Explain Allele frequency table

Question

[Bách]

Can anyone please explain the first column of this table (below)? Is that mean the number repeat of motif? Thanks a million!

Answer 1

[Jesse]

It looks to me (I don't suppose there's a caption or citation for the table that explains?) like it's the number of repeats of the STR motif, plus sometimes a suffix for the number of extra bp for some variants. For example see this about CSF1PO. The entry for allele 8 says the repeat structure is "[AGAT]8" with different amplicon lengths reported for the different sets, but allele 8.3 below that is 3 bp longer in each set. So, 8 repeats of AGAT, plus 3 nt? Or, take allele 9 at the various lengths shown versus 9.1 at 1 bp more than each of those lengths.

[Bách]

Hi,

This table is cited from: "Pérez-Miranda, Ana & Alfonso-Sanchez, Miguel & Peña, Jose & Herrera, Rene. (2006). Qatari DNA Variation at a Crossroad of Human Migrations. Human heredity. 61. 67-79. 10.1159/000092648." You can access via: https://www.researchgate.net/figure/Allelic-frequencies-for-15-STR-loci-in-a-sample-of-the-Qatari-population_tbl1_7143494 this link

I have the same idea as what you suppose. I just need to confirm what is that field.

Thanks

[Jesse]

Thanks. Yeah it doesn't really say anything about the specifics, does it? (I was curious about this because we sequence microsatellites for noninvasive genotyping of wild animals, but I know there's an established systematic length-based way of handling human microsatellites like that nist.gov thing, and I don't know much about that terminology.)