Overview

Concordance analysis allows us to group strains that are genetically almost identical into an isotype. The following table summarizes the number of isotypes from previous and current releases, and the number of strains that belong to those isotypes.

Isotypes Strains Included Strains with WGS data Strains with RAD-seq data
Isotypes from Previous Release 539* 1378* 1238* 140
New Isotypes from Current Release 11 147 147 0
Total 550 1525 1385 140

*NOTE: Strain and isotype ECA2119 has been temporarily removed due to a sequencing mixup, so there is one fewer isotype groups than the 20210121 release.


Concordance score distribution and cutoff

We examined the pairwise concordance scores of all strains. Concordance values for every pair of strains were calculated as the number of shared variant sites divided by the total number of variants called for each pair. If the concordance score was more than 0.9997, the strain pair is grouped into the same isotype.


Search for concordance for strain pairs

Strain comparisons are listed in the table below. Only concordance scores > 0.999 are shown.


Changes from previous release