I read that one can search SRA database to retrieve sequence data from it and make comparisons with one's own sequencing reads. So if I found a strain of pathogenic E. coli, and I want to know if it is a totally new strain, other than initially blasting and mapping to reference genomes, I can search SRA to see if anyone else might be working on it or retrieve related data for comparison.
What I understand is that SRA is an archive of NGS data from ongoing projects which includes raw reads and draft assemblies. But I don't know how to use it or if what I am thinking of using it for is correct.
How do I compare my strain sequence read with those deposited in SRA, to see if there is a similar strain in there?
How do I even choose a experiment set to blast my sequence(s) against to begin with? Do I have to do a literature search to find relevant papers for SRA Experiment set (SRX) first?
Appreciate any direction on this topic.