My tree show PF7359 as no call for ALL L161 and L621 samples and G for everyone else throughout haplogroup I. So there is some mutation phyloequivalent to M423 happening near PF7359 site which consistently renders a no call only for people downstream. I did not find it is C for anyone. Kenneth Nordtvedt Haplogroup I Clade Modalities and Trees at: http://knordtvedt.home.bresnan.net -----Original Message----- From: John O'Grady Sent: Sunday, February 02, 2014 12:41 PM To: [email protected] Subject: Re: [yDNAhgI] Chromo2 Trees Ken, I compared your P37 tree with my Full Genomes results. I am negative for all the PF and CTS SNPs on the 283 branch. I am negative for all the CTS SNPs that are equivalent to L621. For the M423 equivalents, I am positive for CTS2753. However, Full Genomes says that I am PF7359=G-. Since PF7359 is G to C, perhaps Chromo2 is reading the negative strand. John O'Grady ------------------------------- To unsubscribe from the list, please send an email to [email protected] with the word 'unsubscribe' without the quotes in the subject and the body of the message

I didn't know the significance of your "nc" notation. Full Genomes has 98 reads for me at PF7359, so I think my G- is reliable. For the no-call at CTS2515, Full Genomes shows me as A-. John O'Grady > > My tree show PF7359 as no call for ALL L161 and L621 samples and G for > everyone else throughout haplogroup I. So there is some mutation > phyloequivalent to M423 happening near PF7359 site which consistently > renders a no call only for people downstream. I did not find it is C for > anyone. > > Kenneth Nordtvedt

I figured it out by looking at my Full Genomes results. PF7359 is located at 17,997,207. All M423 have a deletion at 17,997,206. John O'Grady ---------------------------------------- > My tree show PF7359 as no call for ALL L161 and L621 samples and G for > everyone else throughout haplogroup I. So there is some mutation > phyloequivalent to M423 happening near PF7359 site which consistently > renders a no call only for people downstream. I did not find it is C for > anyone. > > Kenneth Nordtvedt

Good work, John. The Full Genomes results for my I1-Z138 sample show 17 reads of "deletion" vs 248 reads of G at 17997206. I see that there are 9 consecutive G's in this region, so it seems that one would be hard-pressed to know which one had been deleted. Such long strings of G are often difficult to sequence or read, so my small number of "deletion" reads may just reflect that, but if most of the reads show "deletion" it is probably real. On Sun, Feb 2, 2014 at 2:59 PM, John O'Grady <[email protected]>wrote: > I figured it out by looking at my Full Genomes results. PF7359 is located > at 17,997,207. All M423 have a deletion at 17,997,206. > > John O'Grady > > ---------------------------------------- > > My tree show PF7359 as no call for ALL L161 and L621 samples and G for > > everyone else throughout haplogroup I. So there is some mutation > > phyloequivalent to M423 happening near PF7359 site which consistently > > renders a no call only for people downstream. I did not find it is C for > > anyone. > > > > Kenneth Nordtvedt >