Tips on how to do various tasks in UGENE


Annotations editing/visualization tips:

• How make Genbank file created not in UGENE editable?
  
• How to change annotation name?
  
• How to add/edit/remove annotation qualifier?
  
• How to make a qualifier value shown instead of the annotation name?
  

Multiple alignment tips:

• How to align a large number of sequences (>1000) fast?
  
  
• How to run alignment on a column range only?
  

Data conversion tips:

• How to save complement strand of DNA sequence into a separate file?
  
  
• How to save amino translation for a DNA sequence into a separate file?
  
  
• How to save sequence regions under annotations into a separate file?
  
  
• How to convert multiple sequence alignment into FASTA format?
  
  
• How to convert FASTA file into multiple sequence alignment format?
  
  
• How to merge multiple DNA or protein sequence into a single sequence?
  

3D viewer tips:

• How to create multiple 3D views?
  
  
• How to synchronize multiple 3D views (use stereo mode)?
  

Aloha folks

I have a data base from alphaproteobacteria that I build from NCBI databank on microorganism.  How can I use my data to build a phylogeny tree.  I also have the fasta, clustaW2 and box shade format, but the soft where is giving me error message.  I do not know what to do. my format is wrong but i Can not figure out which format to use.

Is anyone can help me out in that matter.  Thank you sincerely, Luis Dasilveira. >:(