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The entire sequence traces out an S-shaped figure often called the urbanization curve.
Sequence traces were analysed using SEQUENCHER software.
DNA sequence traces were edited with Chromas 2.3 (http://www.technelysium.com.au).au
Discrepancies were verified by manual examination of the sequence traces.
The samples replicated in Dublin were sequenced, and genotypes were derived from sequence traces.
The Staden Package suite of programs (http://staden.sourceforge.net/) was used to analyse the sequence traces.
Sequence traces were assembled and analyzed using a modified version of the PolyPhred software package.
SNPs were called using ExoTrace, an algorithm developed for the detection of heterozygotes in sequence traces.
Mutational analysis was done by comparing the sequence traces between tumors and their matching blood samples.
Since the DNA used for amplification was haploid, any overlapping peaks in any sequence traces indicated amplification from multiple loci.
Sequence traces were aligned with and compared to reference sequences from NCBI in order to identify strain-dependent nucleotide differences.
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