Just found that Save as and then choosing the Stockholm format (the last choice) does what I wanted (see below), but maybe there are other options. Thanks Hernando ________________________________ From: chimera-users-bounces@cgl.ucsf.edu [chimera-users-bounces@cgl.ucsf.edu] on behalf of Hernando J Sosa [hernando.sosa@einstein.yu.edu] Sent: Wednesday, November 23, 2016 3:48 PM To: chimera List Subject: [Chimera-users] Sequence tool This sender failed our fraud detection checks and may not be who they appear to be. Learn about spoofing<http://aka.ms/LearnAboutSpoofing> Feedback<http://aka.ms/SafetyTipsFeedback> Dear all Is there a way using the sequence (or any other) tool in chimera to save a text file with sequence and corresponding secondary structure assignments as displayed in the sequence tool. Thanks Hernando