I have some pileup data from samtools and it is using wildcards to represent a combination of bases I'm unsure of.
I know the 5 standard bases (ACGTU) and the well known pyrimidine and purine wildcards (YR), but don't know these other wildcards "SMWK". Anyone know what they definitively mean?
Here's some sample pileup output:
I know the 5 standard bases (ACGTU) and the well known pyrimidine and purine wildcards (YR), but don't know these other wildcards "SMWK". Anyone know what they definitively mean?
Here's some sample pileup output:
Code:
NC_000913.2 82 T W 24 24 60 19 .AAAA.....,,.,...,. RBBBBBgBhgeBfahdffc NC_000913.2 3622 A M 23 23 60 34 .,,C,C.CC,,C,,,.,,,,...g,,.g,,.... ]egBhBaBBhdBhcahdccfBhfBT^[Bb`hhcf NC_000913.2 6609 G S 45 45 60 50 .$.,,.C,.,.,C.C,,CC.,..,C,.,.,.,,.,,.,,,.,,,c.c,,^~,^~, a_gh`BhYhZfBBBffBJhXgBdB`gfWYhcBYheBebdfaecBfBhfBB NC_000913.2 7073 C Y 21 21 60 40 ,,,.,..,.,,.,,T..,.,.,....,.,,.t.g,ttt.g ghhhgeQhVhg^ehBee\gBhBhW^hWhVBhBhBBBBBhB NC_000913.2 1258 G R 26 26 60 36 ,.,A.,,ACC$,,,C....,,,,,,.,,,,...aat. h\hB]ghBBBfhfB`cgc_a_a^afhffhdafBBBh NC_000913.2 3622 A M 23 23 60 34 .,,C,C.CC,,C,,,.,,,,...g,,.g,,.... ]egBhBaBBhdBhcahdccfBhfBT^[Bb`hhcf NC_000913.2 13748 T K 31 31 60 48 .,..,.G,GG,.,...,.,..,.,,......,,,.......,.g,ggg dgeRhSBhBBhBhfBfhB]abBdOadba\ghWB_ghadchhghBfBBB
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