On Freitag 11 Juni 2010 Saulo Alves wrote: > Sorry if i didn't make myself clear. > events stands for all the tags mira add's to the sequencing. Gaps, > SNPs, repeats. > > I have tried the AO process but, after placing the gaps, there are > still discrepancies. > for one chromossome my FASTA reference has 1.462.416 bp. the "PADDED" > (w/ gaps) generated sequence has 1.462.514 bp and the "UNPADDED" > sequence has 1.462.431 bp. > There's this difference (+17) between the original and unpadded which > i cant explain neither map back. If i want to know where in the > reference sequence a SNP was found, i'm not able with a 17bp > discrepancy and, for other chromossome, this difference get's even > bigger. Hmm ... have a look at the TCS file, column 2 & 3 with the padded pos and unpadded pos. Would that help? 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