Thanks Bastien for your quick replay Here are the hash statistics Hash statistics: ========================================================= Measured avg. frequency coverage: 7 Deduced thresholds: ------------------- Min normal cov: 3 Max normal cov: 11 Repeat cov: 13 Heavy cov: 56 Crazy cov: 140 Mask cov: 70 Repeat ratio histogram: ----------------------- 0 9869618 1 5691550 2 1024738 3 383504 4 188150 5 111226 6 71370 7 49218 8 37936 9 28164 I only paste the first 9 lines from repeat ratio histogram, if you need more let me know Juan El mié, 12-10-2011 a las 20:38 +0200, Bastien Chevreux escribió: > On Wednesday 12 October 2011 19:08:55 Juan Fernandez Tajes wrote: > > > I got Mira to work but I had to increase, mmhr=3, I hope I didn't do > > > anything wrong, although Bastien warn in manual about modifying > mmhr. > > > The problem is after Mira has finished I got a number of all contigs > too > > > high, All contigs=34276 contigs, and I think this number is too much > for > > > 250641 reads assembled, any clues about what is happening? > > > You've got some massive repeats. Being EST data, my first guess would > be rRNA, but that you'd need to check. > > > Let's walk this through. > > > Can you please post the hash statistics shown in the log output? > > > B. > > -- 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