Hello Bastien, I'm having problems with the rail reads. Can you please explain to me their nature? I've noticed that a good deal of my sequences have only the rr covering it. eg ref aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa read1 aaaaaaaaaa read2 aaaaaaaaaaaaaaaaa rr1 aaaaaaaaaaaaaaa In this case, i was assuming that the region covered only by RR are regions without sequencing information. Turns out, more than 80% of my sequence is like that. Even worse, there are several SNP/GAP/INS/DEL in those regions, what is a bit strange. Regards -- 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