Figure - PMC

Skip to main content

An official website of the United States government

Here's how you know

Here's how you know

Official websites use .gov
A .gov website belongs to an official government organization in the United States.

Secure .gov websites use HTTPS
A lock ( ) or https:// means you've safely connected to the .gov website. Share sensitive information only on official, secure websites.

View full-text article in PMC

. 2009 Nov 26;5(11):e1000581. doi: 10.1371/journal.pcbi.1000581

Search in PMC
Search in PubMed
View in NLM Catalog
Add to search

Kosakovsky Pond et al.

This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.

PMC Copyright notice

One of the simulation scenarios used to asses our detection method with the results over replicates (scenario 5/close in Table 2). The query sequence (2) was simulated to move from reference lineage 1 to reference lineage 3 every 400 bp as shown in the tree panel. The clustering chart depicts model and replicate averaged support for assigning the query sequence to a particular reference lineage, as estimated by the genetic algorithm over 100 simulated data replicates, whereas black impulse plots indicate the inferred placements of breakpoints. The y-axis does not reach because each replicate contributes the model averaged support for the best inferred mosaic type–a value that is ; the upper limit on the y-axis is, therefore, the mean (over replicates) model-averaged support for the best-fitting mosaic (0.92 in this case).

Inline graphic — One of the simulation scenarios used to asses our detection method with the results over replicates (scenario 5/close in Table 2). The query sequence (2) was simulated to move from reference lineage 1 to reference lineage 3 every 400 bp as shown in the tree panel. The clustering chart depicts model and replicate averaged support for assigning the query sequence to a particular reference lineage, as estimated by the genetic algorithm over 100 simulated data replicates, whereas black impulse plots indicate the inferred placements of breakpoints. The y-axis does not reach because each replicate contributes the model averaged support for the best inferred mosaic type–a value that is ; the upper limit on the y-axis is, therefore, the mean (over replicates) model-averaged support for the best-fitting mosaic (0.92 in this case).