Read Mapping

There are several approaches to comparison of genome sequences. One method is to align (or map) the sequenced reads from one genome to a different, reference genome. Reads will only map to (align with) sequence-similar regions, so it is possible to inspect the alignments and see which parts of the two genomes are similar or dissimilar.

In 8  Map Reads to the Genome and 10  Find Sequence Variants, you will use this technique to compare the mapping of your isolate to a reference genome (P. aeruginosa PA01) and to a sequenced isolate from the same study.

In 9  Visualise the Mapping you will visualise the SNPs that are found by read mapping.