hit in interesting illumina sequences. I would like to know which method is more suitable to check illumina against 454 sequences or vice versa. illumina sequences are shorter than 454 sequences.
Thanks, D.
I have 454 sequences and illumina sequences for my samples. I would like to search the presence of some interesting illumina sequences in 454 sequences.
I would suggest to go for a filter based on the length of those interesting sequences from both datasets ..hope it would give an idea if both the datasets contain them(unless they are equal). else you can perform a pattern search which a substring of your 454 sequence in the illumina data....
you can store those sequences separately in a file and quickly run a grep over it against illumina file!!!