To our users Please note that the HCV database site is no longer funded. We try to keep the database updated and the tools running, but unfortunately, we cannot guarantee we can provide help for using this site. Data won't be manually curated either.
Purpose: To calculate consensus sequences. We provide three tools for generating a consensus of your alignment.
|Simple||Computes a consensus using customary parameters. 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---
Allows greater control over consensus parameters. User can adjust values for majority and unanimous, specify which characters to consider, 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" blocks in the example at right. A consensus of consensuses can be made.
Help file: Advanced Consensus Maker Explanation
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---
Produces a consensus that includes IUPAC ambiguity codes. Consensus blocks supported. Nucleotide alignments only.
Help file: Ambiguity Consensus Maker Explanation
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---