POA Online:
Thank you for using POA! Please, reference our paper:
"Multiple Sequence Alignment Using Partial Order Graphs,"
Christopher Lee, Catherine Grasso, & Mark Sharlow,
Bioinformatics 18: 452-464 (2002).

This server takes a set of unaligned sequences in FASTA format,
then builds a multiple sequence alignment in CLUSTAL, PIR, or PO format.
If you'd also like to see a visualization of your alignment in
PO-MSA representation, use the POAVIZ Online server instead.

Scoring Matrix: Blosum80
Input Sequence Format:  
Output Alignment Format:  

Input:

Enter the input data in text format:


Or click here to Upload Input Data. Then enter the name of the uploaded file:
Uploaded Filename:

    


Alignment Options:

Interpret all residues as amino acids:    Interpret all residues as nucleotides:
     POA assumes residues in upper case are amino acids, and residues in lower case are nucleotides.
Show Only Sequences with Indices: (comma delimited list, i.e. 0,1,2,4,6)
Exclude Sequences with Indices: (comma delimited list, i.e. 0,1,2,4,6)
     POA will filter the MSA output to include or exclude the indicated sequences.
Perform Heaviest Bundling:
     POA will use the heaviest bundling algorithm to find one or more consensus sequences.
Threshold Value for Heaviest Bundling:
     The percent identity threshold for assigning a sequence to a given consensus sequence.
Show Only Consensus Sequences in the Multiple Sequence Alignment:
Fuse Aligned Nodes with the Same Residue Label:
     While building up the PO-MSA.


    

 Data generated by POAVIZ and POA Online are deleted from the server each day at
 3:00am Pacific Time.