Dear all, I have one Paired-end solexa file in which sequences /1 and /2 are expected to overlap by approx. 50 bases. I tried to use "fastq-join" ( http://code.google.com/p/ea-utils/wiki/FastqJoin ), but i am not satisfied with results. Can MIRA handle "negative" inserts sizes? I think it will perform much better than standalone tools. Just a thought. Sincerely yours Nestor -- You have received this mail because you are subscribed to the mira_talk mailing list. For information on how to subscribe or unsubscribe, please visit http://www.chevreux.org/mira_mailinglists.html