Comparative genomics of Cryptococcus neoformans var. grubii associated with meningitis in HIV infected and uninfected patients in Vietnam
Fig 3
BRIG plot showing the relatedness of an ST5 isolate (BMD700) and an ST4 isolate (BMD1415) to the H99 reference genome.
On the inner two rings, the coloured regions represent high pairwise similarity with H99 (>70%) according to BLASTn; lighter regions show areas of difference with H99. The outer two rings plot the number of SNPs per 1000 base pairs. The bar scale is limited to a maximum frequency of 10 SNPs per 1000 bp; any window with greater than this frequency is coloured blue. The figure illustrates that SNP density varies widely across the genome between areas of high and low frequencies; some of these are common to both STs compared with H99, others are ST4 or ST5 specific.