Web Applications for Sequence Comparison


Web Applications for Sequence Comparison

View IBD Plots - This application allows you to view plots of the amount and distribution of IBD among pairs of strains Sequence Identity Intervals - This application shows plots of IBD among sets of strains from the CGD data set and from the newest 100 Classical Strains data. The application is best for small sets of strains comparisons, but if you're patient, it can be used to compare a large number of strains as well. This application is based on a precomputed data structure, and allows the user to modify the threshold for the number of SNPs needed to create an interval. Display Intervals - This is an older version of the Sequence Identity Intervals application. It also shows plots of IBD among sets of strains from the CGD data set, and is best suited for comparing large numbers of strains. It uses precomputed intervals mined at a threshold of 100 SNPs, where an interval exists if it includes at least 100 SNPs. Match/Mismatch Percentage Within Intervals - Coming soon..... This application allows you to specify a pair or group of strains and an interval, and it will report the percentage of IBD (matching) within that interval.