Hello, there,
I am using default mode for bowtie2 reporting and the manual has it "Bowtie 2 does not garantee that the alignment reported is the best possible in terms of alignment score"
The manual also has: It will eventually stop looking, ... or because it already knows all it needs to know to report an alignment
I am really confused by these sentences... Does it mean that other than the reported alignment, the one with better alignment score might be exist?
Thanks for any input!!
I am using default mode for bowtie2 reporting and the manual has it "Bowtie 2 does not garantee that the alignment reported is the best possible in terms of alignment score"
The manual also has: It will eventually stop looking, ... or because it already knows all it needs to know to report an alignment
I am really confused by these sentences... Does it mean that other than the reported alignment, the one with better alignment score might be exist?
Thanks for any input!!
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