Where do reads align to mate paired reads?

Suppose I have a sam file with mate paired reads. Which fields tell me the starting positions of where the reads align to the corresponding contigs in my two fastq files?

snp sequencing

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updated 11.2 years ago by Sean Davis

• written 11.2 years ago by StarCute

1 answer

See section 1.4 (at least) of the SAM specification document.

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written 11.2 years ago by Sean Davis

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