HIV sequence database
Consensus Maker
Purpose: to calculate consensus sequences. We provide three tools for generating a consensus of your
alignment. Help files are provided:
Advanced Consensus Maker Explanation
Ambiguity Consensus Maker Explanation
| Type | Description | Example |
| Simple | Computes a consensus using customary parameter choices. You might try this first to see if it meets your needs. |
CON Acg-?TTAG
sequence1 ACGTATTAG
sequence2 ACG-AT
sequence3 ACT-CT
sequence4 ATT-CX
sequence5 ACG-AT
sequence6 ACG-CT
sequence7 ACG-TT
|
| Advanced | Allows greater control over consensus parameters. User can adjust values for majority and unanimous, specify which characters to considered, choose how to handle gaps, etc. Multiple consensuses can be made for consensus blocks (blocks of sequences within a single alignment), such as the "B" and "G" subtype blocks in the example at right. A consensus of consensuses can be made. |
CON_OF_CONS ACG-?TTAG CON_B Acg-?TTAG B.sequence1 ACGTAtTAG B.sequence2 ACG-AT B.sequence3 ACT-CT B.sequence4 ATT-CX CON_G ACG-?T??? G.sequence1 ACG-AT G.sequence2 ACG-CT G.sequence3 ACG-TT |
| Ambiguity | Produces a consensus of IUPAC ambiguity codes for each column in an alignment. Consensus blocks supported. |
CON_B AYKTMTTAG B.sequence1 ACGTATTAG B.sequence2 ACG-AT B.sequence3 ACT-CT B.sequence4 ATT-CX CON_G ACG?HT??? G.sequence1 ACG-AT G.sequence2 ACG-CT G.sequence3 ACG-TT |
last modified: Mon Jul 14 11:12 2008